Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 104 of 141
Found at i:33675999 original size:134 final size:134
Alignment explanation
Indices: 33675546--33675986 Score: 516
Period size: 134 Copynumber: 3.3 Consensus size: 134
33675536 CCCTAAAATA
** * * * * *
33675546 GGTAAAATGACCGAAATACCATCATAGGGTAGAATGATCGAAATATTCCC-ATAAGG-TAAAATG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATA-CCCCTA-AAGGATAAAATA
* * * *
33675609 ACCAAAATACCCCCATAGGGTAGAATGA-TCGAAATACCTCCATAGGGTAAAATGACCAAAATAC
64 ACCGAAATACCCCTATAGGGTAAAATGACT-GAAATACCTCCATAGGGTAAAATAACC-AAATAC
33675673 CCCCATAG
127 CCCCATAG
* * *
33675681 GATAAAATGACCAAAATACCCCCACAGGGTAAAATGACCAAAATACCCC-AAAGGATAAAATAAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTAAAGGATAAAATAAC
* * *
33675745 CGAAATACCCCTATATGGGTAAAATGAAC-AAAATACC-CCATAGGGTAAAATGATCAAAATACC
66 CGAAATACCCCTATA-GGGTAAAATG-ACTGAAATACCTCCATAGGGTAAAAT-AACCAAATACC
33675808 CCCATAG
128 CCCATAG
* * * *
33675815 GGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACCAAAATACCCCTATAGGGTAAAATAAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTAAAGGATAAAATAAC
* * * ***
33675880 TGAAATACCCCTATAGGTTAAAATGACTGAAATACCTCCATAGGGTAGAATAACCAAATACCATT
66 CGAAATACCCCTATAGGGTAAAATGACTGAAATACCTCCATAGGGTAAAATAACCAAATACCCCC
33675945 ATAG
131 ATAG
* *
33675949 GGTAAAATGACCGAAATACCCCTATAGGTTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
33675987 TGTTATACCC
Statistics
Matches: 261, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
133 6 0.02
134 160 0.61
135 94 0.36
136 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (134 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTAAAGGATAAAATAAC
CGAAATACCCCTATAGGGTAAAATGACTGAAATACCTCCATAGGGTAAAATAACCAAATACCCCC
ATAG
Found at i:33678120 original size:3 final size:3
Alignment explanation
Indices: 33678112--33678148 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
33678102 AAAGAAACGG
* *
33678112 TGA TGA TGA CGA TGA TGA TCA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
33678149 TTTTTAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:33681424 original size:26 final size:28
Alignment explanation
Indices: 33681376--33681447 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 28
33681366 CTTAATATTT
* *
33681376 AAGTAAATATATATAATA-TAAT-AAT-A
1 AAGTAAATATA-ATAAAAGAAATAAATAA
33681402 AAGTAAATATAATAAAAGAAATAAATAA
1 AAGTAAATATAATAAAAGAAATAAATAA
33681430 AAG-AAATA-AAT-AAAGAAA
1 AAGTAAATATAATAAAAGAAA
33681448 AGAAAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 12 0.29
26 17 0.41
27 8 0.20
28 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (28 bp):
AAGTAAATATAATAAAAGAAATAAATAA
Found at i:33681430 original size:13 final size:13
Alignment explanation
Indices: 33681401--33681447 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
33681391 ATATAATAAT
33681401 AAAGTAAATATAATA
1 AAAG-AAATA-AATA
33681416 AAAGAAATAAATA
1 AAAGAAATAAATA
33681429 AAAGAAATAAAT-
1 AAAGAAATAAATA
33681441 AAAGAAA
1 AAAGAAA
33681448 AGAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.22
13 16 0.50
14 5 0.16
15 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAGAAATAAATA
Found at i:33681430 original size:22 final size:21
Alignment explanation
Indices: 33681379--33681430 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
33681369 AATATTTAAG
* * *
33681379 TAAATATATATAATATAATAA
1 TAAATAAATATAATAAAAAAA
33681400 TAAAGTAAATATAATAAAAGAAA
1 TAAA-TAAATATAATAAAA-AAA
33681423 TAAATAAA
1 TAAATAAA
33681431 AGAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAATAAATATAATAAAAAAA
Found at i:33685443 original size:20 final size:20
Alignment explanation
Indices: 33685418--33685470 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
33685408 CACGGCCTGC
33685418 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
* * *
33685438 CCACACAGCCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
33685458 CCACAGGGGCGTG
