Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 277 of 352
Found at i:90755949 original size:43 final size:43
Alignment explanation
Indices: 90755888--90755973 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
90755878 ACAAAGTAAG
90755888 ATATTCTGAATGCTTGATGGGGGAGTTAAGAATTGATGAAGTT
1 ATATTCTGAATGCTTGATGGGGGAGTTAAGAATTGATGAAGTT
90755931 ATATTCTGAATGCTTGATGGGGGAGTTAAGAATTGATGAAGTT
1 ATATTCTGAATGCTTGATGGGGGAGTTAAGAATTGATGAAGTT
90755974 CAACTTACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (43 bp):
ATATTCTGAATGCTTGATGGGGGAGTTAAGAATTGATGAAGTT
Found at i:90762528 original size:37 final size:37
Alignment explanation
Indices: 90762478--90762550 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
90762468 GACCGGTGAA
*
90762478 ATCGGACGTCCCTCATCCATTACGGAGTCGAAGTCAG
1 ATCGGACGTCCCTCATCCATTACAGAGTCGAAGTCAG
90762515 ATCGGACGTCCCTCATCCATTACAGAGTCGAAGTCA
1 ATCGGACGTCCCTCATCCATTACAGAGTCGAAGTCA
90762551 ACTAATTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (37 bp):
ATCGGACGTCCCTCATCCATTACAGAGTCGAAGTCAG
Found at i:90768112 original size:26 final size:26
Alignment explanation
Indices: 90768083--90768190 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
90768073 TGGTACAAAT
90768083 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
90768109 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90768135 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90768161 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90768187 TGAT
1 TGAT
90768191 GGGGATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90769727 original size:26 final size:25
Alignment explanation
Indices: 90769675--90769727 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
90769665 TTTATAGTTT
90769675 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
90769701 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
90769727 T
1 T
90769728 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:90777328 original size:18 final size:18
Alignment explanation
Indices: 90777302--90777374 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
90777292 CAATCCCAAC
*
90777302 TATTGTATACGTGAACAG
1 TATTGTATACGTGAATAG
* * *
90777320 TACTGTATATGTAAATAG
1 TATTGTATACGTGAATAG
*
90777338 TATTGTATACGTGAATGG
1 TATTGTATACGTGAATAG
*
90777356 TATTGTATACGTAAATAG
1 TATTGTATACGTGAATAG
90777374 T
1 T
90777375 GTCGTAAATG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (18 bp):
TATTGTATACGTGAATAG
Found at i:90777349 original size:36 final size:36
Alignment explanation
Indices: 90777302--90777374 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
90777292 CAATCCCAAC
*
90777302 TATTGTATACGTGAACAGTACTGTATATGTAAATAG
1 TATTGTATACGTGAACAGTACTGTATACGTAAATAG
** *
90777338 TATTGTATACGTGAATGGTATTGTATACGTAAATAG
1 TATTGTATACGTGAACAGTACTGTATACGTAAATAG
90777374 T
1 T
90777375 GTCGTAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (36 bp):
TATTGTATACGTGAACAGTACTGTATACGTAAATAG
Found at i:90786619 original size:15 final size:16
Alignment explanation
Indices: 90786596--90786636 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
90786586 GGTTCTCTTA
90786596 TGGTCAAAATTCAG-C
1 TGGTCAAAATTCAGCC
*
90786611 TGGTTAAAA-TCAGCC
1 TGGTCAAAATTCAGCC
90786626 TGGTCAAAATT
1 TGGTCAAAATT
90786637 GGTGTCCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (16 bp):
TGGTCAAAATTCAGCC
Found at i:90789907 original size:19 final size:19
Alignment explanation
Indices: 90789885--90789953 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
90789875 TTAATTAAAA
90789885 TTTTAAATTTTAAAAATAT
1 TTTTAAATTTTAAAAATAT
* * *
90789904 TTTTATATTTTTAATAT-T
1 TTTTAAATTTTAAAAATAT
*
90789922 TTTTAATTTTTTTAAAAATAAT
1 TTTTAA--ATTTTAAAAAT-AT
90789944 TTTT-AATTTT
1 TTTTAAATTTT
90789954 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 6 0.16
19 18 0.47
20 8 0.21
21 1 0.03
22 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAAATTTTAAAAATAT
Found at i:90789913 original size:8 final size:9
Alignment explanation
Indices: 90789899--90789936 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
90789889 AAATTTTAAA
90789899 AATATTTTT
1 AATATTTTT
90789908 -ATATTTTT
1 AATATTTTT
90789916 AATATTTTTT
1 AATA-TTTTT
*
90789926 AATTTTTTT
1 AATATTTTT
90789935 AA
1 AA
90789937 AAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
9 10 0.38
10 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
AATATTTTT
Found at i:90789934 original size:9 final size:10
Alignment explanation
Indices: 90789899--90789963 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 10
90789889 AAATTTTAAA
90789899 AATA-TTTTT
1 AATATTTTTT
90789908 -ATA-TTTTT
1 AATATTTTTT
90789916 AATATTTTTT
1 AATATTTTTT
90789926 AAT-TTTTTT
1 AATATTTTTT
*
90789935 AAAAATAATTTTT
1 ---AATATTTTTT
90789948 AAT-TTTTTT
1 AATATTTTTT
*
90789957 AAAATTT
1 AATATTT
90789964 AAAAAAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 8 0.17
9 16 0.35
10 14 0.30
12 3 0.07
13 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
AATATTTTTT
Found at i:90789954 original size:23 final size:22
Alignment explanation
Indices: 90789892--90789960 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
90789882 AAATTTTAAA
*
90789892 TTTTAAAAAT-ATTTTT-ATAT
1 TTTTAAAAATAATTTTTAATTT
*
90789912 TTTT---AATATTTTTTAATTT
1 TTTTAAAAATAATTTTTAATTT
90789931 TTTTAAAAATAATTTTTAATTT
1 TTTTAAAAATAATTTTTAATTT
90789953 TTTTAAAA
1 TTTTAAAA
90789961 TTTAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 7 0.17
20 4 0.10
22 22 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAAAATAATTTTTAATTT
Found at i:90790412 original size:25 final size:26
Alignment explanation
Indices: 90790358--90790416 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
90790348 TTTAAAGTAT
*
90790358 ACATTTTTTTTCAGAAAACAAGATTA
1 ACATTTTTTTTCACAAAACAAGATTA
* *
90790384 ACATTTTTTATTCACAAGA-AA-ATTC
1 ACATTTTTT-TTCACAAAACAAGATTA
90790409 ACATTTTT
1 ACATTTTT
90790417 GTATAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.38
26 11 0.38
27 7 0.24
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (26 bp):
ACATTTTTTTTCACAAAACAAGATTA
Found at i:90790976 original size:3 final size:3
Alignment explanation
Indices: 90790968--90790995 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
90790958 AAATAACACA
90790968 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
90790996 AGGGGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:90793503 original size:13 final size:13
Alignment explanation
Indices: 90793485--90793510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90793475 ACACTACTTT
90793485 GTGACTTTTGTTG
1 GTGACTTTTGTTG
90793498 GTGACTTTTGTTG
1 GTGACTTTTGTTG
90793511 ATGAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (13 bp):
GTGACTTTTGTTG
Found at i:90798142 original size:25 final size:25
Alignment explanation
Indices: 90798107--90798295 Score: 227
Period size: 25 Copynumber: 7.6 Consensus size: 25
90798097 ATACATGTAT
*
90798107 GCTCATACGAGCTAAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
90798132 GCTCATCCGAGCTGAATAACGAGAA
1 GCTCATACGAGCTGAATAACGGGAA
90798157 GCTCATACGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
90798182 GCTAATATGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* * * *
90798207 GTTCATGCAAGCTGAATAATGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* ** *
90798232 GCTCATATGAGCTGAATAGTGAGAA
1 GCTCATACGAGCTGAATAACGGGAA
*
90798257 GCTCA-AGCGAGCTGAATAACGAGAA
1 GCTCATA-CGAGCTGAATAACGGGAA
*
90798282 GCTCATGCGAGCTG
1 GCTCATACGAGCTG
90798296 TGGTGTATCT
Statistics
Matches: 139, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
24 1 0.01
25 138 0.99
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:90805662 original size:21 final size:20
Alignment explanation
Indices: 90805638--90805683 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
90805628 TGAAATGCAA
90805638 TCAACCTGAAA-TGAATTAAAT
1 TCAACCT-AAATTG-ATTAAAT
*
90805659 TCAAACTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
90805679 T-AACC
1 TCAACC
90805684 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:90808386 original size:12 final size:12
Alignment explanation
Indices: 90808371--90808405 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
90808361 TACAGTAACT
*
90808371 GATATAGATTCA
1 GATATAGATGCA
*
90808383 GATACAGATGCA
1 GATATAGATGCA
90808395 GATATAGATGC
1 GATATAGATGC
90808406 GGATTCAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (12 bp):
GATATAGATGCA
Found at i:90812650 original size:20 final size:20
Alignment explanation
Indices: 90812612--90812650 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90812602 AAATATTATG
*
90812612 TAACCAAATCAATTTTCTAA
1 TAACCAAATCAATTATCTAA
90812632 TAACC-AATCAGATTATCTA
1 TAACCAAATCA-ATTATCTA
90812651 GAGTTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
TAACCAAATCAATTATCTAA
Found at i:90813399 original size:43 final size:43
Alignment explanation
Indices: 90813338--90813522 Score: 218
Period size: 43 Copynumber: 4.4 Consensus size: 43
90813328 TTATTTGAAA
* *
90813338 AAACGCCGCTATAGAACATGA-CTTTCAGCAGCAC-TTTCCACAC
1 AAACGCCGCTATAGAACATGACCTTT-AGCGGCGCTTTTCC-CAC
90813381 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
90813424 AAAAGCTGCTATAGAACATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
90813467 GAACGCCACTATAG-ACGTGACTTTTAGTGGCGC-TTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
90813508 AAATG-CGCTATAGAA
1 AAACGCCGCTATAGAA
90813523 TGTGAGCTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 7 0.06
41 12 0.10
42 17 0.14
43 80 0.64
44 9 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:90813533 original size:83 final size:87
Alignment explanation
Indices: 90813345--90813544 Score: 241
Period size: 86 Copynumber: 2.4 Consensus size: 87
90813335 AAAAAACGCC
* *
90813345 GCTATAGAACATGA-CTTTCAGCAGCAC-TTTCCACACAAACGCCGCTATAGAACATGACCTTTA
1 GCTATAGAACATGACCTTT-AGTAGCACTTTTCCACACAAACGCCACTATAGAACATGACCTTTA
90813408 GCGGCGCTTTTCCCACAAAAGCT
65 GCGGCGCTTTTCCCACAAAAGCT
* * * * *
90813431 GCTATAGAACATGACCTTTAGTGGCGCTTTTCC-CACGAACGCCACTATAG-ACGTGACTTTTAG
1 GCTATAGAACATGACCTTTAGTAGCACTTTTCCACACAAACGCCACTATAGAACATGACCTTTAG
* *
90813494 TGGCGC-TTTCCCACAAATGC-
66 CGGCGCTTTTCCCACAAAAGCT
** *
90813514 GCTATAGAATGTGAGCTTTAGTAGCACTTTT
1 GCTATAGAACATGACCTTTAGTAGCACTTTT
90813545 ACTGAAAATG
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
83 26 0.27
84 13 0.13
85 16 0.16
86 34 0.35
87 9 0.09
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
GCTATAGAACATGACCTTTAGTAGCACTTTTCCACACAAACGCCACTATAGAACATGACCTTTAG
CGGCGCTTTTCCCACAAAAGCT
Found at i:90813798 original size:25 final size:25
Alignment explanation
Indices: 90813700--90813792 Score: 168
Period size: 25 Copynumber: 3.7 Consensus size: 25
90813690 CTTCTTGTAA
90813700 CAACCAAAAACAACAAATACAAATC
1 CAACCAAAAACAACAAATACAAATC
*
90813725 CAACCAAAAACAGCAAATACAAATC
1 CAACCAAAAACAACAAATACAAATC
*
90813750 CAACCAAAAACAACAAATATAAATC
1 CAACCAAAAACAACAAATACAAATC
90813775 CAACCAAAAACAACAAAT
1 CAACCAAAAACAACAAAT
90813793 CTAAATAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.63, C:0.27, G:0.01, T:0.09
Consensus pattern (25 bp):
CAACCAAAAACAACAAATACAAATC
Found at i:90817746 original size:7 final size:7
