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 140 of 310
Found at i:45651840 original size:18 final size:19
Alignment explanation
Indices: 45651814--45651850 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
45651804 TTCCAGAATA
45651814 TATTGAATTTCCAAAACGT
1 TATTGAATTTCCAAAACGT
45651833 TATT-AATTTCCAAAACGT
1 TATTGAATTTCCAAAACGT
45651851 CACTTGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TATTGAATTTCCAAAACGT
Found at i:45667629 original size:15 final size:16
Alignment explanation
Indices: 45667595--45667631 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
45667585 ACCCAACCTA
*
45667595 ACCCAAAACCCAGAAG
1 ACCCAAAACCCACAAG
45667611 -CCCAAAACCC-CAAG
1 ACCCAAAACCCACAAG
45667625 ACCCAAA
1 ACCCAAA
45667632 TCAAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.49, C:0.43, G:0.08, T:0.00
Consensus pattern (16 bp):
ACCCAAAACCCACAAG
Found at i:45667724 original size:29 final size:29
Alignment explanation
Indices: 45667692--45667756 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
45667682 TGCCCTCTGA
45667692 CACCAGCACCGGTCACCATCCCCTGGCGC
1 CACCAGCACCGGTCACCATCCCCTGGCGC
* *
45667721 CACCAGCACCGGTCACCATCCCCTGGTGT
1 CACCAGCACCGGTCACCATCCCCTGGCGC
45667750 CACCAGC
1 CACCAGC
45667757 TCTGCTCCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.49, G:0.20, T:0.12
Consensus pattern (29 bp):
CACCAGCACCGGTCACCATCCCCTGGCGC
Found at i:45676196 original size:12 final size:12
Alignment explanation
Indices: 45676163--45676197 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
45676153 TGACACAAGA
45676163 TATTCTTTAAAT
1 TATTCTTTAAAT
*
45676175 TACTCTTTTAAAT
1 TATTC-TTTAAAT
45676188 TATTCTTTAA
1 TATTCTTTAA
45676198 TTAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:45676600 original size:39 final size:38
Alignment explanation
Indices: 45676500--45676608 Score: 94
Period size: 44 Copynumber: 2.7 Consensus size: 38
45676490 TTTTTTTATG
* * *
45676500 CTATTACAATTCTATTCCATTCAACTAAGCATAAGAATA
1 CTATTACAGTTTTATTCCATTCAACCAA-CATAAGAATA
*
45676539 CTATTACAGTTTTATTTCATTCCATTCAACCAA-ATAATTGATTA
1 CTATTACAG---T-TTT-ATTCCATTCAACCAACATAA--GAATA
45676583 CTATTACAGTTTTATTCCATTACAAC
1 CTATTACAGTTTTATTCCATT-CAAC
45676609 TTTATTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
39 16 0.28
40 7 0.12
41 1 0.02
42 5 0.09
43 2 0.03
44 27 0.47
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (38 bp):
CTATTACAGTTTTATTCCATTCAACCAACATAAGAATA
Found at i:45676606 original size:16 final size:16
Alignment explanation
Indices: 45676585--45676640 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
45676575 ATTGATTACT
45676585 ATTACAGTTTTATTCC
1 ATTACAGTTTTATTCC
** **
45676601 ATTACAACTTTATTTT
1 ATTACAGTTTTATTCC
* *
45676617 ATAACAGTTCTATTCC
1 ATTACAGTTTTATTCC
45676633 ATTACAGT
1 ATTACAGT
45676641 GAACTAAACA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:45678077 original size:30 final size:32
Alignment explanation
Indices: 45678014--45678077 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
45678004 TAATAAAAGT
* *
45678014 AAAATTGTAATTTGATCTCTTTAAAACTGATA
1 AAAATTGTAATTTAATCTCTTTAAAAATGATA
* *
45678046 AAAATT-TAATTTAAT-TTTTTAAAAATTATA
1 AAAATTGTAATTTAATCTCTTTAAAAATGATA
45678076 AA
1 AA
45678078 GATATAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 14 0.50
31 8 0.29
32 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (32 bp):
AAAATTGTAATTTAATCTCTTTAAAAATGATA
Found at i:45679303 original size:19 final size:19
Alignment explanation
Indices: 45679268--45679308 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
45679258 CCACGAAAGG
*
45679268 AAAAATGAAACAGGGAATAA
1 AAAAATGAAACAAGGAA-AA
45679288 AAAAATGAAA-AAGGAAAA
1 AAAAATGAAACAAGGAAAA
45679306 AAA
1 AAA
45679309 GAAAAGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAATGAAACAAGGAAAA
Found at i:45680262 original size:17 final size:19
Alignment explanation
Indices: 45680220--45680263 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45680210 TATGAAATTT
*
45680220 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
45680239 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
45680257 AA-TATTA
1 AATTATTA
45680264 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:45680373 original size:15 final size:15
Alignment explanation
Indices: 45680355--45680383 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45680345 ATATTTATAA
45680355 AATTATTATTATTAT
1 AATTATTATTATTAT
45680370 AATTATTATTATTA
1 AATTATTATTATTA
45680384 GATAGGAAAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:45681339 original size:15 final size:15
Alignment explanation
Indices: 45681319--45681386 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
45681309 GATTCAGTTT
45681319 TTTTCTTCTATTTTC
1 TTTTCTTCTATTTTC
* *
45681334 TTTTCTTATTTTTTC
1 TTTTCTTCTATTTTC
** *
45681349 TCCTC-TCTACTTT-
1 TTTTCTTCTATTTTC
*
45681362 TTTTCTTCT-TCTTC
1 TTTTCTTCTATTTTC
*
45681376 TTTTCCTCTAT
1 TTTTCTTCTAT
45681387 AGCCAAATCT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
13 5 0.13
14 16 0.42
15 17 0.45
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCTTCTATTTTC
Found at i:45681378 original size:17 final size:17
Alignment explanation
Indices: 45681329--45681379 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
45681319 TTTTCTTCTA
*
45681329 TTTTCTT-TTCTT-ATT
1 TTTTCTTCTTCTTCTTT
* *
45681344 TTTTCTCCTCTCTACTTT
1 TTTTCTTCT-TCTTCTTT
45681362 TTTTCTTCTTCTTCTTT
1 TTTTCTTCTTCTTCTTT
45681379 T
1 T
45681380 CCTCTATAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 6 0.21
16 1 0.04
17 11 0.39
18 10 0.36
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCTTCTTCTTT
Found at i:45682503 original size:60 final size:60
Alignment explanation
Indices: 45682401--45682537 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
45682391 GTAAAATTGT
*
45682401 TAATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
1 TAATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
* * * *
45682461 TAATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATAC
*
45682521 TGATATGGGCTAAGGCC
1 TAATATGGGCT-AGGCC
45682538 TAATTAACAC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.06
60 53 0.79
61 10 0.15
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (60 bp):
TAATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
Found at i:45684825 original size:9 final size:9
Alignment explanation
Indices: 45684811--45684856 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
45684801 TTTGGTTAAA
*
45684811 AATTAACTG
1 AATTAACCG
*
45684820 AATTAAACG
1 AATTAACCG
*
45684829 AATTACCCG
1 AATTAACCG
45684838 AATTAACCG
1 AATTAACCG
45684847 AATTAACCG
1 AATTAACCG
45684856 A
1 A
45684857 TCACTCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:45684906 original size:17 final size:17
Alignment explanation
Indices: 45684884--45685018 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
45684874 ATTGAATCAC
45684884 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
45684901 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
45684921 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
45684938 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
45684958 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * **
45684975 TACATAAGTCTTTGAATCGC
1 TACATAA---TTAAAAACAT
45684995 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
45685012 TACATAA
1 TACATAA
45685019 GTCTTGAAAT
Statistics
Matches: 81, Mismatches: 28, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
17 41 0.51
18 3 0.04
19 3 0.04
20 34 0.42
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:45684926 original size:20 final size:20
Alignment explanation
Indices: 45684876--45685001 Score: 81
Period size: 17 Copynumber: 6.8 Consensus size: 20
45684866 TTACTCGAAT
45684876 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
* * * *
45684894 -AAAACATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
45684913 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** *
45684931 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAAGTCTA
45684950 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** * *
45684968 AAAAT-ATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
*
45684987 TGAATCGCTACATAA
1 TGAATCACTACATAA
45685002 TTAAAAACAT
Statistics
Matches: 77, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
17 27 0.35
18 12 0.16
19 12 0.16
20 26 0.34