1 CCACACGGGCGTG
33685471 CGACCCCTGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.40, G:0.28, T:0.09
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:33686281 original size:29 final size:29
Alignment explanation
Indices: 33686227--33686283 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33686217 CCACTAATTG
33686227 ATTATTAAACATATATTATATTATATTAT
1 ATTATTAAACATATATTATATTATATTAT
* *
33686256 ATTATTCAATATA-ATTATATTAATATTA
1 ATTATTAAACATATATTATATT-ATATTA
33686284 ATTGTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTATTAAACATATATTATATTATATTAT
Found at i:33686285 original size:15 final size:15
Alignment explanation
Indices: 33686241--33686286 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
33686231 TTAAACATAT
33686241 ATTATATT-ATATTA
1 ATTATATTAATATTA
*
33686255 TATTAT-TCAATA-TA
1 -ATTATATTAATATTA
33686269 ATTATATTAATATTA
1 ATTATATTAATATTA
33686284 ATT
1 ATT
33686287 GTAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
15 13 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATATTAATATTA
Found at i:33689988 original size:12 final size:13
Alignment explanation
Indices: 33689955--33689991 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
33689945 ACTTTTCAAA
33689955 AGCACTTTTTCAC
1 AGCACTTTTTCAC
*
33689968 ATCACTTTTTCAC
1 AGCACTTTTTCAC
33689981 AGCA-TTTTTCA
1 AGCACTTTTTCA
33689992 AAAGCTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.43
Consensus pattern (13 bp):
AGCACTTTTTCAC
Found at i:33690498 original size:39 final size:39
Alignment explanation
Indices: 33690436--33690513 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
33690426 AAATTCATAA
*
33690436 ATTAGAATATCTAAATTCATATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCATATAATACATGGACAAAAAT
**
33690475 ATTAAAATATCTAAATTTGTATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCATATAATACATGGACAAAAAT
33690514 TATAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (39 bp):
ATTAAAATATCTAAATTCATATAATACATGGACAAAAAT
Found at i:33698783 original size:20 final size:18
Alignment explanation
Indices: 33698741--33698783 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
33698731 TTGAAAATAA
*
33698741 ACATTATTATTAGGTTTT
1 ACATTATTATTAGGCTTT
33698759 A-ATTATTATTAGGACTTT
1 ACATTATTATTAGG-CTTT
33698777 ACCATTA
1 A-CATTA
33698784 ACCAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
20 4 0.19
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (18 bp):
ACATTATTATTAGGCTTT
Found at i:33709868 original size:18 final size:18
Alignment explanation
Indices: 33709841--33709876 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33709831 ATCGATACTT
* *
33709841 TTATGGTAGGTATCGATA
1 TTATGATAGGTACCGATA
33709859 TTATGATAGGTACCGATA
1 TTATGATAGGTACCGATA
33709877 AGGTTTTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (18 bp):
TTATGATAGGTACCGATA
Found at i:33718256 original size:9 final size:9
Alignment explanation
Indices: 33718242--33718268 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33718232 AATTCGGTTT
33718242 ATTTCTAAC
1 ATTTCTAAC
33718251 ATTTCTAAC
1 ATTTCTAAC
33718260 ATTTCTAAC
1 ATTTCTAAC
33718269 TTATTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTCTAAC
Found at i:33722756 original size:11 final size:11
Alignment explanation
Indices: 33722740--33722764 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33722730 ATTGAGGTTC
33722740 TTATATGGTAA
1 TTATATGGTAA
33722751 TTATATGGTAA
1 TTATATGGTAA
33722762 TTA
1 TTA
33722765 GACCATTAAA
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:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
TTATATGGTAA
Found at i:33734871 original size:43 final size:42
Alignment explanation
Indices: 33734766--33734922 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
33734756 ACATTGGGTT
* * * *
33734766 ATCGATATGTGATTACATGTAAGACCATGTATGGGACATCGGC
1 ATCG-TATATGATTACGTGTAAGACCATGTCTGGGACATTGGC
* * *
33734809 ATTGTATTATAATTACGTGTAAGACCATGTCTGGGACATTGTC
