Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 286 of 325
Found at i:93478722 original size:21 final size:21
Alignment explanation
Indices: 93478698--93478749 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
93478688 ACGGTGGCGA
*
93478698 TGAGATTAGTTACTGTAGCGG
1 TGAGATTAGATACTGTAGCGG
* * *
93478719 TGAGATTGGATATTGTAGTGG
1 TGAGATTAGATACTGTAGCGG
93478740 TGAGATTAGA
1 TGAGATTAGA
93478750 AACAAAGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.35, T:0.35
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGG
Found at i:93485006 original size:45 final size:46
Alignment explanation
Indices: 93484957--93485050 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
93484947 TAATTTAAAA
93484957 TTTCAAGTTTGT-ATTAATTTAATTATAACAAATGTTTGACTTAAT
1 TTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTTAAT
* *
93485002 TTTCAAGTTTGTAATTAATTTAGTTATAGCAAATGTTTGACTTAAT
1 TTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTTAAT
93485048 TTT
1 TTT
93485051 ATTTGAAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 12 0.26
46 34 0.74
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (46 bp):
TTTCAAGTTTGTAATTAATTTAATTATAACAAATGTTTGACTTAAT
Found at i:93489362 original size:20 final size:20
Alignment explanation
Indices: 93489334--93489378 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
93489324 CTGTTTAATT
93489334 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
93489353 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
93489373 ATGGGC
1 ATGGGC
93489379 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:93489501 original size:28 final size:27
Alignment explanation
Indices: 93489407--93489513 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
93489397 ACTTGTAATA
* * *
93489407 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
*
93489435 GGGCTAGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAGGCCCAG-A---T-TAATATTGAT-AT
93489467 AGGGCTATGGCCCAGATTAATATTGATAT
1 -GGGCTA-GGCCCAGATTAATATTGATAT
93489496 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
93489514 CACTGATTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 21
0.73 0.03 0.23
Matches are distributed among these distances:
27 11 0.17
28 19 0.29
29 10 0.15
30 2 0.03
31 1 0.02
32 9 0.14
33 7 0.11
34 7 0.11
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:93489534 original size:62 final size:61
Alignment explanation
Indices: 93489399--93489543 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
93489389 ATATCTCGAC
* * * *
93489399 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
93489460 TTGTAATAGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
93489521 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
93489544 TAAGGCTTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 42 0.58
62 31 0.42
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:93490930 original size:21 final size:20
Alignment explanation
Indices: 93490902--93490940 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93490892 TTCTTATATC
93490902 ATTAATAAACTT-AATATTCT
1 ATTAATAAA-TTAAATATTCT
93490922 ATTAGATAAATTAAATATT
1 ATTA-ATAAATTAAATATT
93490941 GGTCATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTAATAAATTAAATATTCT
Found at i:93499852 original size:23 final size:24
Alignment explanation
Indices: 93499824--93499874 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
93499814 ATTAATTGGA
* *
93499824 TAAATTCTGAATAT-TAAAAGTAT
1 TAAATTCTAAATATCTAAAAATAT
*
93499847 TAAATTTTAAATATCTAAAAATAT
1 TAAATTCTAAATATCTAAAAATAT
93499871 TAAA
1 TAAA
93499875 GATGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
TAAATTCTAAATATCTAAAAATAT
Found at i:93507220 original size:20 final size:18
Alignment explanation
Indices: 93507195--93507241 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
93507185 TTATTTTTTA
93507195 TATATATTTAATTTAAAAAT
1 TATATATTT-A-TTAAAAAT
*
93507215 TATATATATTATTATAAAT
1 TATATAT-TTATTAAAAAT
93507234 T-TATATTT
1 TATATATTT
93507242 TAATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 5 0.20
19 8 0.32
20 8 0.32
21 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATTTATTAAAAAT
Found at i:93507238 original size:18 final size:17
Alignment explanation
Indices: 93507210--93507252 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
93507200 ATTTAATTTA
*
93507210 AAAATTATATATATTATT
1 AAAATT-TATATATTAAT
*
93507228 ATAAATTTATATTTTAAT
1 A-AAATTTATATATTAAT
93507246 AAAATTT
1 AAAATTT
93507253 GAAACCGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTTATATATTAAT
Found at i:93508981 original size:2 final size:2
Alignment explanation
Indices: 93508974--93509001 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93508964 GTCGGCACAA
93508974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93509002 TAGACACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93512000 original size:19 final size:19
Alignment explanation
Indices: 93511976--93512012 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
93511966 CGTTCATGTG
*
93511976 TTTTAACAATACTAGTGGT
1 TTTTAACAATACAAGTGGT
93511995 TTTTAACAATACAAGTGG
1 TTTTAACAATACAAGTGG
93512013 AAACATGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTTAACAATACAAGTGGT
Found at i:93521868 original size:108 final size:108
Alignment explanation
Indices: 93521679--93521904 Score: 425
Period size: 108 Copynumber: 2.1 Consensus size: 108
93521669 ACTTAGCGTG
*
93521679 TTAACAGTTACCTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
1 TTAACATTTACCTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
*
93521744 TGTGTGTTTCTCTCATTACTTTACTCCTTATTCTACTTTGAAT
66 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
*
93521787 TTAACATTTACGTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
1 TTAACATTTACCTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
93521852 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
66 TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
93521895 TTAACATTTA
1 TTAACATTTA
93521905 TGTTTGTTCC
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 115 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (108 bp):
TTAACATTTACCTGTTTAAGGGTGTTTGAATAGAACCATTGTGTTTGAATTGCGTTAACAGACAT
TGTGTGTTTCTCTCATTACTTTACTCCTTACTCTACTTTGAAT
Found at i:93526765 original size:69 final size:69
Alignment explanation
Indices: 93526650--93526788 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
93526640 TACACAATTA
*
93526650 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAGTAGCTCTAATTTTATGGGTGAAT
1 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
93526715 TTTT
66 TTTT
93526719 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
1 TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
93526784 TTTT
66 TTTT
93526788 T
1 T
93526789 TCCGGTTTAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.45
Consensus pattern (69 bp):
TCATATGTGGGTGTCTAATTTCATAATGTATGATACTGTCAATAGCTCTAATTTTATGGGTGAAT
TTTT
Found at i:93527394 original size:17 final size:16
Alignment explanation
Indices: 93527373--93527434 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
93527363 TTTAAAATAA
93527373 AAAAAATATTTTTGAG
1 AAAAAATATTTTTGAG
*
93527389 ATAAAAATATTCTT-AG
1 A-AAAAATATTTTTGAG
* ** *
93527405 ACAAAATGCTTTTGAAA
1 AAAAAATATTTTTG-AG
93527422 AAAAAATATTTTT
1 AAAAAATATTTTT
93527435 CAAACACCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 22 0.65
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (16 bp):
AAAAAATATTTTTGAG
Found at i:93528021 original size:16 final size:16
Alignment explanation
Indices: 93527987--93528029 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
93527977 AGCAGTATAG
*
93527987 ATATATAAAATCAATA
1 ATATATAAAATCAAAA
93528003 ATATATAAAAT-ATAAA
1 ATATATAAAATCA-AAA
93528019 ATATAGTAAAA
1 ATATA-TAAAA
93528030 AGATACGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 18 0.75
17 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
ATATATAAAATCAAAA
Found at i:93529406 original size:6 final size:6
Alignment explanation
Indices: 93529395--93529420 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93529385 ATTTCCCTCA
93529395 TCTTCC TCTTCC TCTTCC TCTTCC TC
1 TCTTCC TCTTCC TCTTCC TCTTCC TC
93529421 CATTTTGTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:93536016 original size:12 final size:12
Alignment explanation
Indices: 93536001--93536041 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
93535991 AGGAGAAGAG
93536001 AAGAAAAGAAAA
1 AAGAAAAGAAAA
* *
93536013 AAGAGAAGGAAA