Alignment explanation
Indices: 90817730--90817760 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
90817720 TCAAAACCCC
90817730 TAAA-CA
1 TAAACCA
90817736 TAAACCA
1 TAAACCA
90817743 TAAACCA
1 TAAACCA
90817750 TAAACCA
1 TAAACCA
90817757 TAAA
1 TAAA
90817761 ATCAAAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:90818796 original size:41 final size:41
Alignment explanation
Indices: 90818751--90818835 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
90818741 TTTACGAGAA
* *
90818751 AAATGCATCTAATGCTAGACCTTTTGCAGCGTTTTTCTCAT
1 AAATGCAGCTAATGCTAGACCTTTTGCAGCATTTTTCTCAT
* * * *
90818792 AAATGCCGCTACTGCTTGACCTTTTGTAGCATTTTTCTCAT
1 AAATGCAGCTAATGCTAGACCTTTTGCAGCATTTTTCTCAT
90818833 AAA
1 AAA
90818836 CGCCACTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (41 bp):
AAATGCAGCTAATGCTAGACCTTTTGCAGCATTTTTCTCAT
Found at i:90819288 original size:24 final size:24
Alignment explanation
Indices: 90819260--90819305 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
90819250 TCACCCTAAC
90819260 GCATACTTTGGTTCACGTTTCCAT
1 GCATACTTTGGTTCACGTTTCCAT
90819284 GCATACTTTGGTTCACGTTTCC
1 GCATACTTTGGTTCACGTTTCC
90819306 GTCGTCGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (24 bp):
GCATACTTTGGTTCACGTTTCCAT
Found at i:90822966 original size:20 final size:18
Alignment explanation
Indices: 90822926--90822973 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
90822916 AATATTTAAT
90822926 ATATAAT-AAAATAAATA
1 ATATAATAAAAATAAATA
*
90822943 ATATAATAAAAATATATATC
1 ATATAATAAAAATA-A-ATA
90822963 ATATAATAAAA
1 ATATAATAAAA
90822974 TTTTTAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 1 0.04
20 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAATAAAAATAAATA
Found at i:90823068 original size:12 final size:12
Alignment explanation
Indices: 90823051--90823096 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
90823041 TAATTTTTAT
90823051 ATAATAAAATAA
1 ATAATAAAATAA
* *
90823063 ATAATATACATAC
1 ATAATA-AAATAA
*
90823076 ATAATAAAATAT
1 ATAATAAAATAA
90823088 ATAATAAAA
1 ATAATAAAA
90823097 GAGAAGATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATAA
Found at i:90823248 original size:19 final size:18
Alignment explanation
Indices: 90823226--90823275 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
90823216 ATATATAATT
90823226 TATAAAAAATATAAAGAAA
1 TATAAAAAATATAAA-AAA
* *
90823245 TAT-ATAAA-ATAAAATA
1 TATAAAAAATATAAAAAA
90823261 TATAATAAAATATAA
1 TATAA-AAAATATAA
90823276 TTTATAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 7 0.28
19 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
TATAAAAAATATAAAAAA
Found at i:90823261 original size:14 final size:12
Alignment explanation
Indices: 90823205--90823274 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 12
90823195 TTATAAATTT
90823205 AATATATAATAA
1 AATATATAATAA
* *
90823217 TATATAATTTATAA
1 AATAT-A-TAATAA
*
90823231 AAAATATAA-AGA
1 AATATATAATA-A
90823243 AATATATAAAATAA
1 AATATAT--AATAA
90823257 AATATATAATAA
1 AATATATAATAA
90823269 AATATA
1 AATATA
90823275 ATTTATAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 1 0.02
12 24 0.52
13 2 0.04
14 18 0.39
15 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (12 bp):
AATATATAATAA
Found at i:90824917 original size:41 final size:41
Alignment explanation
Indices: 90824872--90825008 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
90824862 CACAGAGATA
90824872 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
* * * * *
90824913 CCAAATCAGCTATGTCTTCGATCTGCTCTC--CGTCGAACAC-AGAGATG
1 CCAAAT---C-A--TCTTAGATTTGCT-TCAACGT-AAACACGTGA-AAG
*
90824960 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
*
90825001 TCAAATCA
1 CCAAATCA
90825009 GCTATGTCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
40 2 0.03
41 31 0.43
42 4 0.06
43 1 0.01
44 2 0.03
45 1 0.01
46 5 0.07
47 24 0.33
48 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
Found at i:90824990 original size:88 final size:88
Alignment explanation
Indices: 90824841--90825074 Score: 405
Period size: 88 Copynumber: 2.7 Consensus size: 88
90824831 TGTCGATATT
* * *
90824841 TTCGATCGGCTCTCCGTCGAACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACAC
90824906 GTGAAAGCCAAATCAGCTATGTC
66 GTGAAAGCCAAATCAGCTATGTC
90824929 TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACAC
1 TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACAC
*
90824994 GTGAAAGTCAAATCAGCTATGTC
66 GTGAAAGCCAAATCAGCTATGTC
* * *
90825017 TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTGGATCTGCCTCAATG
1 TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAATG
90825075 AAGGTCAAAT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 139 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (88 bp):
TTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACAC
GTGAAAGCCAAATCAGCTATGTC
Found at i:90825153 original size:45 final size:45
Alignment explanation
Indices: 90825093--90825541 Score: 512
Period size: 45 Copynumber: 10.2 Consensus size: 45
90825083 ATCTGCTACG
* * * * *
90825093 TCTTCGATCTGCTCCCCATCGAATACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * *
90825138 TCTTGGATCTACTCCCCATCCATTATAGAGAGATAAGATCTCTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
90825183 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATACGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
90825228 TCTTGTATCTACTCCCCATCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * *
90825273 TCTTGGATCTGC-CCCCGTCCATTAC--AGAGATAAGATCCGCCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * * *
90825315 TCTTGGATCT--GCCCCG---A-T---GA-AGGTCAA-ATTTGCTACG
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGAT-AAGATCTG-T-CA
* * * * * *
90825352 TCTTCGATCTGCTTCCCGTCGAATACAGAGAGATAAGAGCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
90825397 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
90825442 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
90825487 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTATCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
90825532 TATTAGATCT
1 TCTTGGATCT
90825542 GCCCCCCGAT
Statistics
Matches: 345, Mismatches: 43, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
35 6 0.02
36 3 0.01
37 11 0.03
38 1 0.00
39 4 0.01
41 5 0.01
42 26 0.08
43 1 0.00
44 12 0.03
45 265 0.77
46 5 0.01
47 6 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
Found at i:90825351 original size:259 final size:259
Alignment explanation
Indices: 90825054--90825547 Score: 853
Period size: 259 Copynumber: 1.9 Consensus size: 259
90825044 GATGCCAAAT
*
90825054 CATCTTGGATCTGCCTCAATGAAGGTCAAATCTGCTACGTCTTCGATCTGCTCCCCATCGAATAC
1 CATCTTGGATCTGCCCCAATGAAGGTCAAATCTGCTACGTCTTCGATCTGCTCCCCATCGAATAC
* *
90825119 AGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCATCCATTATAGAGAGATAAGATCTCTCAT
66 AGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTCTCAT
* *
90825184 CTTGGATCTACTCCCCGTCCATTACGGAGAGATACGATCTGTCATCTTGTATCTACTCCCCATCC
131 CTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCATCC
* * *
90825249 ATTACAGAGAGATAAGATCTGTCATCTTGGATCTGCCCCCGTCCATTACAGAGATAAGATCCGC
196 ATTACAGAGAGATAAGATCTATCATATTAGATCTGCCCCCGTCCATTACAGAGATAAGATCCGC
* * * *
90825313 CATCTTGGATCTGCCCCGATGAAGGTCAAATTTGCTACGTCTTCGATCTGCTTCCCGTCGAATAC
1 CATCTTGGATCTGCCCCAATGAAGGTCAAATCTGCTACGTCTTCGATCTGCTCCCCATCGAATAC
* *
90825378 AGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCAT
66 AGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTCTCAT
*
90825443 CTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC
131 CTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCATCC
90825508 ATTACAGAGAGATAAGATCTATCATATTAGATCTGCCCCC
196 ATTACAGAGAGATAAGATCTATCATATTAGATCTGCCCCC
90825548 CGATGAAGGT
Statistics
Matches: 220, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
259 220 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (259 bp):
CATCTTGGATCTGCCCCAATGAAGGTCAAATCTGCTACGTCTTCGATCTGCTCCCCATCGAATAC
AGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTCTCAT
CTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCATCC
ATTACAGAGAGATAAGATCTATCATATTAGATCTGCCCCCGTCCATTACAGAGATAAGATCCGC
Found at i:90825409 original size:169 final size:171
Alignment explanation
Indices: 90825183--90825496 Score: 488
Period size: 169 Copynumber: 1.8 Consensus size: 171
90825173 AGATCTCTCA
* * * * * *
90825183 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATACGATCTGTCATCTTGTATCTACTCCCCATC
1 TCTTCGATCTACTCCCCGTCCAATACAGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATC
*
90825248 CATTACAGAGAGATAAGATCTGTCATCTTGGATCTGC-CCCCGTCCATTAC-AGAGATAAGATCC
66 CATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACGAGAGATAAGATCC
90825311 GCCATCTTGGATCTGCCCCGATGAAGGTCAAATTTGCTACG
131 GCCATCTTGGATCTGCCCCGATGAAGGTCAAATTTGCTACG
* * * *
90825352 TCTTCGATCTGCTTCCCGTCGAATACAGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCGTC
1 TCTTCGATCTACTCCCCGTCCAATACAGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATC
90825417 CATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATC
66 CATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTAC-GAGAGATAAGATC
* *
90825482 TGTCATCTTGGATCT
130 CGCCATCTTGGATCT
90825497 ACTCCCCGTC
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
169 91 0.71
170 13 0.10
172 25 0.19
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (171 bp):
TCTTCGATCTACTCCCCGTCCAATACAGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCATC
CATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACGAGAGATAAGATCC
GCCATCTTGGATCTGCCCCGATGAAGGTCAAATTTGCTACG
Found at i:90825430 original size:214 final size:217
Alignment explanation
Indices: 90825164--90825662 Score: 661
Period size: 214 Copynumber: 2.3 Consensus size: 217
90825154 CATCCATTAT
* * *
90825164 AGAGAGATAAGATCTCTCATCTTGGATCTACTCCCCGTCCATTACGGAGAGATACGATCTGTCAT
1 AGAGAGATAAGATCTATCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCAT
* *
90825229 CTTGTATCTACTCCCCATCCATTACAGAGAGATAAGATCTGTCATCTTGGATCTGC-CCCCGTCC
66 CTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC
* * * * * *
90825293 ATTAC-AGAGATAAGATCCGCCATCTTGGATCTG-CCCCGATGAAGGTCAAATTTGCTACGTCTT
131 ATTACAAGAGATAAGATCCACCATATTAGATCTGCCCCCGATGAAGGTCAAATCTACTACATCTT
* * *
90825356 CGATCTGCTTCCC-GTCGAATAC
196 CAATCTG-TTCCCTATCAAATAC
* *
90825378 AGAGAGATAAGAGCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCAT
1 AGAGAGATAAGATCTATCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCAT
* *
90825443 CTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC
66 CTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC
* * * * *
90825508 ATTACAGAGAGATAAGATCTATCATATTAGATCTGCCCCCCGATGAAGGTCAGATCTATTATATC
131 ATTACA-AGAGATAAGATCCACCATATTAGATCTG-CCCCCGATGAAGGTCAAATCTACTACATC
90825573 TTCAATCTGTTCCCTATCAAATAC
194 TTCAATCTGTTCCCTATCAAATAC
* * * * *
90825597 AGAGAGATAAGATCTATCATTTTGGATCTGCT--CCGTCTATTTCAAAGAGATAAGATCT-TCTA
1 AGAGAGATAAGATCTATCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTC-A
90825659 TCTT
65 TCTT
90825663 CAACTTGTTC
Statistics
Matches: 249, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
214 113 0.45
215 13 0.05
216 2 0.01