1 ATCGTA-TATGATTACGTGTAAGACCATGTCTGGGACATTGGC
* * * *
33734852 ATCGTTATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGC
1 ATCG-TATATGATTACGTGTAAGACCATGTCTGGGACATTGGC
* * *
33734895 ATCGATATGTGATAACATGTAAGACCAT
1 ATCG-TATATGATTACGTGTAAGACCAT
33734923 ATTCGAGATA
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 2 0.02
43 88 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
ATCGTATATGATTACGTGTAAGACCATGTCTGGGACATTGGC
Found at i:33748774 original size:82 final size:82
Alignment explanation
Indices: 33748637--33748800 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 82
33748627 ATCATAACAG
*
33748637 TTCCTCACCACATATTATAGTTGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCATACC
1 TTCCTCACCACATATTATAGTAGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCATACC
*
33748702 ATCAAGACATTTTCCAA
66 ATCAAGACAATTTCCAA
* * *
33748719 TTCCTCACCACATATTATAGTAGATTAAGATTTGGCATATTAGTACATTTATGAAGAACTATACT
1 TTCCTCACCACATATTATAGTAGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCATACC
33748784 ATCAAGACAATTTCCAA
66 ATCAAGACAATTTCCAA
33748801 ACCAAAGTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.34
Consensus pattern (82 bp):
TTCCTCACCACATATTATAGTAGATCAAGATTTGGCATATTAGTACATTTATGAAGAACCATACC
ATCAAGACAATTTCCAA
Found at i:33749076 original size:16 final size:16
Alignment explanation
Indices: 33749055--33749109 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
33749045 GTTTGGTTCA
*
33749055 CTGTAATGGAATAAAG
1 CTGTAATGGAATAGAG
*
33749071 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
33749087 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
33749103 CTGTAAT
1 CTGTAAT
33749110 AGTAATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:33749366 original size:58 final size:59
Alignment explanation
Indices: 33749287--33749442 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 59
33749277 TTTTAATAAG
* * * * *
33749287 ATTATTATTAAAAATGATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACAAAATTCTTAACATA
** * *
33749345 ATTATTATTAAATATAATTTAAT-AAAATTTTATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACAAAATTCTTAACATA
*
33749403 ATTATTATT--ATATGAATTTACTAAAATCATAATATATAAT
1 ATTATTATTAAATAT-AATTTAATAAAA--ATAATATATAAT
33749443 ACTATAAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.05
57 27 0.33
58 40 0.49
60 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACAAAATTCTTAACATA
Found at i:33749373 original size:10 final size:10
Alignment explanation
Indices: 33749355--33749393 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
33749345 ATTATTATTA
*
33749355 AATATAATTT
1 AATAAAATTT
33749365 AATAAAATTT
1 AATAAAATTT
* *
33749375 TATATAATTT
1 AATAAAATTT
33749385 AATAAAATT
1 AATAAAATT
33749394 CTTAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATAAAATTT
Found at i:33749381 original size:20 final size:22
Alignment explanation
Indices: 33749355--33749405 Score: 88
Period size: 20 Copynumber: 2.4 Consensus size: 22
33749345 ATTATTATTA
33749355 AATATAATTTAATAAAATT-TT
1 AATATAATTTAATAAAATTCTT
33749376 -ATATAATTTAATAAAATTCTT
1 AATATAATTTAATAAAATTCTT
33749397 AATATAATT
1 AATATAATT
33749406 ATTATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.64
21 2 0.07
22 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAATTTAATAAAATTCTT
Found at i:33749672 original size:14 final size:14
Alignment explanation
Indices: 33749653--33749691 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
33749643 TCATTAGTTT
33749653 ATATGTCATAAACC
1 ATATGTCATAAACC
* * *
33749667 ATATGTTATTAAGC
1 ATATGTCATAAACC
33749681 ATATGTCATAA
1 ATATGTCATAA
33749692 TTTATTAAGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (14 bp):
ATATGTCATAAACC
Found at i:33752513 original size:12 final size:12
Alignment explanation
Indices: 33752496--33752520 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33752486 GGTGTTCATT
33752496 CGGTTAACCGAC
1 CGGTTAACCGAC
