Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 354 of 425
Found at i:109414430 original size:27 final size:27
Alignment explanation
Indices: 109414353--109414439 Score: 90
Period size: 26 Copynumber: 3.3 Consensus size: 27
109414343 ACCCTCGGTT
* *
109414353 TGTAAAATTACTGAAATACCTCTAGT-T
1 TGTAAAATTACTGAAATACCCCT-GTAG
* *
109414380 TGT-AAATTACCGAAAT-CCCTTGTAG
1 TGTAAAATTACTGAAATACCCCTGTAG
*
109414405 TGTAAAATTACTTAAATACCCCTGTAG
1 TGTAAAATTACTGAAATACCCCTGTAG
*
109414432 GGTAAAAT
1 TGTAAAAT
109414440 GACTATTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
24 2 0.04
25 6 0.12
26 23 0.47
27 18 0.37
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCCTGTAG
Found at i:109415990 original size:9 final size:9
Alignment explanation
Indices: 109415968--109416006 Score: 69
Period size: 9 Copynumber: 4.2 Consensus size: 9
109415958 CGAATAGAAG
109415968 AAAGAAAAA
1 AAAGAAAAA
109415977 GAAAGAAAAA
1 -AAAGAAAAA
109415987 AAAGAAAAA
1 AAAGAAAAA
109415996 AAAGAAAAA
1 AAAGAAAAA
109416005 AA
1 AA
109416007 GCTCTCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:109417373 original size:77 final size:78
Alignment explanation
Indices: 109417242--109417416 Score: 212
Period size: 77 Copynumber: 2.2 Consensus size: 78
109417232 AATGATGTCC
* *
109417242 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
109417307 CGAGTTACTAATT
66 CGAGTTACTAATT
* * **
109417320 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
**
109417382 TGCGAGTTACTATAACC
64 TGCGAGTTAC--TAATT
*
109417399 GGGCTATGTCCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
109417417 ATTTGAACGA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 49 0.59
78 14 0.17
79 10 0.12
80 9 0.11
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATT
Found at i:109417385 original size:40 final size:40
Alignment explanation
Indices: 109417239--109417421 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
109417229 TCGAATGATG
* * *
109417239 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
109417279 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
109417318 T-TGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109417356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109417397 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
109417422 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
37 23 0.19
38 10 0.08
39 9 0.07
40 72 0.58
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109424032 original size:14 final size:13
Alignment explanation
Indices: 109424013--109424050 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
109424003 AGCCGAATAG
109424013 AAGAAAGAAAAAGA
1 AAGAAA-AAAAAGA
109424027 AAGAAAAAAAA-A
1 AAGAAAAAAAAGA
*
109424039 AAAAAAAAAAAG
1 AAGAAAAAAAAG
109424051 CTCTCATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:109425415 original size:77 final size:78
Alignment explanation
Indices: 109425284--109425458 Score: 212
Period size: 77 Copynumber: 2.2 Consensus size: 78
109425274 AATGATGTCC
* *
109425284 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
109425349 CGAGTTACTAATT
66 CGAGTTACTAATT
* * **
109425362 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
**
109425424 TGCGAGTTACTATAACC
64 TGCGAGTTAC--TAATT
*
109425441 GGGCTATGTCCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
109425459 ATTTGAACGA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
76 1 0.01
77 49 0.59
78 14 0.17
79 10 0.12
80 9 0.11
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (78 bp):
GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATT
Found at i:109425427 original size:40 final size:40
Alignment explanation
Indices: 109425281--109425463 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
109425271 TCGAATGATG
* * *
109425281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
109425321 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
109425360 T-TGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109425398 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109425439 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
109425464 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
37 23 0.19
38 10 0.08
39 9 0.07
40 72 0.58
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109427316 original size:16 final size:18
Alignment explanation
Indices: 109427281--109427317 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
109427271 TATTTATTAT
*
109427281 ATATATTATGTTAACTTA
1 ATATATTATGTTAACATA
109427299 ATATA-TATGTT-ACATA
1 ATATATTATGTTAACATA
109427315 ATA
1 ATA
109427318 AAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATATTATGTTAACATA
Found at i:109428575 original size:17 final size:17
Alignment explanation
Indices: 109428553--109428585 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
109428543 TTTTAAATGG
*
109428553 AAAATGTTATTGAAATA
1 AAAATGCTATTGAAATA
109428570 AAAATGCTATTGAAAT
1 AAAATGCTATTGAAAT
109428586 TGCAAGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (17 bp):
AAAATGCTATTGAAATA
Found at i:109434047 original size:42 final size:42
Alignment explanation
Indices: 109433999--109434093 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
109433989 TGTGATTTCC
*
109433999 TGTAAGACCATGTCTGGGACATTAACATCGATATGAAATTCA
1 TGTAAGACCATGTCTGGAACATTAACATCGATATGAAATTCA
* ** *
109434041 TGTAAGACCATGTTTGGAACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGAACATTAACATCGATATGAAATTCA
109434083 TGTAAGACCAT
1 TGTAAGACCAT
109434094 AGCTTGTAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGAACATTAACATCGATATGAAATTCA
Found at i:109435626 original size:38 final size:38
Alignment explanation
Indices: 109435583--109435873 Score: 204
Period size: 38 Copynumber: 6.9 Consensus size: 38
109435573 TTTCAAATTA
*
109435583 ACATGTATAACCGTGGAATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
109435621 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC-GT--T
* *
109435662 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
109435706 ACATGTTTAACTGTGGTATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
109435747 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
109435791 ACATGTATTAATATGTGTAATCGTGTTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
109435839 ACACGTATAACCGTGGTATAGCCACTTAGCACCAC
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC
109435874 ATTTTTTCCA
Statistics
Matches: 202, Mismatches: 25, Indels: 52
0.72 0.09 0.19
Matches are distributed among these distances:
38 84 0.42
39 2 0.01
40 5 0.02
41 4 0.02
42 4 0.02
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 53 0.26
48 34 0.17
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:109435682 original size:47 final size:47
Alignment explanation
Indices: 109435628--109435839 Score: 253
Period size: 47 Copynumber: 4.7 Consensus size: 47
109435618 GTTACATGTT
*
109435628 TAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
109435675 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
109435713 TAACTGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
109435760 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATTAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* *
109435808 TAATCGTGTTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
109435840 CACGTATAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 26 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 56 0.40
48 41 0.29
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:109435689 original size:85 final size:85
Alignment explanation
Indices: 109435590--109435801 Score: 379
Period size: 85 Copynumber: 2.5 Consensus size: 85
109435580 TTAACATGTA
*
109435590 TAACCGTGGAATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
109435655 CATTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
*
109435675 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
**
109435740 TGTTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
109435760 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATTAA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT-TTAA
109435802 TATGTGTAAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 118 0.97
86 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CATTAATGAATCAATATATG
Found at i:109435823 original size:48 final size:48
Alignment explanation
Indices: 109435713--109435846 Score: 180
Period size: 48 Copynumber: 2.8 Consensus size: 48
109435703 GTTACATGTT
* * *
109435713 TAACTGTGGTATATCCACTTAGCACCATGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