1 AAGAAAAGAAAA
93536025 AAGAAAAGAAAA
1 AAGAAAAGAAAA
*
93536037 GAGAA
1 AAGAA
93536042 GGTATAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAGAAAA
Found at i:93536018 original size:17 final size:19
Alignment explanation
Indices: 93535996--93536031 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
93535986 AAGAAAGGAG
93535996 AAGAGAA-G-AAAAGAAAA
1 AAGAGAAGGAAAAAGAAAA
93536013 AAGAGAAGGAAAAAGAAAA
1 AAGAGAAGGAAAAAGAAAA
93536032 GAAAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGGAAAAAGAAAA
Found at i:93536037 original size:22 final size:21
Alignment explanation
Indices: 93535985--93536043 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
93535975 AAATAAAGGG
* *
93535985 AAAGAAAGGAGAA-GAGAAGA
1 AAAGAAAAGAGAAGGAAAAGA
93536005 AAAGAAAAAAGAGAAGGAAAAAGA
1 AAAG--AAAAGAGAAGG-AAAAGA
93536029 AAAGAAAAGAGAAGG
1 AAAGAAAAGAGAAGG
93536044 TATAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
22 19 0.58
23 1 0.03
24 9 0.27
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAGAAGGAAAAGA
Found at i:93536412 original size:21 final size:21
Alignment explanation
Indices: 93536388--93536428 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
93536378 AAAAAATAAA
93536388 ATACCAAAATAGGTTGTTTGG
1 ATACCAAAATAGGTTGTTTGG
93536409 ATACCAAAATAGGTTGTTTG
1 ATACCAAAATAGGTTGTTTG
93536429 AAAGATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (21 bp):
ATACCAAAATAGGTTGTTTGG
Found at i:93539232 original size:138 final size:139
Alignment explanation
Indices: 93539067--93539401 Score: 575
Period size: 139 Copynumber: 2.4 Consensus size: 139
93539057 TATTTCTAAA
* * * *
93539067 ATTTTTAAAATTTTCAGATTCTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATCTT
1 ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATCTT
*
93539132 A-TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCC
66 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCA
93539196 TTTCTTTGT
131 TTTCTTTGT
*
93539205 ATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATCTT
1 ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATCTT
93539270 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCA
66 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCA
*
93539335 TTTGTTTGT
131 TTTCTTTGT
*
93539344 A-TTCTTAAAATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTT
1 ATTTC-TAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
93539402 ATACTATTTT
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
138 64 0.34
139 122 0.66
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (139 bp):
ATTTCTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATCTT
ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCA
TTTCTTTGT
Found at i:93539398 original size:16 final size:14
Alignment explanation
Indices: 93539379--93539465 Score: 59
Period size: 16 Copynumber: 5.6 Consensus size: 14
93539369 TTTTAAAATA
93539379 TATTATTTTCGTATTT
1 TATT-TTTTC-TATTT
93539395 TATTTTTATACTATTT
1 TATTTTT-T-CTATTT
* * *
93539411 TCTTATTT-TATTG
1 TATTTTTTCTATTT
93539424 TATTTTTTTCATATTT
1 TA-TTTTTTC-TATTT
93539440 TATTTCTTTTCCTATTT
1 TA-TT-TTTT-CTATTT
93539457 TATTTTTTC
1 TATTTTTTC
93539466 ATGAAGATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
13 5 0.09
14 6 0.10
15 8 0.14
16 26 0.45
17 12 0.21
18 1 0.02
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.71
Consensus pattern (14 bp):
TATTTTTTCTATTT
Found at i:93539439 original size:45 final size:47
Alignment explanation
Indices: 93539361--93539495 Score: 134
Period size: 45 Copynumber: 2.9 Consensus size: 47
93539351 AAATTTTCGG
* * * *
93539361 ATTTTATTTTTT-AAAATATATTATTTTCGTATTTTATTTTTATACT
1 ATTTTATTTTTTCATAAGATATTTTTTTCATATTTTATTTTTATACT
* * * *
93539407 ATTTTCTTATTTT-AT-TG-TATTTTTTTCATATTTTATTTCTTTTCCT
1 ATTTTATT-TTTTCATAAGATATTTTTTTCATATTTTATTT-TTATACT
*
93539453 ATTTTATTTTTTCATGAAGATATTTTTTTCATATTTTCTTTTT
1 ATTTTATTTTTTCAT-AAGATATTTTTTTCATATTTTATTTTT
93539496 TTTATACTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
45 23 0.32
46 21 0.29
47 5 0.07
48 3 0.04
49 20 0.28
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.68
Consensus pattern (47 bp):
ATTTTATTTTTTCATAAGATATTTTTTTCATATTTTATTTTTATACT
Found at i:93539455 original size:17 final size:16
Alignment explanation
Indices: 93539419--93539497 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
93539409 TTTCTTATTT
*
93539419 TATTGTATTTTTTTCA
1 TATTTTATTTTTTTCA
*
93539435 TATTTTATTTCTTTTCC
1 TATTTTATTT-TTTTCA
93539452 TATTTTA-TTTTTTCA
1 TATTTTATTTTTTTCA
***
93539467 TGAAGATATTTTTTTCA
1 T-ATTTTATTTTTTTCA
*
93539484 TATTTTCTTTTTTT
1 TATTTTATTTTTTT
93539498 TATACTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.12
16 23 0.46
17 21 0.42
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:93539837 original size:11 final size:11
Alignment explanation
Indices: 93539805--93539838 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
93539795 ATAAATTTAT
*
93539805 AAATTAAATCT
1 AAATTAAATCA
93539816 AAATTAAATCA
1 AAATTAAATCA
*
93539827 AAATCAAATCA
1 AAATTAAATCA
93539838 A
1 A
93539839 CAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATTAAATCA
Found at i:93548259 original size:40 final size:39
Alignment explanation
Indices: 93548175--93548359 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
93548165 TCGAATGATG
* * *
93548175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
93548214 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
93548255 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
93548294 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
93548333 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
93548360 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:93548311 original size:79 final size:81
Alignment explanation
Indices: 93548175--93548359 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
93548165 TCGAATGATG
* *
93548175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
93548239 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
93548254 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
93548316 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
93548334 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
93548360 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:93548381 original size:79 final size:79
Alignment explanation
Indices: 93548228--93548392 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
93548218 GGACTAAGAT
* **
93548228 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
93548293 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
93548307 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
93548370 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
93548386 CCGAAGG
1 CCGAAGG
93548393 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:93555418 original size:40 final size:39
Alignment explanation
Indices: 93555334--93555518 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
93555324 TCGAATGATG
* * *
93555334 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
93555373 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
93555414 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
93555453 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
93555492 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
93555519 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:93555470 original size:79 final size:81
Alignment explanation
Indices: 93555334--93555518 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
93555324 TCGAATGATG
* *
93555334 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
93555398 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
93555413 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
93555475 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
93555493 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
93555519 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:93555540 original size:79 final size:79
Alignment explanation
Indices: 93555387--93555551 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
93555377 GGACTAAGAT
* **
93555387 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
93555452 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
93555466 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
93555529 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
93555545 CCGAAGG
1 CCGAAGG
93555552 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:93562095 original size:42 final size:42
Alignment explanation