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (20 bp):
TGAATCACTACATAAGTCTA
Found at i:45685037 original size:74 final size:74
Alignment explanation
Indices: 45684876--45685040 Score: 253
Period size: 74 Copynumber: 2.2 Consensus size: 74
45684866 TTACTCGAAT
* *
45684876 TGAATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTAC
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
45684941 ATAAGTCTA
66 ATAAGTCTA
* * *
45684950 TGAATCACTACATAATTAAAAATATTACATAAGTCTTTGAATCGCTACATAATTAAAAACATTAC
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
45685015 ATAAGTCT-
66 ATAAGTCTA
45685023 TGAAATTAAC-ACATAATT
1 TG-AA-TAACTACATAATT
45685041 GAAATGTAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
73 2 0.02
74 80 0.94
75 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.33
Consensus pattern (74 bp):
TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
ATAAGTCTA
Found at i:45685040 original size:37 final size:37
Alignment explanation
Indices: 45684875--45685023 Score: 262
Period size: 37 Copynumber: 4.0 Consensus size: 37
45684865 ATTACTCGAA
45684875 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
45684912 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
45684949 ATGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
45684986 TTGAATCGCTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
45685023 T
1 T
45685024 GAAATTAACA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:45686365 original size:10 final size:11
Alignment explanation
Indices: 45686349--45686381 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
45686339 CCGTTTTGTC
45686349 CCTTTTTGGCT
1 CCTTTTTGGCT
*
45686360 CGTTTTTGGCT
1 CCTTTTTGGCT
45686371 CC-TTTTGGCT
1 CCTTTTTGGCT
45686381 C
1 C
45686382 TTGGTGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.27, G:0.21, T:0.52
Consensus pattern (11 bp):
CCTTTTTGGCT
Found at i:45686367 original size:11 final size:10
Alignment explanation
Indices: 45686350--45686383 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45686340 CGTTTTGTCC
45686350 CTTTTTGGCT
1 CTTTTTGGCT
45686360 CGTTTTTGGCT
1 C-TTTTTGGCT
*
45686371 CCTTTTGGCT
1 CTTTTTGGCT
45686381 CTT
1 CTT
45686384 GGTGCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.56
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:45695624 original size:46 final size:46
Alignment explanation
Indices: 45695568--45695787 Score: 257
Period size: 46 Copynumber: 4.7 Consensus size: 46
45695558 ACTTGTGTGT
* * ** *
45695568 GCTAGTGTAAGACATGTCTGGAACATGAATCGGCCACATTATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGTA-A
* * ** * *
45695614 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGGCG-AGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAAGACGTA-A
*
45695662 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGTAA
*
45695708 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGTAA
45695754 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
45695788 TACGAAATGT
Statistics
Matches: 151, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
46 100 0.66
47 33 0.22
48 18 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGTAA
Found at i:45696059 original size:58 final size:58
Alignment explanation
Indices: 45695969--45696082 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
45695959 GTTTAGGTGT
* *
45695969 GATCGGATTACCTAGAAATTTGGGTTGTTTTAATACAACATTTTGGTTTACTAAAATA
1 GATCGGATCACCTAGAAATTTGGGTTGTTTTAATAAAACATTTTGGTTTACTAAAATA
45696027 GATCGGATCACCTAGAAATTTGGGTTGTTTTAATAAAACATTTTGGTTTACTAAAA
1 GATCGGATCACCTAGAAATTTGGGTTGTTTTAATAAAACATTTTGGTTTACTAAAA
45696083 CAATGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (58 bp):
GATCGGATCACCTAGAAATTTGGGTTGTTTTAATAAAACATTTTGGTTTACTAAAATA
Found at i:45697461 original size:39 final size:39
Alignment explanation
Indices: 45697418--45697496 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45697408 AAAAAAACTG
*
45697418 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
45697457 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
45697496 A
1 A
45697497 AACCATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:45697540 original size:15 final size:16
Alignment explanation
Indices: 45697514--45697543 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45697504 TTTTATTTCT
45697514 CTTTTATAAAAAAAAC
1 CTTTTATAAAAAAAAC
45697530 CTTTT-TAAAAAAAA
1 CTTTTATAAAAAAAA
45697544 AAACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
CTTTTATAAAAAAAAC
Found at i:45699226 original size:137 final size:137
Alignment explanation
Indices: 45698917--45699774 Score: 1475
Period size: 137 Copynumber: 6.3 Consensus size: 137
45698907 GTTTGTTTCA
* * *
45698917 ATCTTCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTGTTCCAATGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* * * * * * *
45698982 AACTTTAGGGAGATAAGATCTGCTATC-TTAGTCTGCTCCACTGCAACTTTAGGAAGACAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
45699046 TGTGTTG
131 TGTGTCG
*
45699053 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAACCTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* * *
45699118 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAGTTAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
45699183 TGTGTCG
131 TGTGTCG
*
45699190 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTAC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
** *
45699255 AACTTCAGGGAAATAAGATTTGCTATCTTTAGCCTGCTCCACTGCAACTTCAGGGAGTTAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
45699320 TGTGTTG
131 TGTGTCG
* * *
45699327 ATCTACTCTACTACAACTTTAGAGAGATGAGATCTGTGGTTTATAGCTTCAATTTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
45699392 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
45699457 TGTGTCG
131 TGTGTCG
* *
45699464 ATCTACTTTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATTTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
45699529 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
45699594 TGTGTCG
131 TGTGTCG
*
45699601 ATCTACTTTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
45699666 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
45699731 TGTGTCG
131 TGTGTCG
45699738 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
45699775 TATTTTCAGA
Statistics
Matches: 690, Mismatches: 31, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
136 85 0.12
137 605 0.88
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (137 bp):
ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TGTGTCG
Found at i:45699272 original size:92 final size:90
Alignment explanation
Indices: 45699110--45699772 Score: 320
Period size: 92 Copynumber: 7.3 Consensus size: 90
45699100 TTCAACCTGT
* * * * *
45699110 TCCACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAGTCTGTTCCACTGCAACTTCAGG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
*
45699172 GAGTTAAGACTTG-TGTCGATCTAC
66 GAGATAAGACTTGTTGTCGATCTAC
* * *
45699196 TCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTC
1 TCCACTGCAACTTCAGAGAGATAAGATCT-TGGTTTAT--CTTCAATCTGTTCCACTGCAACTTC
* * * ** * *
45699261 AGGGAAATAAGATTTGCTATCTTTAGCCTGC
63 AGGGAGATAAGACTTG-T-TGTCGA-TCTAC
* * * * * *
45699292 TCCACTGCAACTTCAGGGAGTTAAGA-CTTGTGTTGATC-T--A-C---TCTACTACAACTTTAG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTG-GTTTATCTTCAATCTGTTCCACTGCAACTTCAG
* * * * **
45699349 AGAGATGAGATCTGTGGTTTATAGCTTCAATTTGT
65 GGAGATAAGA-CT-T-G--T-T-G--TCGATCTAC
* * * * *
45699384 TCCACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAATCTGCTCCACTGCAACTTCAGG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
45699446 GAGATAAGACTTG-TGTCGATCTAC
66 GAGATAAGACTTGTTGTCGATCTAC
** * *
45699470 TTTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATTTGTTCCACTGCAACTTC
1 TCCACTGCAACTTCAGAGAGATAAGATCT-TGGTTTAT--CTTCAATCTGTTCCACTGCAACTTC
* * * ** *
45699535 AGGGAAATAAGATTTGCTATCTTTAATCTGC
63 AGGGAGATAAGACTTG-T-T-GTCGATCTAC
* **
45699566 TCCACTGCAACTTCAGGGAGATAAGA-CTTGTGTCGATC-T--A-CT-TT--ACTGCAACTTCAG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTG-GTTTATCTTCAATCTGTTCCACTGCAACTTCAG
* * * **
45699623 AGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
65 GGAGATAAGA-CT-T-G--T-T-G--TCGATCTAC
* * * * *
45699658 TCCACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAATCTGCTCCACTGCAACTTCAGG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
45699720 GAGATAAGACTTG-TGTCGATCTAC