109435760 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATTAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
109435808 TAATCGTGTTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
109435847 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 29 0.38
48 47 0.62
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:109435839 original size:133 final size:132
Alignment explanation
Indices: 109435628--109435872 Score: 373
Period size: 133 Copynumber: 1.8 Consensus size: 132
109435618 GTTACATGTT
*
109435628 TAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
* * * *
109435693 TTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATAGCCACTTAGCACCATGTTAATGAATCAATATA
109435758 TG
131 TG
* * * * * **
109435760 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATTAATATGTGTAATCGTGTTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACATTA-ATGAATCAATATATGTAACCGTGGCATATCCA
109435825 CTTAGCACCACGTTACACGTATAACCGTGGTATAGCCACTTAGCACCA
65 CTTAGCACCACGTTACACGTATAACCGTGGTATAGCCACTTAGCACCA
109435873 CATTTTTTCC
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 30 0.30
133 70 0.70
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGTGGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATAGCCACTTAGCACCATGTTAATGAATCAATATA
TG
Found at i:109437179 original size:43 final size:43
Alignment explanation
Indices: 109437131--109437220 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
109437121 CGAGATGTTA
** * *
109437131 CATAGCTGGGCTATTGTTATCGATATACTATAACATGTAAGAC
1 CATAGCTGGGCTATTGGAAACCATATACTATAACATGTAAGAC
109437174 CATAGCTGGGCTATTGGAAACCATATACTATAACATGTAAGAC
1 CATAGCTGGGCTATTGGAAACCATATACTATAACATGTAAGAC
109437217 CATA
1 CATA
109437221 TTTGGGATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (43 bp):
CATAGCTGGGCTATTGGAAACCATATACTATAACATGTAAGAC
Found at i:109442983 original size:43 final size:44
Alignment explanation
Indices: 109442886--109443048 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 44
109442876 ATCGAGATGT
*
109442886 GATTACATGTAAGACCATGTCTGGGACATTGGCA---TTATATT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATATC
* *
109442927 GAAATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTA-ATC
1 G--ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATATC
* * * * *
109442972 GATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGATATGT-
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATATC
* *
109443015 G-TTAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATT-ACATGTAAGACCATGTCTGGGACATTGGCAT
109443049 TGTATGAGCA
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 85 0.84
44 1 0.01
45 3 0.03
46 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATATC
Found at i:109443040 original size:86 final size:83
Alignment explanation
Indices: 109442886--109443048 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 83
109442876 ATCGAGATGT
* * * * *
109442886 GATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTGAAATTACGTGTAAGACCATGTTT
1 GATTACATGTAAGACCATGTCTGGGACAGTGGCATGATATTG--ATTACATGTAAGACCATATCT
109442951 GGGACATTGGCATCGTTAATC
64 GGGACA-TGGCATCGTTAATC
* *
109442972 GATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTG-TTAACATGTAAGACCATATC
1 GATTACATGTAAGACCATGTCTGGGACAGTGGCAT-GATAT-TGATT-ACATGTAAGACCATATC
*
109443036 TGGGATATGGCAT
63 TGGGACATGGCAT
109443049 TGTATGAGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 8 0.12
86 52 0.79
87 4 0.06
88 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (83 bp):
GATTACATGTAAGACCATGTCTGGGACAGTGGCATGATATTGATTACATGTAAGACCATATCTGG
GACATGGCATCGTTAATC
Found at i:109443375 original size:26 final size:26
Alignment explanation
Indices: 109443346--109443398 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
109443336 ATTACTAAGC
109443346 TTTTAAAGCTTACTTTGTGTGTTCTT
1 TTTTAAAGCTTACTTTGTGTGTTCTT
*
109443372 TTTTAAAGCTTATTTTGTGTGTTCTT
1 TTTTAAAGCTTACTTTGTGTGTTCTT
109443398 T
1 T
109443399 CCATGCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.60
Consensus pattern (26 bp):
TTTTAAAGCTTACTTTGTGTGTTCTT
Found at i:109452063 original size:43 final size:43
Alignment explanation
Indices: 109451968--109452067 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
109451958 ATCAAGATGT
* * * * *
109451968 GATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTATAAGACATTGGCATCGTAATGA
*
109452011 GATTACGTGTAAGACCATGTATAAGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTATAAGACATTGGCATCG-TAATGA
*
109452054 GATTTCGTGTAAGA
1 GATTACGTGTAAGA
109452068 TCCTATATGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 46 0.94
44 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTATAAGACATTGGCATCGTAATGA
Found at i:109464344 original size:18 final size:18
Alignment explanation
Indices: 109464305--109464347 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
109464295 TCCAAGTTTT
*
109464305 TTTTATAGTTATTAAGTA
1 TTTTATAGTTATTAAGGA
*
109464323 TTTTA-AGTTATTTAGGA
1 TTTTATAGTTATTAAGGA
109464340 GTTTTATA
1 -TTTTATA
109464348 TCAATAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
TTTTATAGTTATTAAGGA
Found at i:109464778 original size:17 final size:19
Alignment explanation
Indices: 109464737--109464778 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
109464727 ATCTATCTTC
*
109464737 TTTATTGTTCTAATTTTTGA
1 TTTATTGTTCT-AGTTTTGA
109464757 TTTATTGTTCT-GTTTT-A
1 TTTATTGTTCTAGTTTTGA
109464774 TTTAT
1 TTTAT
109464779 CTTAGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
20 11 0.52
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTATTGTTCTAGTTTTGA
Found at i:109467162 original size:29 final size:28
Alignment explanation
Indices: 109467141--109467235 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
109467131 AAGTGGTGGG
*
109467141 CAATCCAAAGTGTAAGTCAAAGTGA-CAA
1 CAATCCAAAGTGTAAG-CAAAGTGATGAA
* *
109467169 GCATTCCAAAGTGTAAGCTAAAGTGATGGA
1 -CAATCCAAAGTGTAAGC-AAAGTGATGAA
* ** *
109467199 CAGTCCAAAGTACAAGCCAAAGTGGTGAA
1 CAATCCAAAGTGTAAG-CAAAGTGATGAA
109467228 CAATCCAA
1 CAATCCAA
109467236 CTACAAGCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.02
29 51 0.94
30 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (28 bp):
CAATCCAAAGTGTAAGCAAAGTGATGAA
Found at i:109467247 original size:28 final size:28
Alignment explanation
Indices: 109467209--109467269 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
109467199 CAGTCCAAAG
109467209 TACAAGCCAAAGTGGT-GAACAATCCAAC
1 TACAAGCCAAAGTGGTAG-ACAATCCAAC
*
109467237 TACAAGCCAAAGTGGTAGACAATCTAAC
1 TACAAGCCAAAGTGGTAGACAATCCAAC
109467265 TACAA
1 TACAA
109467270 ACTATCCCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (28 bp):
TACAAGCCAAAGTGGTAGACAATCCAAC
Found at i:109470240 original size:26 final size:26
Alignment explanation
Indices: 109470211--109470262 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
109470201 TTACAAAGTC
109470211 AACAAAATTTGATAACTCATTGGCTT
1 AACAAAATTTGATAACTCATTGGCTT
109470237 AACAAAATTTGATAACTCATTGGCTT
1 AACAAAATTTGATAACTCATTGGCTT
109470263 TCTCCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (26 bp):
AACAAAATTTGATAACTCATTGGCTT
Found at i:109474538 original size:34 final size:34
Alignment explanation
Indices: 109474495--109474564 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
109474485 ATTTATTCAC
109474495 ATCAAGTTTTTGGTGCCATTGCCAGGGAACTAAG
1 ATCAAGTTTTTGGTGCCATTGCCAGGGAACTAAG
109474529 ATCAAGTTTTTGGTGCCATTGCCAGGGAACTAAG
1 ATCAAGTTTTTGGTGCCATTGCCAGGGAACTAAG
109474563 AT
1 AT
109474565 ATTAGAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (34 bp):
ATCAAGTTTTTGGTGCCATTGCCAGGGAACTAAG
Found at i:109476954 original size:29 final size:29
Alignment explanation
Indices: 109476921--109477080 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
109476911 GTGACGAGAT
109476921 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
109476950 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
109476979 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
109477008 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
109477037 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
109477066 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
109477081 GAAATGAGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:109485001 original size:29 final size:29
Alignment explanation
Indices: 109484968--109485127 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
109484958 GTGACGAGAT
109484968 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