217 51 0.20
218 5 0.02
219 65 0.26
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (217 bp):
AGAGAGATAAGATCTATCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCAT
CTTGGATCTACTCCCCATCCATTACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC
ATTACAAGAGATAAGATCCACCATATTAGATCTGCCCCCGATGAAGGTCAAATCTACTACATCTT
CAATCTGTTCCCTATCAAATAC
Found at i:90826526 original size:17 final size:17
Alignment explanation
Indices: 90826500--90826535 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
90826490 GAAAATGGCA
90826500 TTTTTAATTTATTTTCC
1 TTTTTAATTTATTTTCC
* *
90826517 TTTTTTATTTTTTTTCC
1 TTTTTAATTTATTTTCC
90826534 TT
1 TT
90826536 CGGCTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTAATTTATTTTCC
Found at i:90828950 original size:131 final size:130
Alignment explanation
Indices: 90828709--90828950 Score: 353
Period size: 131 Copynumber: 1.8 Consensus size: 130
90828699 GAAAAATGAG
* * * *
90828709 ATTCGATGTTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTC
1 ATTCGATATTTAGTAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTC
* * * *
90828774 AAAATAATCGAATATCGCTTTGAAATTTCATTCATGTTTGTTAAAATTCTCCCAAACGAAGACGA
66 AAAATAATCGAATATCCCTTTG-AATTTCATTCATATCTGCTAAAATTCTCCCAAACGAAGACGA
90828839 C
130 C
90828840 ATTCGATATTTAGTAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTC
1 ATTCGATATTTAGTAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTC
*
90828905 AAAATAATCGAGTATCCCTTCATG-ATTTCATTCATATCCT-CTAAAA
66 AAAATAATCGAATATCCCTT--TGAATTTCATTCATAT-CTGCTAAAA
90828951 ATTTTTAAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
131 96 0.97
132 1 0.01
133 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (130 bp):
ATTCGATATTTAGTAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTC
AAAATAATCGAATATCCCTTTGAATTTCATTCATATCTGCTAAAATTCTCCCAAACGAAGACGAC
Found at i:90840970 original size:44 final size:44
Alignment explanation
Indices: 90840870--90841158 Score: 371
Period size: 44 Copynumber: 6.5 Consensus size: 44
90840860 GGCAAATCCT
* *
90840870 GCAGATTTGGCATCTCTGAATTGTCAGAGAGCAGATTCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAGATA
* * * * *
90840915 GCAAATTTGGCGTCTCTATATTGGCAGAGAGTAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
90840959 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
90841003 GCAGATTTGGCATTTCTGTATTGGCGGAGAACAGATCGAAGACA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
90841047 GCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAGATA
* * * *
90841092 GCAGATTTGGCATCTCTGTGTCGGCGGAGAGCAGATCGAAGAAA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
90841136 GCAGATTTGGTATCTCTGTATTG
1 GCAGATTTGGCATCTCTGTATTG
90841159 TCTCATGTCT
Statistics
Matches: 210, Mismatches: 33, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
44 144 0.69
45 66 0.31
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:90841120 original size:89 final size:89
Alignment explanation
Indices: 90840870--90841160 Score: 404
Period size: 89 Copynumber: 3.3 Consensus size: 89
90840860 GGCAAATCCT
* * * *
90840870 GCAGATTTGGCATCTCTGAATTGTCAGAGAGCAGATTCGAAGATAGCAAATTTGGCGTCTCTATA
1 GCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTCGAAGATAGCAGATTTGGCATCTCTGTA
* * * *
90840935 TTGGCAGAGAGTAGATCAAAGATA
66 TTGGCGGAGAGCAGATCGAAGAAA
* * * *
90840959 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGA-TCGAAGATAGCAGATTTGGCATTTCTGTA
1 GCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTCGAAGATAGCAGATTTGGCATCTCTGTA
* *
90841023 TTGGCGGAGAACAGATCGAAGACA
66 TTGGCGGAGAGCAGATCGAAGAAA
* * *
90841047 GCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTCGAAGATAGCAGATTTGGCATCTCTGTG
1 GCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTCGAAGATAGCAGATTTGGCATCTCTGTA
*
90841112 TCGGCGGAGAGCAGATCGAAGAAA
66 TTGGCGGAGAGCAGATCGAAGAAA
*
90841136 GCAGATTTGGTATCTCTGTATTGTC
1 GCAGATTTGGCATCTCTGTATTGTC
90841161 TCATGTCTTT
Statistics
Matches: 177, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 76 0.43
89 101 0.57
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (89 bp):
GCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTCGAAGATAGCAGATTTGGCATCTCTGTA
TTGGCGGAGAGCAGATCGAAGAAA
Found at i:90841307 original size:44 final size:44
Alignment explanation
Indices: 90841206--90841606 Score: 491
Period size: 44 Copynumber: 9.1 Consensus size: 44
90841196 AATCCTGCAA
* * * *
90841206 ATTTGGCATCTCTATATTGTCAGAGAGCAGATTCGAAGATAGTAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGA-TCGAAGATAGCAG
90841251 ATTTGG-AGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCA-TCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
*
90841295 ATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * * *
90841339 ATTTGGCGTCTCTGTATCGGCGAAGAGCAGATCAAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * * * *
90841383 ATTTGGCATCTCTGTATTGTCAGAAAGTAGTTTCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAG-ATCGAAGATAGCAG
* *
90841428 ATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * * * *
90841472 ATTTGGCGTCTCTCTGTTGGCGAAGAGCAGATCGAAGAAAGCAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
* * * * *
90841516 ATTTGGCACCTCTGTATTGTCAGAGGGCAGATCGAAG-TCAGTAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGAT-AGCAG
* * *
90841560 ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAACAG
1 ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
90841604 ATT
1 ATT
90841607 GGTGTTCCCG
Statistics
Matches: 305, Mismatches: 46, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
44 240 0.79
45 65 0.21
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (44 bp):
ATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
Found at i:90841432 original size:177 final size:177
Alignment explanation
Indices: 90841206--90841606 Score: 547
Period size: 177 Copynumber: 2.3 Consensus size: 177
90841196 AATCCTGCAA
* * * *
90841206 ATTTGGCATCTCTATATTGTCAGAGAGCAGATTCGAAGATAGTAGATTTGGAGTCTCTGTATTGG
1 ATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAGATAGCAGATTTGGAGTCTCTGTATTGA
* * *
90841271 CGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAG
66 CGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTCTATTAGCGAAGAGCAGATCGAAGAAAG
**
90841336 CAGATTTGGCGTCTCTGTATCGGC-GAAGAGCAGATCAAAGAT-AGCAG
131 CAGATTTGGCACCTCTGTATCGGCAG-AGAGCAGATCAAAG-TCAGCAG
* * *
90841383 ATTTGGCATCTCTGTATTGTCAGAAAGTAGTTTCGAAGATAGCAGATTTGGCGTCTCTGTATTGA
1 ATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAGATAGCAGATTTGGAGTCTCTGTATTGA
* * *
90841448 CGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTCTGTTGGCGAAGAGCAGATCGAAGAAAG
66 CGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTCTATTAGCGAAGAGCAGATCGAAGAAAG
* * * * *
90841513 CAGATTTGGCACCTCTGTATTGTCAGAGGGCAGATCGAAGTCAGTAG
131 CAGATTTGGCACCTCTGTATCGGCAGAGAGCAGATCAAAGTCAGCAG
* * * *
90841560 ATTTGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAAATAACAGATT
1 ATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAGATAGCAGATT
90841607 GGTGTTCCCG
Statistics
Matches: 196, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
176 15 0.08
177 180 0.92
178 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (177 bp):
ATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAGATAGCAGATTTGGAGTCTCTGTATTGA
CGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTCTATTAGCGAAGAGCAGATCGAAGAAAG
CAGATTTGGCACCTCTGTATCGGCAGAGAGCAGATCAAAGTCAGCAG
Found at i:90841442 original size:332 final size:332
Alignment explanation
Indices: 90840829--90841477 Score: 1030
Period size: 332 Copynumber: 2.0 Consensus size: 332
90840819 ATTCTACACA
* *
90840829 TCATGTCTTTAGAAGACAGTGTAGCGATATTGGCAAATCCTGCAGATTTGGCATCTCTGAATTGT
1 TCATGTCTTTAGAAGACAGTGTAGCGACATTGGCAAATCCTGCAAATTTGGCATCTCTGAATTGT
* *
90840894 CAGAGAGCAGATTCGAAGATAGCAAATTTGGCGTCTCTATATTGGCAGAGAGTAGATCAAAGATA
66 CAGAGAGCAGATTCGAAGATAGCAAATTTGGAGTCTCTATATTGGCAGAGAGCAGATCAAAGATA
* * *
90840959 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTAT
131 GCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
* * * * *
90841024 TGGCGGAGAACAGATCGAAGACAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTCGAAG
196 CGGCGAAGAACAGATCAAAGACAGCAAATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAG
* *
90841089 ATAGCAGATTTGGCATCTCTGTGTCGGCGGAGAGCAGATCGAAGAAAGCAGATTTGGTATCTCTG
261 ATAGCAGATTTGGCATCTCTGTATCGACGGAGAGCAGATCGAAGAAAGCAGATTTGGTATCTCTG
90841154 TATTGTC
326 TATTGTC
90841161 TCATGTCTTTAGAAGACAGTGTAGCGACATTGGCAAATCCTGCAAATTTGGCATCTCT-ATATTG
1 TCATGTCTTTAGAAGACAGTGTAGCGACATTGGCAAATCCTGCAAATTTGGCATCTCTGA-ATTG
* * * * *
90841225 TCAGAGAGCAGATTCGAAGATAGTAGATTTGGAGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
65 TCAGAGAGCAGATTCGAAGATAGCAAATTTGGAGTCTCTATATTGGCAGAGAGCAGATCAAAGAT
*
90841290 AGCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTA
130 AGCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * * * *
90841355 TCGGCGAAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAAAGTAGTTTCGAA
195 TCGGCGAAGAACAGATCAAAGACAGCAAATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAA
* * *
90841420 GATAGCAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGATAGCAGATTTGG
260 GATAGCAGATTTGGCATCTCTGTATCGACGGAGAGCAGATCGAAGAAAGCAGATTTGG
90841478 CGTCTCTCTG
Statistics
Matches: 288, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
331 1 0.00
332 287 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (332 bp):
TCATGTCTTTAGAAGACAGTGTAGCGACATTGGCAAATCCTGCAAATTTGGCATCTCTGAATTGT
CAGAGAGCAGATTCGAAGATAGCAAATTTGGAGTCTCTATATTGGCAGAGAGCAGATCAAAGATA
GCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTAT
CGGCGAAGAACAGATCAAAGACAGCAAATTTGGCATCTCTGTATTGTCAGAAAGCAGATTCGAAG
ATAGCAGATTTGGCATCTCTGTATCGACGGAGAGCAGATCGAAGAAAGCAGATTTGGTATCTCTG
TATTGTC
Found at i:90843332 original size:8 final size:8
Alignment explanation
Indices: 90843319--90843344 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
90843309 ATGTAACTAT
90843319 ATATATAC
1 ATATATAC
90843327 ATATATAC
1 ATATATAC
90843335 ATATATAC
1 ATATATAC
90843343 AT
1 AT
90843345 CTATCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:90844651 original size:131 final size:133
Alignment explanation
Indices: 90844459--90844698 Score: 369
Period size: 131 Copynumber: 1.8 Consensus size: 133
90844449 AAGTATTCTT
* * * * *
90844459 TTAAAAGTTCTTCAAAACGAAAAACGAGATTCGATGTTTGATAATTCGCGGAATCGTGCCCTAAC
1 TTAAAAGTTCTCCAAAACGAAAAACGACATTCGATATTTGATAATTCACGGAATCGAGCCCTAAC
*
90844524 GTGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCGCTTTGAAATTTCATTCATGT
66 GTGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATCGCTTTGAAATTTCATTCATGT
90844589 TTG
131 TTG
* *
90844592 TTAAAA-TTCTCCCAAACG-AAGACGACATTCGATATTT-AGTAATTCACGGAATCGAGCCCTAA
1 TTAAAAGTTCTCCAAAACGAAAAACGACATTCGATATTTGA-TAATTCACGGAATCGAGCCCTAA
*
90844654 CGTGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAGTATC
65 CGTGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATC
90844699 CCTTCATGAT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.01
131 80 0.82
132 10 0.10
133 6 0.06
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (133 bp):
TTAAAAGTTCTCCAAAACGAAAAACGACATTCGATATTTGATAATTCACGGAATCGAGCCCTAAC
GTGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATCGCTTTGAAATTTCATTCATGT
TTG
Found at i:90844728 original size:131 final size:131
Alignment explanation
Indices: 90844473--90844728 Score: 340
Period size: 131 Copynumber: 1.9 Consensus size: 131
90844463 AAGTTCTTCA
* * * *
90844473 AAACGAAAAACGAGATTCGATGTTTGATAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAA
1 AAACGAAAAACGACATTCGATATTTGATAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAA
* * * * *
90844538 TTTCGCGTTTGCTCAAAATAATCGAATATCGCTTTGAAATTTCATTCATGTTTGTTAAAATTCTC
66 TTCCGCGTTTGCTCAAAATAATCGAATATCCCTTTG-AATTTCATTCATATCTGCTAAAATTCTC
90844603 CC
130 CC
*
90844605 AAACG-AAGACGACATTCGATATTT-AGTAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACA
1 AAACGAAAAACGACATTCGATATTTGA-TAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACA
*
90844668 ATTCCGCGTTTGCTCAAAATAATCGAGTATCCCTTCATG-ATTTCATTCATATCCT-CTAAAA
65 ATTCCGCGTTTGCTCAAAATAATCGAATATCCCTT--TGAATTTCATTCATAT-CTGCTAAAA
90844729 ATTTTTAAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
130 1 0.01
131 100 0.92
132 6 0.06
133 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
AAACGAAAAACGACATTCGATATTTGATAATTCACGGAATCGAGCCCTAACGTGTTGGGTTACAA
TTCCGCGTTTGCTCAAAATAATCGAATATCCCTTTGAATTTCATTCATATCTGCTAAAATTCTCC
C
Found at i:90844767 original size:131 final size:130
Alignment explanation
Indices: 90844460--90844767 Score: 298
Period size: 131 Copynumber: 2.3 Consensus size: 130
90844450 AGTATTCTTT
* * * * * * * *
90844460 TAAAAGTTCTTCAAAACGAAAAACGAGATTCGATGTTTGATAATTCGCGGAATCGTGCCCTAACG
1 TAAAAATTCTCCAAAAC-AAAGACAACATTCGACGTTTGATAATTCACGGAATCGAGCCCTAACG
* * * *
90844525 TGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCGCTTTGAAATTTCATTCATGTT
65 TGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATCCCTTTG-AATTTCATTCATATC
*
90844590 TG
129 TC
* * * * **
90844592 TTAAAATTCTCCCAAACGAAGACGACATTCGATATTT-AGTAATTCACGGAATCGAGCCCTAACG
1 TAAAAATTCTCCAAAACAAAGACAACATTCGACGTTTGA-TAATTCACGGAATCGAGCCCTAACG
*
90844656 TGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAGTATCCCTTCATG-ATTTCATTCATAT
65 TGTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATCCCTT--TGAATTTCATTCATAT
90844720 CCTC
128 -CTC
** * * * * *
90844724 TAAAAATT-TTTAAAACAAAGGCAATATTTGGCGTTTGACAATTC
1 TAAAAATTCTCCAAAACAAAGACAACATTCGACGTTTGATAATTC
90844768 GAGAATCATG
Statistics
Matches: 142, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.01
131 117 0.82
132 22 0.15
133 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (130 bp):
TAAAAATTCTCCAAAACAAAGACAACATTCGACGTTTGATAATTCACGGAATCGAGCCCTAACGT
GTTGGGTTACAATTCCGCGTTTGCTCAAAATAATCGAATATCCCTTTGAATTTCATTCATATCTC
Found at i:90848821 original size:40 final size:40
Alignment explanation
Indices: 90848776--90849168 Score: 438
Period size: 40 Copynumber: 9.8 Consensus size: 40
90848766 TATAACCACA
* * *
90848776 AGCACAATTGCCCTCGGGTCTTAGCTCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
*
90848816 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
* *
90848856 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
* * *
90848896 AGCACAATTGCCTTCGGGTCTTATCCCGTG-TATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCG-GATATATCAACT
* * *
90848936 CGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
* * *
90848976 AGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGT-AACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATA-TCAACT
* *
90849016 AGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
* * * * *
90849056 AGCACAATTGCCTTCGGGTCTTATCCTGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
* * *
90849096 CGCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
* * *
90849136 AGCACAATTGCCTTCGGGACTTAGCCTGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
90849169 CATTCAAATG
Statistics
Matches: 293, Mismatches: 49, Indels: 23
0.80 0.13 0.06
Matches are distributed among these distances:
39 10 0.03
40 270 0.92
41 13 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
Found at i:90848880 original size:80 final size:80
Alignment explanation
Indices: 90848777--90849168 Score: 590
Period size: 80 Copynumber: 4.9 Consensus size: 80
90848767 ATAACCACAA
* * * * * * * *
90848777 GCACAATTGCCCTCGGGTCTTAGCTCGGAT-ATATCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTATC
*
90848841 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
*
90848857 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
90848922 CGTG-TATAGCAACTC
66 CG-GATATAGCAACTC
90848937 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
* * *
90849002 CGGGTATAGTAACTA
66 CGGATATAGCAACTC
90849017 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
* *
90849082 TGGGTATAGCAACTC
66 CGGATATAGCAACTC
* *
90849097 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
*
90849162 TGGATAT
66 CGGATAT
90849169 CATTCAAATG
Statistics
Matches: 292, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
79 1 0.00
80 286 0.98
81 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
CGGATATAGCAACTC
Found at i:90850230 original size:26 final size:24
Alignment explanation
Indices: 90850195--90850242 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
90850185 AGAAAGAAGA
90850195 AAAAAAATATATGTGCTAAGAGCT
1 AAAAAAATATATGTGCTAAGAGCT
90850219 AAAAAAATATATGTGCTAAGAGCT
1 AAAAAAATATATGTGCTAAGAGCT
90850243 TTCAACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (24 bp):
AAAAAAATATATGTGCTAAGAGCT
Found at i:90855658 original size:19 final size:19
Alignment explanation
Indices: 90855601--90855659 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
90855591 AAGTATTTTG
*
90855601 CATATAAAAATAT-GATAA
1 CATATAAAAATATATATAA
*
90855619 CATAATTAATATATAATATATAA
1 CAT-A-TAA-AAAT-ATATATAA
90855642 CATATAAAAATATATATA
1 CATATAAAAATATATATA
90855660 TAATAAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 6 0.18
21 6 0.18
22 3 0.09
23 7 0.21
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
CATATAAAAATATATATAA
Found at i:90855852 original size:20 final size:19
Alignment explanation
Indices: 90855802--90855859 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
90855792 ATAATGTAAC
*
90855802 AAATATTTATATATAAT-A
1 AAATATATATATATAATAA
*
90855820 AAATAAATA-ATATAATAA
1 AAATATATATATATAATAA
90855838 AAATATATATCATATAATAA
1 AAATATATAT-ATATAATAA
90855858 AA
1 AA
90855860 TTTTTAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.21
18 16 0.47
20 11 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATATATATATAATAA
Found at i:90855978 original size:13 final size:13
Alignment explanation
Indices: 90855934--90855983 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
90855924 GAGTAATTTT
90855934 TATATAAT-AAAA
1 TATATAATAAAAA
* * *
90855946 TAAATAATATACA
1 TATATAATAAAAA
*
90855959 TACATAATAAAAA
1 TATATAATAAAAA
90855972 TATATAATAAAA
1 TATATAATAAAA
90855984 GAGAAGATGC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 7 0.23
13 23 0.77
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (13 bp):
TATATAATAAAAA
Found at i:90856224 original size:23 final size:21
Alignment explanation
Indices: 90856196--90856242 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
90856186 ATGGATAATA
90856196 AAAATAAT-ATATATAACTATTAT
1 AAAATAATAATA-ATAA-TA-TAT
90856219 AAAATAATAATAATAATATAT
1 AAAATAATAATAATAATATAT
90856240 AAA
1 AAA
90856243 GTATTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
23 12 0.52
24 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAATAATAATAATATAT
Found at i:90856264 original size:28 final size:31
Alignment explanation
Indices: 90856190--90856276 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 31
90856180 AATGTAATGG
* *
90856190 ATAATAAAAATAATATATATAACTATTATAAA
1 ATAATAATAATAATATATA-AAGTATTATAAA
90856222 ATAATAATAATAATATATAAAGTATT-TAAA
1 ATAATAATAATAATATATAAAGTATTATAAA
* * * *
90856252 GTAA-ATTAA-AATATAAAAAGGATTA
1 ATAATAATAATAATATATAAAGTATTA
90856277 AAATTGAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
28 13 0.27
29 4 0.08
30 7 0.15
31 6 0.12
32 18 0.38
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (31 bp):
ATAATAATAATAATATATAAAGTATTATAAA
Found at i:90863301 original size:30 final size:30
Alignment explanation
Indices: 90863260--90863324 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
90863250 TCTTTTAATT
* ** *
90863260 AAATAATCACTACCGATTCAAACATTGTAG
1 AAATAACCACTACCGAAGCAAACATTCTAG
*
90863290 AAATAACCACTATCGAAGCAAACATTCTAG
1 AAATAACCACTACCGAAGCAAACATTCTAG
90863320 AAATA
1 AAATA
90863325 GCAACATTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (30 bp):
AAATAACCACTACCGAAGCAAACATTCTAG
Found at i:90864962 original size:17 final size:17
Alignment explanation
Indices: 90864940--90864973 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90864930 ATATCATATC
90864940 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
90864957 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
90864974 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:90866060 original size:205 final size:205
Alignment explanation
Indices: 90865607--90866517 Score: 1440
Period size: 205 Copynumber: 4.5 Consensus size: 205
90865597 AAATCTGTTT
* * *
90865607 CTTCGATTTGTTCTCT-AACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCGGTGTAAGCA
1 CTTCGATTTGTTCTCTGAA-AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA
* * *
90865671 CGCGAAAACCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
90865736 TGGATCTGCTTCAG--T---CATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
130 TGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
90865796 GAGATGCCAGA
195 GAGATGCCAGA
* * * * *
90865807 CTTCGATTTGTTCTTTGATAATGCAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
90865872 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
90865937 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-ACAATG
131 GGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGA-AATG
90866001 GAGATGCCAGA
195 GAGATGCCAGA
90866012 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
90866077 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
90866142 GGATCTACTTTAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
90866207 AGGTGCCAGA
196 AGATGCCAGA
* * *
90866217 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAATCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* * * * *
90866282 GTGAAAGGCAAATCAGCAATGTCTGCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * * * *
90866347 AGATCTACTTCAGTATAAACATTTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
90866412 AGATGCCAGA
196 AGATGCCAGA
* *
90866422 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
90866487 GTGAAAGTCAAATCAGCTATGTCTTCGATTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTT
90866518 ACTTTCCGCC
Statistics
Matches: 658, Mismatches: 45, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
200 132 0.20
201 1 0.00
202 1 0.00
204 1 0.00
205 522 0.79
206 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:90866546 original size:46 final size:45
Alignment explanation
Indices: 90866493--90866600 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
90866483 ACACGTGAAA
* * * *
90866493 GTCAAATCAGCTATGTCTTCGATTTACTTTCCGCCAATACAGAGAT
1 GTCAAATCTGCTAT-TCTTCGATCTACTCTCCGACAATACAGAGAT
* * *