Indices: 93562048--93562130 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
93562038 AGATAGACAG
* * * ** *
93562048 TTTCTAGGCTTCTCATTTGGGAACTTGGTTGCAGAATGGGCC
1 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGCC
93562090 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGC
1 TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGC
93562131 AGGACAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCTAGACTTCTCACTTGGAAACTTGACTGAAGAATGGGCC
Found at i:93565009 original size:21 final size:21
Alignment explanation
Indices: 93564985--93565033 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
93564975 CCTTAAAACT
93564985 TAAACCCT-AACCCTTAACCCA
1 TAAACCCTAAACCC-TAACCCA
* *
93565006 TAAACCATAAACCCTAATCCA
1 TAAACCCTAAACCCTAACCCA
93565027 TAAACCC
1 TAAACCC
93565034 ATAATCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACCCTAAACCCTAACCCA
Found at i:93565011 original size:15 final size:14
Alignment explanation
Indices: 93564985--93565047 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 14
93564975 CCTTAAAACT
*
93564985 TAAACCCTAA-CCC
1 TAAACCCTAATCCA
* *
93564998 TTAACCCATAAACCA
1 TAAACCC-TAATCCA
93565013 TAAACCCTAATCCA
1 TAAACCCTAATCCA
93565027 TAAACCCATAATCCA
1 TAAACCC-TAATCCA
93565042 TAAACC
1 TAAACC
93565048 TTATAATAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.14
14 16 0.37
15 21 0.49
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAATCCA
Found at i:93565013 original size:7 final size:7
Alignment explanation
Indices: 93565003--93565047 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
93564993 AACCCTTAAC
93565003 CCATAAA
1 CCATAAA
93565010 CCATAAA
1 CCATAAA
* *
93565017 CCCTAAT
1 CCATAAA
93565024 CCATAAA
1 CCATAAA
*
93565031 CCCATAAT
1 -CCATAAA
93565039 CCATAAA
1 CCATAAA
93565046 CC
1 CC
93565048 TTATAATAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
CCATAAA
Found at i:93565029 original size:14 final size:15
Alignment explanation
Indices: 93565000--93565047 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
93564990 CCTAACCCTT
*
93565000 AACCCATAAACCATA
1 AACCCATAATCCATA
93565015 AACCC-TAATCCATA
1 AACCCATAATCCATA
93565029 AACCCATAATCCATA
1 AACCCATAATCCATA
93565044 AACC
1 AACC
93565048 TTATAATAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:93566183 original size:38 final size:39
Alignment explanation
Indices: 93566117--93566207 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
93566107 GGTGTACATA
*
93566117 TAGCGACGTTTTTAAAAAAGCGCCGCTAATACTCAATCTT
1 TAGCGGCGTTTTT-AAAAAGCGCCGCTAATACTCAATCTT
* **
93566157 TAGCGGCGTTTTT-AAAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
*
93566195 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
93566208 CATTCAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 34 0.74
40 12 0.26
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
Found at i:93569566 original size:19 final size:19
Alignment explanation
Indices: 93569514--93569558 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
93569504 TGCCTCTTTT
*
93569514 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCA-TCATA
93569533 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
93569552 TGCATTA
1 TGCATTA
93569559 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:93578118 original size:12 final size:12
Alignment explanation
Indices: 93578103--93578129 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93578093 TGTGATGAAA
93578103 TCTTCGATGACT
1 TCTTCGATGACT
93578115 TCTTCGATGACT
1 TCTTCGATGACT
93578127 TCT
1 TCT
93578130 AACCCGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (12 bp):
TCTTCGATGACT
Found at i:93578717 original size:20 final size:20
Alignment explanation
Indices: 93578692--93578760 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
93578682 CAGTAATAGT
*
93578692 AGTAATTTATTCATATCAAC
1 AGTAATTCATTCATATCAAC
*
93578712 AGTAATTCATCCATATCAAC
1 AGTAATTCATTCATATCAAC
*
93578732 AGT-ATTCATTCATTTCAAC
1 AGTAATTCATTCATATCAAC
93578751 AGTAATTCAT
1 AGTAATTCAT
93578761 ATGATCGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.39
20 27 0.61
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (20 bp):
AGTAATTCATTCATATCAAC
Found at i:93578948 original size:23 final size:22
Alignment explanation
Indices: 93578918--93578961 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
93578908 CTGATAAATA
*
93578918 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATCGAGCT-AAACG
93578941 GTAAGCTCTATCGAGCTAAAC
1 GTAAGCTCTATCGAGCTAAAC
93578962 ATGGAGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (22 bp):
GTAAGCTCTATCGAGCTAAACG
Found at i:93581173 original size:44 final size:43
Alignment explanation
Indices: 93581052--93581183 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 43
93581042 ATTATCATGG
* * **
93581052 CAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGGTT-A-CCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTTA
* * * * *
93581093 CAAATCTTATCTTCCTAAAGATGTAGTGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTTA
* *
93581137 CAAATCTTATCTCCCTGAAGTTGCAGTGTAACAGATTAAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTTA
93581181 CAA
1 CAA
93581184 GTCACAAATC
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
41 30 0.42
43 1 0.01
44 40 0.56
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (43 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTTA
Found at i:93582385 original size:18 final size:18
Alignment explanation
Indices: 93582362--93582398 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
93582352 CCCACAGATC
93582362 GGCCAAAAAGGGGGTGGA
1 GGCCAAAAAGGGGGTGGA
*
93582380 GGCCAAAGAGGGGGTGGA
1 GGCCAAAAAGGGGGTGGA
93582398 G
1 G
93582399 AGAAAATGAG
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:0.30, C:0.11, G:0.54, T:0.05
Consensus pattern (18 bp):
GGCCAAAAAGGGGGTGGA
Found at i:93585628 original size:7 final size:7
Alignment explanation
Indices: 93585616--93585671 Score: 85
Period size: 7 Copynumber: 7.6 Consensus size: 7
93585606 ATAATAAAAT
93585616 ATATAAA
1 ATATAAA
93585623 ATATAAA
1 ATATAAA
93585630 ATATAAA
1 ATATAAA
93585637 ATATAAA
1 ATATAAA
93585644 ATATTAAA
1 ATA-TAAA
93585652 ATATCAAA
1 ATAT-AAA
93585660 ATATCAAA
1 ATAT-AAA
93585668 ATAT
1 ATAT
93585672 TAGAATAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 25 0.53
8 22 0.47
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:93585630 original size:16 final size:16
Alignment explanation
Indices: 93585609--93585663 Score: 80
Period size: 15 Copynumber: 3.6 Consensus size: 16
93585599 GATGTGAATA
93585609 ATAAAATATATAAAAT
1 ATAAAATATATAAAAT
93585625 AT-AAA-ATATAAAAT
1 ATAAAATATATAAAAT
93585639 ATAAAATAT-TAAAAT
1 ATAAAATATATAAAAT
93585654 ATCAAAATAT
1 AT-AAAATAT
93585664 CAAAATATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.31
15 14 0.39
16 11 0.31
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAATATATAAAAT
Found at i:93585653 original size:8 final size:8
Alignment explanation
Indices: 93585605--93585678 Score: 82
Period size: 8 Copynumber: 9.5 Consensus size: 8
93585595 TAATGATGTG
*
93585605 AATAATAA
1 AATATTAA
93585613 AATATATAA
1 AATAT-TAA
93585622 AATA-TAA
1 AATATTAA
93585629 AATA-TAA
1 AATATTAA
93585636 AATA-TAA
1 AATATTAA
93585643 AATATTAA
1 AATATTAA
*
93585651 AATATCAA
1 AATATTAA
*
93585659 AATATCAA
1 AATATTAA
*
93585667 AATATTAG
1 AATATTAA
93585675 AATA
1 AATA
93585679 ATAATAATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.35
8 32 0.53
9 7 0.12
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:93585895 original size:22 final size:24
Alignment explanation
Indices: 93585832--93585896 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
93585822 CGTGATAATA
*
93585832 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
93585857 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
93585880 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
93585897 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:93585944 original size:29 final size:31
Alignment explanation
Indices: 93585885--93585965 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 31
93585875 TATAGTTAAG
* *
93585885 ATATATACATAAGATAACATGTAAAATATATAT
1 ATATATA-ATAA-ATAATATGTAAAAGATATAT
93585918 ATATATAATAAATAATAT-T-AAAGATATAT
1 ATATATAATAAATAATATGTAAAAGATATAT
* * *
93585947 ACATAAAATAGTATAATAT
1 ATATATAATA-AATAATAT
93585966 ATATACGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 6 0.14
32 4 0.10
33 7 0.17
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (31 bp):