66 GAGATAAGACTTGTTGTCGATCTAC
* *
45699744 TCTACTGCAACTTCAGAGAGATGAGATCT
1 TCCACTGCAACTTCAGAGAGATAAGATCT
45699773 GTTATTTTCA
Statistics
Matches: 435, Mismatches: 90, Indels: 103
0.69 0.14 0.16
Matches are distributed among these distances:
86 120 0.28
87 5 0.01
88 8 0.02
89 15 0.03
90 18 0.04
92 137 0.31
93 9 0.02
94 7 0.02
95 21 0.05
96 95 0.22
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (90 bp):
TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
GAGATAAGACTTGTTGTCGATCTAC
Found at i:45699491 original size:41 final size:41
Alignment explanation
Indices: 45699432--45699765 Score: 159
Period size: 41 Copynumber: 7.5 Consensus size: 41
45699422 AATCTGCTCC
45699432 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
1 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
* * ** *
45699473 ACTGCAACTTCAGAGAGATGAGA-TCTGTGGTTTATAGCTTCAATTTGTT
1 ACTGCAACTTCAGGGAGATAAGACT-TGT-GTCGAT--C-T--A-CT-TT
* * * * * **
45699522 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCC
1 --ACTGCAACTTCAGGGAGATAAGACTTG-TGTC---GATCTACTTT
45699569 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
1 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
* * **
45699610 ACTGCAACTTCAGAGAGATGAGA-TCTGTGGTTTATAGCTTCAATCTGTT
1 ACTGCAACTTCAGGGAGATAAGACT-TGT-GTCGAT--C-T--A-CT-TT
* * * * * **
45699659 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCC
1 --ACTGCAACTTCAGGGAGATAAGACTTG-TGTC---GATCTACTTT
*
45699706 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
*
45699747 ACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGGGAGAT
45699766 GAGATCTGTT
Statistics
Matches: 219, Mismatches: 42, Indels: 64
0.67 0.13 0.20
Matches are distributed among these distances:
40 2 0.01
41 79 0.36
42 8 0.04
44 8 0.04
45 52 0.24
47 2 0.01
48 6 0.03
49 4 0.02
51 48 0.22
52 6 0.03
54 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
Found at i:45699533 original size:51 final size:48
Alignment explanation
Indices: 45699473--45699741 Score: 208
Period size: 45 Copynumber: 5.8 Consensus size: 48
45699463 GATCTACTTT
* * *
45699473 ACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATTTGTTCC
1 ACTGCAACTTCAGAGAGATAAGATCT-TGGTCTAT--CTTCAATCTGTTCC
* * * *
45699524 ACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTTGGTCTATCTTCAATCTGTTCC
* *
45699569 ACTGCAACTTCAGGGAGATAAGA-CTTGTGTCGATC-T--A-CT-TT--
1 ACTGCAACTTCAGAGAGATAAGATCTTG-GTCTATCTTCAATCTGTTCC
* *
45699610 ACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCC
1 ACTGCAACTTCAGAGAGATAAGATCT-TGGTCTAT--CTTCAATCTGTTCC
* * * *
45699661 ACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTTGGTCTATCTTCAATCTGTTCC
* *
45699706 ACTGCAACTTCAGGGAGATAAGA-CTTGTGTCGATCT
1 ACTGCAACTTCAGAGAGATAAGATCTTG-GTCTATCT
45699742 ACTCTACTGC
Statistics
Matches: 177, Mismatches: 22, Indels: 41
0.74 0.09 0.17
Matches are distributed among these distances:
41 21 0.12
42 6 0.03
43 3 0.02
44 3 0.02
45 73 0.41
47 10 0.06
48 13 0.07
49 4 0.02
50 2 0.01
51 42 0.24
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (48 bp):
ACTGCAACTTCAGAGAGATAAGATCTTGGTCTATCTTCAATCTGTTCC
Found at i:45712444 original size:28 final size:28
Alignment explanation
Indices: 45712362--45712566 Score: 272
Period size: 28 Copynumber: 7.4 Consensus size: 28
45712352 GAGATTGGCG
* * * *
45712362 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
45712391 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712418 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712446 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712474 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712501 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712529 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
45712556 CTGAGTGTGCG
1 CTAAGTGTGCG
45712567 GACTTAATAT
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 67 0.43
28 79 0.50
29 11 0.07
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:45712452 original size:55 final size:55
Alignment explanation
Indices: 45712387--45712566 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
45712377 TAAATTGTGC
* *
45712387 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
45712442 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
45712497 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
45712552 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45712567 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 94 0.79
56 25 0.21
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45712502 original size:83 final size:82
Alignment explanation
Indices: 45712387--45712566 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
45712377 TAAATTGTGC
*
45712387 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
45712452 GTGCGAGTATGATTATGT
66 GTGCGAGT-TGATTATAT
* * *
45712470 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
45712535 GTGCGAGTTGATTATAT
66 GTGCGAGTTGATTATAT
*
45712552 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45712567 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGTTGATTATAT
Found at i:45734188 original size:23 final size:23
Alignment explanation
Indices: 45734162--45734236 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
45734152 ATAAGTGCCA
45734162 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45734185 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45734207 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45734230 CACTGAT
1 CACTGAT
45734237 CAATAACACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 20 0.43
23 26 0.57
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45735201 original size:11 final size:11
Alignment explanation
Indices: 45735185--45735212 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45735175 AGATGGACAC
45735185 TTATTTTCTCT
1 TTATTTTCTCT
45735196 TTATTTTCTCT
1 TTATTTTCTCT
45735207 TTATTT
1 TTATTT
45735213 GTTCGGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTTCTCT
Found at i:45748749 original size:20 final size:20
Alignment explanation
Indices: 45748705--45748749 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
45748695 TTTATAATTT
* *
45748705 TAAAAAAATATTAATTATTA
1 TAAAAAAATATTAAGTATGA
*
45748725 TAAAAAAGTATT-AGTATGA
1 TAAAAAAATATTAAGTATGA
45748744 TAAAAA
1 TAAAAA
45748750 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAAAAATATTAAGTATGA
Found at i:45752669 original size:25 final size:25
Alignment explanation
Indices: 45752640--45752687 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45752630 CATAAATGTA
*
45752640 GCTCTT-TATGAGGGTCCTGATATAG
1 GCTCTTCT-TGAGCGTCCTGATATAG
*
45752665 GCTCTTCTTGAGCTTCCTGATAT
1 GCTCTTCTTGAGCGTCCTGATAT
45752688 GACTCGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (25 bp):
GCTCTTCTTGAGCGTCCTGATATAG
Found at i:45756874 original size:37 final size:38
Alignment explanation
Indices: 45756824--45756903 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
45756814 TTATTACGAA
* *
45756824 GTCTTACCCGGAC-ATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAAATTC-CCACACGAAGTCATCGG
*
45756861 GTCTTACCCGGACAAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
45756899 GTCTT
1 GTCTT
45756904 TAGAGCTCNN
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.34
38 23 0.61
39 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
Found at i:45758154 original size:38 final size:38
Alignment explanation
Indices: 45758038--45758194 Score: 122
Period size: 38 Copynumber: 4.0 Consensus size: 38
45758028 AAACCCAAAC
* * *
45758038 ATAACACCAGCACGAAGCCTACAGGACTTTCAACTCC-GAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AAC-CCGGAT
* * * **
45758078 ATAATACCAGCACTAGGCCTGCGAGATTTAACATGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
45758116 ATATTACCAGCACGAAGCCTGCGGGATTTGACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
45758154 ATAA-ACCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATA-CCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
45758194 A
1 A
45758195 CACATCAATA
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
37 2 0.02
38 56 0.60
39 7 0.08
40 28 0.30
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:45758719 original size:65 final size:67
Alignment explanation
Indices: 45758632--45758774 Score: 254
Period size: 65 Copynumber: 2.2 Consensus size: 67
45758622 TCAATTCCAA
*
45758632 TCGATTTAACATGCATAAGTACATATCGCATACCTGACCAACTTAATGTATTGAAAGAAATTGAT