33752508 CGGTTAACCGAC
1 CGGTTAACCGAC
33752520 C
1 C
33752521 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:33752695 original size:9 final size:9
Alignment explanation
Indices: 33752681--33752706 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33752671 TTTGGTTAAA
33752681 AATTACCCG
1 AATTACCCG
33752690 AATTACCCG
1 AATTACCCG
33752699 AATTACCC
1 AATTACCC
33752707 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:33753991 original size:113 final size:111
Alignment explanation
Indices: 33753785--33754376 Score: 686
Period size: 113 Copynumber: 5.4 Consensus size: 111
33753775 AGTACAAATA
* * *
33753785 AAAATTTTAAGAAAATCATTTAAAATTTTAATAAAATTATAAAAATATAAAAAAGTTCCAAAAAT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAATTAT-AAAATATAAAAAAGTTCCAAAAAT
*
33753850 TCAAAAAAAAAGTGTGTTATTTACTTTTTCAATGGTAAAATGTCTATCT
65 TCAAAAAAAAA-TGTGTTATTT-CTTTTTGAATGGTAAAATGTCTATCT
33753899 AAAATTTTAA-AAATTTCATTTAAAAATTCAATAAAATTATAAAATATAAAAAAGTTCCAAAAAT
1 AAAATTTTAAGAAA-TTCATTTAAAAATTCAATAAAATTATAAAATATAAAAAAGTTCCAAAAAT
*
33753963 TCAAAAAAAAAGTGTGTTATTTACTTTTTCAATGGTAAAATGTCTATCT
65 TCAAAAAAAAA-TGTGTTATTT-CTTTTTGAATGGTAAAATGTCTATCT
*
33754012 AAAATTTTAA-AAATTTCATTTAAAAATTCAAT-AAA--AT----TAT--AAAA-CTCCAAAAAT
1 AAAATTTTAAGAAA-TTCATTTAAAAATTCAATAAAATTATAAAATATAAAAAAGTTCCAAAAAT
* *
33754066 T-TAAAAAAAAT-TGTTATTT-TTTCTTGAATGGTAAAATATCTATCT
65 TCAAAAAAAAATGTGTTATTTCTTT-TTGAATGGTAAAATGTCTATCT
* * * * *
33754111 AAATTTTTAAGAAATTCATTTAAAAATTCAATAAAGTCATAAAA-ATATAAAAA-CTCCAAAAGT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAATTATAAAATATA-AAAAAGTTCCAAAA-A
* * * *
33754174 TTTAAAAAAAAACGTGTTATTTGTTTCTTGAATAGTAAAATGTCTATCT
64 TTCAAAAAAAAATGTGTTATTTCTTT-TTGAATGGTAAAATGTCTATCT
* *
33754223 AAAATTTTAAGAAACTT-ATTT-AAAATTCAATAAAACTAT-AAATATATAAAAAGTTTCAAAAA
1 AAAATTTTAAGAAA-TTCATTTAAAAATTCAATAAAATTATAAAATATA-AAAAAGTTCCAAAAA
* * * * *
33754285 CTC-AATAAAAATGTGTTATTTGCTTCTTGAAGGGTAAATTGTCTATCT
64 TTCAAAAAAAAATGTGTTATTT-CTTTTTGAATGGTAAAATGTCTATCT
*
33754333 AAAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATTATAAAA
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAATTATAAAA
33754377 AGCTCCAAAT
Statistics
Matches: 422, Mismatches: 32, Indels: 50
0.84 0.06 0.10
Matches are distributed among these distances:
98 3 0.01
99 47 0.11
100 13 0.03
101 1 0.00
102 10 0.02
103 10 0.02
104 4 0.01
105 2 0.00
106 3 0.01
108 12 0.03
109 4 0.01
110 66 0.16
111 51 0.12
112 53 0.13
113 110 0.26
114 33 0.08
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (111 bp):
AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAATTATAAAATATAAAAAAGTTCCAAAAATT
CAAAAAAAAATGTGTTATTTCTTTTTGAATGGTAAAATGTCTATCT
Found at i:33754227 original size:211 final size:214
Alignment explanation
Indices: 33753841--33754377 Score: 628
Period size: 212 Copynumber: 2.5 Consensus size: 214
33753831 ATAAAAAAGT
* *
33753841 TCCAAAAATTCAAAAAAAAAGTGTGTTATTTACTTT-TTCAATGGTAAAATGTCTATCTAAAATT
1 TCCAAAAATT-TAAAAAAAA-TGTGTTATTTA-TTTCTTGAATGGTAAAATGTCTATCTAAAATT
*
33753905 TTAA-AAATTTCATTTAAAAATTCAATAAAATTAT-AAAATATAAAAAAGTTCCAAAAATTCAAA
63 TTAAGAAA-TTCATTTAAAAATTCAATAAAATTATAAAAATATAAAAAAGCTCCAAAAATTCAAA
* * *
33753968 AAAAAAGTGTGTTATTTACTTTTTCAATGGTAAAATGTCTATCTAAAATTTTAA-AAATTTCATT
127 AAAAAAGCGTGTTATTTACTTTTTCAATAGTAAAATGTCTATCTAAAATTTTAAGAAACTT-ATT
*
33754032 TAAAAATTCAATAAAATTATAAA-A
191 T-AAAATTCAATAAAACTATAAATA
* *
33754056 CTCCAAAAATTTAAAAAAAAT-TGTTATTT-TTTCTTGAATGGTAAAATATCTATCTAAATTTTT
1 -TCCAAAAATTTAAAAAAAATGTGTTATTTATTTCTTGAATGGTAAAATGTCTATCTAAAATTTT
* * * *
33754119 AAGAAATTCATTTAAAAATTCAATAAAGTCATAAAAATAT-AAAAA-CTCCAAAAGTTTTAAAAA
65 AAGAAATTCATTTAAAAATTCAATAAAATTATAAAAATATAAAAAAGCTCCAAAA-ATTCAAAAA
* *
33754182 AAAA-CGTGTTATTT-GTTTCTTGAATAGTAAAATGTCTATCTAAAATTTTAAGAAACTTATTTA
129 AAAAGCGTGTTATTTACTTT-TTCAATAGTAAAATGTCTATCTAAAATTTTAAGAAACTTATTTA
33754245 AAATTCAATAAAACTATAAATA
193 AAATTCAATAAAACTATAAATA