ATATATAATAAATAATATGTAAAAGATATAT
Found at i:93585945 original size:31 final size:33
Alignment explanation
Indices: 93585885--93585947 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
93585875 TATAGTTAAG
93585885 ATATATACATAAGATAACATGTAAAATATATAT
1 ATATATACATAAGATAACATGTAAAATATATAT
*
93585918 ATATATA-ATAA-ATAATAT-TAAAGATATATA
1 ATATATACATAAGATAACATGTAAA-ATATATA
93585948 CATAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 4 0.14
31 13 0.46
32 4 0.14
33 7 0.25
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (33 bp):
ATATATACATAAGATAACATGTAAAATATATAT
Found at i:93585967 original size:23 final size:23
Alignment explanation
Indices: 93585906--93585980 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
93585896 AGATAACATG
93585906 TAAAATA-TAT-ATATATATA-A
1 TAAAATAGTATAATATATATACA
* *
93585926 T-AAATAATATTAAAGATATATACA
1 TAAAATAGTA-T-AATATATATACA
*
93585950 TAAAATAGTATAATATATATACG
1 TAAAATAGTATAATATATATACA
*
93585973 TAATATAG
1 TAAAATAG
93585981 AATTTAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
19 5 0.11
20 3 0.07
21 1 0.02
23 25 0.57
24 3 0.07
25 7 0.16
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (23 bp):
TAAAATAGTATAATATATATACA
Found at i:93585969 original size:25 final size:24
Alignment explanation
Indices: 93585914--93585970 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
93585904 TGTAAAATAT
93585914 ATATATATATAATAAATAATATTA
1 ATATATATATAATAAATAATATTA
* *
93585938 A-AGATATATACATAAAATAGTA-TA
1 ATATATATATA-AT-AAATAATATTA
93585962 ATATATATA
1 ATATATATA
93585971 CGTAATATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 8 0.30
24 6 0.22
25 13 0.48
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
ATATATATATAATAAATAATATTA
Found at i:93586591 original size:30 final size:29
Alignment explanation
Indices: 93586498--93586642 Score: 173
Period size: 30 Copynumber: 4.8 Consensus size: 29
93586488 TAGGTACAAG
*
93586498 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
* ** *
93586528 AGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAG-AAGTGTGGCTAGTGGAGT
93586558 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
* *
93586588 TGGTGGTGGAAAATGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGTGGAGT
*
93586618 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAGAA-GTGTGGCTAGT
93586643 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.28
Consensus pattern (29 bp):
TGGTGGTGGAGAAGTGTGGCTAGTGGAGT
Found at i:93587409 original size:14 final size:14
Alignment explanation
Indices: 93587390--93587452 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
93587380 GAGTTGATTT
* *
93587390 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
93587404 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
93587419 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
93587433 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
93587446 TTGAAAA
1 TTGAAAA
93587453 GACCTCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:93587425 original size:13 final size:13
Alignment explanation
Indices: 93587409--93587452 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
93587399 ATAAATTGAA
93587409 AAAACAGAAATTG
1 AAAACAGAAATTG
*
93587422 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
93587436 AAAACAGAATTTG
1 AAAACAGAAATTG
93587449 AAAA
1 AAAA
93587453 GACCTCAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:93587628 original size:77 final size:76
Alignment explanation
Indices: 93587475--93587755 Score: 381
Period size: 77 Copynumber: 3.7 Consensus size: 76
93587465 TGGCCCGAGA
* * *
93587475 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATTGAAAA-CGCCTCAGCG
1 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG-CTCAGCA
* * * **
93587538 TGTAACCCGAGG
65 CGTGAGCAAAGG
93587550 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCACAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
93587615 CGTGAGCAAAGG
65 CGTGAGCAAAGG
*
93587627 CTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGTAATTGAAAATAGCTCAGCA
1 CTCAACTCACCTCTCACAATATGAGTTGATT-TTTTGAAAAGCAGAAATTGAAAATAGCTCAGCA
93587692 CGTGAGCAAAGG
65 CGTGAGCAAAGG
* * * * *
93587704 CTCAACTCACTTCTCGCAATATGAGTT-AATTTTTAAAAAACAGAAATT-AAAA
1 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAA
93587756 GGCTCAACTC
Statistics
Matches: 188, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
74 4 0.02
75 43 0.23
76 3 0.02
77 137 0.73
78 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (76 bp):
CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCAC
GTGAGCAAAGG
Found at i:93587805 original size:54 final size:54
Alignment explanation
Indices: 93587699--93587809 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 54
93587689 GCACGTGAGC
* *
93587699 AAAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTAAAAAACAGAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTAAAAAACAAAAATTA
* * * **
93587753 AAAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAAAAGTAAAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTAAAAAACAAAAATTA
93587807 AAA
1 AAA
93587810 ATAGAGTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (54 bp):
AAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTAAAAAACAAAAATTA
Found at i:93587929 original size:16 final size:17
Alignment explanation
Indices: 93587896--93587930 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93587886 TGATATTTTG
*
93587896 AAAAGCAGAAATTGGAA
1 AAAAACAGAAATTGGAA
93587913 AAAAACAGAAATT-GAA
1 AAAAACAGAAATTGGAA
93587929 AA
1 AA
93587931 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.11
Consensus pattern (17 bp):
AAAAACAGAAATTGGAA
Found at i:93588109 original size:73 final size:73
Alignment explanation
Indices: 93588014--93588314 Score: 356
Period size: 73 Copynumber: 4.0 Consensus size: 73
93588004 AAAAATCGAC
* * *
93588014 AATT-CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
93588078 GAAATTGA
66 GAAATTGA
* *
93588086 AATTACCTCAGCATGTCCTGAGGCTCAACGCACCTCTCGCAATATGAGTTGA-TTTTGACAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A
93588150 GAAACAGAAATTGA
61 -AAACAGAAATTGA
* ** * * * *
93588164 AAATACCTCAGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAATTGATTTTTTTG-AC
1 AATTACCTCAGCA--TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
* *
93588228 AATAGAAATTGC
62 AACAGAAATTGA
93588240 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
*
93588305 TAAATTGA
66 GAAATTGA
93588313 AA
1 AA
93588315 CACAAAAATT
Statistics
Matches: 190, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
72 15 0.08
73 54 0.28
74 34 0.18
76 23 0.12
77 2 0.01
78 25 0.13
80 32 0.17
83 5 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (73 bp):
AATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
GAAATTGA
Found at i:93588379 original size:87 final size:87
Alignment explanation
Indices: 93588233--93588397 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
93588223 TTGACAATAG
* *
93588233 AAATTGCAATTACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGCAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG
*
93588298 AAAAACATAAATTGAAACACAA
66 AAAAACAGAAATTGAAACACAA
*
93588320 AAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
1 AAATTG-CAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
93588384 GAAAAACAGAAATT
65 GAAAAACAGAAATT
93588398 TAAAAATACC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 70 0.96
88 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (87 bp):
AAATTGCAATTACCTCAGCATGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAACACAA
Found at i:93588483 original size:14 final size:14
Alignment explanation
Indices: 93588464--93588492 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
93588454 TTTTTTTACG
93588464 AACAGAAATTGAAA
1 AACAGAAATTGAAA
93588478 AACAGAAATTGAAA
1 AACAGAAATTGAAA
93588492 A
1 A
93588493 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:93588749 original size:144 final size:147
Alignment explanation
Indices: 93588472--93588764 Score: 378
Period size: 144 Copynumber: 2.0 Consensus size: 147
93588462 CGAACAGAAA
* * * *
93588472 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGTCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAAATCACCTCTAGCAATAT
* * * * * *
93588537 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTT
65 GAGTTAATTTTTGACAAAAAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCT
93588602 CGCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
* ** *