109484997 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
109485026 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
109485055 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
109485084 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
109485113 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
109485128 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:109493423 original size:15 final size:16
Alignment explanation
Indices: 109493403--109493432 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109493393 TACACAGTTC
109493403 TTACAACA-ATAGAAT
1 TTACAACACATAGAAT
109493418 TTACAACACATAGAA
1 TTACAACACATAGAA
109493433 GTAAAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (16 bp):
TTACAACACATAGAAT
Found at i:109494502 original size:28 final size:28
Alignment explanation
Indices: 109494462--109494517 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
109494452 CCATGAGAAG
109494462 AAAAAACATTTCAAGATTAAGTACCATT
1 AAAAAACATTTCAAGATTAAGTACCATT
109494490 AAAAAACATTTCAAGATTAAGTACCATT
1 AAAAAACATTTCAAGATTAAGTACCATT
109494518 TTGTAAGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAAAACATTTCAAGATTAAGTACCATT
Found at i:109495583 original size:2 final size:2
Alignment explanation
Indices: 109495576--109495603 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109495566 GCTCTTGCAC
109495576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109495604 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109496404 original size:40 final size:40
Alignment explanation
Indices: 109496307--109496456 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
109496297 TGGATGATAA
* * * * **
109496307 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
109496347 CC-GG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
109496385 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
109496425 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
109496457 AGCTATATCC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
38 30 0.31
39 4 0.04
40 60 0.62
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:109503647 original size:2 final size:2
Alignment explanation
Indices: 109503640--109503671 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
109503630 GCTCTTGCAC
109503640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109503672 GTTTGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109504472 original size:40 final size:40
Alignment explanation
Indices: 109504375--109504565 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
109504365 TGGATGATAA
* * * * **
109504375 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
109504415 CC-GGCCAAGTCCTGAAGGTATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
109504454 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
109504494 CCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
109504534 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
109504566 AGCTATATCC
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 29 0.23
40 97 0.76
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:109512262 original size:19 final size:17
Alignment explanation
Indices: 109512232--109512266 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
109512222 GAAAGCAAGG
109512232 AAAAAGAGAGAAAATAA
1 AAAAAGAGAGAAAATAA
109512249 AAAAAGAAGAAGAAAATA
1 AAAAAG-AG-AGAAAATA
109512267 TCCAGTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (17 bp):
AAAAAGAGAGAAAATAA
Found at i:109513845 original size:24 final size:24
Alignment explanation
Indices: 109513801--109513847 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
109513791 AAAAAAGATT
* *
109513801 TTATGTTAATAAATGTGAAATATA
1 TTATGCTAATAAATCTGAAATATA
109513825 TTATGCTAATAAATACT-AAATAT
1 TTATGCTAATAAAT-CTGAAATAT
109513848 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
TTATGCTAATAAATCTGAAATATA
Found at i:109515948 original size:11 final size:11
Alignment explanation
Indices: 109515880--109515950 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
109515870 ATTCCAAAAA
*
109515880 TAATATTATTT
1 TAATATTAATT
109515891 TAATA--AATT
1 TAATATTAATT
109515900 TAAT-TTAAATT
1 TAATATT-AATT
*
109515911 TAATACTTATTT
1 TAATA-TTAATT
*
109515923 TAATAGT-ATT
1 TAATATTAATT
109515933 T--TATTAATT
1 TAATATTAATT
109515942 TAATATTAA
1 TAATATTAA
109515951 AACGATTATC
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.06
9 11 0.23
10 3 0.06
11 20 0.43
12 8 0.17
13 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:109520647 original size:24 final size:24
Alignment explanation
Indices: 109520611--109520662 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
109520601 TAAATATGGA
**
109520611 AATAAATAACAAAGATTTTATGCT
1 AATAAATAACAAAGATACTATGCT
** *
109520635 AATAAATGTCAAATATACTATGCT
1 AATAAATAACAAAGATACTATGCT
109520659 AATA
1 AATA
109520663 CATACTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (24 bp):
AATAAATAACAAAGATACTATGCT
Found at i:109523111 original size:3 final size:3
Alignment explanation
Indices: 109523057--109523093 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
109523047 ATGCATACGA
109523057 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
109523094 GAAACACGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:109528619 original size:59 final size:59
Alignment explanation
Indices: 109528556--109528681 Score: 198
Period size: 59 Copynumber: 2.1 Consensus size: 59
109528546 ATAGAAATGG
* *
109528556 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAAATGTAGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTAGAAATGAAATATAGTTTTCTCCAAAATGAAAA
* * * *
109528615 TGAAAATTGAGAAATGAGAAACATTTAGAAATGAAATATGGTTTTCTCTAAATTGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTAGAAATGAAATATAGTTTTCTCCAAAATGAAAA
109528674 TGAAAATG
1 TGAAAATG
109528682 AAAATGGATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.28
Consensus pattern (59 bp):
TGAAAATGGAGAAATGAGAAACATTTAGAAATGAAATATAGTTTTCTCCAAAATGAAAA
Found at i:109533016 original size:16 final size:15
Alignment explanation
Indices: 109532984--109533018 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
109532974 ATGTAAATAA
109532984 ATATAATAATAACAT
1 ATATAATAATAACAT
*
109532999 ATATAATCAATTACAT
1 ATATAAT-AATAACAT
109533015 ATAT
1 ATAT
109533019 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATAATAACAT
Found at i:109535317 original size:49 final size:49
Alignment explanation
Indices: 109535246--109535361 Score: 112
Period size: 50 Copynumber: 2.3 Consensus size: 49
109535236 ATAAATATAA
* * *
109535246 ATATTTATATTAAATATAAGATC-AGAATAAAT-AATATAAGCAAATATTT
1 ATATTTATATAAAACATAAGATCAAGAA-AAATAAAT-TAAACAAATATTT
* * *
109535295 ATATTTATATAAAACACT-AGATCTAAGCAAATTAAATTAAATAAATATTT
1 ATATTTATATAAAACA-TAAGATC-AAGAAAAATAAATTAAACAAATATTT
*
109535345 ATATTTATTTAAAACAT
1 ATATTTATATAAAACAT
109535362 CATATCTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
49 20 0.36
50 30 0.54
51 6 0.11
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (49 bp):
ATATTTATATAAAACATAAGATCAAGAAAAATAAATTAAACAAATATTT
Found at i:109535386 original size:50 final size:50
Alignment explanation
Indices: 109535287--109535394 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 50
109535277 TAATATAAGC
*
109535287 AAATATTTATATTTATATAAAACACTAGATCTAAGCAAATTAAATTAAAT
1 AAATATTTATATTTATATAAAACACTAGATCTAAACAAATTAAATTAAAT
* *
109535337 AAATATTTATATTTATTTAAAACA-TCATATCTGAAA-ACAATTAAA-TAAAT
1 AAATATTTATATTTATATAAAACACT-AGATCT-AAACA-AATTAAATTAAAT
109535387 AAGATATT
1 AA-ATATT
109535395 GAAAAATCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
49 1 0.02
50 36 0.71
51 14 0.27
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (50 bp):
AAATATTTATATTTATATAAAACACTAGATCTAAACAAATTAAATTAAAT
Found at i:109537614 original size:3 final size:3
Alignment explanation
Indices: 109537606--109537637 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
109537596 AATTCAGATG
109537606 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
109537638 GTAGTGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:109538628 original size:2 final size:2
Alignment explanation
Indices: 109538623--109538670 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
109538613 ACACACACAA
109538623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
109538665 GT AT AT
1 AT AT AT
109538671 TGAGGGTAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109539143 original size:15 final size:16
Alignment explanation
