Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 206 of 310
Found at i:67464591 original size:22 final size:22
Alignment explanation
Indices: 67464563--67464605 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67464553 GCTTTACTGA
67464563 TCAGGCACTTATGTGTCGTATG
1 TCAGGCACTTATGTGTCGTATG
67464585 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
67464606 TCTGATCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATG
Found at i:67472307 original size:7 final size:6
Alignment explanation
Indices: 67472275--67472323 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
67472265 TATTTGTTTA
* * *
67472275 TTATTA TTATTA TTATTAT TTATTT TTACTT TTATTTT TTATTT TTATT
1 TTATTT TTATTT TTATT-T TTATTT TTATTT TTA-TTT TTATTT TTATT
67472324 CTTCTTCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 28 0.74
7 10 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:67473455 original size:14 final size:14
Alignment explanation
Indices: 67473438--67473470 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
67473428 TCTGAATTGG
67473438 TACATCTGCATACA
1 TACATCTGCATACA
*
67473452 TACATTTGCATACA
1 TACATCTGCATACA
67473466 TACAT
1 TACAT
67473471 ACATATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (14 bp):
TACATCTGCATACA
Found at i:67473481 original size:18 final size:18
Alignment explanation
Indices: 67473446--67473481 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67473436 GGTACATCTG
* *
67473446 CATACATACATTTGCATA
1 CATACATACATATACATA
67473464 CATACATACATATACATA
1 CATACATACATATACATA
67473482 AACTATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (18 bp):
CATACATACATATACATA
Found at i:67480382 original size:38 final size:38
Alignment explanation
Indices: 67480340--67480413 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
67480330 GGGATTAAGC
67480340 TTTATAGCTTAGTAAGACCGTATGAAAATAATAAGCGT
1 TTTATAGCTTAGTAAGACCGTATGAAAATAATAAGCGT
*
67480378 TTTATAGCTTAGTAAGACTGTATGAAAATAATAAGC
1 TTTATAGCTTAGTAAGACCGTATGAAAATAATAAGC
67480414 AATTTATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (38 bp):
TTTATAGCTTAGTAAGACCGTATGAAAATAATAAGCGT
Found at i:67481586 original size:45 final size:47
Alignment explanation
Indices: 67481478--67481693 Score: 167
Period size: 46 Copynumber: 4.6 Consensus size: 47
67481468 CGAGGCTGAC
*
67481478 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA---CACACATATCTGTACCGAT
*
67481528 GCCATGTCCCAGACATGGTCTTACACTA-ACACATCTC-GTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTACACACATATCTGTA-CCGAT
* * * * ** *
67481574 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA-CACACATATCTGTACCGAT
* * * * * * *
67481620 GCCATGTCCTAGACATGTTCTTACACTGGCTCTCATA-ATGTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-ACACACATATCTGT-ACCGAT
*
67481668 G-CATGTCCTAGACAT-GTCTTACACTA
1 GCCATGTCCCAGACATGGTCTTACACTA
67481694 GCTCTCAATA
Statistics
Matches: 141, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 34 0.24
47 29 0.21
48 22 0.16
50 28 0.20
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTACACACATATCTGTACCGAT
Found at i:67481604 original size:94 final size:95
Alignment explanation
Indices: 67481480--67481700 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 95
67481470 AGGCTGACGC
**
67481480 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTACCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCACATATCAATACCGATGCCATGTCCCAGACATG
67481545 GTCTTACACTAACACATC-T-CGTAGCCGATG
65 GTCTTACACTAACAC-TCATACGTAGCCGATG
* * * * *
67481575 CATGTCCCAGACATGTCTTACACTAGCTCT--CGTCTCAATGCCGATGCCATGTCCTAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCAATACCGATGCCATGTCCCAGACATGG
** * * *
67481638 TCTTACACTGGCTCTCATAATGTGGCCGATG
66 TCTTACACTAACACTCAT-ACGTAGCCGATG
*
67481669 CATGTCCTAGACATGTCTTACACTAGCTCTCA
1 CATGTCCCAGACATGTCTTACACTAGCTCTCA
67481701 ATAACCCATA
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 38 0.35
94 54 0.50
95 14 0.13
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCAATACCGATGCCATGTCCCAGACATGG
TCTTACACTAACACTCATACGTAGCCGATG
Found at i:67481619 original size:46 final size:45
Alignment explanation
Indices: 67481478--67481704 Score: 203
Period size: 47 Copynumber: 4.8 Consensus size: 45
67481468 CGAGGCTGAC
* *
67481478 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTACCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTCTC-TATA-ATG--CCGAT
* * *
67481528 GCCATGTCCCAGACATGGTCTTACACTAACACATCTCGT-A-GCCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTAGCTC-TCT-ATAATGCCGAT
*
67481574 G-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGTCTTACACTAGCTCTC-TAT-AATGCCGAT
* *
67481620 GCCATGTCCTAGACATGTTCTTACACTGGCTCTC-ATAATGTGGCCGAT
1 GCCATGTCCCAGACATG-TCTTACACTAGCTCTCTATAA--T-GCCGAT
* *
67481668 G-CATGTCCTAGACATGTCTTACACTAGCTCTCAATAA
1 GCCATGTCCCAGACATGTCTTACACTAGCTCTCTATAA
67481705 CCCATACATC
Statistics
Matches: 153, Mismatches: 12, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.02
44 14 0.09
45 17 0.11
46 29 0.19
47 34 0.22
48 23 0.15
50 30 0.20
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
GCCATGTCCCAGACATGTCTTACACTAGCTCTCTATAATGCCGAT
Found at i:67489397 original size:96 final size:96
Alignment explanation
Indices: 67489233--67489424 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
67489223 AAGAATGTCT
*
67489233 CTCAAACCCAGAATCCATGTACTACATAGGTAATCAGAACCAGAACTGAGGAAGGTAAGGGCTGC
1 CTCAAACCCAGAATCCATGTACTACATAGGTAATCAGAACCAGAACTGAGGAAGGCAAGGGCTGC
67489298 AATCCAAGTTTTACAACCCATCGTGGCGAAA
66 AATCCAAGTTTTACAACCCATCGTGGCGAAA
67489329 CTCAAACCCAGAATCCATGTACTACATAGGTAATCAGAACCAGAACTGAGGAAGGCAAGGGCTGC
1 CTCAAACCCAGAATCCATGTACTACATAGGTAATCAGAACCAGAACTGAGGAAGGCAAGGGCTGC
67489394 AATCCAAGTTTTACAACCCATCGTGGCGAAA
66 AATCCAAGTTTTACAACCCATCGTGGCGAAA
67489425 TCACCCCAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (96 bp):
CTCAAACCCAGAATCCATGTACTACATAGGTAATCAGAACCAGAACTGAGGAAGGCAAGGGCTGC
AATCCAAGTTTTACAACCCATCGTGGCGAAA
Found at i:67492819 original size:17 final size:19
Alignment explanation
Indices: 67492783--67492820 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
67492773 ATGCATACGT
67492783 AAAGAGTTGTGACCAATGTC
1 AAAGAGTTGTGA-CAATGTC
67492803 AAAGAGTTG-GA-AATGTC
1 AAAGAGTTGTGACAATGTC
67492820 A
1 A
67492821 CCAACAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (19 bp):
AAAGAGTTGTGACAATGTC
Found at i:67498683 original size:39 final size:34
Alignment explanation
Indices: 67498612--67498679 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
67498602 AATAAAAGTA
67498612 AAATCCATATAGAATTACACTTCTTTTATTTTAT
1 AAATCCATATAGAATTACACTTCTTTTATTTTAT
67498646 AAATCCATATAGAATTACACTTCTTTTATTTTAT
1 AAATCCATATAGAATTACACTTCTTTTATTTTAT
67498680 TTTAGAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (34 bp):
AAATCCATATAGAATTACACTTCTTTTATTTTAT
Found at i:67499672 original size:15 final size:16
Alignment explanation
Indices: 67499652--67499681 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
67499642 ATTTGAGAAA
67499652 AAATATTTTT-TTAAT
1 AAATATTTTTATTAAT
67499667 AAATATTTTTATTAA
1 AAATATTTTTATTAA
67499682 AGTAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTTTTATTAAT
Found at i:67505942 original size:19 final size:18
Alignment explanation
Indices: 67505918--67505965 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
67505908 ACGTAAAAAG
67505918 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
67505937 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
67505956 TAAAAATAAA
1 TAAAAATAAA
67505966 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:67506884 original size:16 final size:16
Alignment explanation
Indices: 67506854--67506901 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
67506844 GAAAATTAAT
67506854 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
67506869 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
67506886 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
67506901 A
1 A
67506902 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:67506900 original size:11 final size:11
Alignment explanation
Indices: 67506845--67506915 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
67506835 ATAGCTTAAG
*
67506845 AAAATTAATAT
1 AAAATTAAAAT
67506856 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
67506868 AATAA-T-AATT
1 AA-AATTAAAAT
*
67506878 AAAAAT-AAAT
1 AAAATTAAAAT
67506888 AAAATTAAAAT
1 AAAATTAAAAT
*
67506899 AAACTTAAAAT
1 AAAATTAAAAT
*
67506910 AGAATT
1 AAAATT
67506916 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:67516294 original size:19 final size:18
Alignment explanation
Indices: 67516270--67516317 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
67516260 ACGTAAAAAG
67516270 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
67516289 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
67516308 TAAAAATAAA
1 TAAAAATAAA
67516318 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:67517239 original size:16 final size:16
Alignment explanation
Indices: 67517209--67517256 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