90866539 GTCAAATCTGGTA-TCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GTCAAATCTGCTATTCTTCGATCTACTCTCCGACAATACAGAGAT
*
90866583 GCCAAATCTGCTA-TCTTC
1 GTCAAATCTGCTATTCTTC
90866601 AACTTGTTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 42 0.79
46 11 0.21
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (45 bp):
GTCAAATCTGCTATTCTTCGATCTACTCTCCGACAATACAGAGAT
Found at i:90866559 original size:44 final size:44
Alignment explanation
Indices: 90866508--90866600 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
90866498 ATCAGCTATG
* * * * *
90866508 TCTTCGATTTACTTTCCGCCAATACAGAGATGTCAAATCTGGTA
1 TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
* *
90866552 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
90866596 TCTTC
1 TCTTC
90866601 AACTTGTTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (44 bp):
TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
Found at i:90866628 original size:44 final size:44
Alignment explanation
Indices: 90866531--90866723 Score: 151
Period size: 44 Copynumber: 4.4 Consensus size: 44
90866521 TTCCGCCAAT
* * * * * * *
90866531 ACAGAGATGTCAAATCTGGTATCTTCGATCTGCTCTCTGACAA-T
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAGC
* *
90866575 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAGC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAGC
** * *
90866619 ACAGGGATGCC--ATGCTGAAATCTTCGATCTGTTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAGC
* * * * **
90866663 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTTCCTATAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGC
90866707 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
90866724 TATTTCTTTG
Statistics
Matches: 117, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.02
43 16 0.14
44 82 0.70
45 15 0.13
46 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAGC
Found at i:90867540 original size:1 final size:1
Alignment explanation
Indices: 90867530--90867605 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
90867520 GGCCTTTCCA
* * * * * * ** *
90867530 TTTTTCTTTTTTTTTCTTTTTTTTTTTATTTTTATTTTTATTATTTCCTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
90867595 CCTTTTTTTTT
1 TTTTTTTTTTT
90867606 GAAATAGAAG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:90867551 original size:12 final size:12
Alignment explanation
Indices: 90867536--90867605 Score: 61
Period size: 12 Copynumber: 5.6 Consensus size: 12
90867526 TCCATTTTTC
*
90867536 TTTTTTTTTCTT
1 TTTTTTTTTATT
90867548 TTTTTTTTTATT
1 TTTTTTTTTATT
*
90867560 TTTATTTTTATT
1 TTTTTTTTTATT
90867572 ATTTCCTTTTTT-TT
1 -TTT--TTTTTTATT
**
90867586 TTCTTTTTTCCTT
1 TT-TTTTTTTATT
90867599 TTTTTTT
1 TTTTTTT
90867606 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 32 0.65
13 9 0.18
14 3 0.06
15 5 0.10
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:90867561 original size:19 final size:19
Alignment explanation
Indices: 90867530--90867605 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
90867520 GGCCTTTCCA
*
90867530 TTTTTCTTTTTTTTTCTTTT
1 TTTTTCTTTTTTTTT-TTAT
*
90867550 TTTTTTTATTTTTATTTTTAT
1 TTTTTCT-TTTTT-TTTTTAT
* * *
90867571 TATTTCCTTTTTTTTTTCT
1 TTTTTCTTTTTTTTTTTAT
90867590 TTTTTCCTTTTTTTTT
1 TTTTT-CTTTTTTTTT
90867606 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 10 0.22
20 20 0.44
21 12 0.27
22 3 0.07
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTAT
Found at i:90874452 original size:19 final size:19
Alignment explanation
Indices: 90874410--90874470 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90874400 CATATCATAT
90874410 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
90874428 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90874446 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90874465 CATATC
1 CATATC
90874471 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:90896329 original size:79 final size:82
Alignment explanation
Indices: 90896218--90896402 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
90896208 GCTACTCGTT
* * *
90896218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
90896281 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
90896298 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
90896361 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
90896378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90896403 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:90896402 original size:40 final size:40
Alignment explanation
Indices: 90896199--90896402 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
90896189 CGGAATTTAA
** *
90896199 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
90896239 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90896279 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90896318 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90896358 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90896398 CCGGA
1 CCGGA
90896403 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90904291 original size:38 final size:39
Alignment explanation
Indices: 90904112--90904292 Score: 203
Period size: 38 Copynumber: 4.7 Consensus size: 39
90904102 GCTCCTCGTT
* *
90904112 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTC-GGACTTAGTCCGGATT-TAGT-ATCTCGCA
** *
90904152 CAAATGCCTTCGGACTTAACCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGTCCGGATTTAGTATCTCGCA
* * *
90904190 CAAATGCCTTCGGACTTAG-CCGAAATTAGTATCTCACA
1 CAAATGCCTTCGGACTTAGTCCGGATTTAGTATCTCGCA
90904228 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTATCTCGCA
90904268 CAAATG-CTTC-GATCTTAGTCCGGAT
1 CAAATGCCTTCGGA-CTTAGTCCGGAT
90904293 ATGGTCATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 5 0.04
38 67 0.53
39 21 0.17
40 33 0.26
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGTCCGGATTTAGTATCTCGCA
Found at i:90906669 original size:17 final size:18
Alignment explanation
Indices: 90906647--90906681 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90906637 ACTTGTGCCC
90906647 TGTGGGC-CACACGGGTG
1 TGTGGGCTCACACGGGTG
90906664 TGTGGGCTCACACGGGTG
1 TGTGGGCTCACACGGGTG
90906682 AACCACACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
TGTGGGCTCACACGGGTG
Found at i:90912181 original size:19 final size:19
Alignment explanation
Indices: 90912157--90912219 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90912147 CATATCATAT
90912157 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
* *
90912176 CATATCACATCTAAGAGTG
1 CATATCATATCTAAGATTG
90912195 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90912214 CATATC
1 CATATC
90912220 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:90913127 original size:84 final size:84
Alignment explanation
Indices: 90912978--90913388 Score: 560
Period size: 84 Copynumber: 4.9 Consensus size: 84
90912968 CTTTGGTCTA
* * *
90912978 TTACCCTACTGCTTAAGGG-TTAAGGTGCATTGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAGGGGATTAA-G-GCA-GGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
90913040 TAAGATCTGCAAATTTAACCTG
63 TAAGATCTGCAAATTTAACCTG
* * * *
90913062 TTACCCTACTGCTTAGGGGATTAAGGCGGGTTTTCGATCTGCTCCACCACTTCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
90913127 GATCTGCAAATTTAACCTG
66 GATCTGCAAATTTAACCTG
* * * * *
90913146 TTTCCCTACTGCTTAGGGGATTAAGGCAAGTCATCATCGATCTACTCCGCTACTACTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGCAGGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGA
*
90913211 TAAGATCTGCGAATTTAACCTG
63 TAAGATCTGCAAATTTAACCTG
* * * *
90913233 TCATCCTACTACCTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
*
90913298 GATCTGTAAATTTAACGC-G
66 GATCTGCAAATTTAAC-CTG
*
90913317 TTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
90913382 GATCTGC
66 GATCTGC
90913389 GAACCTGTTA
Statistics
Matches: 287, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
82 23 0.08
83 4 0.01
84 181 0.63
85 6 0.02
86 1 0.00
87 72 0.25
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (84 bp):
TTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
GATCTGCAAATTTAACCTG
Found at i:90913228 original size:171 final size:168
Alignment explanation
Indices: 90912978--90913391 Score: 575
Period size: 171 Copynumber: 2.4 Consensus size: 168
90912968 CTTTGGTCTA
* *
90912978 TTACCCTACTGCTTAAGGG-TTAAGGTGCATTGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAGGGGATTAA-G-GCA-AGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGA
* * * * * *
90913040 TAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTTTTCGATCTGCT
63 TAAGATCTGCGAATTTAACCTGTCACCCTACTACCTAGGGGATTAAGGCAGGTCTTCGATCTGCT
*
90913105 CCACCACTTCTTAGGGAGATAAGATCTGCAAATTTAAC-CTG
128 CCACCACTGCTTAGGGAGATAAGATCTGCAAATTTAACGC-G
* * *
90913146 TTTCCCTACTGCTTAGGGGATTAAGGCAAGTCATCATCGATCTACTCCGCTACTACTTAGGGAGA
1 TTACCCTACTGCTTAGGGGATTAAGGCAAGTC-T--TCGATCTGCTCCGCTACTGCTTAGGGAGA
*
90913211 TAAGATCTGCGAATTTAACCTGTCATCCTACTACCTAGGGGATTAAGGCAGGTCTTCGATCTGCT
63 TAAGATCTGCGAATTTAACCTGTCACCCTACTACCTAGGGGATTAAGGCAGGTCTTCGATCTGCT
* *
90913276 CCACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACGCG
128 CCACCACTGCTTAGGGAGATAAGATCTGCAAATTTAACGCG
** *
90913317 TTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
90913382 GATCTGCGAA
66 GATCTGCGAA
90913392 CCTGTTACTC
Statistics
Matches: 218, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
166 3 0.01
167 4 0.02
168 57 0.26
169 25 0.11
170 3 0.01
171 125 0.57
172 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (168 bp):
TTACCCTACTGCTTAGGGGATTAAGGCAAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA
GATCTGCGAATTTAACCTGTCACCCTACTACCTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCA
CCACTGCTTAGGGAGATAAGATCTGCAAATTTAACGCG
Found at i:90913291 original size:41 final size:41
Alignment explanation
Indices: 90913246--90913375 Score: 110
Period size: 41 Copynumber: 3.1 Consensus size: 41
90913236 TCCTACTACC
90913246 TAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCT
1 TAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCT
** *
90913287 TAGGGAGA-TAA-G-A--TCTGTAAATTTAACGCGTTACC-CTACTGCT
1 TAGGG-GATTAAGGCAGGTCT-TCGATCT---GC--T-CCACTACTGCT
*
90913330 TAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCT
1 TAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCT
90913371 TAGGG
1 TAGGG
90913376 AGATAAGATC
Statistics
Matches: 68, Mismatches: 7, Indels: 28
0.66 0.07 0.27
Matches are distributed among these distances:
37 3 0.04
38 4 0.06
39 1 0.01
40 3 0.04
41 24 0.35
42 4 0.06
43 19 0.28
44 3 0.04
46 4 0.06
47 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
TAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCT
Found at i:90913454 original size:221 final size:221
Alignment explanation
Indices: 90913182--90913701 Score: 869
Period size: 221 Copynumber: 2.4 Consensus size: 221
90913172 CAAGTCATCA
* * * * * * * *
90913182 TCGATCTACTCCGCTACTACTTAGGGAGATAAGATCTGCGAATTTAACCTGTCATCCTACTACCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTT
*
90913247 AGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTTA
66 AGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
* * * *
90913312 ACGCGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGA
131 ACCCGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTGCTTAAGGA
90913377 GATAAGATCTGCGAACCTGTTACTCT
196 GATAAGATCTGCGAACCTGTTACTCT
* *
90913403 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAACCTGTTACCCTACTGCTT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTT
* * *
90913468 AGGGAATTAAGGCTGGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAAATTTA
66 AGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
90913533 ACCCGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTGCTTAAGGA
131 ACCCGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTGCTTAAGGA
90913598 GATAAGATCTGCGAACCTGTTACTCT
196 GATAAGATCTGCGAACCTGTTACTCT
*
90913624 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTAACCTGTTACCCTACTGCTT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTT
90913689 AGGGGATTAAGGC
66 AGGGGATTAAGGC
90913702 GCTAAATTTT
Statistics
Matches: 277, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
221 277 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (221 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTT
AGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
ACCCGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTGCTTAAGGA
GATAAGATCTGCGAACCTGTTACTCT
Found at i:90913502 original size:84 final size:84
Alignment explanation
Indices: 90913400--90913609 Score: 350
Period size: 84 Copynumber: 2.5 Consensus size: 84
90913390 AACCTGTTAC
* *
90913400 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAACCTGTTACCCTACTG
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAATTTAACCCGTTACCCTACTG
90913465 CTTAGGGAATTAAGGCTG-G
66 CTTAGGGAATTAAGGC-GAG
* *
90913484 TCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGCAAATTTAACCCGTTACCCTACTG
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAATTTAACCCGTTACCCTACTG
*
90913549 CTTAGGGGATTAAGGCGAG
66 CTTAGGGAATTAAGGCGAG
*
90913568 TCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGC
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGC
90913610 GAACCTGTTA
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 1 0.01
84 116 0.99
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (84 bp):
TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAATTTAACCCGTTACCCTACTG
CTTAGGGAATTAAGGCGAG
Found at i:90913509 original size:137 final size:137
Alignment explanation
Indices: 90913263--90913525 Score: 474
Period size: 137 Copynumber: 1.9 Consensus size: 137
90913253 TTAAGGCAGG
*
90913263 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACGCGTTACCCTACTG
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAACGCGTTACCCTACTG
*
90913328 CTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
66 CTTAGGGAATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
90913393 CTGTTAC
131 CTGTTAC
90913400 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAAC-CTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAACGC-GTTACCCTACT
* *
90913464 GCTTAGGGAATTAAGGCTGGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGC
65 GCTTAGGGAATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC
90913526 AAATTTAACC
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
136 1 0.01
137 120 0.99
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (137 bp):
TCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAATTTAACGCGTTACCCTACTG
CTTAGGGAATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAAC
CTGTTAC
Found at i:90914692 original size:18 final size:17
Alignment explanation
Indices: 90914655--90914697 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
90914645 TCCATTTTTA
*
90914655 TTTTTTTATTTTTTATT
1 TTTTTTTATTTTTTACT
*
90914672 TTTATTTTATTTTTTCCT
1 TTT-TTTTATTTTTTACT
90914690 TTTTTTTA
1 TTTTTTTA
90914698 AAAATAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTATTTTTTACT
Found at i:90921267 original size:19 final size:19
Alignment explanation
Indices: 90921220--90921299 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
90921210 CATATTATAT
*
90921220 CATATCATATCTAAAATTG
1 CATATCATATCTAAGATTG
90921239 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
* *
90921256 CATATCACATCTAAGAGTG
1 CATATCATATCTAAGATTG
90921275 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90921294 CATATC
1 CATATC
90921300 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 16 0.30
19 38 0.70
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:90921664 original size:19 final size:20
Alignment explanation
Indices: 90921608--90921654 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
90921598 CCAGTTTTTA
*
90921608 AATAAAAA-C-ATAAAAAAT
1 AATAAAAACCTATGAAAAAT
90921626 AATAAAAACCTATGAAAAAT
1 AATAAAAACCTATGAAAAAT
90921646 AATAAAAAC
1 AATAAAAAC
90921655 TCATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 17 0.65
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAACCTATGAAAAAT
Found at i:90922581 original size:19 final size:18
Alignment explanation
Indices: 90922559--90922631 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
90922549 TTTGCAAATT
90922559 TTTTTATATTTTTAAAACA
1 TTTTTAT-TTTTTAAAACA
90922578 TTTTTATTTATTCT-AAACAA
1 TTTTTATTT-TT-TAAAAC-A
* *
90922598 TTTTTATTATTTCAAA-A
1 TTTTTATTTTTTAAAACA
90922615 TTCTTTATTTTTTAAAA
1 TT-TTTATTTTTTAAAA
90922632 AAATTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 15 0.33
19 18 0.39
20 10 0.22
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTATTTTTTAAAACA
Found at i:90924231 original size:19 final size:20
Alignment explanation
Indices: 90924207--90924251 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
90924197 ATTAAGGTTT
*
90924207 AATTAATCATGATTAAGT-A
1 AATTAATCAAGATTAAGTAA
* *
90924226 AATTAATTAAGATTAATTAA
1 AATTAATCAAGATTAAGTAA
90924246 AATTAA
1 AATTAA
90924252 ACTAAGTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (20 bp):
AATTAATCAAGATTAAGTAA
Found at i:90924240 original size:10 final size:10
Alignment explanation
Indices: 90924176--90924251 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
90924166 CTTAAATGTC
90924176 ATTAACTTAAG
1 ATTAA-TTAAG
90924187 -TTAATTAAGG
1 ATTAATTAA-G
*
90924197 ATTAAGGTTTA-
1 ATTAA--TTAAG
* *
90924208 ATTAATCATG
1 ATTAATTAAG
*
90924218 ATTAAGTAA-
1 ATTAATTAAG
90924227 ATTAATTAAG
1 ATTAATTAAG
*
90924237 ATTAATTAAA
1 ATTAATTAAG
90924247 ATTAA
1 ATTAA
90924252 ACTAAGTATC
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
9 13 0.26
10 25 0.50
11 9 0.18
13 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (10 bp):
ATTAATTAAG
Found at i:90950778 original size:19 final size:19
Alignment explanation
Indices: 90950754--90950807 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
90950744 ATAATCTTCA
90950754 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
90950773 ATGATA--CAATCTTAGTT
1 ATGATATGCAATCTTAGAT
90950790 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
90950808 AGATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:90950812 original size:17 final size:17
Alignment explanation
Indices: 90950756--90950813 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
90950746 AATCTTCAAT
90950756 GATATGCAATCTTAGATA
1 GATATGCAATCTTAGA-A
*
90950774 TGATA--CAATCTTAGTTAT
1 -GATATGCAATCTTAG--AA
90950792 GATATGCAATCTTAGAA
1 GATATGCAATCTTAGAA
90950809 GATAT
1 GATAT
90950814 AATTTTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 19 0.58
19 14 0.42
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (17 bp):
GATATGCAATCTTAGAA
Found at i:90951119 original size:17 final size:17
Alignment explanation
Indices: 90951097--90951130 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90951087 TGTTTCCTGG
90951097 ATTTTTT-ATATATTTTA
1 ATTTTTTAATA-ATTTTA
90951114 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
90951131 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:90956352 original size:19 final size:19
Alignment explanation
Indices: 90956328--90956364 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
90956318 AATCATATAT
90956328 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
90956347 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
90956365 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:90956372 original size:17 final size:19
Alignment explanation
Indices: 90956331--90956372 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
90956321 CATATATTCT
*
90956331 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
90956350 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
90956367 AAGATT
1 AAGATT
90956373 ATATTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:90956521 original size:21 final size:20
Alignment explanation
Indices: 90956483--90956522 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
90956473 TTGGACTTCG
**
90956483 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
90956503 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
90956523 TCTAGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:90956645 original size:17 final size:17
Alignment explanation
Indices: 90956623--90956656 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90956613 TGTTTCCCAG
90956623 ATTTTTT-ATATATTTTA
1 ATTTTTTAATA-ATTTTA
90956640 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
90956657 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:90959799 original size:66 final size:66
Alignment explanation
Indices: 90959693--90959863 Score: 168
Period size: 66 Copynumber: 2.6 Consensus size: 66
90959683 GTTCAGGAAC
* * * * *
90959693 TTGAGAAGACCTA-ATATCTAGTTTAAGAGTTTGGAAAGACTCA-ATATATCATTCAAGATCTTG
1 TTGAGAAGA-CTAGATATCTAGTTTAGGAGCTTGAAAAGACT-AGATATAGCATTCAAGAGCTTG
90959756 GGA
64 GGA
* * * * * * *
90959759 TTGAGAAGTCTAGATATCTCGTTTAGGAGCTTGTAAAGACTAGATATCGCGTTTAGGAGCTTGGG
1 TTGAGAAGACTAGATATCTAGTTTAGGAGCTTGAAAAGACTAGATATAGCATTCAAGAGCTTGGG
90959824 A
66 A
* *
90959825 TTGAGAAGAC-ATGATATCTTGTTCAGGAGCTTGAAAAGA
1 TTGAGAAGACTA-GATATCTAGTTTAGGAGCTTGAAAAGA
90959864 TCCGATCTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
65 5 0.06
66 82 0.94
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (66 bp):
TTGAGAAGACTAGATATCTAGTTTAGGAGCTTGAAAAGACTAGATATAGCATTCAAGAGCTTGGG
A
Found at i:90959841 original size:36 final size:36
Alignment explanation
Indices: 90959752--90959857 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
90959742 CATTCAAGAT
*
90959752 CTTGGGATTGAGAAGTCTAGATATCTCGTTTAGGAG
1 CTTGGGATTGAGAAGACTAGATATCTCGTTTAGGAG
*
90959788 CTT--G--T-A-AAGACTAGATATCGCGTTTAGGAG
1 CTTGGGATTGAGAAGACTAGATATCTCGTTTAGGAG
* *
90959818 CTTGGGATTGAGAAGAC-ATGATATCTTGTTCAGGAG
1 CTTGGGATTGAGAAGACTA-GATATCTCGTTTAGGAG
90959854 CTTG
1 CTTG
90959858 AAAAGATCCG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
30 25 0.43
31 1 0.02
32 2 0.03
34 2 0.03
35 2 0.03
36 26 0.45
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (36 bp):
CTTGGGATTGAGAAGACTAGATATCTCGTTTAGGAG
Found at i:90965334 original size:47 final size:47
Alignment explanation
Indices: 90965280--90965473 Score: 273
Period size: 47 Copynumber: 4.1 Consensus size: 47
90965270 TTAGGATTTT
** * * *
90965280 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90965327 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
90965374 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