Indices: 109539123--109539155 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
109539113 ATATATATTT
109539123 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
109539138 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
109539155 T
1 T
109539156 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:109539241 original size:22 final size:22
Alignment explanation
Indices: 109539202--109539260 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
109539192 GTTTTAAGAA
*
109539202 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
109539223 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
109539245 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
109539261 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:109539277 original size:26 final size:24
Alignment explanation
Indices: 109539231--109539278 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
109539221 ATTTGTTTTA
*
109539231 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
109539255 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
109539279 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:109544450 original size:130 final size:129
Alignment explanation
Indices: 109544088--109544499 Score: 402
Period size: 130 Copynumber: 3.2 Consensus size: 129
109544078 ACGAACATTG
* ** * * *
109544088 CCTTCGTTTTGAAAGG-TTTTTAATAA-ACATGAATGTAAA-CCTAAAGGAATATTCGATTGTTT
1 CCTTCGTTTT-AAAGGATTTTTAA-AAGACATGAGTG-AAATTTTGAAGGGATATTCGATTATTT
* ** * * * * *
109544150 TAAACAAACGAGAAATCACAACCCAGCACGATAAGGCATGATTCCCGAATTGTCAAACATCGAGT
63 TAAAC-AA-GCGAAATTGCAACCCAACACGTTAGGGCACGATTCCCGAATTGTCAAATATCGAGT
*
109544215 ATTA
126 ATCA
* * *
109544219 CCTTCGTTTTAAAGGATTTTTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTAA
1 CCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAA
* * * * *
109544284 ACAATCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAATTATCGCGTATCG
66 ACAAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC-CGAATTGTCAAATATCGAGTATCA
* *
109544349 CCTTCG-TTTAAAGGA-TTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGA
1 CCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAA
* * * * * *
109544412 GCAGACGCGAAGTTGCAACCCAATACGTTAGGGCACGATTCCGCGAATTGTCAAATATCAAATCT
66 ACA-A-GCGAAATTGCAACCCAACACGTTAGGGCACGATTCC-CGAATTGTCAAATATCGAGTAT
*
109544477 CG
128 CA
* *
109544479 TCTTCGTTTTAAAGAATTTTT
1 CCTTCGTTTTAAAGGATTTTT
109544500 GAATGAATGA
Statistics
Matches: 232, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
128 45 0.19
129 38 0.16
130 92 0.40
131 53 0.23
132 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (129 bp):
CCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAA
ACAAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCCGAATTGTCAAATATCGAGTATCA
Found at i:109545906 original size:3 final size:3
Alignment explanation
Indices: 109545898--109545935 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
109545888 ATATATATAT
109545898 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
109545936 TTAAAAGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:109546121 original size:2 final size:2
Alignment explanation
Indices: 109546114--109546154 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
109546104 AAGAAAATAA
109546114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109546155 CAAATGAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:109554573 original size:11 final size:11
Alignment explanation
Indices: 109554559--109554583 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
109554549 TAGATTTAAT
109554559 ATTCATCATTA
1 ATTCATCATTA
109554570 ATTCATCATTA
1 ATTCATCATTA
109554581 ATT
1 ATT
109554584 GAAATTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTCATCATTA
Found at i:109557037 original size:23 final size:23
Alignment explanation
Indices: 109556985--109557032 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
109556975 ATTAAAAACA
*
109556985 TAATTTTTTTACTTTTCTTTCTT
1 TAATTTTTTTACTTTTCTTTATT
*
109557008 TAATTTTTTTACTTTTGGTTTATT
1 TAATTTTTTTACTTTT-CTTTATT
109557032 T
1 T
109557033 TTTTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (23 bp):
TAATTTTTTTACTTTTCTTTATT
Found at i:109557736 original size:2 final size:2
Alignment explanation
Indices: 109557731--109557769 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
109557721 AAAAAAAGTA
109557731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109557770 ATCAAATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:109559387 original size:2 final size:2
Alignment explanation
Indices: 109559338--109559370 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
109559328 TGAAATGATA
109559338 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109559371 GCATAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109559766 original size:22 final size:21
Alignment explanation
Indices: 109559741--109559781 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
109559731 TTAAATCTCT
109559741 AAGATTACAAGATCATATCTTC
1 AAGATTAC-AGATCATATCTTC
* *
109559763 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
109559782 AAGATTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTC
Found at i:109559787 original size:19 final size:19
Alignment explanation
Indices: 109559738--109559830 Score: 127
Period size: 19 Copynumber: 4.8 Consensus size: 19
109559728 AAATTAAATC
* *
109559738 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
109559758 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
109559779 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
109559796 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
109559815 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
109559831 CTTAAAAATT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
17 17 0.25
19 30 0.45
20 3 0.04
21 10 0.15
22 7 0.10
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:109559807 original size:36 final size:38
Alignment explanation
Indices: 109559752--109559824 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
109559742 AGATTACAAG
109559752 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
109559790 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
109559825 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:109560515 original size:87 final size:87
Alignment explanation
Indices: 109560379--109560569 Score: 249
Period size: 87 Copynumber: 2.2 Consensus size: 87
109560369 CCATGCTGAA
* * * * * *
109560379 ATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCTGCTATGTCTTCGATTTGTTCCCT
1 ATCTTGGATCTGCTTCGCTGTAAACACAGGAAGGTCAGATATGCTATGTCTTCGATTTGCTCCCT
*
109560444 GTAAACACAATGATGCCAAATC
66 GTAAACACAAGGATGCCAAATC
** **
109560466 ATCTTGGATCTGCTTCAGC-GTAAACACCTGAAGGTCAGATATGCTATGTCTTCGATTTGCTCTT
1 ATCTTGGATCTGCTTC-GCTGTAAACACAGGAAGGTCAGATATGCTATGTCTTCGATTTGCTCCC
*
109560530 TGTAAACACAAGGATGCTAAATC
65 TGTAAACACAAGGATGCCAAATC
*
109560553 ATCTTGGATCTGATTCG
1 ATCTTGGATCTGCTTCG
109560570 AAGGTCAGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 87 0.97
88 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTTGGATCTGCTTCGCTGTAAACACAGGAAGGTCAGATATGCTATGTCTTCGATTTGCTCCCT
GTAAACACAAGGATGCCAAATC
Found at i:109560817 original size:84 final size:84
Alignment explanation
Indices: 109560720--109561090 Score: 549
Period size: 84 Copynumber: 4.4 Consensus size: 84
109560710 TCTGCTATAC
* * * *
109560720 TTTAACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTATTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTACTT
109560784 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
* * *
109560804 TTTAACCTTTTACCCTACTGCTTAGGGGATTAAGGCGAGTTGTCGTCGATCTGCTCCGCTACTAC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA---GTCTTCGATCTGCTCCACTACTAC
*
109560869 TTAGGGAGATAAGATTTGC---
63 TTAGGGAGATAAGATCTGCAAA
* *
109560888 --GAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTA
109560951 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
*
109560970 TTTAACCTGTTACCCTACAT-CTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTACTT
1 TTTAACCTGTTACCCTAC-TGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTT
109561034 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
109561054 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
109561091 CTGAATTTTG
Statistics
Matches: 259, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
79 39 0.15
82 34 0.13
83 2 0.01
84 146 0.56
85 1 0.00
87 37 0.14
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTA
GGGAGATAAGATCTGCAAA