67517199 GAAAATTAAT
67517209 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
67517224 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
67517241 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
67517256 A
1 A
67517257 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:67517255 original size:11 final size:11
Alignment explanation
Indices: 67517200--67517270 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
67517190 ATAGCTTAAG
*
67517200 AAAATTAATAT
1 AAAATTAAAAT
67517211 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
67517223 AATAA-T-AATT
1 AA-AATTAAAAT
*
67517233 AAAAAT-AAAT
1 AAAATTAAAAT
67517243 AAAATTAAAAT
1 AAAATTAAAAT
*
67517254 AAACTTAAAAT
1 AAAATTAAAAT
*
67517265 AGAATT
1 AAAATT
67517271 TACTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:67526520 original size:16 final size:16
Alignment explanation
Indices: 67526499--67526530 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67526489 CTGAAGTCTA
67526499 GGGCATTCTTGATGGT
1 GGGCATTCTTGATGGT
67526515 GGGCATTCTTGATGGT
1 GGGCATTCTTGATGGT
67526531 ATTCTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (16 bp):
GGGCATTCTTGATGGT
Found at i:67529126 original size:17 final size:17
Alignment explanation
Indices: 67529104--67529170 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 17
67529094 AATGGAAAGA
67529104 AAGAAAGTTACAAGTAT
1 AAGAAAGTTACAAGTAT
*
67529121 AAGAAATTATACATAACGTGGA-
1 AAGAAAGT-TAC--AA-GT--AT
67529143 AAGAAAGTTACAAGTAT
1 AAGAAAGTTACAAGTAT
67529160 AAGAATAGTTA
1 AAGAA-AGTTA
67529171 TTCAACCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 10 0.25
19 2 0.05
20 2 0.05
21 5 0.12
22 7 0.17
23 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (17 bp):
AAGAAAGTTACAAGTAT
Found at i:67529510 original size:16 final size:16
Alignment explanation
Indices: 67529486--67529519 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
67529476 GAAACATGTG
*
67529486 AAAACCCCAAAAATTA
1 AAAAACCCAAAAATTA
67529502 AAAAACCCAAAAATTA
1 AAAAACCCAAAAATTA
67529518 AA
1 AA
67529520 GCTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAACCCAAAAATTA
Found at i:67530471 original size:21 final size:21
Alignment explanation
Indices: 67530441--67530481 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67530431 TCTCTTAAAT
*
67530441 AGATATAACTATTAAAGTAAG
1 AGATACAACTATTAAAGTAAG
*
67530462 AGATACAACTATTCAAGTAA
1 AGATACAACTATTAAAGTAA
67530482 CATCTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATACAACTATTAAAGTAAG
Found at i:67531251 original size:14 final size:14
Alignment explanation
Indices: 67531232--67531259 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67531222 AACGCCCCAA
67531232 AATTTTGAGAATTT
1 AATTTTGAGAATTT
67531246 AATTTTGAGAATTT
1 AATTTTGAGAATTT
67531260 GCAGTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
AATTTTGAGAATTT
Found at i:67531645 original size:22 final size:21
Alignment explanation
Indices: 67531604--67531646 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
67531594 TAGTTCTTCA
*
67531604 TTTTTCTTCTTTCTTTTTTTT
1 TTTTTCTTCTTTCTTATTTTT
67531625 TTTTATCTT-TTTGCTTATTTTT
1 TTTT-TCTTCTTT-CTTATTTTT
67531647 ATACTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTCTTCTTTCTTATTTTT
Found at i:67538720 original size:22 final size:23
Alignment explanation
Indices: 67538682--67538729 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
67538672 TCCTTTTTAA
67538682 TTTATTTTTCTAGTTTT-TCATT
1 TTTATTTTTCTAGTTTTATCATT
* *
67538704 TTTATTCTTTC-ATTTTTATCTTT
1 TTTATT-TTTCTAGTTTTATCATT
67538727 TTT
1 TTT
67538730 GTTGTCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTATTTTTCTAGTTTTATCATT
Found at i:67538725 original size:13 final size:14
Alignment explanation
Indices: 67538697--67538726 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
67538687 TTTTCTAGTT
67538697 TTTCATTTTTATTC
1 TTTCATTTTTATTC
67538711 TTTCATTTTTA-TC
1 TTTCATTTTTATTC
67538724 TTT
1 TTT
67538727 TTTGTTGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCATTTTTATTC
Found at i:67539610 original size:42 final size:42
Alignment explanation
Indices: 67539541--67539649 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
67539531 ACATAAGTAG
** * * *
67539541 AGGACATGGGCGTGCATCCAGGTCGTGTGAGACACT-TGGGTA
1 AGGACATGGGCGTGTGTCCAGGCCGTGTGAGACA-TATAGGCA
* *
67539583 AGGACATGGGCGTGTGTCTAGGCCGTGTGAGGCATATAGGCA
1 AGGACATGGGCGTGTGTCCAGGCCGTGTGAGACATATAGGCA
*
67539625 AGGACATGGGCATGTGTCCAGGCCG
1 AGGACATGGGCGTGTGTCCAGGCCG
67539650 AGTGGCATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.21, C:0.19, G:0.39, T:0.20
Consensus pattern (42 bp):
AGGACATGGGCGTGTGTCCAGGCCGTGTGAGACATATAGGCA
Found at i:67540196 original size:24 final size:24
Alignment explanation
Indices: 67540169--67540236 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 24
67540159 TCTGTTTTGT
*
67540169 ATATGAAACTGAAATTGCTTCTGC
1 ATATGAAACTGAAATTGCTTCTGA
*
67540193 ATAT-ATAACTG--ATCTG-TTTTGA
1 ATATGA-AACTGAAAT-TGCTTCTGA
67540215 ATATG-AACTGAAATTGCTTCTG
1 ATATGAAACTGAAATTGCTTCTG
67540237 TTACCAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
21 5 0.14
22 12 0.34
23 9 0.26
24 9 0.26
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (24 bp):
ATATGAAACTGAAATTGCTTCTGA
Found at i:67548959 original size:9 final size:9
Alignment explanation
Indices: 67548945--67548969 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67548935 TGGATTATTT
67548945 TGAATGAAA
1 TGAATGAAA
67548954 TGAATGAAA
1 TGAATGAAA
67548963 TGAATGA
1 TGAATGA
67548970 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:67568227 original size:42 final size:42
Alignment explanation
Indices: 67568171--67568283 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
67568161 TTTAAGTGTT
* ***
67568171 AGACCATGTCTGGGACATCGGCATCGTATCTG-TTTTGGTATA
1 AGACCATGTCTGGGACATCGGCATCGTAT-TGAATTACATATA
* ** *
67568213 AGACCTTGTCTGGGACAGAGGCATCGATATTGAATTACATGTA
1 AGACCATGTCTGGGACATCGGCATCG-TATTGAATTACATATA
*
67568256 AGACCACGTCTGGGACATCGGCATCGTA
1 AGACCATGTCTGGGACATCGGCATCGTA
67568284 CTTGTCTGTG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
AGACCATGTCTGGGACATCGGCATCGTATTGAATTACATATA
Found at i:67568280 original size:85 final size:86
Alignment explanation
Indices: 67568125--67568283 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 86
67568115 AATTATCGTG
* * *
67568125 TAAGACCGTGTTTGGGACACAGGCATCGATTTGAAATTTAAGTGTTAGACCATGTCTGGGACATC
1 TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTAAGTGTAAGACCACGTCTGGGACATC
67568190 GGCATCGTATCTGTTTTGGTA
66 GGCATCGTATCTGTTTTGGTA
* *
67568211 TAAGACCTTGTCTGGGACAGAGGCATCGATATTG-AA-TTACA-TGTAAGACCACGTCTGGGACA
1 TAAGACCGTGTCTGGGACACAGGCATCGAT-TTGAAATTTA-AGTGTAAGACCACGTCTGGGACA
67568273 TCGGCATCGTA
64 TCGGCATCGTA
67568284 CTTGTCTGTG
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
85 33 0.50
86 30 0.45
87 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (86 bp):
TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTAAGTGTAAGACCACGTCTGGGACATC
GGCATCGTATCTGTTTTGGTA
Found at i:67571290 original size:44 final size:43
Alignment explanation
Indices: 67571220--67571373 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
67571210 GGAACGTTGA
* *
67571220 CATCGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * **
67571263 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGG
1 CATCGATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGG
* * *
67571307 CATCGTATCT--GATTTCGTGTAAGACCCTGTCTGGGAAAGAGG
1 CATCG-ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* *
67571349 CATCGATAGTGA-ATTTCATGTAAGA
1 CATCGAT-CTGAGATTTCGTGTAAGA
67571374 TCACATCCGG
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 30 0.33
44 28 0.30
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:67571338 original size:42 final size:42
Alignment explanation
Indices: 67571220--67571355 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 42
67571210 GGAACGTTGA
* *
67571220 CATCGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCT-AGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * **
67571263 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGG
1 CATCGATCT-AGATTT-CGTGTAAGACCATGTCTGGGACACAGG
* * *
67571307 CATCGTATCT-GATTTCGTGTAAGACCCTGTCTGGGAAAGAGG
1 CATCG-ATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGG
67571349 CATCGAT
1 CATCGAT
67571356 AGTGAATTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 28 0.35
43 18 0.23
44 28 0.35
45 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (42 bp):
CATCGATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:67598201 original size:17 final size:17
Alignment explanation
Indices: 67598150--67598202 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
67598140 AAATATGGAA
* *
67598150 TGTAATCTTCGAATATA
1 TGTAATCTTAGAATATT
* **
67598167 TGCAATCTTAGAGGATT
1 TGTAATCTTAGAATATT
67598184 TGTAATCTTAGAATATT
1 TGTAATCTTAGAATATT
67598201 TG
1 TG
67598203 ATTCTATAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (17 bp):