1 TCGATTTAACATGCATAAGTACATATCGCATACCTGACCAACTTAATGTATTGAAAGAAATCGAT
45758697 TG
66 TG
*
45758699 TCGATTTAAC-T-CATAAGTACATATCGCATACCTGACCAACTTAATGTATTGAACGAAATCGAT
1 TCGATTTAACATGCATAAGTACATATCGCATACCTGACCAACTTAATGTATTGAAAGAAATCGAT
45758762 TG
66 TG
45758764 TCGATTTAACA
1 TCGATTTAACA
45758775 CAAGGTCTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
65 62 0.85
66 1 0.01
67 10 0.14
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (67 bp):
TCGATTTAACATGCATAAGTACATATCGCATACCTGACCAACTTAATGTATTGAAAGAAATCGAT
TG
Found at i:45763922 original size:43 final size:43
Alignment explanation
Indices: 45763863--45763978 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
45763853 ATAAACCGAG
* * *
45763863 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
** * *
45763906 AT-TCGATTTCCTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGT-GATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
*
45763949 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATAACATGTAAGACCATGTCTGGGA
45763979 TATGGAATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.97
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGAT
Found at i:45774816 original size:12 final size:12
Alignment explanation
Indices: 45774792--45774824 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
45774782 AATGGTTCAC
45774792 AAGTATGGTCTGG
1 AAGTAT-GTCTGG
45774805 AAGTATGTCTGG
1 AAGTATGTCTGG
45774817 AAGTATGT
1 AAGTATGT
45774825 ATTCCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.33
Consensus pattern (12 bp):
AAGTATGTCTGG
Found at i:45779240 original size:3 final size:3
Alignment explanation
Indices: 45779232--45779279 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
45779222 TTGACATTTT
45779232 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45779280 TATTTTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45779584 original size:3 final size:3
Alignment explanation
Indices: 45779576--45779620 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
45779566 AGAAAAGGGA
45779576 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45779621 TGTTATGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45781073 original size:27 final size:27
Alignment explanation
Indices: 45781043--45781129 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
45781033 GTGACAAAGT
45781043 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
45781070 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
45781097 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
45781124 CACCAG
1 CACCAG
45781130 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 7 0.13
27 45 0.83
28 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:45782753 original size:26 final size:26
Alignment explanation
Indices: 45782715--45782902 Score: 367
Period size: 26 Copynumber: 7.2 Consensus size: 26
45782705 CATGAAATTC
*
45782715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782741 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782767 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782793 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782819 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782845 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782871 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
45782897 TTATCA
1 TTATCA
45782903 ATTTGTATCA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 161 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:45783664 original size:17 final size:17
Alignment explanation
Indices: 45783644--45783679 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45783634 TGCGAACTCT
45783644 ATCTCTTTGCGCTTTAG
1 ATCTCTTTGCGCTTTAG
45783661 ATCTCTTTGCGCTTTAG
1 ATCTCTTTGCGCTTTAG
45783678 AT
1 AT
45783680 TCGCATACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (17 bp):
ATCTCTTTGCGCTTTAG
Found at i:45784636 original size:50 final size:50
Alignment explanation
Indices: 45784573--45784672 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
45784563 CTCATTCTCA
*
45784573 CCCTTCTCAACTTGCTGAAAACGAAGGACCAACGAGTTATCCTCCAACTG
1 CCCTTCTCAACTTGCTGAAAACGAAGAACCAACGAGTTATCCTCCAACTG
* *
45784623 CCCTTCTCAACTTGCTGAAACCGAAGAACCAACGAGTTATCCTTCAACTG
1 CCCTTCTCAACTTGCTGAAAACGAAGAACCAACGAGTTATCCTCCAACTG
45784673 TTTTTCTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (50 bp):
CCCTTCTCAACTTGCTGAAAACGAAGAACCAACGAGTTATCCTCCAACTG
Found at i:45789970 original size:26 final size:26
Alignment explanation
Indices: 45789932--45789989 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
45789922 CATGAAATTC
45789932 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
45789958 TTATCGTGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
45789984 TTATCA
1 TTATCA
45789990 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:45795700 original size:14 final size:14
Alignment explanation
Indices: 45795683--45795714 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
45795673 AATTTACAAT
45795683 ATTTTAAAATCCTA
1 ATTTTAAAATCCTA
45795697 ATTTTAAAATCCTA
1 ATTTTAAAATCCTA
45795711 ATTT
1 ATTT
45795715 CCATACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTAAAATCCTA
Found at i:45801553 original size:3 final size:3
Alignment explanation
Indices: 45801545--45801570 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45801535 AGAATGGAGT
45801545 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
45801571 TCCCAACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45801872 original size:18 final size:18
Alignment explanation
Indices: 45801835--45801872 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45801825 GAGAATATTA
*
45801835 TTAAATTGTTAATATAAT
1 TTAAATTGTTAACATAAT
45801853 TTAAATT-TTAACATAGAT
1 TTAAATTGTTAACATA-AT
45801871 TT
1 TT
45801873 CAACTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
TTAAATTGTTAACATAAT
Found at i:45801970 original size:20 final size:20
Alignment explanation
Indices: 45801944--45801994 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
45801934 ACATGTATAA
45801944 TAAAATATAAATATAATAGTG
1 TAAAATATAAATATAA-AGTG
* *
45801965 -AAAATATTAATTTAAAGTG
1 TAAAATATAAATATAAAGTG
*
45801984 TAAACTATAAA
1 TAAAATATAAA
45801995 AATAGTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (20 bp):
TAAAATATAAATATAAAGTG
Found at i:45803243 original size:57 final size:58
Alignment explanation
Indices: 45803144--45803270 Score: 150
Period size: 57 Copynumber: 2.2 Consensus size: 58
45803134 TTTTAATAAT
* * * * *
45803144 ATTATTATTAAATATAATTTAATAAAAATGATAAAAAATTAATCATATT-TTAACATG
1 ATTATTATTAAATACAATTTAATAAAAATAATAAAAAATTAATAACATTCTTAACATA
* * *
45803201 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAAATAATA-AAAAATTAATAACATTCTTAACATA
*
45803259 ATTATTAATAAA
1 ATTATTATTAAA
45803271 ACTTGAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 8 0.14
57 34 0.58
58 17 0.29
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAAATAATAAAAAATTAATAACATTCTTAACATA
Found at i:45804869 original size:62 final size:62
Alignment explanation
Indices: 45804772--45804894 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
45804762 TGCGCAATGA
* * *
45804772 ACCATTAATCACAAATCTTCAAAACTTAATTCAAATACAGTAGCATCCTAAGTACCATCACT
1 ACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATCACT
* * * * * *
45804834 ACCATTAAT-ATCAAATCTTCATAGCTCAGTTCAAATGCAATAGCCTCGTAAGAACCATCAC
1 ACCATTAATCA-CAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATCAC
45804895 GCAATGAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 1 0.02
62 50 0.98
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (62 bp):
ACCATTAATCACAAATCTTCAAAACTCAATTCAAATACAATAGCATCCTAAGAACCATCACT
Found at i:45811285 original size:14 final size:14
Alignment explanation
Indices: 45811260--45811305 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
45811250 ATACCACAAG
45811260 TAATTAAAATATAA
1 TAATTAAAATATAA
* *
45811274 TATTTTAAATATAA
1 TAATTAAAATATAA
45811288 GTAATTAAAATATAA
1 -TAATTAAAATATAA
45811303 TAA
1 TAA
45811306 AAAAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TAATTAAAATATAA
Found at i:45811298 original size:15 final size:15
Alignment explanation
Indices: 45811257--45811302 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
45811247 ACAATACCAC
45811257 AAGTAATTAAAATAT
1 AAGTAATTAAAATAT
* *
45811272 AA-TATTTTAAATAT
1 AAGTAATTAAAATAT
45811286 AAGTAATTAAAATAT