93588620 TTGACAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAAATCACCTCTAGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAAATCACCTCTAGCAATAT
* ** *
93588683 GAGTTGA-TTTTGA-AAAAAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATCTCT
65 GAGTTAATTTTTGACAAAAAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCT
93588746 CGCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
93588764 T
1 T
93588765 CCTTGAAAAG
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
144 60 0.48
145 8 0.06
146 31 0.25
148 27 0.21
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAAATCACCTCTAGCAATATG
AGTTAATTTTTGACAAAAAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTT
Found at i:93588751 original size:71 final size:73
Alignment explanation
Indices: 93588472--93588764 Score: 376
Period size: 73 Copynumber: 4.0 Consensus size: 73
93588462 CGAACAGAAA
* ** * * *
93588472 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGTCTCAACTTACCTCTCGCAATA
1 TTGACAAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
93588536 TGAGTTAATTT
63 TGAGTTGATTT
* *
93588547 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
93588612 GTTGATTT
66 GTTGATTT
* *
93588620 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTAGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
93588685 GTTGA-TT
66 GTTGATTT
* * * * * * *
93588692 TTGA-AAAAAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
93588756 GTTGATTT
66 GTTGATTT
93588764 T
1 T
93588765 CCTTGAAAAG
Statistics
Matches: 195, Mismatches: 21, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
71 56 0.29
72 11 0.06
73 101 0.52
75 27 0.14
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:93598596 original size:7 final size:7
Alignment explanation
Indices: 93598584--93598616 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
93598574 ATAATAAAAT
93598584 ATATAAA
1 ATATAAA
93598591 ATATAAA
1 ATATAAA
93598598 ATATAAA
1 ATATAAA
93598605 ATATCAAA
1 ATAT-AAA
93598613 ATAT
1 ATAT
93598617 TAGAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:93598623 original size:23 final size:23
Alignment explanation
Indices: 93598572--93598623 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
93598562 ATAATGATGT
*
93598572 GAATAATAAAATATATAAAATATA
1 GAAT-ATAAAATATACAAAATATA
*
93598596 AAATATAAAATAT-CAAAATATTA
1 GAATATAAAATATACAAAATA-TA
93598619 GAATA
1 GAATA
93598624 ATAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
GAATATAAAATATACAAAATATA
Found at i:93598840 original size:22 final size:24
Alignment explanation
Indices: 93598777--93598841 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
93598767 CGTGATAATA
*
93598777 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
93598802 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
93598825 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
93598842 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:93598870 original size:29 final size:29
Alignment explanation
Indices: 93598830--93598896 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
93598820 TATAGTTAAG
*
93598830 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* *
93598859 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
93598888 ATACATAAA
1 ATATATAAA
93598897 ATAGTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:93598887 original size:25 final size:25
Alignment explanation
Indices: 93598771--93598988 Score: 120
Period size: 23 Copynumber: 9.0 Consensus size: 25
93598761 TAAATACGTG
* *
93598771 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
93598796 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
93598821 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
93598843 ATAACATGTAAAATATATATATAAATAAT
1 ATAATAT-T--AA-AGATATATACATAAT
*
93598872 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
93598897 ATAGTA-T-AATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
93598920 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
93598943 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
93598965 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
93598988 A
1 A
93598989 ACAAAAAAGG
Statistics
Matches: 151, Mismatches: 27, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 45 0.30
24 10 0.07
25 43 0.28
26 2 0.01
28 2 0.01
29 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:93598887 original size:27 final size:29
Alignment explanation
Indices: 93598830--93598908 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
93598820 TATAGTTAAG
* * * *
93598830 ATATATACATAAGATAACATGTAAAATAT
1 ATATATAAATAATATAATATGTAAAAGAT
93598859 ATATATAAATAATATAATAT-T-AAAGAT
1 ATATATAAATAATATAATATGTAAAAGAT
*
93598886 ATATACATAAAATAGTATAATAT
1 ATAT--AT-AAATAATATAATAT
93598909 ATATACGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.21
28 1 0.02
29 19 0.45
30 13 0.31
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (29 bp):
ATATATAAATAATATAATATGTAAAAGAT
Found at i:93598893 original size:76 final size:77
Alignment explanation
Indices: 93598791--93598936 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 77
93598781 AAATATGTAC
* * *
93598791 ATAATATAGTGTTAAAAATACATACATAATATAGT-TAAGATATATACATAAGATA-ACATGTAA
1 ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGA-ATGTAA
93598854 AATATATATATAA
65 AATATATATATAA
* * * * * *
93598867 ATAATATAATATTAAAGATATATACATAAAATAGTATAATATATATACGTAATATAGAATTTAAA
1 ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGAATGTAAA
93598932 ATATA
66 ATATA
93598937 CCTAATATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
76 30 0.51
77 28 0.47
78 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (77 bp):
ATAATATAATATTAAAAATACATACATAAAATAGTATAAGATATATACATAAGATAGAATGTAAA
ATATATATATAA
Found at i:93599545 original size:30 final size:31
Alignment explanation
Indices: 93599475--93599619 Score: 174
Period size: 30 Copynumber: 4.8 Consensus size: 31
93599465 TAGGTACAAG
* *
93599475 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGAGAAAGGTGTGGCTAGTGGAGT
* ** * *
93599505 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGAGAAAGGTGTGGCTAGTGGAGT
*
93599535 TGGTGGTGGAG-AAGGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGAAAGGTGTGGCTAGTGGAGT
*
93599565 TGGTGGTGGA-AAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAGAAAGGTGTGGCTAGTGGAGT
93599595 TGGTGGTGGA-AAAGGTGTGGCTAGT
1 TGGTGGTGGAGAAAGGTGTGGCTAGT
93599620 TGAGAAAAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
29 2 0.02
30 98 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (31 bp):
TGGTGGTGGAGAAAGGTGTGGCTAGTGGAGT
Found at i:93606238 original size:27 final size:29
Alignment explanation
Indices: 93606188--93606246 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
93606178 CGTCTTTTTT
* *
93606188 TTTTCTTTATCATTTACTTCCTACTTAAA
1 TTTTCTTTATCATTTAATTACTACTTAAA
93606217 TTTTCTTT-T-ATTTAATTACTACTTAAA
1 TTTTCTTTATCATTTAATTACTACTTAAA
93606244 TTT
1 TTT
93606247 AAAATTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 19 0.68
28 1 0.04
29 8 0.29
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTCTTTATCATTTAATTACTACTTAAA
Found at i:93607805 original size:37 final size:36
Alignment explanation
Indices: 93607762--93607884 Score: 106
Period size: 37 Copynumber: 3.4 Consensus size: 36
93607752 TCACTTTTAG
*
93607762 TTTAATTTGGTAAACTAATATAAAGTAGTATCTAAAA
1 TTTAATTTGGTAAACTAATATAAAGTAATATCT-AAA
* ** * * * *
93607799 TTTAATTTGATTAAA--AATATTTAGTAACATTTTTAG
1 TTTAATTTG-GTAAACTAATATAAAGTAATA-TCTAAA
* *
93607835 TTTAATTTGGTAAACTAATACAAAGTAATTTCTAAA
1 TTTAATTTGGTAAACTAATATAAAGTAATATCTAAA
93607871 TATTAATTTGGTAA
1 T-TTAATTTGGTAA
93607885 GAAAATAATG
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
35 4 0.06
36 24 0.38
37 32 0.50
38 4 0.06
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTAATTTGGTAAACTAATATAAAGTAATATCTAAA
Found at i:93607821 original size:73 final size:73
Alignment explanation
Indices: 93607744--93607880 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
93607734 TTCATATTAA
* * *
93607744 ATTTAGTATCACTTTTAGTTTAATTTGGTAAACTAATATAAAGTAGTATCTAAA-ATTTAATTTG
1 ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATA-TTAATTTG
93607808 ATTAAAAAT
65 ATTAAAAAT
* *
93607817 ATTTAGTAACATTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATTTCTAAATATTAATTTG
1 ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATATTAATTTG
93607881 GTAAGAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 57 0.98
74 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (73 bp):