TGTAATCTTAGAATATT
Found at i:67606212 original size:5 final size:5
Alignment explanation
Indices: 67606197--67606231 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
67606187 TTGTGTGTTC
67606197 TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
67606232 ACAAACTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:67610575 original size:5 final size:5
Alignment explanation
Indices: 67610565--67610593 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
67610555 TTGTGTGTTC
67610565 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
67610594 ACAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:67610676 original size:21 final size:21
Alignment explanation
Indices: 67610652--67610691 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67610642 CAGTTGTATA
67610652 TCTCAACCACATGGTCGTGCC
1 TCTCAACCACATGGTCGTGCC
**
67610673 TCTCATTCACATGGTCGTG
1 TCTCAACCACATGGTCGTG
67610692 TACCCCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (21 bp):
TCTCAACCACATGGTCGTGCC
Found at i:67643385 original size:40 final size:39
Alignment explanation
Indices: 67643287--67643549 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
67643277 TCCTCGTTCA
* * * *
67643287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
67643326 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
67643365 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
67643405 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
67643445 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
67643485 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
67643526 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
67643550 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:67643509 original size:120 final size:119
Alignment explanation
Indices: 67643287--67643549 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
67643277 TCCTCGTTCA
* * *
67643287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
67643352 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
67643405 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
67643470 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
67643526 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
67643550 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:67643558 original size:41 final size:41
Alignment explanation
Indices: 67643481--67643558 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
67643471 TTTGTATCTC
* * *
67643481 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
67643522 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
67643559 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:67651489 original size:40 final size:40
Alignment explanation
Indices: 67651226--67651491 Score: 433
Period size: 40 Copynumber: 6.7 Consensus size: 40
67651216 GCAAACACAT
* * * *
67651226 TTGCCTTTGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
67651266 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
67651306 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
67651346 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
67651386 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
67651426 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
67651466 TTGCCTTCGGGTCTTAGCCCGGATAT
1 TTGCCTTCGGGTCTTAGCCCGGATAT
67651492 CATTCAAATG
Statistics
Matches: 208, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:67667610 original size:29 final size:31
Alignment explanation
Indices: 67667576--67667654 Score: 81
Period size: 34 Copynumber: 2.5 Consensus size: 31
67667566 TAAATTCAAA
67667576 TGTATACAT-TATATA-ATACCGAATTGAAT
1 TGTATACATATATATAGATACCGAATTGAAT
* *
67667605 TGTATATATAAATATATATGTTACCGAATTGAAT
1 TGTATACAT--ATATATA-GATACCGAATTGAAT
* *
67667639 TGTATATATAAATATA
1 TGTATACATATATATA
67667655 TATGTTGCCG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 8 0.19
32 12 0.29
34 22 0.52
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (31 bp):
TGTATACATATATATAGATACCGAATTGAAT
Found at i:67667630 original size:34 final size:34
Alignment explanation
Indices: 67667592--67667673 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
67667582 CATTATATAA
67667592 TACCGAATTGAATTGTATATATAAATATATATGT
1 TACCGAATTGAATTGTATATATAAATATATATGT
67667626 TACCGAATTGAATTGTATATATAAATATATATGT
1 TACCGAATTGAATTGTATATATAAATATATATGT
* *
67667660 TGCCGAATTTAATT
1 TACCGAATTGAATT
67667674 AAGCATTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (34 bp):
TACCGAATTGAATTGTATATATAAATATATATGT
Found at i:67683825 original size:19 final size:20
Alignment explanation
Indices: 67683759--67683825 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
67683749 AGTGCTTATG
*
67683759 GAGGCACCAAAGATA-AATTA
1 GAGGCACCAAAG-TACAATCA
* * *
67683779 GGGGAACAAAAGTACAATCA
1 GAGGCACCAAAGTACAATCA
*
67683799 GAGGCACCAAAGTGCAATCA
1 GAGGCACCAAAGTACAATCA
67683819 G-GGCACC
1 GAGGCACC
67683826 GTAGTGCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 8 0.21
20 30 0.79
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.10
Consensus pattern (20 bp):
GAGGCACCAAAGTACAATCA
Found at i:67683873 original size:20 final size:20
Alignment explanation
Indices: 67683850--67683960 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 20
67683840 AGCATGGATA
67683850 TGCTATCAAGAGCACCATAG
1 TGCTATCAAGAGCACCATAG
* * * *
67683870 TGCTAACAAGAGTACGAAAG
1 TGCTATCAAGAGCACCATAG
* ***
67683890 TGCTATCAGGAGCATTTTAG
1 TGCTATCAAGAGCACCATAG
* * ** *
67683910 TGCTATCAGGAGTATGAAAG
1 TGCTATCAAGAGCACCATAG
* * * *
67683930 TACTGTCAGGAGCACCGTAG
1 TGCTATCAAGAGCACCATAG
67683950 TGCTATCAAGA
1 TGCTATCAAGA
67683961 ATATGAAAAT
Statistics
Matches: 66, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (20 bp):
TGCTATCAAGAGCACCATAG
Found at i:67683894 original size:40 final size:40
Alignment explanation
Indices: 67683859--67684075 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 40
67683849 ATGCTATCAA
* * * *
67683859 GAGCACCATAGTGCTAACAAGAGTACGAAAGTGCTATCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
*** * *
67683899 GAGCATTTTAGTGCTATCAGGAGTATGAAAGTACTGTCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* * *
67683939 GAGCACCGTAGTGCTATCAAGAATATGAAAATACTGTCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* * * *
67683979 GAGCACCGTAATGCTATCAGGAATACGAAAGTACTGTCAA
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* *
67684019 GAGCACCGTTGTGCTATCAAGAGTACGAAAGTA-TGGTTAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACT-GTCAG
*
67684059 GAGCACCATAGTGCTAT
1 GAGCACCGTAGTGCTAT
67684076 TAGAAGCACT
Statistics
Matches: 149, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 148 0.99
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
Found at i:67685132 original size:54 final size:54
Alignment explanation
Indices: 67685042--67685156 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
67685032 TTTAATACCT
* *
67685042 ACAAATAAAGATTGAAAATAATAATAACAATGTCTTTATTAATAAACTAAATAA
1 ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
* * * * *
67685096 AGAAATAAAGACTGAAAATAATAATAGCAATTTCTTTAATAATAAATTAGATAA
1 ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
67685150 ACAAATA
1 ACAAATA
67685157 TGTAATTACA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (54 bp):
ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
Found at i:67686238 original size:24 final size:25
Alignment explanation
Indices: 67686211--67686273 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
67686201 CTAAAAAAGG
*
67686211 AAATTAATTTAAAAG-AT-TAAATAA
1 AAATT-ATTTAAAAGTATAAAAATAA
67686235 AAA-TATGTATAAAAGTATAAAAATAA
1 AAATTAT-T-TAAAAGTATAAAAATAA
67686261 AAATTATTTAAAA
1 AAATTATTTAAAA
67686274 AAAATTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 9 0.27
25 7 0.21
26 10 0.30
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
AAATTATTTAAAAGTATAAAAATAA
Found at i:67703479 original size:25 final size:27
Alignment explanation
Indices: 67703419--67703479 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
67703409 CCAGGTAAGG
*
67703419 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
67703447 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
67703470 CTTCTCTTCT
1 CTTCTCTTCT
67703480 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:67703995 original size:12 final size:13
Alignment explanation
Indices: 67703972--67703997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67703962 TCAATGAACC
67703972 CTTAATTTTTTTG
1 CTTAATTTTTTTG
67703985 CTTAATTTTTTTG
1 CTTAATTTTTTTG
67703998 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:67707409 original size:21 final size:21
Alignment explanation
Indices: 67707383--67707435 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
67707373 CGCTGTTTCT
*
67707383 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
67707404 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
67707425 AATCTCACCGC
1 AATCTCACCGC
67707436 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:67727452 original size:29 final size:29
Alignment explanation