1 AAGTAATTAAAATAT
45811301 AA
1 AA
45811303 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AAGTAATTAAAATAT
Found at i:45811467 original size:18 final size:18
Alignment explanation
Indices: 45811439--45811497 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
45811429 TCCTCACCTC
* *
45811439 CATGCCCATGTCCATGA-
1 CATGACCATGTCCATCAT
45811456 CTATGACCATGTCCATCAT
1 C-ATGACCATGTCCATCAT
*
45811475 CATGACCATGAT-CATGAT
1 CATGACCATG-TCCATCAT
45811493 CATGA
1 CATGA
45811498 TGATGTGCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.03
18 33 0.92
19 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (18 bp):
CATGACCATGTCCATCAT
Found at i:45811496 original size:12 final size:12
Alignment explanation
Indices: 45811451--45811498 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
45811441 TGCCCATGTC
* *
45811451 CATGACTATGAC
1 CATGACCATGAT
* *
45811463 CATGTCCATCAT
1 CATGACCATGAT
45811475 CATGACCATGAT
1 CATGACCATGAT
*
45811487 CATGATCATGAT
1 CATGACCATGAT
45811499 GATGTGCACG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (12 bp):
CATGACCATGAT
Found at i:45813405 original size:36 final size:34
Alignment explanation
Indices: 45813360--45813428 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
45813350 AACATATAAC
45813360 ATTATATATTTAA-TACTTAAAATATAGTTTACAAATA
1 ATTATATA-TTAATTACTTAAAA-ATA-TTTA-AAATA
45813397 ATTA-ATATTAATTACTTAAAAATATTTAAAAT
1 ATTATATATTAATTACTTAAAAATATTTAAAAT
45813429 GCATATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
33 4 0.13
34 4 0.13
35 7 0.23
36 12 0.39
37 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (34 bp):
ATTATATATTAATTACTTAAAAATATTTAAAATA
Found at i:45815840 original size:19 final size:19
Alignment explanation
Indices: 45815816--45815853 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45815806 CTTGTAACAC
45815816 CCCCTAATCTTTATCCGTT
1 CCCCTAATCTTTATCCGTT
45815835 CCCCTAATCTTTATCCGTT
1 CCCCTAATCTTTATCCGTT
45815854 GCCGGAATAG
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:0.16, C:0.37, G:0.05, T:0.42
Consensus pattern (19 bp):
CCCCTAATCTTTATCCGTT
Found at i:45817028 original size:24 final size:23
Alignment explanation
Indices: 45816988--45817032 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
45816978 TCACATAAAC
45816988 TCATAATTCAACTCAATTCAATTT
1 TCATAATTCAACTCAA-TCAATTT
*
45817012 TCATATTTCAA-TACAATCAAT
1 TCATAATTCAACT-CAATCAAT
45817033 ATCCAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (23 bp):
TCATAATTCAACTCAATCAATTT
Found at i:45817802 original size:13 final size:14
Alignment explanation
Indices: 45817784--45817815 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
45817774 CTTTTATTGT
45817784 TTTATTTCTTTTA-
1 TTTATTTCTTTTAC
45817797 TTTATTTCTTTTAC
1 TTTATTTCTTTTAC
45817811 TTTAT
1 TTTAT
45817816 GTTTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTCTTTTAC
Found at i:45817960 original size:5 final size:5
Alignment explanation
Indices: 45817952--45818001 Score: 91
Period size: 5 Copynumber: 10.0 Consensus size: 5
45817942 TTTATTTATT
*
45817952 TAATA TAATA TAATA TAATA TAGTA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
45818002 ATATTTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:45819039 original size:23 final size:23
Alignment explanation
Indices: 45819009--45819053 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
45818999 CTTGAAATGA
45819009 AATTTCTATAAATTTAGATTTTT
1 AATTTCTATAAATTTAGATTTTT
45819032 AATTTCTATAAATTTAGATTTT
1 AATTTCTATAAATTTAGATTTT
45819054 AGAGGGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
AATTTCTATAAATTTAGATTTTT
Found at i:45823897 original size:48 final size:48
Alignment explanation
Indices: 45823745--45823898 Score: 155
Period size: 48 Copynumber: 3.2 Consensus size: 48
45823735 GTATGGTAGG
* * * * * *
45823745 ATGCCAATGCCATTTCCCGAATATGGTCTAACGTGGGATCAAATATTA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATCA
* * * ** **
45823793 CTACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTCA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATCA
* * *
45823841 ATGTCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATCA
*
45823889 TTGCCAATGC
1 ATGCCAATGC
45823899 TGTAACGCCC
Statistics
Matches: 82, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCAAATATCA
Found at i:45825119 original size:36 final size:36
Alignment explanation
Indices: 45825072--45825144 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
45825062 TATTTGTGTG
45825072 AATAATGGTTAATAGGATTCAGTTAGAATGCAAGTA
1 AATAATGGTTAATAGGATTCAGTTAGAATGCAAGTA
* * *
45825108 AATAATGGTTAATAGGATTCGGTTGGAATGCAGGTA
1 AATAATGGTTAATAGGATTCAGTTAGAATGCAAGTA
45825144 A
1 A
45825145 TCACTAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.30
Consensus pattern (36 bp):
AATAATGGTTAATAGGATTCAGTTAGAATGCAAGTA
Found at i:45833251 original size:57 final size:57
Alignment explanation
Indices: 45833180--45833293 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
45833170 GATTGATAAC
* *
45833180 AGGAATGAGCAGTATAAACTCCTCAAACCACCATGATCATTCAACGGAGAGGTAAGT
1 AGGAATGAGCAGTATAAACTCCTCAAACCACCATGACCATCCAACGGAGAGGTAAGT
*
45833237 AGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATCCAACGGAGAGGTAAGT
1 AGGAATGAGCAGTATAAACTCCTCAAACCACCATGACCATCCAACGGAGAGGTAAGT
45833294 CGAGCTTAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (57 bp):
AGGAATGAGCAGTATAAACTCCTCAAACCACCATGACCATCCAACGGAGAGGTAAGT
Found at i:45844594 original size:5 final size:5
Alignment explanation
Indices: 45844584--45844608 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45844574 GATACCAACC
45844584 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
45844609 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:45846444 original size:12 final size:13
Alignment explanation
Indices: 45846427--45846458 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45846417 GCAAATGTTA
45846427 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
45846439 AGTTTTGATGCAT
1 AGTTTTGATGCAT
45846452 -GTTTTGA
1 AGTTTTGA
45846459 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:45853573 original size:12 final size:13
Alignment explanation
Indices: 45853556--45853587 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45853546 GCAAATGTTA
45853556 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
45853568 AGTTTTGATGCAT
1 AGTTTTGATGCAT
45853581 -GTTTTGA
1 AGTTTTGA
45853588 ATTGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:45872520 original size:21 final size:21
Alignment explanation
Indices: 45872483--45872522 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45872473 AATCATTAAA
*
45872483 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
45872504 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
45872523 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:45875932 original size:47 final size:48
Alignment explanation
Indices: 45875829--45875956 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 48
45875819 GTCTCGAGGT
45875829 TGATGCATGTCCTAGACATGTCTTACACTAG-TACTCATCTCAATGTCGA
1 TGATGCATGTCCTAGACATGTCTTACACTAGCT-CTCA-CTCAATGTCGA
* * *
45875878 TG--CCATGTCCTAGACATGGTCTTACACTGGCTCTCA-T-AATGTGGA
1 TGATGCATGTCCTAGACAT-GTCTTACACTAGCTCTCACTCAATGTCGA
*
45875923 TGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 TGATGCATGTCCTAGACATGTCTTACACTAGCTC
45875957 ACACAAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 9 0.13
46 15 0.22
47 27 0.39
48 15 0.22
49 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
TGATGCATGTCCTAGACATGTCTTACACTAGCTCTCACTCAATGTCGA
Found at i:45876331 original size:30 final size:30
Alignment explanation
Indices: 45876295--45876351 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
45876285 AATTCACATT
* *
45876295 TTTGGTAAAATGACCGTTTTGCCCCTAGAC
1 TTTGGTAAAATGACCATTTTACCCCTAGAC
45876325 TTTGGTAAAATGACCATTTTACCCCTA
1 TTTGGTAAAATGACCATTTTACCCCTA
45876352 TTCCCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (30 bp):
TTTGGTAAAATGACCATTTTACCCCTAGAC
Found at i:45885760 original size:5 final size:5
Alignment explanation
Indices: 45885747--45885778 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
45885737 TTCTTTAGTT
45885747 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
45885779 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:45894004 original size:17 final size:17
Alignment explanation