ATTTAGTAACACTTTTAGTTTAATTTGGTAAACTAATACAAAGTAATATCTAAATATTAATTTGA
TTAAAAAT
Found at i:93610138 original size:46 final size:46
Alignment explanation
Indices: 93610071--93610242 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
93610061 TGTAACCCGC
93610071 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
* *
93610117 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGG--G-C--GTTCGCAT
* * ** *
93610167 -C-TCA-CGAACTCGGACTCAACTCAACGAG-TTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
*
93610210 CCATAAATGAACTCGGACTCAACTCAACGAGCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
93610243 CGAATGCCCA
Statistics
Matches: 104, Mismatches: 11, Indels: 21
0.76 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
Found at i:93610191 original size:93 final size:93
Alignment explanation
Indices: 93610079--93610250 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
93610069 GCCCATAAGT
** * *
93610079 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
93610143 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGAATGCCTAGTTACATCTCAC
93610172 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
93610237 CGAGCTCGAATGCC
66 CGAGCTCGAATGCC
93610251 CAAATATTCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:93612119 original size:31 final size:30
Alignment explanation
Indices: 93612053--93612119 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
93612043 TTAATGATAC
* *
93612053 ATAAACTAATTTAAAAACTTAAATATAATT
1 ATAAATTAATTTAAAAACTTAAATATAATG
* *
93612083 TTAAATTATATTTAAATAA-TTTAATATAATG
1 ATAAATTA-ATTTAAA-AACTTAAATATAATG
93612114 ATAAAT
1 ATAAAT
93612120 GTGTTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 6 0.20
31 22 0.73
32 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (30 bp):
ATAAATTAATTTAAAAACTTAAATATAATG
Found at i:93616785 original size:14 final size:14
Alignment explanation
Indices: 93616766--93616803 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
93616756 GTAATTATGC
*
93616766 AAAAAAATAAAAAG
1 AAAAAAAGAAAAAG
93616780 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
93616794 AAAAAGAGAA
1 AAAAAAAGAA
93616804 GAGGTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:93622380 original size:12 final size:12
Alignment explanation
Indices: 93622356--93622398 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
93622346 ATCGAAATTG
93622356 AGAAAG-AAA-A
1 AGAAAGAAAAGA
93622366 AGAAAGAAAAGA
1 AGAAAGAAAAGA
93622378 AGAAAGAAAAGA
1 AGAAAGAAAAGA
93622390 AGAAAGAAA
1 AGAAAGAAA
93622399 CAGACACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 6 0.19
11 3 0.10
12 22 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAGA
Found at i:93629114 original size:110 final size:110
Alignment explanation
Indices: 93628921--93629142 Score: 426
Period size: 110 Copynumber: 2.0 Consensus size: 110
93628911 TACTATTTGG
* *
93628921 GTGATTGTTGATCAATTTACGAATCGGCTCATTTCATTGCGGTTAGGACTGATTGGTCACTTTAA
1 GTGATTGTTGATCAATTTACGAACCGGCTCATTTCATTGCAGTTAGGACTGATTGGTCACTTTAA
93628986 AAGCTTGCTAAAGTTTATATTCAACAAATCGTGAGATTGCACGGT
66 AAGCTTGCTAAAGTTTATATTCAACAAATCGTGAGATTGCACGGT
93629031 GTGATTGTTGATCAATTTACGAACCGGCTCATTTCATTGCAGTTAGGACTGATTGGTCACTTTAA
1 GTGATTGTTGATCAATTTACGAACCGGCTCATTTCATTGCAGTTAGGACTGATTGGTCACTTTAA
93629096 AAGCTTGCTAAAGTTTATATTCAACAAATCGTGAGATTGCACGGT
66 AAGCTTGCTAAAGTTTATATTCAACAAATCGTGAGATTGCACGGT
93629141 GT
1 GT
93629143 CTTTATGTCG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (110 bp):
GTGATTGTTGATCAATTTACGAACCGGCTCATTTCATTGCAGTTAGGACTGATTGGTCACTTTAA
AAGCTTGCTAAAGTTTATATTCAACAAATCGTGAGATTGCACGGT
Found at i:93639043 original size:43 final size:43
Alignment explanation
Indices: 93638982--93639077 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
93638972 TGATATGGTT
* *
93638982 TTTAGCGGAGTTTATGGGGAAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
* * *
93639025 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
*
93639068 TTTAGTGGCG
1 TTTAGCGGCG
93639078 CTTTCTCCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTATGGGGAAAGCGCCGCTAAAGATCATGTTC
Found at i:93643957 original size:8 final size:8
Alignment explanation
Indices: 93643946--93643985 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
93643936 CTAGATCGGC
*
93643946 AAAAGTCG
1 AAAAGCCG
93643954 AAAAGCCG
1 AAAAGCCG
*
93643962 AAAAGGCG
1 AAAAGCCG
*
93643970 AAATGCCG
1 AAAAGCCG
93643978 AAAAGCCG
1 AAAAGCCG
93643986 GCATTTCGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.47, C:0.20, G:0.28, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:93650535 original size:30 final size:30
Alignment explanation
Indices: 93650501--93650574 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
93650491 ACAATTCAAC
*
93650501 AAAATTGCTACAAGC-CTTTAACAAAACACA
1 AAAATTGCTACAA-CACTATAACAAAACACA
* * *
93650531 AAAATTACTACAACACTATAATAAAACATA
1 AAAATTGCTACAACACTATAACAAAACACA
*
93650561 CAAATTGCTACAAC
1 AAAATTGCTACAAC
93650575 TGTTCAACTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.22
Consensus pattern (30 bp):
AAAATTGCTACAACACTATAACAAAACACA
Found at i:93652109 original size:17 final size:17
Alignment explanation
Indices: 93652069--93652110 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
93652059 ATAAATAAAC
93652069 AATTAAA-TAAATTGGA
1 AATTAAATTAAATTGGA
*
93652085 AATAAAATTAAATTTGG-
1 AATTAAATTAAA-TTGGA
93652102 AATTAAATT
1 AATTAAATT
93652111 CAGATTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (17 bp):
AATTAAATTAAATTGGA
Found at i:93663633 original size:17 final size:19
Alignment explanation
Indices: 93663611--93663649 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
93663601 ATATGAACAT
*
93663611 AAATA-TAAATTATT-TAA
1 AAATATTAAAGTATTGTAA
93663628 AAATATTAAAGTATTGTAA
1 AAATATTAAAGTATTGTAA
93663647 AAA
1 AAA
93663650 AAATCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATATTAAAGTATTGTAA
Found at i:93669574 original size:24 final size:23
Alignment explanation
Indices: 93669535--93669582 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
93669525 TATTATTTTT
*
93669535 ATATATTATACCATAATAAATTAA
1 ATATATTATAACATAA-AAATTAA
* *
93669559 ATATATTATAATATAAATATTAA
1 ATATATTATAACATAAAAATTAA
93669582 A
1 A
93669583 AAATATGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATATTATAACATAAAAATTAA
Found at i:93678351 original size:40 final size:40
Alignment explanation
Indices: 93678295--93678625 Score: 404
Period size: 40 Copynumber: 8.3 Consensus size: 40
93678285 CATTTGAATG
* *
93678295 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
93678335 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
93678375 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
93678415 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
93678455 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
93678495 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
*
93678534 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
93678574 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
93678614 ATATCC-GGCTAA
1 ATATCCGGGCTAA
93678626 ATTCCGAAGA
Statistics
Matches: 260, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
39 41 0.16
40 216 0.83
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:93678562 original size:119 final size:120
Alignment explanation
Indices: 93678295--93678625 Score: 515
Period size: 119 Copynumber: 2.8 Consensus size: 120
93678285 CATTTGAATG
* * * * * * *
93678295 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
* *
93678359 ATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
65 AATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
93678415 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
93678480 ATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
66 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
93678534 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
* * *
93678599 ATTGTGCTTGTGGTTATATCC-GGCTAA
66 ATTGTGCTAGTGATTTTATCCGGGCTAA
93678626 ATTCCGAAGA
Statistics
Matches: 196, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
118 6 0.03
119 106 0.54
120 82 0.42
121 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:93686679 original size:40 final size:40
Alignment explanation
Indices: 93686623--93686954 Score: 404
Period size: 40 Copynumber: 8.3 Consensus size: 40
93686613 CATTTGAATG
* *
93686623 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
93686663 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
93686703 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