90965421 ATGTGGTGAATATGAACATGCATATATGTGGTCAA-GCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
90965468 ATGTGA
1 ATGTGA
90965474 AATATGTATG
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
47 130 0.98
48 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:90965429 original size:25 final size:25
Alignment explanation
Indices: 90965354--90965429 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
90965344 ATGCATATAT
90965354 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
90965379 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
90965401 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
90965426 GTGA
1 GTGA
90965430 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:90965601 original size:98 final size:96
Alignment explanation
Indices: 90965444--90965627 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
90965434 GAACATGCAT
* *
90965444 ATATGTGGTCAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
90965509 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
90965540 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
90965604 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
90965628 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 53 0.65
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:90965643 original size:50 final size:48
Alignment explanation
Indices: 90965443--90965627 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
90965433 TGAACATGCA
*
90965443 TATATGTGGTCAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
90965491 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
90965539 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
90965589 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
90965628 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:90965824 original size:37 final size:37
Alignment explanation
Indices: 90965774--90965881 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
90965764 GGAAATATAT
90965774 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
90965811 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
90965848 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
90965882 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:90976870 original size:31 final size:31
Alignment explanation
Indices: 90976835--90976895 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
90976825 GCGTTGAGAG
*
90976835 ATAGAGTATTTTGTGGGAGACTTCATTTTTT
1 ATAGAGTATTTTGTAGGAGACTTCATTTTTT
*
90976866 ATAGAGTATTTTGTAGGAGACTTCGTTTTT
1 ATAGAGTATTTTGTAGGAGACTTCATTTTT
90976896 CTCAAGGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.48
Consensus pattern (31 bp):
ATAGAGTATTTTGTAGGAGACTTCATTTTTT
Found at i:90981009 original size:39 final size:39
Alignment explanation
Indices: 90980966--90981107 Score: 173
Period size: 39 Copynumber: 3.7 Consensus size: 39
90980956 ACCAGCTTGA
* * * * *
90980966 AGCCTGGAGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCT-GAGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
90981005 AGCCTGTGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGAGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
90981044 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCAC--
1 AGCCTGAGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
90981081 AGCCTGCGGACCTTAAGTCCGGATATA
1 AGCCTGAGGACCTTAAGTCCGGATATA
90981108 CATCACTGAA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
37 27 0.29
38 4 0.04
39 62 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
AGCCTGAGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:90981033 original size:78 final size:75
Alignment explanation
Indices: 90980946--90981107 Score: 175
Period size: 78 Copynumber: 2.1 Consensus size: 75
90980936 GAATTTAAAC
** * *
90980946 CCGGTATAATACCAGCTTGA-AGCCTGGAGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGTATAATACCAGC-ACATAGCCT-GAGGACCTTAAGCCCGGACATAATTCCAGCAC--AGCC
*
90981009 TGTGGACCTTAAGT
62 TGCGGACCTTAAGT
* * * *
90981023 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAGCCTGC
1 CCGG-TATAATACCAGCACATAGCCTGAGGACCTTAAGCCCGGACATAATTCCAGCACAGCCTGC
90981088 GGACCTTAAGT
65 GGACCTTAAGT
90981099 CCGGATATA
1 CCGG-TATA
90981108 CATCACTGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
76 25 0.35
77 9 0.12
78 38 0.53
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (75 bp):
CCGGTATAATACCAGCACATAGCCTGAGGACCTTAAGCCCGGACATAATTCCAGCACAGCCTGCG
GACCTTAAGT
Found at i:90981094 original size:37 final size:38
Alignment explanation
Indices: 90980984--90981107 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 38
90980974 GGACTTTAGC
* * *
90980984 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCAC-TAGCCTGCGGACCTTAAGT
*
90981023 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCAC-TAGCCTGCGGACCTTAAGT
90981062 CCGGATATAATTCCAGCAC-AGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACTAGCCTGCGGACCTTAAGT
90981099 CCGGATATA
1 CCGGATATA
90981108 CATCACTGAA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 27 0.34
39 52 0.66
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CCGGATATAATTCCAGCACTAGCCTGCGGACCTTAAGT
Found at i:90983711 original size:16 final size:16
Alignment explanation
Indices: 90983690--90983722 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
90983680 AGAAGGGAAA
*
90983690 AGCCCCCTACAATAAT
1 AGCCCCCCACAATAAT
90983706 AGCCCCCCACAATAAT
1 AGCCCCCCACAATAAT
90983722 A
1 A
90983723 ACCTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.15
Consensus pattern (16 bp):
AGCCCCCCACAATAAT
Found at i:90985087 original size:66 final size:66
Alignment explanation
Indices: 90984958--90985091 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
90984948 GTTCAAGAAC
* ** * * * * * *
90984958 TTGAGAAGACCCGATATCTTGTTTAGGAGTTTGTAAAGACTTAATATCTCGTTCAAGATCTTGGG
1 TTGAGAAGACCAGATATCTCATTCAGGAGCTTGTAAAGACTCAATATCGCATTCAAGAGCTTGGG
90985023 A
66 A
* ** *
90985024 TTGAGAAGACCAGATATCTCATTCAGGAGCTTGTGAAGACTCGTTATCGCATTCAGGAGCTTGGG
1 TTGAGAAGACCAGATATCTCATTCAGGAGCTTGTAAAGACTCAATATCGCATTCAAGAGCTTGGG
90985089 A
66 A
90985090 TT
1 TT
90985092 AAAAAGACAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (66 bp):
TTGAGAAGACCAGATATCTCATTCAGGAGCTTGTAAAGACTCAATATCGCATTCAAGAGCTTGGG
A
Found at i:90986767 original size:18 final size:20
Alignment explanation
Indices: 90986744--90986789 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
90986734 CCAGATTTTA
90986744 AATAAAAA-C-ATAAAAAAT
1 AATAAAAACCTATAAAAAAT
*
90986762 AATAAAAACCTATGAAAAAT
1 AATAAAAACCTATAAAAAAT
90986782 AATAAAAA
1 AATAAAAA
90986790 ATCATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAACCTATAAAAAAT
Found at i:90989729 original size:35 final size:35
Alignment explanation
Indices: 90989671--90989823 Score: 252
Period size: 35 Copynumber: 4.3 Consensus size: 35
90989661 AATCATATCT
90989671 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
90989708 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
90989743 TATAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
90989778 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
90989814 TCTAAGATTG
1 TCTAAGATTG
90989824 CATATCATTG
Statistics
Matches: 111, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 86 0.77
36 15 0.14
37 10 0.09
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:90990678 original size:207 final size:207
Alignment explanation
Indices: 90990221--90991014 Score: 1338
Period size: 207 Copynumber: 3.8 Consensus size: 207
90990211 AAATCTGCTT
* * * * *
90990221 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
** *
90990286 GTGAAAGCCAAATCAGCTATGTCTTCGATTTACTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
90990351 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
90990415 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
90990427 CTTCGATTTGTTCTCTTACAATACAGAGATGCCAAATCATCTTAGACTTGTTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
90990492 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
90990557 GGATCTTGCTTTAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
90990622 GGAGATGCCAAA
196 GGAGACGCCAAA
* *
90990634 CTTCGATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
90990699 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
90990764 GGATCTTGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
90990829 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * * *
90990841 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
*
90990906 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
90990971 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
90991015 CTTTAACCTG
Statistics
Matches: 554, Mismatches: 33, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 125 0.23
207 429 0.77
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:90991133 original size:84 final size:82
Alignment explanation
Indices: 90991020--90991304 Score: 315
Period size: 84 Copynumber: 3.4 Consensus size: 82
90991010 CTATGCTTTA
** * *
90991020 ACCTGTTACCCTAAGGCTGAAGGGG-TTAAGTCGCA-TCTTCGATCTGCTCCACTACTGCTTAGG
1 ACCTGTTACCCTACTGCT-TAGGGGATTAAGTCG-AGTCTT-GATCTGTTCCACTACTGCTTAGG
**
90991083 GAGATAAGATCCACAATTTT
63 GAGATAAGATCTGCAATTTT
* * *
90991103 GACCTGTTACCTTACTGCTTAGGGGATTAAGGCGAGTGGCCGTTGATTTGTTCCACTACTGCTTA
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGTCGAGT---C-TTGATCTGTTCCACTACTGCTTA
*
90991168 GGGAGATAAGATCTGTAATTTT
61 GGGAGATAAGATCTGCAATTTT
* *
90991190 AGCCTGTTACCCTACTGCTTAGGGGGTTACGGT-GAGTCTTTGATCTGTTCCACTACTGCTTAGG
1 A-CCTGTTACCCTACTGCTTAGGGGATTA-AGTCGAGTC-TTGATCTGTTCCACTACTGCTTAGG
*
90991254 GAGATAAGATCTGCAAATTTA
63 GAGATAAGATCTGC-AATTTT
*
90991275 ACCGGTTACCCTACTGCTTAGGGGATTAAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAG
90991305 GCGCTGAATT
Statistics
Matches: 171, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
83 7 0.04
84 86 0.50
85 6 0.04
86 1 0.01
87 68 0.40
88 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (82 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGTCGAGTCTTGATCTGTTCCACTACTGCTTAGGGAG
ATAAGATCTGCAATTTT
Found at i:90991168 original size:87 final size:83
Alignment explanation
Indices: 90991060--90991307 Score: 334
Period size: 87 Copynumber: 2.9 Consensus size: 83
90991050 TCGCATCTTC
* ** *
90991060 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACCTTACTGCTTAG
1 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTT-ACCTGTTACCCTACTGCTTAG
90991125 GGGATTAAGGCGAGTGGCCGTT
65 GGGATTAAGGCGAGT---CGTT
* *
90991147 GATTTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAG
1 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTA-CCTGTTACCCTACTGCTTAG
* * * *
90991212 GGGGTTACGGTGAGTCTTT
65 GGGATTAAGGCGAGTCGTT
* *
90991231 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCGGTTACCCTACTGCTTAG
1 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGC-AATTTTACCTGTTACCCTACTGCTTAG
90991296 GGGATTAAGGCG
65 GGGATTAAGGCG
90991308 CTGAATTTTG
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
84 66 0.46
85 6 0.04
86 1 0.01
87 69 0.49
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (83 bp):
GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTACCTGTTACCCTACTGCTTAGG
GGATTAAGGCGAGTCGTT