Indices: 45893982--45894016 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45893972 GGGATCTTAA
45893982 GGTTCAAACTTCAATCG
1 GGTTCAAACTTCAATCG
45893999 GGTTCAAACTTCAATCG
1 GGTTCAAACTTCAATCG
45894016 G
1 G
45894017 TTAGTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (17 bp):
GGTTCAAACTTCAATCG
Found at i:45921320 original size:12 final size:12
Alignment explanation
Indices: 45921303--45921327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45921293 GCCGACTACT
45921303 GTTACTGTTACC
1 GTTACTGTTACC
45921315 GTTACTGTTACC
1 GTTACTGTTACC
45921327 G
1 G
45921328 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:45921356 original size:45 final size:45
Alignment explanation
Indices: 45921305--45921413 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
45921295 CGACTACTGT
* *** *
45921305 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAAAACTGTGTGTGTCGAA
* * *
45921350 TACTGTTACTGTTACAGTTATCGATTCAAAACTGTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAAAACTGTGTGTGTCGAA
*
45921395 TACTGTTACTATTACTGTT
1 TACTGTTACTGTTACTGTT
45921414 TCGGATTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAAAACTGTGTGTGTCGAA
Found at i:45921600 original size:18 final size:18
Alignment explanation
Indices: 45921577--45921854 Score: 152
Period size: 18 Copynumber: 15.1 Consensus size: 18
45921567 AAAGGTATAA
*
45921577 AATAATTGATTATTACTG
1 AATAATTGATTGTTACTG
* * *
45921595 AATAATTGACTATTACCG
1 AATAATTGATTGTTACTG
* * *
45921613 GAT-ATTAGACTGTTATTG
1 AATAATT-GATTGTTACTG
* * *
45921631 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
45921649 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* **
45921667 AATAACTGATTGTCGCTG
1 AATAATTGATTGTTACTG
*
45921685 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
45921703 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
45921722 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
45921739 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* * *
45921758 ATAACCGATCAATTGATCGATACTA
1 ---A---AT-AATTGATTGTTACTG
* * * *
45921783 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
45921801 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* *
45921819 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
45921837 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
45921854 A
1 A
45921855 GTGTTAATGA
Statistics
Matches: 198, Mismatches: 46, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
17 23 0.12
18 140 0.71
19 20 0.10
22 2 0.01
25 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:45924056 original size:9 final size:9
Alignment explanation
Indices: 45924031--45924065 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
45924021 TTAGTTTGGT
*
45924031 AAATATATA
1 AAATAAATA
45924040 ATAATAAATA
1 A-AATAAATA
45924050 AAATAAATA
1 AAATAAATA
45924059 AAATAAA
1 AAATAAA
45924066 AAGCCTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATAAATA
Found at i:45930542 original size:13 final size:13
Alignment explanation
Indices: 45930524--45930548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45930514 TGTAGGTGCA
45930524 CACGGCCGTGTCG
1 CACGGCCGTGTCG
45930537 CACGGCCGTGTC
1 CACGGCCGTGTC
45930549 TAACTTCATT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:45931986 original size:17 final size:17
Alignment explanation
Indices: 45931961--45931994 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45931951 CCAATACTAA
45931961 ATAAACGAGTATTGCCT
1 ATAAACGAGTATTGCCT
*
45931978 ATAACCGAGTATTGCCT
1 ATAAACGAGTATTGCCT
45931995 CTAGATGGAA
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:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (17 bp):
ATAAACGAGTATTGCCT
Found at i:45938588 original size:66 final size:66
Alignment explanation
Indices: 45938501--45938669 Score: 259
Period size: 66 Copynumber: 2.6 Consensus size: 66
45938491 GTCAGTAGCC
* * * *
45938501 TCACATGGCCTAGCACTCGGGCGTGTGGCTTGGTTGTGTGTCACAAGTCAGTATAG-TCATCATT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCTGTGTGTCACAAGTCAGTAT-GCTCACCATT
45938565 TT
65 TT
* *
45938567 TCACACGTCCTAGTACACGGGCGTGTGGCTTGGCTGTGTGTCACAAGTCAGTATGCTCACCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCTGTGTGTCACAAGTCAGTATGCTCACCATTT
45938632 T
66 T
*
45938633 TCACACGGCCTAGCACATGGGCGTGTGGCTTGGCTGT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCTGT
45938670 ATGGATTGGT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
65 1 0.01
66 92 0.99
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.30
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCTGTGTGTCACAAGTCAGTATGCTCACCATTT
T
Found at i:45941459 original size:23 final size:21
Alignment explanation
Indices: 45941433--45941477 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
45941423 ACCAGAGAGA
45941433 CCCTTCAGTGGTATCGCGACATC
1 CCCTT-AG-GGTATCGCGACATC
* *
45941456 CCCTTTGGGTATCGCGATATC
1 CCCTTAGGGTATCGCGACATC
45941477 C
1 C
45941478 ACATGTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 1 0.05
23 5 0.25
ACGTcount: A:0.16, C:0.33, G:0.22, T:0.29
Consensus pattern (21 bp):
CCCTTAGGGTATCGCGACATC
Found at i:45943020 original size:95 final size:93
Alignment explanation
Indices: 45942859--45943039 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 93
45942849 GACGTTTGAG
** * *
45942859 TGATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTA
1 TGATATGTGTGCTAGTGTAAGACAAATCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTA
45942924 AGACCATGTCTGGGACATGGCTTCGGCT
66 AGACCATGTCTGGGACATGGCTTCGGCT
45942952 TGATATGTGT-C-AGTGTAAGACCAAATCTGGGACATGGCATCAGTACCA-ATAGATGAGAGCCA
1 TGATATGTGTGCTAGTGTAAGA-CAAATCTGGGACAT-GCATC-G-ACCACAT-GATGAGAGCCA
45943014 GTGTAAGACCATGTCTGGGACATGGC
61 GTGTAAGACCATGTCTGGGACATGGC
45943040 ATTGGTCTCG
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
91 9 0.11
92 13 0.16
93 15 0.19
94 3 0.04
95 39 0.49
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
TGATATGTGTGCTAGTGTAAGACAAATCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTA
AGACCATGTCTGGGACATGGCTTCGGCT
Found at i:45943024 original size:50 final size:50
Alignment explanation
Indices: 45942872--45943089 Score: 174
Period size: 50 Copynumber: 4.5 Consensus size: 50
45942862 TATGTGTGCT
* * *
45942872 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGC-CACAT-TATGAGAGCC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCAGTCTCA-ATAGATGAGAGCC
* * * * *
45942918 AGTGTAAGACCATGTCTGGGACATGGCTTC-GGCT---T-GAT-ATGTGTC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCAGTCTCAATAGATGA-GAGCC
*
45942963 AGTGTAAGACCAAATCTGGGACATGGCATCAGTAC-CAATAGATGAGAGCC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCAGT-CTCAATAGATGAGAGCC
* ** * * *
45943013 AGTGTAAGACCATGTCTGGGACATGGCATTGGTCTCGATATATGAGAGTC
1 AGTGTAAGACCAAGTCTGGGACATGGCATCAGTCTCAATAGATGAGAGCC
45943063 AGTGTAAGA-CAATGTCTGGGACATGGC
1 AGTGTAAGACCAA-GTCTGGGACATGGC
45943090 GTCGGCATCT
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 33 0.23
46 10 0.07
47 15 0.11
48 7 0.05
49 4 0.03
50 70 0.50
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCAAGTCTGGGACATGGCATCAGTCTCAATAGATGAGAGCC
Found at i:45948945 original size:15 final size:15
Alignment explanation
Indices: 45948925--45948981 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
45948915 CGATGAATTT
45948925 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
45948940 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
45948955 ATTGAATTTATATTG
1 ATTGAATTTATATTG
45948970 ATTGAA-TTATAT
1 ATTGAATTTATAT
45948982 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:45949383 original size:23 final size:23
Alignment explanation
Indices: 45949353--45949439 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
45949343 GCTTTACTGA
*
45949353 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
**
45949376 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
*
45949397 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
45949419 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
45949440 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:45959492 original size:13 final size:13
Alignment explanation
Indices: 45959474--45959501 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45959464 TATATATATA
45959474 AAAGAAACAAAAG
1 AAAGAAACAAAAG
45959487 AAAGAAACAAAAG
1 AAAGAAACAAAAG
45959500 AA
1 AA
45959502 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:45960497 original size:15 final size:15