Indices: 67727386--67727536 Score: 74
Period size: 27 Copynumber: 5.4 Consensus size: 29
67727376 AATAAAATTA
* *
67727386 CCTTTTT-TTTCTTTTTT-TCCT-TCCTTC
1 CCTTTTTCTTT-TTTTTTCTCTTCTCCTTT
67727413 CCTCTTCTTCTTTTTTTTTCTCTTCTCCTTT
1 CCT-TT-TTCTTTTTTTTTCTCTTCTCCTTT
*
67727444 CCTTTTTCTTTCCTTCTTTCT-TTCT--TTT
1 CCTTTTTCTTT--TTTTTTCTCTTCTCCTTT
* ** *
67727472 --TTCTTCTCTTTTCCTTCTCTTCTTC-TT
1 CCTTTTTCT-TTTTTTTTCTCTTCTCCTTT
*
67727499 -CTTTCTT-TCTTTTTTTCTCTTCTCCTTT
1 CCTTT-TTCTTTTTTTTTCTCTTCTCCTTT
*
67727527 CC-CTTTCTTT
1 CCTTTTTCTTT
67727537 CCTTCTTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
25 7 0.07
26 10 0.10
27 22 0.23
28 13 0.14
29 17 0.18
30 12 0.12
31 15 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (29 bp):
CCTTTTTCTTTTTTTTTCTCTTCTCCTTT
Found at i:67727460 original size:40 final size:41
Alignment explanation
Indices: 67727416--67727606 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 41
67727406 TTCCTTCCCT
67727416 CTTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
67727456 CTTCTTTCTTTCTTTTT-TCTTCTCTTTTCCTTCTCTTC-TT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT-T-TTCTTTC
*
67727496 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC-CTTTCTTTC
1 CTTCTTTC-TT-TTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
67727538 CTTCTTT-TTCTTTCTTCTC-TCTCCTTT-CTTCCTTTCTTT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT--TTTCTTTC
*
67727577 CTCTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 CT-TCTTTCTTT-TTT-TTTCTCTTCTCCTT
67727607 CTGCCCCCCA
Statistics
Matches: 125, Mismatches: 10, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
37 1 0.01
38 8 0.06
39 10 0.08
40 43 0.34
41 21 0.17
42 20 0.16
43 22 0.18
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
Found at i:67727464 original size:4 final size:4
Alignment explanation
Indices: 67727420--67727597 Score: 115
Period size: 4 Copynumber: 44.8 Consensus size: 4
67727410 TTCCCTCTTC
* * *
67727420 TTCT TT-T TT-T TTCT CTTC- TCCT TTCC TT-T TTCT TTCC TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* *
67727465 TTCT TT-T TTCT TCTCTT TTCC TTCT CTTC- TTC- TTCT TTCT TTCT TTTT
1 TTCT TTCT TTCT T-TC-T TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
67727513 TTCT CTTC- TCCT TTCCCT TTCT TTCC TTC- TT-T TTCT TTCT TCTCT
1 TTCT -TTCT TTCT TT--CT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT
* * *
67727558 CTCCT TTCT TCCT TTCT TTCT CTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
67727598 CCTCTCCTTC
Statistics
Matches: 138, Mismatches: 19, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
3 25 0.18
4 88 0.64
5 18 0.13
6 7 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:67727509 original size:48 final size:45
Alignment explanation
Indices: 67727420--67727597 Score: 138
Period size: 45 Copynumber: 4.0 Consensus size: 45
67727410 TTCCCTCTTC
* * * * *
67727420 TTCTTTTTTTTTCTCTTCTCCTTTC-CTTTTTCTTTCCTTCTTTCT
1 TTCTCTTTTCTTC-CTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
67727465 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTT
1 TTCTCTTTTCTTC-CTTTTCCTT-TC-TCTTCTTCTTTCTTTCTTTCT
* *
67727513 TTCTCTTCTCCTTTCCCTTT-CTTTC-CTTCTT-TTTCTTTC-TTCT
1 TTCTCTT-TTC-TTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
67727556 CTCTCCTTTCTTCC-TTT-CTTTCTC-TCTTTCTTTCTTTCTTTC
1 TTCTCTTTTCTTCCTTTTCCTTTCTCTTC-TTCTTTCTTTCTTTC
67727598 CCTCTCCTTC
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
40 10 0.09
41 7 0.06
42 10 0.09
43 11 0.10
44 8 0.07
45 27 0.24
46 2 0.02
47 2 0.02
48 26 0.23
49 6 0.05
50 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (45 bp):
TTCTCTTTTCTTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
Found at i:67727533 original size:18 final size:17
Alignment explanation
Indices: 67727512--67727594 Score: 53
Period size: 18 Copynumber: 4.5 Consensus size: 17
67727502 TCTTTCTTTT
67727512 TTTCTCTTCTCCTTTCCC
1 TTTCT-TTCTCCTTTCCC
* **
67727530 TTTCTTTCCTTCTTTTTC
1 TTTCTTT-CTCCTTTCCC
67727548 TTTCTTCTCTCTCCTTTCTTCC
1 TTTC-T-T-TCTCCTTTC--CC
67727570 TTTCTTTCTCTCTTT--C
1 TTTCTTTCTC-CTTTCCC
67727586 TTTCTTTCT
1 TTTCTTTCT
67727595 TTCCCTCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
16 10 0.19
17 2 0.04
18 16 0.31
19 5 0.10
20 12 0.23
21 2 0.04
22 5 0.10
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCTTTCTCCTTTCCC
Found at i:67727608 original size:114 final size:110
Alignment explanation
Indices: 67727393--67727608 Score: 248
Period size: 114 Copynumber: 1.9 Consensus size: 110
67727383 TTACCTTTTT
*
67727393 TTTCTTTTTTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTCCT
1 TTTCTTTTTTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTCTCC-TTTTCTTTCCT
* *
67727458 TCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTC
65 TCTTTCTCTCTTTTTTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTC
67727504 TTTCTTTTTTTCTCTTCTCCTTTCCCT-TTCTTTCCTTCTTTTTCTT-TCTTCT-CTCTCC-TTT
1 TTTCTTTTTTTC-C-T-TCC-TTCCCTCTTC-TT-CTT-TTTTT-TTCTCTTCTCCTCTCCTTTT
67727565 C-TTCCTTTCTTTCTCTCTTTCTTTCTT-TCTTTCCC-TCTCCTTCT
58 CTTTCC-TTCTTTCTCTCTTT-TTTCTTCTCTTTCCCTTCT-CTTCT
67727609 GCCCCCCACC
Statistics
Matches: 91, Mismatches: 3, Indels: 19
0.81 0.03 0.17
Matches are distributed among these distances:
111 12 0.13
112 1 0.01
113 8 0.09
114 35 0.38
115 14 0.15
116 8 0.09
117 11 0.12
118 2 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (110 bp):
TTTCTTTTTTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTCTCCTTTTCTTTCCTT
CTTTCTCTCTTTTTTCTTCTCTTTCCCTTCTCTTCTTCTTCTTTC
Found at i:67727696 original size:27 final size:27
Alignment explanation
Indices: 67727637--67727697 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
67727627 CCCTATTATG
**
67727637 TATTGGCACCATTGGTGCCGCCAATGG
1 TATTGGCACCATTGGTGCCGCCAATCC
* *
67727664 TTTTGGCACCTTTGGTGCCGCCAATCC
1 TATTGGCACCATTGGTGCCGCCAATCC
67727691 TATTGGC
1 TATTGGC
67727698 GTGACCAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (27 bp):
TATTGGCACCATTGGTGCCGCCAATCC
Found at i:67727773 original size:26 final size:27
Alignment explanation
Indices: 67727743--67727814 Score: 128
Period size: 26 Copynumber: 2.7 Consensus size: 27
67727733 TTTTATTTTT
67727743 TTATATATTTTGGTAAATAAAAAAAA-
1 TTATATATTTTGGTAAATAAAAAAAAG
67727769 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAAG
67727796 TTATAATATTTTGGTAAAT
1 TTAT-ATATTTTGGTAAAT
67727815 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 26 0.59
27 4 0.09
28 14 0.32
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:67732873 original size:35 final size:35
Alignment explanation
Indices: 67732827--67732896 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
67732817 CTTGGAAGGG
67732827 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
1 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
*
67732862 AGATTAAAGCCATTTGAAGGGGGTTCTGGGTTTAT
1 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
67732897 CTTGTTTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (35 bp):
AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
Found at i:67735565 original size:6 final size:6
Alignment explanation
Indices: 67735554--67735579 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
67735544 TGCCCCCTCA
67735554 CGATAT CGATAT CGATAT CGATAT CG
1 CGATAT CGATAT CGATAT CGATAT CG
67735580 CGATACCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (6 bp):
CGATAT
Found at i:67738114 original size:29 final size:31
Alignment explanation
Indices: 67738067--67738130 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
67738057 TTTTTAACTA
* *
67738067 AATTTGACTCACAACTTTTT-AAAGGAGTTG
1 AATTTGACTCACAACTTTTTCAAAAGAGTTC
67738097 AATTTGA-TCACTAA-TTTTTCAAAAGAGTTC
1 AATTTGACTCAC-AACTTTTTCAAAAGAGTTC
67738127 AATT
1 AATT
67738131 GTTGTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
AATTTGACTCACAACTTTTTCAAAAGAGTTC
Found at i:67738257 original size:21 final size:22
Alignment explanation
Indices: 67738233--67738277 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
67738223 ATAATTTTAA
* *
67738233 TTTTTTATAATTTTTGAA-TAT
1 TTTTTTATAAATTTTAAATTAT
67738254 TTTTTTATAAATTTTAAATTAT
1 TTTTTTATAAATTTTAAATTAT
67738276 TT
1 TT
67738278 ATTGACGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTTATAAATTTTAAATTAT
Found at i:67748791 original size:3 final size:3
Alignment explanation
Indices: 67748783--67748809 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67748773 GGTTTCTGAA
67748783 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
67748810 TGAAAACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:67752070 original size:9 final size:9
Alignment explanation
Indices: 67752056--67752084 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
67752046 TCAACAACCC
67752056 TTTTTTCTT
1 TTTTTTCTT
67752065 TTTTTTCTT
1 TTTTTTCTT
67752074 TTTTTT-TT
1 TTTTTTCTT
67752082 TTT
1 TTT
67752085 GAGAGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:67752076 original size:16 final size:15
Alignment explanation
Indices: 67752055--67752084 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