** ** * *
33754267 TATAAAAAGTTTCAAAAACTCAATAAAAATGTGTTATTTGCTTCTTGAAGGGTAAATTGTCTATC
1 TCCAAAAA-TTT-----A---AA-AAAAATGTGTTATTTATTTCTTGAATGGTAAAATGTCTATC
*
33754332 TAAAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATTATAAAAA
56 TAAAATTTTAAGAAATTCATTTAAAAATTCAATAAAATTATAAAAA
33754378 GCTCCAAATG
Statistics
Matches: 277, Mismatches: 25, Indels: 32
0.83 0.07 0.10
Matches are distributed among these distances:
210 29 0.10
211 57 0.21
212 74 0.27
213 18 0.06
214 1 0.00
215 8 0.03
216 11 0.04
219 2 0.01
220 6 0.02
221 8 0.03
222 63 0.23
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (214 bp):
TCCAAAAATTTAAAAAAAATGTGTTATTTATTTCTTGAATGGTAAAATGTCTATCTAAAATTTTA
AGAAATTCATTTAAAAATTCAATAAAATTATAAAAATATAAAAAAGCTCCAAAAATTCAAAAAAA
AAGCGTGTTATTTACTTTTTCAATAGTAAAATGTCTATCTAAAATTTTAAGAAACTTATTTAAAA
TTCAATAAAACTATAAATA
Found at i:33754333 original size:110 final size:110
Alignment explanation
Indices: 33754042--33754377 Score: 398
Period size: 110 Copynumber: 3.1 Consensus size: 110
33754032 TAAAAATTCA
* * *
33754042 ATAAAATTAT-AAAACTCCAAAA-ATTTAAAAAAAAT-TGTTATTT-TTTCTTGAATGGTAAAAT
1 ATAAAAATATAAAAACTCCAAAAGACTAAAAAAAAATGTGTTATTTGTTTCTTGAATGGTAAAAT
* * *
33754103 ATCTATCTAAATTTTTAAGAAATTCATTTAAAAATTCAAT-AAAGT
66 GTCTATCTAAAATTTTAAGAAATTCATTT-AAAATTCAATAAAACT
** * *
33754148 CATAAAAATATAAAAACTCCAAAAGTTTTAAAAAAAAACGTGTTATTTGTTTCTTGAATAGTAAA
1 -ATAAAAATATAAAAACTCCAAAAG-ACTAAAAAAAAATGTGTTATTTGTTTCTTGAATGGTAAA
33754213 ATGTCTATCTAAAATTTTAAGAAACTT-ATTTAAAATTCAATAAAACT
64 ATGTCTATCTAAAATTTTAAGAAA-TTCATTTAAAATTCAATAAAACT
* * * * * * * *
33754260 ATAAATATATAAAAAGTTTCAAAA-ACTCAATAAAAATGTGTTATTTGCTTCTTGAAGGGTAAAT
1 ATAAAAATATAAAAA-CTCCAAAAGACTAAAAAAAAATGTGTTATTTGTTTCTTGAATGGTAAAA
*
33754324 TGTCTATCTAAAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATT
65 TGTCTATCTAAAATTTTAAGAAATTCATTTAAAA-TTCAATAAAACT
33754371 ATAAAAA
1 ATAAAAA
33754378 GCTCCAAATG
Statistics
Matches: 197, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
107 9 0.05
108 12 0.06
109 2 0.01
110 72 0.37
111 49 0.25
112 51 0.26
113 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (110 bp):
ATAAAAATATAAAAACTCCAAAAGACTAAAAAAAAATGTGTTATTTGTTTCTTGAATGGTAAAAT
GTCTATCTAAAATTTTAAGAAATTCATTTAAAATTCAATAAAACT
Found at i:33759295 original size:20 final size:22
Alignment explanation
Indices: 33759255--33759296 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
33759245 GTCCCTCGTC
*
33759255 CGTTATGGAGTCGAAGTCAACT
1 CGTTATGGAGTCGAAGGCAACT
33759277 CGTT-TGGAG-CGAAGGCAACT
1 CGTTATGGAGTCGAAGGCAACT
33759297 TGGTCATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (22 bp):
CGTTATGGAGTCGAAGGCAACT
Found at i:33760027 original size:21 final size:19
Alignment explanation
Indices: 33760001--33760040 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
33759991 TTATTTTTTT
33760001 CAATTAAATTATATATTATAA
1 CAATT-AATT-TATATTATAA
*
33760022 CAATTAATTTTTATTATAA
1 CAATTAATTTATATTATAA
33760041 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
CAATTAATTTATATTATAA
Found at i:33760672 original size:16 final size:16
Alignment explanation
Indices: 33760653--33760687 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33760643 ATATTTTACG
33760653 TTAAAAATTAATTAAT
1 TTAAAAATTAATTAAT
* *
33760669 TTAAAATTTAATTTAT
1 TTAAAAATTAATTAAT
33760685 TTA
1 TTA
33760688 TCATTGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAAATTAATTAAT
Found at i:33760829 original size:27 final size:24
Alignment explanation
Indices: 33760799--33760849 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
33760789 AAAATAAAGA
33760799 AAGATAAAAAGATAATAATAAATATTT
1 AAGA-AAAAA-AT-ATAATAAATATTT
* *
33760826 AAGAAAAGAATATATTAAATATTT
1 AAGAAAAAAATATAATAAATATTT
33760850 TCCAATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 2 0.09
26 4 0.18
27 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (24 bp):
AAGAAAAAAATATAATAAATATTT
Found at i:33760928 original size:153 final size:154