Alignment explanation
Indices: 45960479--45960535 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
45960469 TATCTGTTTT
45960479 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
45960494 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
45960509 ATTGAATTTATATTG
1 ATTGAATTTATATTG
45960524 ATTGAA-TTATAT
1 ATTGAATTTATAT
45960536 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:45960514 original size:30 final size:28
Alignment explanation
Indices: 45960475--45960533 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
45960465 TGTATATCTG
45960475 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
45960504 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
45960533 T
1 T
45960534 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:45960945 original size:23 final size:23
Alignment explanation
Indices: 45960919--45960993 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
45960909 AGGCACTTTA
45960919 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
45960942 TGTGTCGTA--TCAGGCACCCCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
45960963 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
45960984 TGTGTCGTAT
1 TGTGTCGTAT
45960994 ACTGATCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 33 0.75
22 2 0.05
23 9 0.20
ACGTcount: A:0.13, C:0.23, G:0.27, T:0.37
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:45961181 original size:26 final size:25
Alignment explanation
Indices: 45961147--45961196 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
45961137 ACTATTGGAA
45961147 TGAAATGAGAAATTGA-ATTGAAAAT
1 TGAAATGAGAAA-TGAGATTGAAAAT
*
45961172 TGAAATTGAGATATGAGATTGAAAA
1 TGAAA-TGAGAAATGAGATTGAAAA
45961197 CATGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (25 bp):
TGAAATGAGAAATGAGATTGAAAAT
Found at i:45970784 original size:26 final size:26
Alignment explanation
Indices: 45970755--45970806 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45970745 TTAAATAGAT
45970755 GTTGTTCATAAAACTCTATTAACAAA
1 GTTGTTCATAAAACTCTATTAACAAA
45970781 GTTGTTCATAAAACTCTATTAACAAA
1 GTTGTTCATAAAACTCTATTAACAAA
45970807 ATAAATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (26 bp):
GTTGTTCATAAAACTCTATTAACAAA
Found at i:45974340 original size:13 final size:13
Alignment explanation
Indices: 45974322--45974349 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45974312 AATTATCATC
45974322 CAAATTTTAAATT
1 CAAATTTTAAATT
45974335 CAAATTTTAAATT
1 CAAATTTTAAATT
45974348 CA
1 CA
45974350 TCCTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (13 bp):
CAAATTTTAAATT
Found at i:45974479 original size:6 final size:6
Alignment explanation
Indices: 45974468--45974506 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
45974458 TGACATAGAG
45974468 TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGT
1 TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGT
45974507 ATATATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (6 bp):
TGTGTA
Found at i:45980533 original size:6 final size:6
Alignment explanation
Indices: 45980526--45980571 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
45980516 ACTTGTTCAC
*
45980526 CCTCAC CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTC
1 CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTCAA CCTC
45980572 TTTCCTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.28, C:0.54, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCAA
Found at i:45982747 original size:95 final size:95
Alignment explanation
Indices: 45982577--45982755 Score: 261
Period size: 95 Copynumber: 1.9 Consensus size: 95
45982567 CATGGCGTTA
* * * * *
45982577 TTTATAGTAGTGGAATTCATAGCCCAGTAAAAGATAAATGATATCCTCTCATGGGTATTACATGG
1 TTTATAGTAGTGAAATTCATAACCCAGTAAAAGATAAATGATATCCTCTCATGAGCACTACATGG
*
45982642 TTGTTAGAAAAGTAACATGACATGACTTCC
66 TTGATAGAAAAGTAACATGACATGACTTCC
* *
45982672 TTTATAGTAGTGAAATTCATAACTC-GATAAAAGGTAAATGATATCCTCTCATGAGCACTACATG
1 TTTATAGTAGTGAAATTCATAACCCAG-TAAAAGATAAATGATATCCTCTCATGAGCACTACATG
*
45982736 GTTGATGGAAAAGTAACATG
65 GTTGATAGAAAAGTAACATG
45982756 GTCATGGGTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 73 0.99
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (95 bp):
TTTATAGTAGTGAAATTCATAACCCAGTAAAAGATAAATGATATCCTCTCATGAGCACTACATGG
TTGATAGAAAAGTAACATGACATGACTTCC
Found at i:45989185 original size:25 final size:25
Alignment explanation
Indices: 45989125--45989186 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
45989115 CATGTCACAA
* * *
45989125 CTTGTGTGAGCATTTATAGATACGG
1 CTTGTGTGAGCAATTACAGATACAG
* * *
45989150 CTCGTGAGAGCAATTACAGTTACAG
1 CTTGTGTGAGCAATTACAGATACAG
45989175 CTTGTGTGAGCA
1 CTTGTGTGAGCA
45989187 TCTTTCCCGC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (25 bp):
CTTGTGTGAGCAATTACAGATACAG
Found at i:45991072 original size:13 final size:13
Alignment explanation
Indices: 45991054--45991081 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45991044 CAATAATTAC
45991054 ATGAATTGGTTAT
1 ATGAATTGGTTAT
45991067 ATGAATTGGTTAT
1 ATGAATTGGTTAT
45991080 AT
1 AT
45991082 TGAAATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (13 bp):
ATGAATTGGTTAT
Found at i:45997563 original size:19 final size:20
Alignment explanation
Indices: 45997539--45997577 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
45997529 GTCCCATTAT
45997539 TTATTTATTTTT-TGTTTTA
1 TTATTTATTTTTATGTTTTA
45997558 TTATTTATTTTTATGTTTTA
1 TTATTTATTTTTATGTTTTA
45997578 AATGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATGTTTTA
Found at i:45997569 original size:20 final size:19
Alignment explanation
Indices: 45997539--45997577 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
45997529 GTCCCATTAT
*
45997539 TTATTTATTTTTTGTTTTA
1 TTATTTATTTTATGTTTTA
45997558 TTATTTATTTTTATGTTTTA
1 TTATTTA-TTTTATGTTTTA
45997578 AATGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTATTTATTTTATGTTTTA
Found at i:45997596 original size:25 final size:23
Alignment explanation
Indices: 45997540--45997604 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
45997530 TCCCATTATT
*
45997540 TATTTATTTTT-TGTTTT--AT-
1 TATTTATTTTTATATTTTAAATG
*
45997559 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
45997582 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
45997605 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
22 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:46001719 original size:27 final size:27
Alignment explanation
Indices: 46001681--46001734 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
46001671 TCCAACATTG
46001681 GATGATTCTGCAATATCGTGCTTGCAA
1 GATGATTCTGCAATATCGTGCTTGCAA
46001708 GATGATTCTGCAATATCGTGCTTGCAA
1 GATGATTCTGCAATATCGTGCTTGCAA
46001735 CGCATGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
GATGATTCTGCAATATCGTGCTTGCAA
Found at i:46002978 original size:17 final size:17
Alignment explanation
Indices: 46002958--46002992 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46002948 ATTTATTTAA
*
46002958 TCAATTAATTTAATTTC
1 TCAATTAAATTAATTTC
*
46002975 TCAATTAAATTATTTTC
1 TCAATTAAATTAATTTC
46002992 T
1 T
46002993 TAATCCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
TCAATTAAATTAATTTC
Found at i:46006419 original size:60 final size:60
Alignment explanation
Indices: 46006326--46006447 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
46006316 TGATAGTTAT
* **
46006326 ATTGTGGATGAATTGTAAATGAGGTTATAAGTGTAATGTTGGTTTGGTATATATATAAAC
1 ATTGTGGATGAATTGTAAATGAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
*
46006386 ATTGTGGATGGATTGTAAATGAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
1 ATTGTGGATGAATTGTAAATGAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
46006446 AT
1 AT
46006448 GTGTTTGTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (60 bp):
ATTGTGGATGAATTGTAAATGAGGTTATAAGTGTAATGTTAGTTTAATATATATATAAAC
Found at i:46008813 original size:26 final size:27
Alignment explanation
Indices: 46008779--46008843 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
46008769 CATCCATAAC
* *
46008779 AACAGTAATTTTGC-ACCTAGGGGTAT
1 AACAGTAATTTTCCAACATAGGGGTAT
46008805 AACAGTAATTTTCCATACATAGGGGTAT
1 AACAGTAATTTTCCA-ACATAGGGGTAT
* *
46008833 TATAGTAATTT
1 AACAGTAATTT
46008844 AGTTGCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.39
28 20 0.61
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (27 bp):