93686743 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
93686783 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
93686823 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
*
93686863 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
93686903 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
93686943 ATATCC-GGCTAA
1 ATATCCGGGCTAA
93686955 ATTCCGAAGA
Statistics
Matches: 260, Mismatches: 26, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
39 9 0.03
40 246 0.95
41 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:93686836 original size:120 final size:120
Alignment explanation
Indices: 93686623--93686954 Score: 515
Period size: 120 Copynumber: 2.8 Consensus size: 120
93686613 CATTTGAATG
* * * * * * *
93686623 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
* * *
93686687 ATTTATGCTAGTAATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
65 AATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
93686743 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
93686808 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
66 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
93686863 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
* * *
93686928 ATTGTGCTTGTGGTTATATCC-GGCTAA
66 ATTGTGCTAGTGATTTTATCCGGGCTAA
93686955 ATTCCGAAGA
Statistics
Matches: 196, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
119 6 0.03
120 188 0.96
121 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:93695744 original size:25 final size:26
Alignment explanation
Indices: 93695716--93695778 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
93695706 AGTTATATAA
93695716 TATATGATTATATTAA-G-TTAAATTT
1 TATATGATTATATTAATGATT-AATTT
* *
93695741 TATA-GATTTTAATAATGATTAATTT
1 TATATGATTATATTAATGATTAATTT
93695766 TATAT-ATATATAT
1 TATATGAT-TATAT
93695779 CTTACATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
24 9 0.30
25 16 0.53
26 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
TATATGATTATATTAATGATTAATTT
Found at i:93703983 original size:6 final size:6
Alignment explanation
Indices: 93703972--93703997 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93703962 ATTAAGAACT
93703972 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
93703998 TATTATCATT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:93708747 original size:20 final size:20
Alignment explanation
Indices: 93708724--93708770 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
93708714 AAATTTTTAA
93708724 AAAATAATAAAAATTATTTT
1 AAAATAATAAAAATTATTTT
* * *
93708744 AAAAT-TTAACAATTTTTTT
1 AAAATAATAAAAATTATTTT
93708763 AAAA-AATA
1 AAAATAATA
93708771 TATCCAAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAATAAAAATTATTTT
Found at i:93719686 original size:4 final size:4
Alignment explanation
Indices: 93719679--93719728 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
93719669 AGCCACCCCT
*
93719679 TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTG TTATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
93719726 TTT
1 TTT
93719729 TTATTGTACT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 6 0.14
4 33 0.79
5 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:93719743 original size:23 final size:23
Alignment explanation
Indices: 93719684--93719733 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
93719674 CCCCTTTTAT
*
93719684 TTATTTATT-TATTTATTTATTA
1 TTATTTGTTATATTTATTTATTA
*
93719706 TTATTTGTTATATTTATTTATTT
1 TTATTTGTTATATTTATTTATTA
93719729 TTATT
1 TTATT
93719734 GTACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTGTTATATTTATTTATTA
Found at i:93731782 original size:7 final size:7
Alignment explanation
Indices: 93731770--93731794 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93731760 TTTAATCTCT
93731770 TTTTAAA
1 TTTTAAA
93731777 TTTTAAA
1 TTTTAAA
93731784 TTTTAAA
1 TTTTAAA
93731791 TTTT
1 TTTT
93731795 TATTTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:93732161 original size:21 final size:21
Alignment explanation
Indices: 93732136--93732175 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93732126 AAAATTTAGG
*
93732136 ATATTA-AGTTAATTAATTTCA
1 ATATTACAG-TAATGAATTTCA
93732157 ATATTACAGTAATGAATTT
1 ATATTACAGTAATGAATTT
93732176 AAAAGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATTACAGTAATGAATTTCA
Found at i:93739854 original size:38 final size:38
Alignment explanation
Indices: 93739812--93739902 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 38
93739802 GTCCAACCCA
93739812 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
* * *
93739850 ACACACCAAGTATAGGGATAAAATCGACCCATCCAGCCCT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCCT
*
93739890 ACACACCAAGTGG
1 ACACACCATGTGG
93739903 TACTATGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 9 0.20
39 2 0.04
40 34 0.76
ACGTcount: A:0.35, C:0.34, G:0.18, T:0.13
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
Found at i:93739871 original size:40 final size:40
Alignment explanation
Indices: 93739824--93739900 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
93739814 ACACCATGTG
93739824 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
*
93739864 GGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
93739901 GGTACTATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.35, G:0.16, T:0.13
Consensus pattern (40 bp):
GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
Found at i:93746876 original size:40 final size:40
Alignment explanation
Indices: 93746830--93746908 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
93746820 ACACACCATG
93746830 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
1 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
* * * *
93746870 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGT
93746909 GGTACTGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
Found at i:93747677 original size:56 final size:56
Alignment explanation
Indices: 93747610--93747720 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
93747600 ATCTTCTTAT
93747610 CTTCGACGAAAAATGATGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
1 CTTCGACGAAAAATGATGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
* * * * *
93747666 CTTCGATGAAAAATGGTGTTTCTTTGCTGTTTAGAACCCCGATTAATGATCCACA
1 CTTCGACGAAAAATGATGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACA
93747721 GATCATTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (56 bp):
CTTCGACGAAAAATGATGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
Found at i:93749055 original size:21 final size:22
Alignment explanation
Indices: 93749014--93749161 Score: 113
Period size: 23 Copynumber: 6.6 Consensus size: 22
93749004 GCTATCACCC
* *
93749014 ACCAATCATAGCCTCAG-ACACA
1 ACCAAT-ATACCCTCCGAACACA
*
93749036 ACCAATTTACCCTCC-AACACA
1 ACCAATATACCCTCCGAACACA
* *
93749057 ACC-ATGTATCCTCCGAACACA
1 ACCAATATACCCTCCGAACACA
* *
93749078 ACCAAATATACCCTTCAAACACA
1 ACC-AATATACCCTCCGAACACA
*
93749101 ACCATATATATAACCTCCGAACACA
1 ACC--A-ATATACCCTCCGAACACA
* * *
93749126 ACCAAGTATACCCACCAAATACA
1 ACCAA-TATACCCTCCGAACACA
*
93749149 ACTAATATACCCT
1 ACCAATATACCCT
93749162 TCAACATATC
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
20 9 0.09
21 23 0.23
22 14 0.14
23 35 0.35
24 1 0.01
25 18 0.18
ACGTcount: A:0.42, C:0.36, G:0.04, T:0.18
Consensus pattern (22 bp):
ACCAATATACCCTCCGAACACA
Found at i:93749124 original size:48 final size:43
Alignment explanation
Indices: 93749031--93749138 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 43
93749021 ATAGCCTCAG
* * *
93749031 ACACAACC-AATTTACCCTCCAACACAACCATGTATCCTCCGA
1 ACACAACCAAATATACCCTCAAACACAACCATATATCCTCCGA
93749073 ACACAACCAAATATACCCTTCAAACACAACCATATATATAACCTCCGA
1 ACACAACCAAATATACCC-TCAAACACAACC--ATATAT--CCTCCGA
*
93749121 ACACAACCAAGTATACCC
1 ACACAACCAAATATACCC
93749139 ACCAAATACA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 8 0.14
43 8 0.14
44 11 0.20
46 5 0.09
48 24 0.43
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.18
Consensus pattern (43 bp):
ACACAACCAAATATACCCTCAAACACAACCATATATCCTCCGA
Found at i:93753314 original size:32 final size:32
Alignment explanation
Indices: 93753266--93753350 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
93753256 ACCTAAAATT
93753266 ATTAATTC-TAATTATTTTAATATTTTATTTA
1 ATTAATTCTTAATTATTTTAATATTTTATTTA
93753297 ATTAATTCTTAATTATTTTAATATTTTATTTA
1 ATTAATTCTTAATTATTTTAATATTTTATTTA
93753329 ATTAATTCTTAATTATTTTAAT
1 ATTAATTCTTAATTATTTTAAT