Alignment explanation
Indices: 33760747--33761055 Score: 611
Period size: 153 Copynumber: 2.0 Consensus size: 154
33760737 GATTTAATAC
33760747 TTAGACAGACCAATTTTAATTTTTTATTTAAAAAACTATATAAAAATAAAGAAAGATAAAAAGAT
1 TTAGACAGACCAATTTTAATTTTTTATTTAAAAAACTATATAAAAATAAAGAAAGATAAAAAGAT
33760812 AATAATAAATATTTAAGAAAAGAATATATTAAATATTTTCCAATCGAATTGATATCGAATTATCC
66 AATAATAAATATTTAAGAAAAGAATATATTAAATATTTTCCAATCGAATTGATATCGAATTATCC
33760877 TGTAAGATTAGTGGAGTAAGAAGT
131 TGTAAGATTAGTGGAGTAAGAAGT
33760901 TTAGACAGACC-ATTTTAATTTTTTATTTAAAAAACTATATAAAAATAAAGAAAGATAAAAAGAT
1 TTAGACAGACCAATTTTAATTTTTTATTTAAAAAACTATATAAAAATAAAGAAAGATAAAAAGAT
33760965 AATAATAAATATTTAAGAAAAGAATATATTAAATATTTTCCAATCGAATTGATATCGAATTATCC
66 AATAATAAATATTTAAGAAAAGAATATATTAAATATTTTCCAATCGAATTGATATCGAATTATCC
33761030 TGTAAGATTAGTGGAGTAAGAAGT
131 TGTAAGATTAGTGGAGTAAGAAGT
33761054 TT
1 TT
33761056 TTTTTAATAA
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 144 0.93
154 11 0.07
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (154 bp):
TTAGACAGACCAATTTTAATTTTTTATTTAAAAAACTATATAAAAATAAAGAAAGATAAAAAGAT
AATAATAAATATTTAAGAAAAGAATATATTAAATATTTTCCAATCGAATTGATATCGAATTATCC
TGTAAGATTAGTGGAGTAAGAAGT
Found at i:33760982 original size:27 final size:24
Alignment explanation
Indices: 33760952--33761002 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
33760942 AAAATAAAGA
33760952 AAGATAAAAAGATAATAATAAATATTT
1 AAGA-AAAAA-AT-ATAATAAATATTT
* *
33760979 AAGAAAAGAATATATTAAATATTT
1 AAGAAAAAAATATAATAAATATTT
33761003 TCCAATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 2 0.09
26 4 0.18
27 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (24 bp):
AAGAAAAAAATATAATAAATATTT
Found at i:33761831 original size:15 final size:15
Alignment explanation
Indices: 33761811--33761844 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33761801 TTTGGTAAGT
33761811 AATATTCATCAATCA
1 AATATTCATCAATCA
* *
33761826 AATATTTATGAATCA
1 AATATTCATCAATCA
33761841 AATA
1 AATA
33761845 AAAAAGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
AATATTCATCAATCA
Found at i:33773341 original size:71 final size:71
Alignment explanation
Indices: 33773260--33773402 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
33773250 TTGTTACCTT
33773260 ATTTAACCTCTTGAATTTGACATGGCAAAACCTAACATAACCTGCATACTAACCATTTAAATACT
1 ATTTAACCTCTTGAATTTGACATGGCAAAACCTAACATAACCTGCATACTAACCATTTAAATACT
33773325 GTACAA
66 GTACAA
33773331 ATTTAACCTCTTGAATTTGACATGGCAAAACCTAACATAACCTGCATACTAACCATTTAAATACT
1 ATTTAACCTCTTGAATTTGACATGGCAAAACCTAACATAACCTGCATACTAACCATTTAAATACT
33773396 GTACAA
66 GTACAA
33773402 A
1 A
33773403 CAAGACAAGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (71 bp):
ATTTAACCTCTTGAATTTGACATGGCAAAACCTAACATAACCTGCATACTAACCATTTAAATACT
GTACAA
Found at i:33776736 original size:11 final size:11
Alignment explanation
Indices: 33776722--33776760 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
33776712 GTTTTCTTCT
33776722 TATTTTACTAC
1 TATTTTACTAC
*
33776733 TATTTTACTAT
1 TATTTTACTAC
* *
33776744 TATATTGCTAC
1 TATTTTACTAC
33776755 TATTTT
1 TATTTT
33776761 TTTGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:33776738 original size:22 final size:22
Alignment explanation
Indices: 33776713--33776769 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
33776703 TTTCTTGTTG
*
33776713 TTTTCTTCTTATTTTACTACTA
1 TTTTCTTATTATTTTACTACTA
* *
33776735 TTTTAC-TATTATATTGCTACTA
1 TTTT-CTTATTATTTTACTACTA
* *
33776757 TTTTTTTGTTATT
1 TTTTCTTATTATT
33776770 GTTTGGATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.19, C:0.12, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTCTTATTATTTTACTACTA
Found at i:33778896 original size:47 final size:46
Alignment explanation
Indices: 33778777--33778902 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 46
33778767 AATGTATATA
* * *
33778777 TATAAATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATG
1 TATATATATTTGTTATGCATG-AAATGAATTAAACTATAGCCGAATG
* * * *
33778824 TATATGTAATTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATG
1 TATATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATG
*
33778871 TATATATATTTGTTATGCATTGAAATAAATTA
1 TATATATATTTGTTATGCA-TGAAATGAATTA
33778903 TTTGAAATTA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (46 bp):
TATATATATTTGTTATGCATGAAATGAATTAAACTATAGCCGAATG
Found at i:33779012 original size:47 final size:47
Alignment explanation
Indices: 33778955--33779132 Score: 196
Period size: 47 Copynumber: 3.7 Consensus size: 47
33778945 ATTATACATT
*
33778955 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
* * * * * **
33779002 GAAATAAATTAAACTATGGCCGAATGTGTATATATATATATTTGTTATACATT
1 GAAATGAATTAAACTATAGCTGAA--TG--TATATGTA-A-TTGTTATGCAGA
*
33779055 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
*
33779102 GAAATGAATTAAACTAT-GGTCGAATGTATAT
1 GAAATGAATTAAACTATAGCT-GAATGTATAT
33779133 ATATATATAT
Statistics
Matches: 106, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
46 2 0.02
47 55 0.52
48 1 0.01
49 9 0.08
51 9 0.08
52 1 0.01
53 29 0.27
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (47 bp):
GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
Found at i:33779054 original size:100 final size:100
Alignment explanation
Indices: 33778932--33779147 Score: 387
Period size: 100 Copynumber: 2.2 Consensus size: 100
33778922 TGGCCGAATG
33778932 TATATATATATTTATTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTAT
1 TATATATATATTTATTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTAT
*
33778997 GCAGAGAAATAAATTAAACTATGGCCGAATGTGTA
66 GCAGAGAAATAAATTAAACTATGGCCGAATGTATA
*
33779032 TATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTAT
1 TATATATATATTTATTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTAT
* *
33779097 GCAGAGAAATGAATTAAACTATGGTCGAATGTATA
66 GCAGAGAAATAAATTAAACTATGGCCGAATGTATA
*
33779132 TATATATATATATATT
1 TATATATATATTTATT
33779148 TGTTGTGTAT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 110 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (100 bp):
TATATATATATTTATTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTAT
GCAGAGAAATAAATTAAACTATGGCCGAATGTATA
Found at i:33779333 original size:41 final size:41
Alignment explanation
Indices: 33779277--33779430 Score: 218
Period size: 41 Copynumber: 3.8 Consensus size: 41
33779267 TGTAAGTTCG
* **
33779277 GGCTTTATACCTAGCAGGCTCTGTGCCGGTGAAATGTATTG
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCA
33779318 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCA
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCA
* *
33779359 GGCTTTATGCCTAGCAGGCTCTGTGCTGGTGAAATTTATCA
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCA
* * * * *
33779400 GGCTTTGTGTCTAGCAGACTTTATGCCGGTG
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
33779431 TTTTATATAA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCA
Found at i:33779444 original size:82 final size:82
Alignment explanation
Indices: 33779277--33779449 Score: 202
Period size: 82 Copynumber: 2.1 Consensus size: 82
33779267 TGTAAGTTCG
* ** * *
33779277 GGCTTTATACCTAGCAGGCTCTGTGCCGGTGAAATGTATTGGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCAGGCTTTATGCCTAGCAGACTCTAT
* *
33779342 GCCGGTGAAATGTATCA
66 GCCGGTGAAATATATAA
* * * * *
33779359 GGCTTTATGCCTAGCAGGCTCTGTGCTGGTGAAATTTATCAGGCTTTGTGTCTAGCAGACTTTAT
1 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCAGGCTTTATGCCTAGCAGACTCTAT
***
33779424 GCCGGTGTTTTATATAA
66 GCCGGTGAAATATATAA
*
33779441 GGCTCTATG
1 GGCTTTATG
33779450 TTTAACAAGT
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (82 bp):
GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTATCAGGCTTTATGCCTAGCAGACTCTAT
GCCGGTGAAATATATAA
Found at i:33782182 original size:21 final size:21
Alignment explanation
Indices: 33782156--33782197 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33782146 AAACCTGGTA