Found at i:109560947 original size:41 final size:40
Alignment explanation
Indices: 109560816--109561037 Score: 122
Period size: 41 Copynumber: 5.4 Consensus size: 40
109560806 TAACCTTTTA
*
109560816 CCCTACTGCTTAGGGGATTAAGGCGAGTTGTCGTCGATCTGCT
1 CCCTACTGCTTAGGGGATTAAGGCGA---GTCTTCGATCTGCT
* * *
109560859 CCGCTACTACTTAGGGAGA-TAA---GA-T-TTGCGAACCTGTT
1 CC-CTACTGCTTAGGG-GATTAAGGCGAGTCTT-CG-ATCTGCT
109560897 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCT
1 -CCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCT
* * * * *
109560938 CCACTACTGCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTT
1 CC-CTACTGCTTAGGG-GATTAAG----GCGAGTCTTCGATCTGCT
*
109560981 ACCCTACAT-CTTAGGGGATTAAGGCGGGTCTTCGATCTGCT
1 -CCCTAC-TGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCT
*
109561022 CCACTACTACTTAGGG
1 CC-CTACTGCTTAGGG
109561038 AGATAAGATC
Statistics
Matches: 137, Mismatches: 18, Indels: 50
0.67 0.09 0.24
Matches are distributed among these distances:
36 1 0.01
37 5 0.04
38 20 0.15
39 5 0.04
40 7 0.05
41 42 0.31
42 7 0.05
43 24 0.18
44 20 0.15
45 6 0.04
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
CCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCT
Found at i:109560997 original size:166 final size:164
Alignment explanation
Indices: 109560723--109561091 Score: 564
Period size: 166 Copynumber: 2.2 Consensus size: 164
109560713 GCTATACTTT
* * *
109560723 AACCTGTTACCCTACTGCTCAGGGGGTTAAGGCGCATCTTCGATCTGCTCCACTATTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGG
*
109560788 AGATAAGATCTGCAAATTTAACCTTTTACCCTACTGCTTAGGGGATTAAGGCGAGTTGTCGTCGA
66 AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-G--GTCGTCGA
* *
109560853 TCTGCTCCGCTACTACTTAGGGAGATAAGATTTGC-G
128 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAG
109560889 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTTAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAGG
*
109560953 GAGATAAGATCTGCAAATTTAACCTGTTACCCTACAT-CTTAGGGGATTAAGGCGGGTCTTCGAT
65 GAGATAAGATCTGCAAATTTAACCTGTTACCCTAC-TGCTTAGGGGATTAAGGCGGGTCGTCGAT
*
109561017 CTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTT
129 CTGCTCCACTACTACTTAGGGAGATAAGATCTGC--A--G
109561057 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
109561092 TGAATTTTGT
Statistics
Matches: 187, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
163 40 0.21
165 2 0.01
166 110 0.59
167 1 0.01
168 34 0.18
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (164 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCATCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGGTCGTCGATCT
GCTCCACTACTACTTAGGGAGATAAGATCTGCAG
Found at i:109562074 original size:11 final size:11
Alignment explanation
Indices: 109562056--109562090 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
109562046 CTTTTTTCTG
109562056 TTTA-TTTTAT
1 TTTATTTTTAT
109562066 TTTATTTTTAT
1 TTTATTTTTAT
109562077 TTTATTTTTAT
1 TTTATTTTTAT
109562088 TTT
1 TTT
109562091 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:109562076 original size:6 final size:6
Alignment explanation
Indices: 109562056--109562098 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
109562046 CTTTTTTCTG
109562056 TTTA-T TTTA-T TTTATT TTTA-T TTTATT TTTATTT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTT
109562099 TTCTTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 14 0.40
6 15 0.43
7 6 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:109562097 original size:5 final size:5
Alignment explanation
Indices: 109562056--109562090 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
109562046 CTTTTTTCTG
109562056 TTTAT TTTAT TTTATT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTA-T TTTAT TTT
109562091 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:109562112 original size:11 final size:10
Alignment explanation
Indices: 109562038--109562123 Score: 59
Period size: 11 Copynumber: 7.9 Consensus size: 10
109562028 GGCCTCTCCA
109562038 TTTTTTTTCT
1 TTTTTTTTCT
109562048 TTTTTCTGTT-T
1 TTTTT-T-TTCT
*
109562059 ATTTTATTTTAT
1 -TTTT-TTTTCT
*
109562071 TTTTATTTTAT
1 TTTT-TTTTCT
109562082 TTTTATTTT-T
1 TTTT-TTTTCT
109562092 TATTTTTTTCT
1 T-TTTTTTTCT
109562103 TTTCTTTTTCCT
1 TTT-TTTTT-CT
109562115 TTTTTTTTC
1 TTTTTTTTC
109562124 GAAATAGAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 18
0.79 0.00 0.21
Matches are distributed among these distances:
10 14 0.21
11 39 0.58
12 13 0.19
13 1 0.01
ACGTcount: A:0.08, C:0.08, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:109563079 original size:11 final size:11
Alignment explanation
Indices: 109563065--109563098 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
109563055 CTTGCAAGCC
109563065 TCAAAACTTGA
1 TCAAAACTTGA
109563076 TCAAAACTTGA
1 TCAAAACTTGA
109563087 TCAAAACTTGA
1 TCAAAACTTGA
109563098 T
1 T
109563099 TGAGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (11 bp):
TCAAAACTTGA
Found at i:109567632 original size:11 final size:11
Alignment explanation
Indices: 109567616--109567640 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
109567606 GCAAGCCTCA
109567616 AAAACTTGATC
1 AAAACTTGATC
109567627 AAAACTTGATC
1 AAAACTTGATC
109567638 AAA
1 AAA
109567641 TGATTGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAACTTGATC
Found at i:109572296 original size:19 final size:19
Alignment explanation
Indices: 109572261--109572358 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
109572251 AGATTACAAG
*
109572261 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
109572282 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
109572301 ATAATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
109572318 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
109572337 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
109572356 ATC
1 ATC
109572359 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:109572326 original size:36 final size:37
Alignment explanation
Indices: 109572272--109572358 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
109572262 TCATATCTTC
109572272 AAGATTGTATATCATATCTAAGATTGCATATAATATCT
1 AAGATTG-ATATCATATCTAAGATTGCATATAATATCT
*
109572310 AAGATTG-TATCATATCTAAGATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATAATATCT
109572346 AAGATTGCATATC
1 AAGATTG-ATATC
109572359 CTTAAAGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 35 0.76
38 11 0.24
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATAATATCT
Found at i:109574636 original size:41 final size:41
Alignment explanation
Indices: 109574572--109574995 Score: 690
Period size: 41 Copynumber: 10.4 Consensus size: 41
109574562 CGTTCTAAAA
* *
109574572 AAAACGCCGGT-AAAACCAGAGCATTAGCGGCGCTTTCTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * * *
109574612 AAAATGCCGCTAAAAACCAGAGCATTAGCGGCCCCTTCTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
109574653 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
109574694 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
109574735 AAAACGCCGCTAAAAACCAAAGCATTAGCGGTGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
109574776 AAAACGCCGTTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
109574817 AAAACGCCGCTAAAAACCTGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
109574858 AAAACGCCGCTAAAAACCAGAGCATTAGCTGCGCTTTCAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
109574899 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
**
109574940 -AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCAAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
109574980 AAAATGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
109574996 TCCCATAACC
Statistics
Matches: 357, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
40 47 0.13
41 310 0.87
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:109575175 original size:14 final size:14
Alignment explanation
Indices: 109575153--109575192 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
109575143 TTAATTATCA
* *
109575153 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
109575167 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
109575181 ATATGGTTTAAG
1 TTATGGTTTAAG
109575193 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:109575247 original size:25 final size:26
Alignment explanation
Indices: 109575206--109575255 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
109575196 GTTTAATTAT
*
109575206 GAGTTAACTATGGTTT-AAGGTTTAG
1 GAGTTAACTATGATTTAAAGGTTTAG