Found at i:90991212 original size:43 final size:42
Alignment explanation
Indices: 90991158--90991297 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
90991148 ATTTGTTCCA
90991158 CTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTA-CCTGTTACC
* * * * ** * * *
90991201 CTACTGCTTAGGGGGTTACGGTGAGT-CTTTGATCTGTT-CC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTACCTGTTACC
* * *
90991241 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCGGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTG-TAATTTTACCTGTTACC
90991285 CTACTGCTTAGGG
1 CTACTGCTTAGGG
90991298 GATTAAGGCG
Statistics
Matches: 73, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
40 2 0.03
41 24 0.33
42 4 0.05
43 41 0.56
44 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTACCTGTTACC
Found at i:90992280 original size:22 final size:20
Alignment explanation
Indices: 90992255--90992310 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 20
90992245 GGCCTCTCCA
90992255 TTTTTTCTTTTTTCTTTTTAT
1 TTTTTTCTTTTTTC-TTTTAT
90992276 TTTTTTCTCTTTTTCTTTTAT
1 TTTTTTCT-TTTTTCTTTTAT
90992297 TTTTTTCCTTTTTT
1 TTTTTT-CTTTTTT
90992311 TTAAATAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTCTTTTTTCTTTTAT
Found at i:90992286 original size:16 final size:15
Alignment explanation
Indices: 90992262--90992312 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
90992252 CCATTTTTTC
90992262 TTTTTTCTTTTTATT
1 TTTTTTCTTTTTATT
*
90992277 TTTTTCTCTTTTTCTT
1 TTTTT-TCTTTTTATT
* **
90992293 TTATTT-TTTTCCTT
1 TTTTTTCTTTTTATT
90992307 TTTTTT
1 TTTTTT
90992313 AAATAGAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 6 0.19
16 13 0.42
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTATT
Found at i:90998094 original size:17 final size:17
Alignment explanation
Indices: 90998062--90998196 Score: 155
Period size: 17 Copynumber: 7.6 Consensus size: 17
90998052 AATCATATCT
90998062 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
*
90998081 TATAAGATTGTATCATA
1 TCTAAGATTGTATCATA
90998098 TCTAAGATT-TCAATCATA
1 TCTAAGATTGT--ATCATA
*
90998116 TATAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
90998133 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
90998151 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
90998168 TCTAAGATTCCATATCACA
1 TCTAAGATT--GTATCATA
90998187 TCTAAGATTG
1 TCTAAGATTG
90998197 CATATCATTG
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.01
17 45 0.45
18 30 0.30
19 25 0.25
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:90998118 original size:35 final size:36
Alignment explanation
Indices: 90998062--90998196 Score: 195
Period size: 35 Copynumber: 3.8 Consensus size: 36
90998052 AATCATATCT
90998062 TCTAAGATTGT-ATATCATATATAAGATTGTATCATA
1 TCTAAGATT-TCATATCATATATAAGATTGTATCATA
90998098 TCTAAGATTTCA-ATCATATATAAGATTGTATCATA
1 TCTAAGATTTCATATCATATATAAGATTGTATCATA
* *
90998133 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTTCATATCATATATAAGATTGTATCATA
* * *
90998168 TCTAAGATTCCATATCACATCTAAGATTG
1 TCTAAGATTTCATATCATATATAAGATTG
90998197 CATATCATTG
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
35 68 0.73
36 25 0.27
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (36 bp):
TCTAAGATTTCATATCATATATAAGATTGTATCATA
Found at i:90998211 original size:36 final size:35
Alignment explanation
Indices: 90998083--90998212 Score: 147
Period size: 35 Copynumber: 3.7 Consensus size: 35
90998073 ATATCATATA
* * * *
90998083 TAAGATTGTATCATATCTAAGATTTCAATCATATA
1 TAAGATTGTATCATATCGAAGATTCCAATCACATC
* * *
90998118 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCGAAGATTCCAATCACATC
*
90998153 TAAGATTGTATCATATCTAAGATTCCATATCACATC
1 TAAGATTGTATCATATCGAAGATTCCA-ATCACATC
90998189 TAAGATTGCATATCAT-T-GAAGATT
1 TAAGATTG--TATCATATCGAAGATT
90998213 ATATTTCCAT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
35 59 0.68
36 21 0.24
37 1 0.01
38 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TAAGATTGTATCATATCGAAGATTCCAATCACATC
Found at i:90998906 original size:30 final size:30
Alignment explanation
Indices: 90998849--90998906 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
90998839 TATAATTTCA
*
90998849 TTTTATTTTTATTATAATTTGGCCCTAACC
1 TTTTATTTTTATTATAATTTAGCCCTAACC
* *
90998879 TTTTATTTTTGTT-TCAATTTAGTCCTAA
1 TTTTATTTTTATTAT-AATTTAGCCCTAA
90998907 TGGCCATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTTATTTTTATTATAATTTAGCCCTAACC
Found at i:90999097 original size:29 final size:29
Alignment explanation
Indices: 90999065--90999121 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
90999055 TTTTAATCCT
*
90999065 TTTTAAATTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
90999094 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
90999122 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:90999123 original size:17 final size:17
Alignment explanation
Indices: 90999103--90999324 Score: 80
Period size: 17 Copynumber: 12.4 Consensus size: 17
90999093 ATTTTAAATA
90999103 TTTTATATATTATTTAT
1 TTTTATATATTATTTAT
* *
90999120 TTTTACTATA-AACATTAT
1 TTTTA-TATATTA-TTTAT
* * * ***
90999138 TTATATATGTAAAAAAT
1 TTTTATATATTATTTAT
*
90999155 TATTATATA-TA-TTAT
1 TTTTATATATTATTTAT
* *
90999170 TTTAATTTATGTA-TTAT
1 TTTTATATAT-TATTTAT
*
90999187 TTATTATATTATTTATATAT
1 TT-TTATA-TA-TTATTTAT
*
90999207 TATTATATATTATTTAT
1 TTTTATATATTATTTAT
90999224 ATTTTAT-TATATATTATAT
1 -TTTTATATAT-TATT-TAT
*
90999243 CATTTTAT-TA-TATATAT
1 --TTTTATATATTATTTAT
*
90999260 TATTCATTATATTATTTTATT
1 T-TTTA-TATATTA-TTTA-T
90999281 TTATTATATATTATATTAT
1 TT-TTATATATTAT-TTAT
90999300 ATTATTATATATTATTTAT
1 -TT-TTATATATTATTTAT
*
90999319 TATTAT
1 TTTTAT
90999325 GTATAATTTT
Statistics
Matches: 157, Mismatches: 26, Indels: 44
0.69 0.11 0.19
Matches are distributed among these distances:
15 9 0.06
16 4 0.03
17 44 0.28
18 34 0.22
19 20 0.13
20 42 0.27
21 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTTATATATTATTTAT
Found at i:90999191 original size:7 final size:7
Alignment explanation
Indices: 90999176--90999322 Score: 86
Period size: 7 Copynumber: 19.7 Consensus size: 7
90999166 TTATTTTAAT
*
90999176 TTATGTA
1 TTATTTA
90999183 TTATTTA
1 TTATTTA
90999190 TTA--TA
1 TTATTTA
90999195 TTATTTA
1 TTATTTA
90999202 -TATATTA
1 TTAT-TTA
*
90999209 TTATATA
1 TTATTTA
90999216 TTATTTA
1 TTATTTA
90999223 -TATTTTA
1 TTA-TTTA
*
90999230 TTATATA
1 TTATTTA
*
90999237 TTATATCA
1 TTAT-TTA
*
90999245 TTTTATTA
1 TTAT-TTA
90999253 TATATATTA
1 T-TAT-TTA
90999262 TTCATTATA
1 TT-ATT-TA
90999271 TTATTTTA
1 TTA-TTTA
*
90999279 TTTTATTA
1 TTAT-TTA
90999287 TATATTATA
1 T-TATT-TA
90999296 TTATATTA
1 TTAT-TTA
*
90999304 TTATATA
1 TTATTTA
90999311 TTATTTA
1 TTATTTA
90999318 TTATT
1 TTATT
90999323 ATGTATAATT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
5 5 0.04
6 5 0.04
7 47 0.42
8 34 0.30
9 21 0.19
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (7 bp):
TTATTTA
Found at i:90999196 original size:5 final size:5
Alignment explanation
Indices: 90999155--90999324 Score: 103
Period size: 5 Copynumber: 34.2 Consensus size: 5
90999145 TGTAAAAAAT
* *
90999155 TATTA TA-TA TATTA TTTTA -ATT- TATGTA TTATT- TATTA TATTA TTTATA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA TATTA TAT-TA
* *
90999204 TATTA T-TATA TATTA T-TTA TATTT TATTA TA-TA T-TATA TCATTT
1 TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TAT-TA T-ATTA
* *
90999248 TATTA TA-TA TATTA TTCATTA TATTA TTTTA TTTTA T-TATA TATTA
1 TATTA TATTA TATTA -T-ATTA TATTA TATTA TATTA TAT-TA TATTA
90999294 TATTA TATTA T-TATA TATTA T-TTA TTATTA T
1 TATTA TATTA TAT-TA TATTA TATTA -TATTA T
90999325 GTATAATTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 46
0.71 0.05 0.24
Matches are distributed among these distances:
4 29 0.22
5 81 0.61
6 15 0.11
7 8 0.06
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (5 bp):
TATTA
Found at i:90999214 original size:10 final size:10
Alignment explanation
Indices: 90999153--90999329 Score: 141
Period size: 10 Copynumber: 16.9 Consensus size: 10
90999143 TATGTAAAAA
90999153 ATTATTATAT
1 ATTATTATAT
90999163 A-TATTAT-T
1 ATTATTATAT
*
90999171 -TTAATTTATGT
1 ATT-A-TTATAT
90999182 ATTATTTATTAT
1 ATTA-TTA-TAT
90999194 ATTATTTATAT
1 ATTA-TTATAT
90999205 ATTATTATAT
1 ATTATTATAT
90999215 ATTATTTATAT
1 ATTA-TTATAT
*
90999226 TTTATTATAT
1 ATTATTATAT
90999236 ATTA-TATCAT
1 ATTATTAT-AT
*
90999246 TTTATTATATAT
1 ATTA-T-TATAT
90999258 ATTATTCATTAT
1 ATTATT-A-TAT
*
90999270 ATTATTTTAT
1 ATTATTATAT
*
90999280 TTTATTATAT
1 ATTATTATAT
90999290 ATTA-TATTAT
1 ATTATTA-TAT
90999300 ATTATTATAT
1 ATTATTATAT
90999310 ATTATT-TATT
1 ATTATTATA-T
90999320 ATTATGTATA
1 ATTAT-TATA
90999330 ATTTTAAAAA
Statistics
Matches: 140, Mismatches: 9, Indels: 34
0.77 0.05 0.19
Matches are distributed among these distances:
8 2 0.01
9 14 0.10
10 66 0.47
11 27 0.19
12 28 0.20
13 3 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (10 bp):
ATTATTATAT
Found at i:90999263 original size:76 final size:72
Alignment explanation
Indices: 90999153--90999315 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 72
90999143 TATGTAAAAA
* *
90999153 ATTATTATATA-TATTATTTTAATTTATGTATTATTTATTATATTATTTATATATTATTATATAT
1 ATTATTATATATTATTATTTTAATTTATATATTATTCATTATATTATTT-TATATTATTATATAT
90999217 TAT-TTAT
65 TATATTAT
*
90999224 ATTTTATTATATATTATATCATTTT-ATTATATATATTATTCATTATATTATTTTATTTTATTAT
1 A--TTATTATATATTAT-T-ATTTTAATT-TATATATTATTCATTATATTATTTTATATTATTAT
90999288 ATATTATATTAT
61 ATATTATATTAT
90999300 ATTATTATATATTATT
1 ATTATTATATATTATT
90999316 TATTATTATG
Statistics
Matches: 82, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
71 1 0.01
73 11 0.13
74 17 0.21
75 21 0.26
76 32 0.39
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (72 bp):
ATTATTATATATTATTATTTTAATTTATATATTATTCATTATATTATTTTATATTATTATATATT
ATATTAT
Found at i:90999356 original size:95 final size:94
Alignment explanation
Indices: 90999153--90999329 Score: 78
Period size: 84 Copynumber: 2.0 Consensus size: 94
90999143 TATGTAAAAA
* * * * *
90999153 ATTATTATATA-TAT--TATTTTAATTTATGTATTATTTATTATATTATTTATATATTATTATAT
1 ATTATTATATATTATAAAATTTTAATATATATATTATTCATTATATTATTT-TATTTTA-T-TAT
*
90999215 ATTATTTATATTTTATTATATATTA--TATCAT
63 ATTATTTATATATTATTATATATTATTTAT-AT
* * * * * * *
90999246 TTTATTATATA-TAT--TA-TTCATTATAT-TATT-TT-ATTTTATTA-TATATTATATTATATT
1 ATTATTATATATTATAAAATTTTAATATATATATTATTCATTATATTATTTTATTTTATTATATT
*
90999303 A-TTATATATTATT-TATTATTATGTATA
66 ATTTATATATTATTATA-TATTATTTATA
90999330 ATTTTAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
83 2 0.03
84 16 0.22
85 8 0.11
86 4 0.06
87 5 0.07
88 1 0.01
89 8 0.11
90 2 0.03
91 4 0.06
92 7 0.10
93 15 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (94 bp):
ATTATTATATATTATAAAATTTTAATATATATATTATTCATTATATTATTTTATTTTATTATATT
ATTTATATATTATTATATATTATTTATAT
Found at i:90999728 original size:18 final size:18
Alignment explanation
Indices: 90999705--90999739 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90999695 ATCTCATAAA
90999705 TTATTTATTATTTTTATG
1 TTATTTATTATTTTTATG
*
90999723 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
90999740 ATATTTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Done.