67752045 CTCAACAACC
67752055 CTTTTTTCTTTTTTTT
1 CTTTTTT-TTTTTTTT
67752071 CTTTTTTTTTTTTT
1 CTTTTTTTTTTTTT
67752085 GAGAGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
CTTTTTTTTTTTTTT
Found at i:67754677 original size:21 final size:22
Alignment explanation
Indices: 67754651--67754693 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
67754641 TCAGGGTGAT
*
67754651 TTAAAAAAAT-AAATTTAAATA
1 TTAAAAAAATAAAAATTAAATA
67754672 TTAAAAAAATAAAAATTAAATA
1 TTAAAAAAATAAAAATTAAATA
67754694 AAGTGCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAAAAAATAAAAATTAAATA
Found at i:67757979 original size:21 final size:21
Alignment explanation
Indices: 67757953--67757993 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67757943 AGACGAGCAA
* *
67757953 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67757974 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67757994 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67759932 original size:16 final size:16
Alignment explanation
Indices: 67759899--67759932 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67759889 GGAGATTGTT
* *
67759899 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
67759915 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
67759931 AA
1 AA
67759933 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:67761701 original size:19 final size:19
Alignment explanation
Indices: 67761677--67761714 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67761667 GAAATGAATA
*
67761677 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
67761696 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
67761715 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:67762611 original size:19 final size:20
Alignment explanation
Indices: 67762578--67762617 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
67762568 AATTATGTAT
67762578 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
67762597 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
67762617 A
1 A
67762618 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:67762884 original size:18 final size:17
Alignment explanation
Indices: 67762861--67762900 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
67762851 AGAGGTTAGG
67762861 TTTTTTCTTTTTCTTCAT
1 TTTTTTCTTTTT-TTCAT
*
67762879 TTTTTTCTTTTTTTTAT
1 TTTTTTCTTTTTTTCAT
67762896 TTTTT
1 TTTTT
67762901 ATTTTGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTTTTCAT
Found at i:67762890 original size:9 final size:9
Alignment explanation
Indices: 67762861--67762900 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
67762851 AGAGGTTAGG
67762861 TTTTTTCTT
1 TTTTTTCTT
* *
67762870 TTTCTTCAT
1 TTTTTTCTT
67762879 TTTTTTCTT
1 TTTTTTCTT
*
67762888 TTTTTTATT
1 TTTTTTCTT
67762897 TTTT
1 TTTT
67762901 ATTTTGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:67766546 original size:23 final size:21
Alignment explanation
Indices: 67766511--67766553 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
67766501 TTCTGTCACA
*
67766511 ATTTATCACAATACTTTATTTTG
1 ATTTATCAAAATA--TTATTTTG
*
67766534 ATTTATTAAAATATTATTTT
1 ATTTATCAAAATATTATTTT
67766554 TTTAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTATCAAAATATTATTTTG
Found at i:67784327 original size:13 final size:13
Alignment explanation
Indices: 67784288--67784348 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
67784278 AGTTTGACAA
67784288 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
67784301 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
67784314 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
67784327 TGTTTTTAAGAAG
1 TGCTTTTGAGAAG
*
67784340 TACTTTTGA
1 TGCTTTTGA
67784349 AAATTTTAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:67786158 original size:72 final size:71
Alignment explanation
Indices: 67786034--67786204 Score: 236
Period size: 72 Copynumber: 2.4 Consensus size: 71
67786024 AAAATCATAT
** *
67786034 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATAACCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
67786099 CCAAAC
66 CCAAAC
* * * *
67786105 ATAAACAACTATTAATAAAAGTAGA-TTACACATAGATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-ACATAAATAAGTAGAACATAAATTCAATAACCAAA
67786169 AACCAAAC
64 AACCAAAC
* *
67786177 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAACAACTATTGATAAAACTAATTTA
67786205 GGATTTTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
CCAAAC
Found at i:67786650 original size:18 final size:18
Alignment explanation
Indices: 67786629--67786676 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
67786619 TCCATCAATT
*
67786629 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
67786647 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
67786665 TGAACATCATTT
1 TGAACATCATTT
67786677 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:67789752 original size:22 final size:21
Alignment explanation
Indices: 67789722--67789777 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
67789712 GAACAGTACC
* *
67789722 ACACGCCCGTGTGGCTTATGTG
1 ACACACCCGTGTGGC-TACGTG
* *
67789744 ACACACCCGTGTGTCTCCGTG
1 ACACACCCGTGTGGCTACGTG
67789765 ACACACCCGTGTG
1 ACACACCCGTGTG
67789778 TCTCCGTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.23
Consensus pattern (21 bp):
ACACACCCGTGTGGCTACGTG
Found at i:67789767 original size:21 final size:21
Alignment explanation
Indices: 67789741--67789785 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
67789731 TGTGGCTTAT
67789741 GTGACACACCCGTGTGTCTCC
1 GTGACACACCCGTGTGTCTCC
67789762 GTGACACACCCGTGTGTCTCC
1 GTGACACACCCGTGTGTCTCC
67789783 GTG
1 GTG
67789786 TAGCTCACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.36, G:0.27, T:0.24
Consensus pattern (21 bp):
GTGACACACCCGTGTGTCTCC
Found at i:67790826 original size:28 final size:28
Alignment explanation
Indices: 67790790--67790846 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
67790780 AATACTTTTT
* *
67790790 AATATCAATCAATTTATCATTATCATTC
1 AATAGCAATCAATTGATCATTATCATTC
* *
67790818 AATAGCAATCAATTGATCTTTATTATTC
1 AATAGCAATCAATTGATCATTATCATTC
67790846 A
1 A
67790847 GTAATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.42
Consensus pattern (28 bp):
AATAGCAATCAATTGATCATTATCATTC
Found at i:67790898 original size:18 final size:18
Alignment explanation
Indices: 67790877--67790917 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
67790867 ACAATCAGTA
67790877 ATTCAATAACAGTCAAAT
1 ATTCAATAACAGTCAAAT
* * *
67790895 ATTCAGTAGCAGTCAATT
1 ATTCAATAACAGTCAAAT
67790913 ATTCA
1 ATTCA
67790918 GTACCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTCAATAACAGTCAAAT
Found at i:67790918 original size:18 final size:18
Alignment explanation
Indices: 67790886--67790920 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67790876 AATTCAATAA
67790886 CAGTCAAATATTCAGTAG
1 CAGTCAAATATTCAGTAG
*
67790904 CAGTCAATTATTCAGTA
1 CAGTCAAATATTCAGTA
67790921 CCTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
CAGTCAAATATTCAGTAG
Found at i:67792313 original size:9 final size:9
Alignment explanation
Indices: 67792289--67792317 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
67792279 TCTTTCTTTT
67792289 ATTTATTTA
1 ATTTATTTA
67792298 A-TTATTTA
1 ATTTATTTA
67792306 ATTTATTTA
1 ATTTATTTA
67792315 ATT
1 ATT
67792318 AATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTATTTA
Found at i:67799418 original size:48 final size:48
Alignment explanation
Indices: 67799366--67799475 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
67799356 AGTTGCTCCT
* *
67799366 ATTTTATTGTTATTATTTGGATATTGTATAAAACTTATTTTATTATTA
1 ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTCTATTATTA
* *
67799414 ATTTTGTTATTATTATTTGTATATTGTATAAAACTTATTCTATTATTA
1 ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTCTATTATTA
* * *
67799462 CTTTTGTCATTATT
1 ATTTTATTATTATT
67799476 TTAAAGGCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (48 bp):
ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTCTATTATTA
Found at i:67801019 original size:18 final size:18
Alignment explanation
Indices: 67800996--67801032 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
67800986 TTTATTGTTT
*
67800996 TCCATTGTTTAATAGGTC
1 TCCATTGTTTAAAAGGTC
67801014 TCCATTGTTTAAAAGGTC
1 TCCATTGTTTAAAAGGTC
67801032 T
1 T
67801033 TTACTTGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (18 bp):
TCCATTGTTTAAAAGGTC
Found at i:67802746 original size:17 final size:17
Alignment explanation
Indices: 67802724--67802779 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
67802714 ATTAATTAAT
67802724 AAAATTATAAAAATATA
1 AAAATTATAAAAATATA
**
67802741 AAAATTAT-ATTATATTA
1 AAAATTATAAAAATA-TA
67802758 AAAA-T-TAAAAATATA
1 AAAATTATAAAAATATA
67802773 AAAATTA
1 AAAATTA
67802780 AATCTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.23
16 10 0.32
17 14 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATATA
Found at i:67802776 original size:8 final size:8
Alignment explanation