109575231 GAGTTAACTA-GTATTTAAAGGTTTA
1 GAGTTAACTATG-ATTTAAAGGTTTA
109575256 TGATGAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (26 bp):
GAGTTAACTATGATTTAAAGGTTTAG
Found at i:109575781 original size:2 final size:2
Alignment explanation
Indices: 109575776--109575800 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109575766 TATATATATA
109575776 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
109575801 TTTAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:109576060 original size:15 final size:15
Alignment explanation
Indices: 109576040--109576071 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
109576030 TTTAATTTAG
*
109576040 AAGATAAATGTATAT
1 AAGATAAATATATAT
109576055 AAGATAAATATATAT
1 AAGATAAATATATAT
109576070 AA
1 AA
109576072 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:109576110 original size:24 final size:24
Alignment explanation
Indices: 109576043--109576110 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
109576033 AATTTAGAAG
* *
109576043 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
109576068 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
109576092 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
109576111 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:109582034 original size:42 final size:42
Alignment explanation
Indices: 109581950--109582092 Score: 187
Period size: 42 Copynumber: 3.3 Consensus size: 42
109581940 ACTGGGCAAA
* * *
109581950 TTAGCGGCATTTTTCAAAAAAAGCACCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTTT--AAAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
109581994 TTAGCGGCGTTTTTATAAATGCGCTGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
**
109582036 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTAATCT
1 TTAGCGGCG-TTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
109582079 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
109582093 TCTAAAAAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 37 0.43
43 37 0.43
44 13 0.15
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (42 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:109582066 original size:43 final size:44
Alignment explanation
Indices: 109581950--109582110 Score: 195
Period size: 43 Copynumber: 3.7 Consensus size: 44
109581940 ACTGGGCAAA
* * * *
109581950 TTAGCGGCATTTTTCAAAAAAAGCACCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTTTCTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
109581994 TTAGCGGCG-TTTT-TATAAATGCGCTGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTCTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
**
109582036 TTAGCGGCGTTTTT-TAAAAAAGCGCCGCTAAAGGTCCTAATCT
1 TTAGCGGCGTTTTTCTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
*
109582079 TTAGCGGCGTTTTTTCTAAAAAA-CGCCACTAA
1 TTAGCGGCG-TTTTTCTAAAAAAGCGCCGCTAA
109582111 TTTTTGCGGC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 32 0.32
43 41 0.41
44 21 0.21
45 7 0.07
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
TTAGCGGCGTTTTTCTAAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:109586608 original size:26 final size:25
Alignment explanation
Indices: 109586578--109586626 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
109586568 GAGATAAAAT
109586578 TTAAAATGATG-ATTAAAGATATTAGA
1 TTAAAAT-ATGTATTAAA-ATATTAGA
*
109586604 TTAAAATATGTATTCAAATATTA
1 TTAAAATATGTATTAAAATATTA
109586627 TAAATAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (25 bp):
TTAAAATATGTATTAAAATATTAGA
Found at i:109588300 original size:55 final size:54
Alignment explanation
Indices: 109588238--109588391 Score: 227
Period size: 55 Copynumber: 2.8 Consensus size: 54
109588228 TTTTGATTTT
* *
109588238 TCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTTTTATGTTGGAATAC
1 TCTTCTTTTGAATCGATTTTTTATATGTTTAAATCAATTGTTATGTTGGAATAC
* * *
109588292 TACTTCTTTTGAATCGATTATTTATATGTTTAAATCTATTGTTATGTTGGAATGC
1 T-CTTCTTTTGAATCGATTTTTTATATGTTTAAATCAATTGTTATGTTGGAATAC
* *
109588347 TCTACTTTTGAATAGATTGTTTTATATGTTTAAATCAATTGTTAT
1 TCTTCTTTTGAATCGATT-TTTTATATGTTTAAATCAATTGTTAT
109588392 ATAGCACGTC
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 16 0.18
55 74 0.82
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (54 bp):
TCTTCTTTTGAATCGATTTTTTATATGTTTAAATCAATTGTTATGTTGGAATAC
Found at i:109589862 original size:39 final size:39
Alignment explanation
Indices: 109589819--109589955 Score: 161
Period size: 39 Copynumber: 3.5 Consensus size: 39
109589809 CATTTTCACT
* *
109589819 TTTAAGTATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* *
109589858 TTTAAGCATATATCATAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* * * *
109589897 TTTAAGCATATAT-ATCAACACTCATGTAATTACATAACA
1 TTTAAGCATATATCA-CAATACACATATAATCACATAACA
* *
109589936 TTCAAGCATAT-TCTCAATAC
1 TTTAAGCATATATCACAATAC
109589956 TCAAAAACAT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 7 0.08
39 78 0.92
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.34
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAACA
Found at i:109600513 original size:17 final size:17
Alignment explanation
Indices: 109600480--109600513 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109600470 ATTCACTTCC
**
109600480 TATAATTTAATTTTTTT
1 TATAATTTAATAATTTT
109600497 TATAATTTAATAATTTT
1 TATAATTTAATAATTTT
109600514 ATTTTTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATAATTTAATAATTTT
Found at i:109607308 original size:21 final size:22
Alignment explanation
Indices: 109607282--109607329 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
109607272 GTATAATATA
*
109607282 AAATAATAATA-TACAGTAAAT
1 AAATAATAATACTAAAGTAAAT
109607303 AAATAATAATATCTAAAGTAAAT
1 AAATAATAATA-CTAAAGTAAAT
109607326 AAAT
1 AAAT
109607330 TTAAAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.46
23 13 0.54
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATAATAATACTAAAGTAAAT
Found at i:109607319 original size:18 final size:21
Alignment explanation
Indices: 109607282--109607327 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
109607272 GTATAATATA
109607282 AAATAATAATATACAGTAAA-T
1 AAATAATAATATACA-TAAAGT
109607303 AAATAATAATAT-C-TAAAGT
1 AAATAATAATATACATAAAGT
109607322 AAATAA
1 AAATAA
109607328 ATTTAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 7 0.29
20 1 0.04
21 12 0.50
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
AAATAATAATATACATAAAGT
Found at i:109609099 original size:3 final size:3
Alignment explanation
Indices: 109609093--109609152 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
109609083 TGTTGTTGTT
109609093 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109609141 TTA TTA TTA TTA
1 TTA TTA TTA TTA
109609153 CAAATGTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:109610580 original size:15 final size:16
Alignment explanation
Indices: 109610560--109610589 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109610550 TTTTGCTTCT
109610560 TCTTCCTTCA-CATCA
1 TCTTCCTTCATCATCA
109610575 TCTTCCTTCATCATC
1 TCTTCCTTCATCATC
109610590 TTAACTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (16 bp):
TCTTCCTTCATCATCA
Found at i:109612520 original size:40 final size:40
Alignment explanation
Indices: 109612465--109612567 Score: 170
Period size: 40 Copynumber: 2.6 Consensus size: 40
109612455 ATATTTTACT
* *
109612465 CGGATAAAGTATGTATTAATAGAAAACTGTATAATTTATC
1 CGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAAC
*
109612505 CGGATGAAGTATGTATTAACAGAAAACTGTATAATTTAAC
1 CGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAAC
*
109612545 CGGATGATGTATGTATTAATAGA
1 CGGATGAAGTATGTATTAATAGA
109612568 TATACTTAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (40 bp):
CGGATGAAGTATGTATTAATAGAAAACTGTATAATTTAAC
Found at i:109612594 original size:18 final size:18
Alignment explanation
Indices: 109612571--109612605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109612561 TAATAGATAT
*
109612571 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
109612589 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
109612606 ACTACCACGT
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:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:109613145 original size:17 final size:17
Alignment explanation
Indices: 109613125--109613157 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
109613115 TTAATGAATG
109613125 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
109613142 TTATTAAATTATATTT
1 TTATTAAATTATATTT