93753351 TATCTAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 8 0.15
32 45 0.85
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (32 bp):
ATTAATTCTTAATTATTTTAATATTTTATTTA
Found at i:93753317 original size:16 final size:16
Alignment explanation
Indices: 93753267--93753351 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 16
93753257 CCTAAAATTA
93753267 TTAATTC-TAATTATT
1 TTAATTCTTAATTATT
* * *
93753282 TTAATATTTTATTTA-A
1 TTAAT-TCTTAATTATT
93753298 TTAATTCTTAATTATT
1 TTAATTCTTAATTATT
* * *
93753314 TTAATATTTTATTTA-A
1 TTAAT-TCTTAATTATT
93753330 TTAATTCTTAATTATT
1 TTAATTCTTAATTATT
93753346 TTAATT
1 TTAATT
93753352 ATCTAATATA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
15 19 0.36
16 22 0.42
17 12 0.23
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTCTTAATTATT
Found at i:93753351 original size:9 final size:9
Alignment explanation
Indices: 93753274--93753353 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 9
93753264 TTATTAATTC
93753274 TAATTATTT
1 TAATTATTT
*
93753283 TAATATTTTATT
1 T-A-ATTAT-TT
93753295 TAATTAATTCT
1 TAATT-ATT-T
93753306 TAATTATTT
1 TAATTATTT
*
93753315 TAATATTTTATT
1 T-A-ATTAT-TT
93753327 TAATTAATTCT
1 TAATT-ATT-T
93753338 TAATTATTT
1 TAATTATTT
93753347 TAATTAT
1 TAATTAT
93753354 CTAATATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 11 0.19
10 16 0.28
11 24 0.42
12 6 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTATTT
Found at i:93753358 original size:24 final size:23
Alignment explanation
Indices: 93753305--93753352 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
93753295 TAATTAATTC
*
93753305 TTAATT-ATT-TTAATATTTTAT
1 TTAATTAATTCTTAATATTTTAA
93753326 TTAATTAATTCTTAATTATTTTAA
1 TTAATTAATTCTTAA-TATTTTAA
93753350 TTA
1 TTA
93753353 TCTAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 4 0.17
24 10 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAATTAATTCTTAATATTTTAA
Found at i:93756468 original size:19 final size:19
Alignment explanation
Indices: 93756444--93756482 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
93756434 TTTCAAGGTG
93756444 TTTGCCTCTTTGATCCCTA
1 TTTGCCTCTTTGATCCCTA
93756463 TTTGCCTCTTTGATCCCTA
1 TTTGCCTCTTTGATCCCTA
93756482 T
1 T
93756483 CCCCATGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.31, G:0.10, T:0.49
Consensus pattern (19 bp):
TTTGCCTCTTTGATCCCTA
Found at i:93757892 original size:13 final size:14
Alignment explanation
Indices: 93757869--93757901 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
93757859 TTTATTTTAT
*
93757869 TAAAATTAAATAAA
1 TAAAATCAAATAAA
93757883 -AAAATCAAATAAA
1 TAAAATCAAATAAA
93757896 TAAAAT
1 TAAAAT
93757902 ATATAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAATCAAATAAA
Found at i:93762320 original size:19 final size:20
Alignment explanation
Indices: 93762291--93762331 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
93762281 ATAAAATATA
93762291 AAAATATATAGAATTTTATT
1 AAAATATATAGAATTTTATT
*
93762311 AAAA-ATATAGAATTTTTTT
1 AAAATATATAGAATTTTATT
93762330 AA
1 AA
93762332 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATATATAGAATTTTATT
Found at i:93762529 original size:19 final size:19
Alignment explanation
Indices: 93762507--93762556 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
93762497 ATCTAATATT
**
93762507 TATTAAAAAATTTGGAAAA
1 TATTAAAAAATTTAAAAAA
*
93762526 TATTAAAAAATATAAAAAA
1 TATTAAAAAATTTAAAAAA
93762545 TA-TAAAAAATTT
1 TATTAAAAAATTT
93762557 TATTAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
TATTAAAAAATTTAAAAAA
Found at i:93762553 original size:10 final size:9
Alignment explanation
Indices: 93762457--93762554 Score: 61
Period size: 9 Copynumber: 10.6 Consensus size: 9
93762447 ATATAGGGAG
93762457 AAAATATAA
1 AAAATATAA
*
93762466 AAATTATAA
1 AAAATATAA
* *
93762475 AAATTTATAT
1 AAA-ATATAA
*
93762485 AAAATAGAA
1 AAAATATAA
* *
93762494 AATATCTAA
1 AAAATATAA
* **
93762503 TATTTATTAA
1 AAAATA-TAA
* **
93762513 AAAATTTGG
1 AAAATATAA
93762522 AAAATATTAA
1 AAAATA-TAA
93762532 AAAATATAA
1 AAAATATAA
93762541 AAAATATAA
1 AAAATATAA
93762550 AAAAT
1 AAAAT
93762555 TTTATTAAAA
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
9 46 0.70
10 20 0.30
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATATAA
Found at i:93763815 original size:63 final size:62
Alignment explanation
Indices: 93763742--93763872 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 62
93763732 ACAGCCTGGG
* * * *
93763742 CACACACCCGTCTCCCTGGCTTGTGTGACC-CTAAATCCAAAATAGTGAGTTACACGGCTTGGA
1 CACACACCCGTCTCCCTAGCTTGTGT-ACCTCCAAATCCAAAACAGTGAGTTACACGGCCT-GA
* * * * *
93763805 CACACGCCCGTGTCTCTAGCTTGTGTACCTCCAATTCCAAAACAGTGAGTTACATGGCCTGA
1 CACACACCCGTCTCCCTAGCTTGTGTACCTCCAAATCCAAAACAGTGAGTTACACGGCCTGA
93763867 CACACA
1 CACACA
93763873 ATCGTGTGGC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
62 10 0.18
63 47 0.82
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (62 bp):
CACACACCCGTCTCCCTAGCTTGTGTACCTCCAAATCCAAAACAGTGAGTTACACGGCCTGA
Found at i:93764392 original size:16 final size:16
Alignment explanation
Indices: 93764371--93764416 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
93764361 TGAGAAAACC
93764371 AAAAAGAAAAAGAAAG
1 AAAAAGAAAAAGAAAG
*
93764387 AAAAAGAAAAAGAATG
1 AAAAAGAAAAAGAAAG
*
93764403 AAGAAG-AAAAGAAA
1 AAAAAGAAAAAGAAA
93764417 AACTAACGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:93764409 original size:22 final size:21
Alignment explanation
Indices: 93764371--93764418 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
93764361 TGAGAAAACC
93764371 AAAAAGAAAAAGAAAGAAAAAG
1 AAAAAGAAAAAGAAAG-AAAAG
*
93764393 AAAAAGAATGAAG-AAGAAAAG
1 AAAAAGAA-AAAGAAAGAAAAG
93764414 AAAAA
1 AAAAA
93764419 CTAACGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 11 0.46
23 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAGAAAAG
Found at i:93765452 original size:28 final size:28
Alignment explanation
Indices: 93765360--93765447 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
93765350 CAAATTAATT
* *
93765360 TTTTTTTATAATTTTAACATTTTTTTCTAA
1 TTTTTTTATAATTTTAA-ATATCTTTCT-A
93765390 TTTTTTCTA-AATTTTAAATATCTTTCTA
1 TTTTTT-TATAATTTTAAATATCTTTCTA
*
93765418 TTTTTTTATAATTTTGAATAT-TTT-TA
1 TTTTTTTATAATTTTAAATATCTTTCTA
93765444 TTTT
1 TTTT
93765448 CTTTTCTGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.11
27 5 0.09
28 18 0.34
29 8 0.15
30 14 0.26
31 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTTTTATAATTTTAAATATCTTTCTA
Found at i:93768176 original size:17 final size:16
Alignment explanation
Indices: 93768140--93768178 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
93768130 CAAAGGATTC
* *
93768140 ATTATTCATTTTTTAT
1 ATTATTAATTTTTTAA
93768156 ATTATTAATTATTTTAA
1 ATTATTAATT-TTTTAA
93768173 ATTATT
1 ATTATT
93768179 TTAGGGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTAATTTTTTAA
Found at i:93768606 original size:21 final size:22
Alignment explanation
Indices: 93768572--93768614 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
93768562 TTCTTTTTCG
*
93768572 TATTATTCATTTTAACCTTTTT
1 TATTATTCATTTTAAACTTTTT
93768594 TATTATT-ATTTTAAACTTTTT
1 TATTATTCATTTTAAACTTTTT
93768615 ACATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATTCATTTTAAACTTTTT
Found at i:93768625 original size:21 final size:20
Alignment explanation
Indices: 93768577--93768625 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
93768567 TTTCGTATTA
* *
93768577 TTCATTTTAACCTTTTTTAT
1 TTCATTTTAAACTTTTTCAT
*
93768597 TATTATTTTAAACTTTTTACAT
1 T-TCATTTTAAACTTTTT-CAT
93768619 TTCATTT
1 TTCATTT
93768626 GCGTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCATTTTAAACTTTTTCAT
Found at i:93772281 original size:19 final size:18
Alignment explanation
Indices: 93772257--93772302 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
93772247 CGACGCCTTT
* *
93772257 TGCATTAATTTCATGCATC
1 TGCATTAATTACAT-CATA
93772276 TGCATTACATTACATCATA
1 TGCATTA-ATTACATCATA
93772295 TGCATTAA
1 TGCATTAA
93772303 AGTCTACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.71
20 6 0.25
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (18 bp):
TGCATTAATTACATCATA
Found at i:93774310 original size:21 final size:21
Alignment explanation
Indices: 93774272--93774311 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93774262 ACTACTCAAG
*
93774272 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
93774293 AGAAGCCGGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
93774312 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Done.