Indices: 67802722--67802781 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
67802712 GAATTAATTA
*
67802722 ATAAAATT
1 ATAAAAAT
67802730 ATAAAAAT
1 ATAAAAAT
67802738 ATAAAAAT
1 ATAAAAAT
**
67802746 -TATATTAT
1 ATA-AAAAT
67802754 ATTAAAAAT
1 A-TAAAAAT
67802763 -TAAAAAT
1 ATAAAAAT
67802770 ATAAAAAT
1 ATAAAAAT
67802778 -TAAA
1 ATAAA
67802782 TCTCAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
7 13 0.30
8 25 0.58
9 3 0.07
10 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAAAT
Found at i:67809069 original size:18 final size:17
Alignment explanation
Indices: 67809044--67809077 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67809034 TTCTATTATT
67809044 TATAATTTTTAAAAATA
1 TATAATTTTTAAAAATA
*
67809061 TATATATTTTTATAAAT
1 TATA-ATTTTTAAAAAT
67809078 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAATTTTTAAAAATA
Found at i:67809084 original size:27 final size:28
Alignment explanation
Indices: 67809037--67809092 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
67809027 AAATATTTTC
* *
67809037 TATTATTTATAATTTTTAAAAATATATA
1 TATTATTTATAAATTTAAAAAATATATA
67809065 TATT-TTTATAAATTTAAAAAATATATA
1 TATTATTTATAAATTTAAAAAATATATA
67809092 T
1 T
67809093 TAAAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTATTTATAAATTTAAAAAATATATA
Found at i:67811815 original size:66 final size:65
Alignment explanation
Indices: 67811740--67811870 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 65
67811730 GTACAGTTAA
* *
67811740 AATAATTATAATTAAAGTAAAAGTTGATATAATCTTTTTTTTACAATTACAATCATTTTAAAATA
1 AATAATTATAATTAAAGTAAAAGTTGATATAA-ATTTTTTTTACAATTACAATCATTTAAAAATA
67811805 T
65 T
67811806 AATAATTATAATTAAAGTAAAAGTTGATATAAATTTTTTTTACAATTACAATCATTTAAAAATAT
1 AATAATTATAATTAAAGTAAAAGTTGATATAAATTTTTTTTACAATTACAATCATTTAAAAATAT
67811871 TTTTCTATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 31 0.49
66 32 0.51
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (65 bp):
AATAATTATAATTAAAGTAAAAGTTGATATAAATTTTTTTTACAATTACAATCATTTAAAAATAT
Found at i:67812626 original size:22 final size:23
Alignment explanation
Indices: 67812601--67812653 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
67812591 AAATTAATAT
67812601 ATTAAAAAAATTAAAA-AAATTA
1 ATTAAAAAAATTAAAATAAATTA
* * *
67812623 ATTACAATAATTAAAATATATTA
1 ATTAAAAAAATTAAAATAAATTA
*
67812646 TTTAAAAA
1 ATTAAAAA
67812654 TTAAACTCGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTAAAAAAATTAAAATAAATTA
Found at i:67812861 original size:29 final size:30
Alignment explanation
Indices: 67812811--67812869 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
67812801 AAATACTCAA
67812811 TTTACTACGTGTAAGTCAGTTTATTAACATG
1 TTTACTACG-GTAAGTCAGTTTATTAACATG
* *
67812842 TTTACTAC-GTAAGTCTGTTTATTGACAT
1 TTTACTACGGTAAGTCAGTTTATTAACAT
67812870 ATTTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 18 0.69
31 8 0.31
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (30 bp):
TTTACTACGGTAAGTCAGTTTATTAACATG
Found at i:67815963 original size:53 final size:55
Alignment explanation
Indices: 67815875--67816003 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 55
67815865 CTGATGCTAA
* * * *
67815875 AGCCCAGCTGTGGTCTTATAC-GGATCGCTTGTATCACTT-TAATCCAAAGCTAT
1 AGCCCAACTATGGTCTTATACGGGATCGATTGTATCACTTGTAATCCAAAGCCAT
* ** * *
67815928 AGCCTAACTATGGTCTTATACGGGAATC-ATT-TATCACTTGTTTTCCTATGCCAT
1 AGCCCAACTATGGTCTTATACGGG-ATCGATTGTATCACTTGTAATCCAAAGCCAT
*
67815982 AGCCCAACTATAGTCTTATACG
1 AGCCCAACTATGGTCTTATACG
67816004 AATATCGCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
53 26 0.42
54 33 0.53
55 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (55 bp):
AGCCCAACTATGGTCTTATACGGGATCGATTGTATCACTTGTAATCCAAAGCCAT
Found at i:67844946 original size:31 final size:30
Alignment explanation
Indices: 67844911--67844969 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
67844901 TAATAATTTA
67844911 ATTTTTACTATCGTAAAAATGATAAAATTAT
1 ATTTTTACTATCGTAAAAAT-ATAAAATTAT
*
67844942 ATTTTTACTATCGTAAAAATATACAATT
1 ATTTTTACTATCGTAAAAATATAAAATT
67844970 TAATTTCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
ATTTTTACTATCGTAAAAATATAAAATTAT
Found at i:67849785 original size:124 final size:124
Alignment explanation
Indices: 67849616--67849889 Score: 320
Period size: 124 Copynumber: 2.2 Consensus size: 124
67849606 GACGCCACTT
* * * **
67849616 GTTTTATTTAAAGTAAAATATTTTTTGCTGCGTTTTTTACATAGCGCTTCTAATGCTCGATCTAT
1 GTTTGATTTAAAGTAAAATGTTTTTTACTGCGTTTTTTACATAGCGCCGCTAATGCTCGATCTAT
** * * * *
67849681 TGCAGAGTTTTTTGCCTAGCGCCGCTAATGCCATTAAAGGCGCAACTTAAAGCGGTC-CC
66 TGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGG-CACC
* * * *
67849740 GTTTGATTTAAAGTAAAATGTTTTTTAC-GACTTTTTTTCCGTAGCGCCGCTGATGCTCGATCTA
1 GTTTGATTTAAAGTAAAATGTTTTTTACTG-CGTTTTTTACATAGCGCCGCTAATGCTCGATCTA
** * *
67849804 TTGTGGCGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCCACTAAAAACGGCACC
65 TTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGGCACC
*
67849864 GTTTTG-TTTAAAGCAAAATGTTTTTT
1 G-TTTGATTTAAAGTAAAATGTTTTTT
67849890 TTGCGGCGTT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
123 2 0.02
124 121 0.95
125 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (124 bp):
GTTTGATTTAAAGTAAAATGTTTTTTACTGCGTTTTTTACATAGCGCCGCTAATGCTCGATCTAT
TGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGGCACC
Found at i:67850352 original size:14 final size:14
Alignment explanation
Indices: 67850333--67850371 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
67850323 CATAACTATA
67850333 AAACACTAAACACC
1 AAACACTAAACACC
*
67850347 AAACACCAAACACC
1 AAACACTAAACACC
*
67850361 AAACCCTAAAC
1 AAACACTAAAC
67850372 CTTAAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.38, G:0.00, T:0.05
Consensus pattern (14 bp):
AAACACTAAACACC
Found at i:67850452 original size:7 final size:7
Alignment explanation
Indices: 67850410--67850450 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
67850400 TACAAAATAT
67850410 TAAACCA
1 TAAACCA
*
67850417 TAAACAA
1 TAAACCA
*
67850424 TAAACCC
1 TAAACCA
67850431 TAAACCA
1 TAAACCA
*
67850438 TAAACCT
1 TAAACCA
67850445 TAAACC
1 TAAACC
67850451 TTTAAATCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCA
Found at i:67855711 original size:40 final size:39
Alignment explanation
Indices: 67855636--67855719 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
67855626 ACGACTTATC
***
67855636 GGCTAAAATGGCACTTAGTGTGTGGTTCGAAATAGCTTT
1 GGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTT
* * *
67855675 GGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTT
1 GGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTTT
67855715 GGCTA
1 GGCTA
67855720 TATATATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (39 bp):
GGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTT
Found at i:67858907 original size:38 final size:35
Alignment explanation
Indices: 67858825--67858907 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 35
67858815 ATTATTAAGT
**
67858825 TAGATTATTAAATACTGATAGGTTAATAAGGTTTA
1 TAGATTATTAAATACTGATAGGTTAATAACCTTTA
67858860 TAGATTATTAAATACTGATAGGTTCATATGAACCTTTA
1 TAGATTATTAAATACTGATAGGTT-A-AT-AACCTTTA
67858898 TA-ATATATTA
1 TAGAT-TATTA
67858908 TTTTCAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
35 24 0.57
36 1 0.02
37 4 0.10
38 13 0.31
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (35 bp):
TAGATTATTAAATACTGATAGGTTAATAACCTTTA
Found at i:67859481 original size:51 final size:51
Alignment explanation
Indices: 67859419--67859548 Score: 170
Period size: 55 Copynumber: 2.5 Consensus size: 51
67859409 AAAATAGTTG
* *
67859419 AAAGCTACAAAAGAGCTAATATATCAATATTTGATACTATAAAATTAGATA
1 AAAGCTCCAAAAGAGCTAATATATCAATATTTGATACTACAAAATTAGATA
* * *
67859470 AAAGCTCCAAAAGAGCTAGCTAATAAATCAATATTTGGTACTACAAAATTAGATG
1 AAAGCTCC-AAA-AG--AGCTAATATATCAATATTTGATACTACAAAATTAGATA
*
67859525 AAAGCTCCAGAAGAGCTAATATAT
1 AAAGCTCCAAAAGAGCTAATATAT
67859549 TAGTATCTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
51 17 0.25
52 3 0.04
53 4 0.06
54 2 0.03
55 42 0.62
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (51 bp):
AAAGCTCCAAAAGAGCTAATATATCAATATTTGATACTACAAAATTAGATA
Found at i:67859504 original size:55 final size:55
Alignment explanation
Indices: 67859432--67859542 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
67859422 GCTACAAAAG
* *
67859432 AGCTAATATATCAATATTTGATACTATAAAATTAGATAAAAGCTCCAAAAGAGCT
1 AGCTAATAAATCAATATTTGATACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
* * *
67859487 AGCTAATAAATCAATATTTGGTACTACAAAATTAGATGAAAGCTCCAGAAGAGCT
1 AGCTAATAAATCAATATTTGATACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
67859542 A
1 A
67859543 ATATATTAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (55 bp):
AGCTAATAAATCAATATTTGATACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
Found at i:67863148 original size:10 final size:10
Alignment explanation
Indices: 67863135--67863177 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
67863125 AGGATTTAAT
67863135 TTTATTTATC
1 TTTATTTATC
*
67863145 TTTAATTATC