109613158 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:109613423 original size:46 final size:44
Alignment explanation
Indices: 109613330--109613423 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
109613320 ATTACAACAT
*
109613330 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
109613374 CATTCCATTCAACCAAACA-ATTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAGCTCTATTC
109613420 CATT
1 CATT
109613424 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 3 0.07
46 19 0.42
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:109613426 original size:16 final size:16
Alignment explanation
Indices: 109613405--109613460 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
109613395 TGAATTACTT
109613405 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
109613421 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
109613437 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
109613453 ATTACAGC
1 ATTACAGC
109613461 CAACCAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:109614908 original size:42 final size:42
Alignment explanation
Indices: 109614849--109614940 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
109614839 ATAATATTTG
109614849 TCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
1 TCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
*
109614891 TCACATAAATCATGAACTCAGATCACAACTCATGAGTTCAGA
1 TCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
109614933 TCACATAA
1 TCACATAA
109614941 TTTCCTAGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (42 bp):
TCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:109614911 original size:22 final size:22
Alignment explanation
Indices: 109614849--109614940 Score: 93
Period size: 20 Copynumber: 4.4 Consensus size: 22
109614839 ATAATATTTG
109614849 TCACATAAATCATGAACTCAGA
1 TCACATAAATCATGAACTCAGA
* * **
109614871 -C-CACAACTCATGAGTTCAGA
1 TCACATAAATCATGAACTCAGA
109614891 TCACATAAATCATGAACTCAGA
1 TCACATAAATCATGAACTCAGA
* **
109614913 TCAC--AACTCATGAGTTCAGA
1 TCACATAAATCATGAACTCAGA
109614933 TCACATAA
1 TCACATAA
109614941 TTTCCTAGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
20 32 0.58
21 2 0.04
22 21 0.38
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (22 bp):
TCACATAAATCATGAACTCAGA
Found at i:109618052 original size:73 final size:73
Alignment explanation
Indices: 109617784--109618044 Score: 269
Period size: 73 Copynumber: 3.5 Consensus size: 73
109617774 TTTGAGCTAA
* * *
109617784 ACATATAATCATGTCAAGTTACTCGT-TCGGGCTAAACCTTTATATAGACACATC-AATGGCTTA
1 ACATAT-A-CATGTCAAGTTACCCGTCT-GGGCTAAACCTTTATATCGACACATCAAATAGCTTA
**** *
109617847 -TTTGAGCTGA-
63 GCCAAAG-TTAC
* *
109617857 ACATATAATCGTGTCAAGTTACCCGTCTGGGCTAAACCTTTATATTGACACATCAAATAGCTTAG
1 ACATAT-A-CATGTCAAGTTACCCGTCTGGGCTAAACCTTTATATCGACACATCAAATAGCTTAG
*
109617922 CCAAAGTTAT
64 CCAAAGTTAC
* * * *
109617932 ACATATACATGTTAGGTTACCCGTCTAGGCTAAACCTTTATATCGACACATCAAATAGCTTGGCC
1 ACATATACATGTCAAGTTACCCGTCTGGGCTAAACCTTTATATCGACACATCAAATAGCTTAGCC
109617997 AAAGTTAC
66 AAAGTTAC
* * * *
109618005 ACATATACATGTCAAGTTACCCATCCGGGGTAAACGTTTA
1 ACATATACATGTCAAGTTACCCGTCTGGGCTAAACCTTTA
109618045 AAACGACATC
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
73 141 0.88
74 12 0.07
75 8 0.05
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
ACATATACATGTCAAGTTACCCGTCTGGGCTAAACCTTTATATCGACACATCAAATAGCTTAGCC
AAAGTTAC
Found at i:109620208 original size:26 final size:26
Alignment explanation
Indices: 109620179--109620229 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
109620169 GTAGGGGAAC
*
109620179 GTATTGCTCAAATAATGATAGGTTTT
1 GTATTGCTCAAATAATGATAAGTTTT
109620205 GTATTGCTCAAATAATGATAAGTTT
1 GTATTGCTCAAATAATGATAAGTTT
109620230 CCTTTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (26 bp):
GTATTGCTCAAATAATGATAAGTTTT
Found at i:109623575 original size:17 final size:17
Alignment explanation
Indices: 109623543--109623579 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
109623533 TAAAGTTTAG
109623543 AAGGGGAAACCCAAGTCA
1 AAGGGGAAACCCAAGT-A
109623561 AAGGGGAAA-CCAAGTA
1 AAGGGGAAACCCAAGTA
109623577 AAG
1 AAG
109623580 ATGATTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 6 0.32
18 9 0.47
ACGTcount: A:0.49, C:0.16, G:0.30, T:0.05
Consensus pattern (17 bp):
AAGGGGAAACCCAAGTA
Found at i:109629312 original size:19 final size:20
Alignment explanation
Indices: 109629266--109629312 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
109629256 ATCGAGTGGT
*
109629266 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
109629287 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
109629306 TAATTAG
1 TAATTAG
109629313 GAAAAAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:109632974 original size:27 final size:27
Alignment explanation
Indices: 109632929--109632980 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
109632919 CGCCAACAGG
* * *
109632929 TCTGGTAAGATGGTGTACACCAGCAAA
1 TCTGGCAAGATAGTATACACCAGCAAA
109632956 TCTGGCAAGATAGTATACACCAGCA
1 TCTGGCAAGATAGTATACACCAGCA
109632981 GGTTTGGCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
TCTGGCAAGATAGTATACACCAGCAAA
Found at i:109632988 original size:27 final size:27
Alignment explanation
Indices: 109632915--109632988 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
109632905 GGCGAGCTAA
* * * *
109632915 TATACGCCAACAGGTCTGGTAAGATGG
1 TATACACCAGCAGGTCTGGCAAGATAG
* **
109632942 TGTACACCAGCAAATCTGGCAAGATAG
1 TATACACCAGCAGGTCTGGCAAGATAG
*
109632969 TATACACCAGCAGGTTTGGC
1 TATACACCAGCAGGTCTGGC
109632989 GAGACGATGT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (27 bp):
TATACACCAGCAGGTCTGGCAAGATAG
Found at i:109633619 original size:20 final size:20
Alignment explanation
Indices: 109633582--109633620 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109633572 AATATAAATA
* **
109633582 AAAAATATAAATCTAAAACT
1 AAAAATAAAAATAAAAAACT
109633602 AAAAATAAAAATAAAAAAC
1 AAAAATAAAAATAAAAAAC
109633621 ATATAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAATAAAAAACT
Found at i:109633652 original size:9 final size:9
Alignment explanation
Indices: 109633638--109633714 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
109633628 TTTATACAAA
109633638 TAATTCGGT
1 TAATTCGGT
109633647 TAATTCGGT
1 TAATTCGGT
* *
109633656 TAATTTGGG
1 TAATTCGGT
*
109633665 TAATTCGGG
1 TAATTCGGT
*
109633674 TAATTCGGG
1 TAATTCGGT
*
109633683 TAATTTGGT
1 TAATTCGGT
*
109633692 TAATTCGAT
1 TAATTCGGT
109633701 TAATTCGGT
1 TAATTCGGT
109633710 TAATT
1 TAATT
109633715 TTATACTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:109633677 original size:27 final size:27
Alignment explanation
Indices: 109633638--109633715 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
109633628 TTTATACAAA
109633638 TAATTCGGTTAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCGGTTAATTTGGG
* * *
109633665 TAATTCGGGTAATTCGGGTAATTTGGT
1 TAATTCGGTTAATTCGGTTAATTTGGG
*
109633692 TAATTCGATTAATTCGGTTAATTT
1 TAATTCGGTTAATTCGGTTAATTT
109633716 TATACTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGGG
Found at i:109637032 original size:124 final size:124
Alignment explanation
Indices: 109636812--109637060 Score: 444
Period size: 124 Copynumber: 2.0 Consensus size: 124
109636802 TTCCCTAGTG
* * *
109636812 GGTACCCCTGGATATGAATTTATGGATTTTTAATTTTGTACATTGTACTATATGAGCGTATCTAT
1 GGTACCCCTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
*
109636877 CGATATTTCAAATACTTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
66 CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
*
109636936 GGTACCGCTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
1 GGTACCCCTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
*
109637001 CGATATTTCAAATAATTTCAACGGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
66 CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
109637060 G
1 G
109637061 ATTGATCATG
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (124 bp):
GGTACCCCTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
Found at i:109640644 original size:29 final size:29
Alignment explanation
Indices: 109640602--109640658 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
109640592 TGATTACATT
109640602 TTAGAGGATATATCTTAATTCTGTCCCTA
1 TTAGAGGATATATCTTAATTCTGTCCCTA
* *
109640631 TTAGATGATATATCTTAATTTTGTCCCT
1 TTAGAGGATATATCTTAATTCTGTCCCT
109640659 GCTTTTTACA
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:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (29 bp):