AACAGTAATTTTCCAACATAGGGGTAT
Found at i:46010282 original size:26 final size:26
Alignment explanation
Indices: 46010174--46010283 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
46010164 CATGAAATTC
*
46010174 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
46010200 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
46010226 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
46010252 TTATCATGGAACATTTACCTACCCCA
1 TTATCATGAAACATTTACCTAACCCA
*
46010278 GTATCA
1 TTATCA
46010284 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:46013671 original size:93 final size:93
Alignment explanation
Indices: 46013559--46013729 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
46013549 GCCCATAAGT
* *
46013559 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46013624 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46013652 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46013717 CGAGTTCGGATGC
66 CGAGTTCGGATGC
46013730 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46013726 original size:46 final size:46
Alignment explanation
Indices: 46013551--46013726 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
46013541 TGTAACCCGC
* * *
46013551 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46013597 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
46013647 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
46013690 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46013727 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46015960 original size:3 final size:3
Alignment explanation
Indices: 46015952--46016091 Score: 95
Period size: 3 Copynumber: 46.7 Consensus size: 3
46015942 TGTCTAACAC
** *
46015952 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CCT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** ** * *
46016000 TTT TAT TTT TAT TGC TAT TGC TAT TAT TA- TAT TGT TAT T-T TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
46016046 TTT CTAT TAC CAA TAT CAT TAT TAT TAC TAT TAT TAT TAT ATAT TA
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
46016092 GTGAATACTT
Statistics
Matches: 101, Mismatches: 32, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
2 4 0.04
3 92 0.91
4 5 0.05
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:46016355 original size:3 final size:3
Alignment explanation
Indices: 46016347--46016373 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46016337 TGGGTTTCAA
46016347 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46016374 ATATGCATAT
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):
TAT
Found at i:46016357 original size:149 final size:148
Alignment explanation
Indices: 46016065--46016373 Score: 360
Period size: 149 Copynumber: 2.1 Consensus size: 148
46016055 CCAATATCAT
* *
46016065 TATTATTACTATTATTATTATATATTAGTGAATACTTTTTATTATATATGTATAGGTATATATAT
1 TATTATTATTATTATTATTATATATTAGTGAATACTTTTTATTATATATGTATAGATATATATAT
* * * **
46016130 TTATATATAGTATTATTTTTTATTTACTTTATTTTAATATTTTTATTATATTATATTTGTTTTTT
66 TTATATATAGCATTATTCTTTAGTTACTTTATTTTAATATTTTTATTATATTATATTTGTGGTTT
** *
46016195 GTATTTTAATATTATTAC
131 CAATATTAATATTATTAC
* * **
46016213 TATTATCATTATTATTATTA-ATATTTGTGTGTA-TTTTTATTATATATGGGTAT-GTATATGTA
1 TATTATTATTATTATTATTATATATTAGTGAATACTTTTTATTATATAT--GTATAG-ATA--TA
*
46016275 TATATTTATATATAGCATTATTCTTT-GTTACTTTATTTTAATATTTTTATTATATT-TGCTTT-
61 TATATTTATATATAGCATTATTCTTTAGTTACTTTATTTTAATATTTTTATTATATTAT-ATTTG
* *
46016337 TGGGTTTCAATATTATTATTATTAT
125 T-GGTTTCAATATTAATATTATTAC
46016362 TATTATTATTAT
1 TATTATTATTAT
46016374 ATATGCATAT
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
146 14 0.10
147 11 0.08
148 26 0.19
149 59 0.43
150 26 0.19
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.60
Consensus pattern (148 bp):
TATTATTATTATTATTATTATATATTAGTGAATACTTTTTATTATATATGTATAGATATATATAT
TTATATATAGCATTATTCTTTAGTTACTTTATTTTAATATTTTTATTATATTATATTTGTGGTTT
CAATATTAATATTATTAC
Found at i:46016635 original size:21 final size:21
Alignment explanation
Indices: 46016600--46016649 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
46016590 ATTATTATTA
* *
46016600 CTATTATTCTTTATTGTCATGG
1 CTATTA-TGTTTATTGTCATAG
* *
46016622 TTATTATGTTTATTTTCATAG
1 CTATTATGTTTATTGTCATAG
46016643 CTATTAT
1 CTATTAT
46016650 TTTTTATCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.58
Consensus pattern (21 bp):
CTATTATGTTTATTGTCATAG
Found at i:46016697 original size:15 final size:15
Alignment explanation
Indices: 46016679--46016719 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
46016669 TATTGTTATA
46016679 TTTATTATTATTACT
1 TTTATTATTATTACT
*
46016694 TTTATTATAATTACT
1 TTTATTATTATTACT
*
46016709 ATTATTATTAT
1 TTTATTATTAT
46016720 AGCTTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATTATTACT
Found at i:46016701 original size:24 final size:24
Alignment explanation
Indices: 46016658--46016715 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
46016648 ATTTTTTATC
* * *
46016658 ACTAATATTACTATTGTTATATTT
1 ACTATTATTACTATTATTATAATT
* *
46016682 ATTATTATTACTTTTATTATAATT
1 ACTATTATTACTATTATTATAATT
46016706 ACTATTATTA
1 ACTATTATTA
46016716 TTATAGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (24 bp):
ACTATTATTACTATTATTATAATT
Found at i:46019321 original size:21 final size:20
Alignment explanation
Indices: 46019255--46019322 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
46019245 ATAAAATTTA
* *
46019255 ATTAGAATATATAAATTATTT
1 ATTA-AATATTTAAATTATAT
* *
46019276 TTTAAATATTTAAA-TATAACC
1 ATTAAATATTTAAATTAT-A-T
46019297 ATTAAATATTTATAATTATAT
1 ATTAAATATTTA-AATTATAT
46019318 ATTAA
1 ATTAA
46019323 CACATTTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 19 0.51
22 3 0.08
23 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTAAATTATAT
Found at i:46022753 original size:18 final size:17
Alignment explanation
Indices: 46022730--46022769 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
46022720 ATTGAAAAAA
* *
46022730 AAAAAATTTTATTTTGTT
1 AAAAAACTTTAATTT-TT
46022748 AAAAAACTTTAATTTTT
1 AAAAAACTTTAATTTTT
46022765 AAAAA
1 AAAAA
46022770 TTCAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
AAAAAACTTTAATTTTT
Found at i:46022950 original size:22 final size:22
Alignment explanation
Indices: 46022911--46022964 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
46022901 AAAAAAATAC
*
46022911 ATTTTTATATA-ATATTTTGAT
1 ATTTTTATTTATATATTTTGAT
*
46022932 -TTTTTAATTTATATATTTTTAT
1 ATTTTT-ATTTATATATTTTGAT
46022954 ATTTTTATTTA
1 ATTTTTATTTA
46022965 AATTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.18
21 4 0.14
22 14 0.50
23 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTATTTATATATTTTGAT
Found at i:46022976 original size:22 final size:22
Alignment explanation
Indices: 46022911--46022976 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 22
46022901 AAAAAAATAC
* *
46022911 ATTTTTATATAATATTTTGAT-T
1 ATTTTTATTTAA-ATTTTTATAT
* *
46022933 -TTTTAATTTATATATTTT-TAT
1 ATTTTTATTTAAAT-TTTTATAT
46022954 ATTTTTATTTAAATTTTTATAT
1 ATTTTTATTTAAATTTTTATAT
46022976 A
1 A
46022977 ATATTTTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
20 3 0.09
21 16 0.47
22 15 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTATTTAAATTTTTATAT
Found at i:46022992 original size:12 final size:12
Alignment explanation
Indices: 46022932--46022992 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
46022922 ATATTTTGAT
46022932 TTTTTAATTTATA
1 TTTTT-ATTTATA
*
46022945 -TATT-TTTATA
1 TTTTTATTTATA
*
46022955 TTTTTATTTAAA
1 TTTTTATTTATA
*
46022967 TTTTTATATAATA
1 TTTTTAT-TTATA
*
46022980 TTTTGATTTATA
1 TTTTTATTTATA
46022992 T
1 T
46022993 ACATTTTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 20 0.53
13 9 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:46022992 original size:47 final size:45
Alignment explanation
Indices: 46022933--46023023 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
46022923 TATTTTGATT
*
46022933 TTTTAATTTATATA-TTTTTATATTTTTATTTAAATTTTTATATAATA
1 TTTTAATTTATATACATTTT-TA-TTTT-TTTAAATTTTTATATAATA
* * *
46022980 TTTTGATTTATATACATTTTTATTTTTTTCAGTTTTTATATAAT
1 TTTTAATTTATATACATTTTTATTTTTTTAAATTTTTATATAAT
46023024 TTGAAAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 16 0.41
46 4 0.10
47 15 0.38
48 4 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (45 bp):
TTTTAATTTATATACATTTTTATTTTTTTAAATTTTTATATAATA
Done.