1 TTTATTTATC
67863155 TTTATTTAT-
1 TTTATTTATC
67863164 TTGTATTTATC
1 TT-TATTTATC
67863175 TTT
1 TTT
67863178 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:67873375 original size:30 final size:30
Alignment explanation
Indices: 67873315--67873375 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
67873305 ATGTCTATGT
* **
67873315 AAATTATCATTGGTTTGGGATTTTTCTGGA
1 AAATTATCATTGGTCTGGGATTTTGATGGA
67873345 AAATTAAT-ATTGGTCTGGGATTTTGATGGA
1 AAATT-ATCATTGGTCTGGGATTTTGATGGA
67873375 A
1 A
67873376 GAGTATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.43
Consensus pattern (30 bp):
AAATTATCATTGGTCTGGGATTTTGATGGA
Found at i:67873707 original size:28 final size:28
Alignment explanation
Indices: 67873667--67873722 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
67873657 ACTACAAGAG
67873667 ATAGGACTGGTTGTCATCAGCAATTTTT
1 ATAGGACTGGTTGTCATCAGCAATTTTT
* *
67873695 ATAGGATTGGTTGTCATCGGCAATTTTT
1 ATAGGACTGGTTGTCATCAGCAATTTTT
67873723 CTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (28 bp):
ATAGGACTGGTTGTCATCAGCAATTTTT
Found at i:67878755 original size:45 final size:45
Alignment explanation
Indices: 67878691--67878778 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
67878681 AACCTAACCT
67878691 CTATATAAGTACACCTATATAGGTGCAAGATTAGATGCAATGCCC
1 CTATATAAGTACACCTATATAGGTGCAAGATTAGATGCAATGCCC
* *
67878736 CTATATAAGTCCACCTATATAGGTGCATGATTAGATGCAATGC
1 CTATATAAGTACACCTATATAGGTGCAAGATTAGATGCAATGC
67878779 AGGTTAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (45 bp):
CTATATAAGTACACCTATATAGGTGCAAGATTAGATGCAATGCCC
Found at i:67885700 original size:5 final size:5
Alignment explanation
Indices: 67885687--67885719 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
67885677 AAGATTTGAT
67885687 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
67885720 TAAATTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:67885703 original size:15 final size:16
Alignment explanation
Indices: 67885680--67885721 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
67885670 AAATAGGAAG
*
67885680 ATTTGATTTTTA-TTT
1 ATTTTATTTTTATTTT
67885695 ATTTTA-TTTTATTTT
1 ATTTTATTTTTATTTT
67885710 ATTTTATTTTTA
1 ATTTTATTTTTA
67885722 AATTAGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:67889347 original size:20 final size:20
Alignment explanation
Indices: 67889322--67889361 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
67889312 TACTAAAATG
67889322 TAAAGATGCTATAGAGTGCT
1 TAAAGATGCTATAGAGTGCT
67889342 TAAAGATGCTATAGAGTGCT
1 TAAAGATGCTATAGAGTGCT
67889362 CGAAAGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
TAAAGATGCTATAGAGTGCT
Found at i:67891589 original size:45 final size:45
Alignment explanation
Indices: 67891540--67891634 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
67891530 GTAGCAAGGA
*
67891540 AGCAGA-CTAAAAATTACAGA-TCTTATCTTCATGTATCGGCTATGG
1 AGCAGATC-AAAAA-TACAGAGTCTTATCTCCATGTATCGGCTATGG
* **
67891585 AGCAGATCGAAAATAGTGAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCAAAAATACAGAGTCTTATCTCCATGTATCGGCTATGG
67891630 AGCAG
1 AGCAG
67891635 GTTTTAACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 4 0.09
45 39 0.89
46 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCAGATCAAAAATACAGAGTCTTATCTCCATGTATCGGCTATGG
Found at i:67891819 original size:178 final size:178
Alignment explanation
Indices: 67891510--67891947 Score: 662
Period size: 178 Copynumber: 2.5 Consensus size: 178
67891500 CAGTGAATTC
*
67891510 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTTCATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTA
* * *
67891575 TCGGCTATGGAGCAGATCGAAAATAGTGAGTCTTATCTCCATGTATCGGCTATGGAGCAGGTTTT
66 TCGGCTATGGAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGAAGCAAGTTTT
67891640 AACCACCAGCCTTATCTCTCTAACGTAGCAAGAGAGCAGGTTGAAGAT
131 AACCACCAGCCTTATCTCTCTAACGTAGCAAGAGAGCAGGTTGAAGAT
* * * *
67891688 ACACGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTACAAATCTTATCTCCATTTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTA
* * * *
67891753 TCGGTTATGGGGCAGATCTG-AAATGGCGAGTTTTATCTCCATGTATCGGCTATGAAGCAAGTTT
66 TCGGCTATGGAGCAGATC-GAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGAAGCAAGTTT
* * * * * *
67891817 TAACCACTAGCTTTGTCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGAT
130 TAACCACCAGCCTTATCTCTCTAACGTAGCAAGAGAGCAGGTTGAAGAT
* * * *
67891866 ACAAGTCTTATCTTCCTGAAGTAGCAAGTAAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTA
67891931 TCGGCTATGGAGCAGAT
66 TCGGCTATGGAGCAGAT
67891948 TTTAGCCACC
Statistics
Matches: 231, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
178 230 1.00
179 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (178 bp):
ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTA
TCGGCTATGGAGCAGATCGAAAATAGCGAGTCTTATCTCCATGTATCGGCTATGAAGCAAGTTTT
AACCACCAGCCTTATCTCTCTAACGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:67891878 original size:133 final size:131
Alignment explanation
Indices: 67891785--67892080 Score: 382
Period size: 133 Copynumber: 2.2 Consensus size: 131
67891775 ATGGCGAGTT
* * *
67891785 TTATCTCCATGTATCGGCTATGAAGCA-AGTTTTAACCACTAGCTTTGTCTCTCTGAGGTAGCAA
1 TTATCTCCATGTATCGGCTATGAAGCAGA-TTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAA
* *
67891849 GAGAGCATGTTGAAGATACAAGTCTTATCTTCCTGAAGTAGCAAGTAAGCAGACTGAAAATTACA
65 GAGAGCAGGTTGAAGATACAAGTCTTATC-TCC-GAAGTAGCAAGTAAGCAGACTGAAAATGACA
67891914 GATC
128 GATC
* * * *
67891918 TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAG
1 TTATCTCCATGTATCGGCTATGAAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAG
* * * * *
67891983 AGTGCAGGTTGAAGATACAAGTCTTATCTTTCTGAGGTAGCAA-TGAAGTAGACTGAAAATTACA
66 AGAGCAGGTTGAAGATACAAGTCTTATC--TCCGAAGTAGCAAGT-AAGCAGACTGAAAATGACA
67892047 GATC
128 GATC
67892051 TTATCTCCATGTATCGGCTAT-AGAGCAGAT
1 TTATCTCCATGTATCGGCTATGA-AGCAGAT
67892081 CGAAAATGGC
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
132 1 0.01
133 140 0.97
134 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (131 bp):
TTATCTCCATGTATCGGCTATGAAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAG
AGAGCAGGTTGAAGATACAAGTCTTATCTCCGAAGTAGCAAGTAAGCAGACTGAAAATGACAGAT
C
Found at i:67892055 original size:178 final size:179
Alignment explanation
Indices: 67891871--67892234 Score: 515
Period size: 178 Copynumber: 2.0 Consensus size: 179
67891861 AAGATACAAG
* *
67891871 TCTTATCTTCC-TGAAGT-AGCAAGTA-AGCAGA-CTGAAAATTAC-AGATCTTATCTCTATGTA
1 TCTTATCTTCCATGAA-TCAGCAA-TAGAGCAGATC-GAAAATGACGAG-TCTTATCTCCATGTA
* **
67891931 TCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGTGCAGGTTGAA
62 TCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAA
* * *
67891996 GATACAAGTCTTATCTTTCTGAGGTAGCAATGAAGTAGACTGAAAATTACAGA
127 GATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGA
* * * *
67892049 TCTTATC-TCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGG
1 TCTTATCTTCCATGAATCAGCAATAGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGG
*
67892113 CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTCAAAGATA
66 CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGATA
* *
67892178 CAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTTCAGA
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGA
67892227 TCTTATCT
1 TCTTATCT
67892235 CCCTAAATAG
Statistics
Matches: 165, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
177 6 0.04
178 156 0.95
179 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (179 bp):
TCTTATCTTCCATGAATCAGCAATAGAGCAGATCGAAAATGACGAGTCTTATCTCCATGTATCGG
CTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGATA
CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGA
Found at i:67892155 original size:311 final size:311
Alignment explanation
Indices: 67891605--67892236 Score: 937
Period size: 311 Copynumber: 2.0 Consensus size: 311
67891595 AAATAGTGAG
*
67891605 TCTTATCTCCATGTATCGGCTATGGAGCAGGTTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
*
67891670 AGAGAGCAGGTTGAAGATACACGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
* * * * *
67891735 AAATCTTATCTCCATTTATCGGTTATGGGGCAGATCTGAAATGGCGAGTTTTATCTCCATGTATC
131 AAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTGAAATGGCGAGTCTTATCTCCATGTATC
* * * * **
67891800 GGCTATGAAGCAAGTTTTAACCACTAGCTTTGTCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGA
196 GGCTATGAAGCAAGTTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGA
*
67891865 TACAAGTCTTATCTTCCTGAAGTAGCAAGTAAGCAGACTGAAAATTACAGA
261 TACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
* * * * *
67891916 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
* * * *
67891981 AGAGTGCAGGTTGAAGATACAAGTCTTATCTT-TCTGAGGTAGCAATGAAGTAGACTGAAAATTA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCT-TGAGGTAGCAAGGAAGCAGACTAAAAATTA
*
67892045 CAGATCTTATCTCCATGTATCGGCTATAGAGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTA
130 CAAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTG-AAATGGCGAGTCTTATCTCCATGTA
* * * *