TTAGAGGATATATCTTAATTCTGTCCCTA
Found at i:109642372 original size:16 final size:18
Alignment explanation
Indices: 109642341--109642382 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
109642331 GTTTGACCAA
109642341 ATAAAATATTAAAAAT-TT
1 ATAAAATA-TAAAAATATT
109642359 ATAAAATA-AAAAATATT
1 ATAAAATATAAAAATATT
109642376 -TAAAATA
1 ATAAAATA
109642383 GAGAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
18 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAATATAAAAATATT
Found at i:109642389 original size:25 final size:25
Alignment explanation
Indices: 109642343--109642390 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
109642333 TTGACCAAAT
** *
109642343 AAAATATTAAAAATTTATAAAATAA
1 AAAATATTAAAAATAGAGAAAATAA
*
109642368 AAAATATTTAAAATAGAGAAAAT
1 AAAATATTAAAAATAGAGAAAAT
109642391 CAATTCAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATATTAAAAATAGAGAAAATAA
Found at i:109645075 original size:27 final size:27
Alignment explanation
Indices: 109645045--109645185 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
109645035 GTGATGAAGT
109645045 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
109645072 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
109645099 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
109645126 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
109645153 CACCGGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
109645180 CACCAG
1 CACCAG
109645186 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:109645186 original size:54 final size:54
Alignment explanation
Indices: 109645045--109645188 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
109645035 GTGATGAAGT
* *
109645045 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
109645099 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
109645153 CACCGGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
109645189 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:109650947 original size:20 final size:20
Alignment explanation
Indices: 109650922--109650992 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
109650912 ATTTTGATAA
*
109650922 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
*
109650942 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
109650962 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
109650982 ACATGAGATGT
1 ACATGATATGT
109650993 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:109651073 original size:23 final size:23
Alignment explanation
Indices: 109651039--109651181 Score: 232
Period size: 23 Copynumber: 6.1 Consensus size: 23
109651029 AGGAAGTGCA
109651039 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109651062 AAATGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109651085 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
109651109 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
109651132 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
109651155 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
109651179 AAA
1 AAA
109651182 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 69 0.62
24 43 0.38
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:109651117 original size:24 final size:23
Alignment explanation
Indices: 109651038--109651201 Score: 213
Period size: 23 Copynumber: 7.0 Consensus size: 23
109651028 GAGGAAGTGC
109651038 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
109651061 TAAATGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
109651084 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
109651107 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
109651131 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
109651155 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
109651179 AAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAG-GGCTTATGCC-CCAGTTA
109651202 CATGATAAAG
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
23 64 0.51
24 53 0.42
25 9 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:109651134 original size:47 final size:46
Alignment explanation
Indices: 109651039--109651181 Score: 232
Period size: 47 Copynumber: 3.1 Consensus size: 46
109651029 AGGAAGTGCA
* *
109651039 AAAGGGCTTATGCCCCAGTTATTAAATGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
109651085 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
109651132 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
109651179 AAA
1 AAA
109651182 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.24
47 68 0.75
48 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:109653175 original size:12 final size:12
Alignment explanation
Indices: 109653151--109653186 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
109653141 ACATCAATTG
109653151 AAATTTTTAAAA
1 AAATTTTTAAAA
109653163 AAATATTTTAAAA
1 AAAT-TTTTAAAA
109653176 AAATCTTTTAA
1 AAAT-TTTTAA
109653187 CTTTTCTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATTTTTAAAA
Found at i:109654565 original size:22 final size:22
Alignment explanation
Indices: 109654538--109654583 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
109654528 AAAGCAATAT
*
109654538 TTAATCTTTTAAATCGATAATC
1 TTAATCTTTCAAATCGATAATC
* *
109654560 TTAATCTTTCATATTGATAATC
1 TTAATCTTTCAAATCGATAATC
109654582 TT
1 TT
109654584 TCTTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAATCTTTCAAATCGATAATC
Found at i:109669366 original size:20 final size:21
Alignment explanation
Indices: 109669333--109669374 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
109669323 TTTTTTATTT
*
109669333 ATTATTATAATTCAT-TTTAA
1 ATTATAATAATTCATATTTAA
*
109669353 ATTATAATATTTCATATTTAA
1 ATTATAATAATTCATATTTAA
109669374 A
1 A
109669375 AGAATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATAATAATTCATATTTAA
Found at i:109676608 original size:25 final size:25
Alignment explanation
Indices: 109676580--109676627 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
109676570 TTTCCAATGA
109676580 GTTTTCTCGTAATGGAAAAGTTTGG
1 GTTTTCTCGTAATGGAAAAGTTTGG
109676605 GTTTTCTCGTAATGGAAAAGTTT
1 GTTTTCTCGTAATGGAAAAGTTT
109676628 TTTTTTAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (25 bp):
GTTTTCTCGTAATGGAAAAGTTTGG
Found at i:109679282 original size:13 final size:13
Alignment explanation
Indices: 109679264--109679324 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
109679254 TTCTTCATTC
109679264 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
109679277 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
109679290 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
109679303 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
109679316 C-TTTGAAAA
1 CTTTTGAAAA
109679325 AATTTAAGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
12 7 0.17
13 35 0.83
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:109680793 original size:24 final size:24
Alignment explanation
Indices: 109680761--109680808 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
109680751 TAAAACATAA
109680761 AATAAAGGTTATCTTCCTCATTTT
1 AATAAAGGTTATCTTCCTCATTTT
*
109680785 AATAAAGGTTATCTTCCTTATTTT
1 AATAAAGGTTATCTTCCTCATTTT
109680809 TACTTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (24 bp):
AATAAAGGTTATCTTCCTCATTTT
Found at i:109683094 original size:71 final size:71
Alignment explanation
Indices: 109682978--109683114 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 71
109682968 GGGCTCCCAA
* * * *
109682978 TTCACGATGGTTATATAGTCACGGGTTGAAGTATAACTAAGGCTCCCAATTGATGGTGGTTATGT
1 TTCACGATGGTTATATAGTCACGAGTTAAAGTATAACTAAGGCTCCCAATTGACGATGGTTATGT
109683043 GGTCAT
66 GGTCAT
* * * * *
109683049 TTCACGATGGTTATATGGTCATGAGTTAAAGTATAACTAGGGCTCCTAGTTGACGATGGTTATGT
1 TTCACGATGGTTATATAGTCACGAGTTAAAGTATAACTAAGGCTCCCAATTGACGATGGTTATGT
109683114 G
66 G
109683115 ATCACGGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (71 bp):
TTCACGATGGTTATATAGTCACGAGTTAAAGTATAACTAAGGCTCCCAATTGACGATGGTTATGT
GGTCAT
Found at i:109683149 original size:49 final size:49
Alignment explanation
Indices: 109683052--109683149 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
109683042 TGGTCATTTC
* * *
109683052 ACGATGGTTATATGGTCATGAGTTAAAGTATAACTAGGGCTCCTAGTTG
1 ACGATGGTTATATGATCACGAGTTAAAGTATAACTAGAGCTCCTAGTTG
* * * *
109683101 ACGATGGTTATGTGATCACGGGTTCAAGTATAACTTGAGC-CCTAAGTTG
1 ACGATGGTTATATGATCACGAGTTAAAGTATAACTAGAGCTCCT-AGTTG
109683150 GCGGTGATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (49 bp):
ACGATGGTTATATGATCACGAGTTAAAGTATAACTAGAGCTCCTAGTTG
Done.