67892109 TCGGCTATGGAGC-AGATTTTAGCCACCGGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTCAA
194 TCGGCTATGAAGCAAG-TTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAA
* * *
67892173 AGATACAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTTCAGA
258 AGATACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
67892227 TCTTATCTCC
1 TCTTATCTCC
67892237 CTAAATAGTA
Statistics
Matches: 286, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
310 4 0.01
311 282 0.99
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (311 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
AAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTGAAATGGCGAGTCTTATCTCCATGTATC
GGCTATGAAGCAAGTTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGA
TACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
Found at i:67892235 original size:178 final size:178
Alignment explanation
Indices: 67891916--67892236 Score: 552
Period size: 178 Copynumber: 1.8 Consensus size: 178
67891906 AAATTACAGA
*
67891916 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* ** * * *
67891981 AGAGTGCAGGTTGAAGATACAAGTCTTATCTTTCTGAGGTAGCAATGAAGTAGACTGAAAATTAC
66 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
67892046 AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
131 AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
*
67892094 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTTTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* *
67892159 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTTC
66 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
67892224 AGATCTTATCTCC
131 AGATCTTATCTCC
67892237 CTAAATAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 133 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (178 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
Found at i:67892291 original size:44 final size:44
Alignment explanation
Indices: 67892243--67892462 Score: 168
Period size: 44 Copynumber: 5.0 Consensus size: 44
67892233 CTCCCTAAAT
* *
67892243 AGTAGTGGAGTAGATCGAAGATGGTGAGCCTTAACCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
* * * * * *
67892287 AGTAG-GGTAACA-AGCTGAAGAT--TACAGATCTTAGCTCCCTAAGT
1 AGTAGTGG-AGCAGATC-GAAGATGGT-GAG-CCTTAGCCCCCTAAGC
*
67892331 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAGCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
* * * * *
67892375 AGTAG-GGTAACAG-GCTGAAGAT--TACAGATCTTAGCTCCCTAAGC
1 AGTAGTGG-AGCAGATC-GAAGATGGT-GAG-CCTTAGCCCCCTAAGC
* *
67892419 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
67892463 TGAAGATTAT
Statistics
Matches: 132, Mismatches: 28, Indels: 32
0.69 0.15 0.17
Matches are distributed among these distances:
42 2 0.02
43 11 0.08
44 106 0.80
45 11 0.08
46 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (44 bp):
AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
Found at i:67892334 original size:88 final size:88
Alignment explanation
Indices: 67892213--67892462 Score: 419
Period size: 88 Copynumber: 2.8 Consensus size: 88
67892203 AGGAAGCAGA
* * * * * *
67892213 CTGAAAATTTCAGATCTTATCTCCCTAAATAGTAGTGGAGTAGATCGAAGATGGTGAGCCTTAAC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
67892278 CCCCTAAGCAGTAGGGTAACAAG
66 CCCCTAAGCAGTAGGGTAACAAG
*
67892301 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAGC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
*
67892366 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAAG
*
67892389 CTGAAGATTACAGATCTTAGCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
67892454 CCCCTAAGC
66 CCCCTAAGC
67892463 TGAAGATTAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 152 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (88 bp):
CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
CCCCTAAGCAGTAGGGTAACAAG
Found at i:67892507 original size:73 final size:73
Alignment explanation
Indices: 67892388--67892535 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
67892378 AGGGTAACAG
*
67892388 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
67892453 CCCCCTAA
66 CCCCCTAA
*
67892461 GCTGAAGATTATAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
67892526 CCCCCTAA
66 CCCCCTAA
67892534 GC
1 GC
67892536 AGTAGGGTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.20
Consensus pattern (73 bp):
GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
CCCCCTAA
Found at i:67892534 original size:44 final size:44
Alignment explanation
Indices: 67892484--67892891 Score: 205
Period size: 44 Copynumber: 9.3 Consensus size: 44
67892474 GATCTTAGCT
*
67892484 CCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
* * * * * * *
67892528 CCCTAAGCAGTAG-GGTAGCATGCT-AAAGA--TTACAGATCTTAGCT
1 CCCTAAGCAGTAGTGG-AGCA-GATCGAAGACGGT-GAG-CCTTAACC
* * *
67892572 CCCTAAACAGTAGTAGAGCAGGTCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
* * *** * * *
67892616 CCCTAAGCAGTAG-GGTAACA-AGCTGAAGATTAT-AGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGATC-GAAGACGGTGAG-CCTTAACC
* * *
67892660 CCCTAAGCAGTAGTGAAGCAGATCAAATACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
* * ** *** * * *
67892704 CCCTAAGCAGTAG-GGTAACAG-GCTGAATTCACAGA-TCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGATC-GAAGACGGTGAGCCTTAACC
*
67892747 CCCTGAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
* * * * * * * *
67892791 CCTTAAGCAGTAG-GGTAACAG-GCTGAAGA--TTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGATC-GAAGACGGT-GAG-CCTTAACC
* *
67892835 CCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTAAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
*
67892879 CCCTATGCAGTAG
1 CCCTAAGCAGTAG
67892892 AGTAACAGGC
Statistics
Matches: 257, Mismatches: 80, Indels: 54
0.66 0.20 0.14
Matches are distributed among these distances:
42 2 0.01
43 44 0.17
44 194 0.75
45 15 0.06
46 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
Found at i:67892614 original size:88 final size:88
Alignment explanation
Indices: 67892461--67893118 Score: 865
Period size: 88 Copynumber: 7.5 Consensus size: 88
67892451 AACCCCCTAA
* * *
67892461 GCTGAAGATTATAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
* *
67892526 CCCCCTAAGCAGTAGGGTAGCAT
66 CCCCCTAAGCAGTAGGGTAACAG
* * * * *
67892549 GCTAAAGATTACAGATCTTAGCTCCCTAAACAGTAGTAGAGCAGGTCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
*
67892614 CCCCCTAAGCAGTAGGGTAACAA
66 CCCCCTAAGCAGTAGGGTAACAG
* * * *
67892637 GCTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCAAATACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
67892702 CCCCCTAAGCAGTAGGGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
*
67892725 GCTG-A-ATTCACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTA
1 GCTGAAGATT-ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTA
*
67892788 ACCCCTTAAGCAGTAGGGTAACAG
65 ACCCCCTAAGCAGTAGGGTAACAG
* *
67892812 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTAAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
* *
67892877 CCCCCTATGCAGTAGAGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
* * * * * *
67892900 GCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAACGGATCGGAGACGGTGAGCCTTAT
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
67892965 CCCCCTAAGCAGTAGGGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
** * * *
67892988 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAACGGAGTAGATCG-AGAACAGTAAGCCTTA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ACGGTGAGCCTTA
*** * * * *
67893052 TGTCCTTGAGCAGCAGCGG-AGCAG
65 ACCCCCTAAGCAGTAG-GGTAACAG
* * * * *
67893076 GCTGAAGATTACAAATCATATCTCCCTAAACAATAGCGGAGCA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
67893119 AATTGAAACG
Statistics
Matches: 504, Mismatches: 61, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
86 3 0.01
87 79 0.16
88 417 0.83
89 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (88 bp):
GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
CCCCCTAAGCAGTAGGGTAACAG
Found at i:67892927 original size:44 final size:44
Alignment explanation
Indices: 67892794--67893022 Score: 138
Period size: 44 Copynumber: 5.2 Consensus size: 44
67892784 CTTAACCCCT
* * *
67892794 TAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCC
1 TAAGCAGTAGAGTAACAGGCTGAAAATTACAAATCTTATCTCCC
* * * * **** ** * *
67892838 TAAGCAGTAGTGGAGCA-GATCGAAAACGGTAAGCCTTAACCCCC
1 TAAGCAGTAGAGTAACAGGCT-GAAAATTACAAATCTTATCTCCC
*
67892882 TATGCAGTAGAGTAACAGGCTGAAAATTACAAATCTTATCTCCC
1 TAAGCAGTAGAGTAACAGGCTGAAAATTACAAATCTTATCTCCC
* * * * * ***** ** *
67892926 TAAGCAGTAGTGGAAC-GGATCGGAGACGGTGAGCCTTATCCCCC
1 TAAGCAGTAGAGTAACAGGCT-GAAAATTACAAATCTTATCTCCC
* * *
67892970 TAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCC
1 TAAGCAGTAGAGTAACAGGCTGAAAATTACAAATCTTATCTCCC
67893014 TAAGCAGTA
1 TAAGCAGTA
67893023 ACGGAGTAGA
Statistics
Matches: 127, Mismatches: 54, Indels: 8
0.67 0.29 0.04
Matches are distributed among these distances:
43 5 0.04
44 117 0.92
45 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
TAAGCAGTAGAGTAACAGGCTGAAAATTACAAATCTTATCTCCC
Done.