33782156 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
33782177 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
33782198 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:33784576 original size:22 final size:21
Alignment explanation
Indices: 33784534--33784573 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33784524 AAACTTGGTA
33784534 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
33784555 AAAGGTATCGATACTTTTT
1 AAAGGTATCAATACTTTTT
33784574 TGTGTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:33787088 original size:45 final size:45
Alignment explanation
Indices: 33787024--33787140 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
33787014 AAACAAGTTG
* *
33787024 CTAGTACGATGTGGATAAACCACTCATTGGTGCAGATAAAAATTA
1 CTAGTACGGTGTGGATAAACCACTCATTGATGCAGATAAAAATTA
* ** *
33787069 CTAGTACGGTGTGGATAAACCACTCATTGATGTAGATAAATGTTG
1 CTAGTACGGTGTGGATAAACCACTCATTGATGCAGATAAAAATTA
* *
33787114 CTAATACGGTGTGGATAAACCATTCAT
1 CTAGTACGGTGTGGATAAACCACTCAT
33787141 CCGTACAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
CTAGTACGGTGTGGATAAACCACTCATTGATGCAGATAAAAATTA
Found at i:33787151 original size:45 final size:43
Alignment explanation
Indices: 33787018--33787175 Score: 147
Period size: 45 Copynumber: 3.6 Consensus size: 43
33787008 TTTTACAAAC
* * *
33787018 AAGTTGCTAGTACGATGTGGATAAACCACTCATTGGTGCAGATAA
1 AAGTTGCTAATACGGTGTGGATAAACCACTCA-TCGTGCAGAT-A
* * * * *
33787063 AAATTACTAGTACGGTGTGGATAAACCACTCATTGATGTAGATA
1 AAGTTGCTAATACGGTGTGGATAAACCACTCATCG-TGCAGATA
* *
33787107 AATGTTGCTAATACGGTGTGGATAAACCATTCATCCGTACAGATA
1 AA-GTTGCTAATACGGTGTGGATAAACCACTCAT-CGTGCAGATA
* * *
33787152 AA-CTGCTTATACGGTGTGCATAAA
1 AAGTTGCTAATACGGTGTGGATAAA
33787176 GCATTAACGG
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
43 19 0.20
44 5 0.05
45 70 0.74
46 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (43 bp):
AAGTTGCTAATACGGTGTGGATAAACCACTCATCGTGCAGATA
Found at i:33787290 original size:34 final size:34
Alignment explanation
Indices: 33787247--33787329 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 34
33787237 ATGCAATATG
** *
33787247 ACATGCTTATAGTAAATCAATAC-GATAGTAATAA
1 ACATGCTTATAACAAATCAATACAG-TAGCAATAA
*
33787281 ACATGCTTATAACATATCAATACAGTAGCAATAA
1 ACATGCTTATAACAAATCAATACAGTAGCAATAA
33787315 ACATGCTTATAACAA
1 ACATGCTTATAACAA
33787330 GTCCGTATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 42 0.98
35 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.28
Consensus pattern (34 bp):
ACATGCTTATAACAAATCAATACAGTAGCAATAA
Found at i:33794882 original size:23 final size:22
Alignment explanation
Indices: 33794796--33794882 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 22
33794786 GCTGGTAAAT
*
33794796 GGTAAGCTCTATTGAGCTG-AAC
1 GGTAAGCTC-ATAGAGCTGAAAC
* * *
33794818 GGTAAGCTCCGTAAAGCTAAAAC
1 GGTAAGCT-CATAGAGCTGAAAC
* *
33794841 GGTAAGCTCAAAAGGGCTGAAAC
1 GGTAAGCTC-ATAGAGCTGAAAC
33794864 GGTAAGCTCATACGAGCTG
1 GGTAAGCTCATA-GAGCTG
33794883 TGGTGAGTCC
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
22 16 0.32
23 34 0.68
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
GGTAAGCTCATAGAGCTGAAAC
Found at i:33800623 original size:32 final size:31
Alignment explanation
Indices: 33800587--33800647 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
33800577 CTGACGCTGG
*
33800587 TTTTCCGTTCTCTGCGT-TTTTCTGGCAATTAT
1 TTTTCCGTTCTCT-C-TAATTTCTGGCAATTAT
*
33800619 TTTTCCTTTCTCTCTAATTTCTGGCAATT
1 TTTTCCGTTCTCTCTAATTTCTGGCAATT
33800648 TAATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.04
31 13 0.50
32 12 0.46
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.54
Consensus pattern (31 bp):
TTTTCCGTTCTCTCTAATTTCTGGCAATTAT
Found at i:33801296 original size:50 final size:50
Alignment explanation
Indices: 33801194--33801296 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
33801184 GCCGTGTAGG
* * *
33801194 CCACACGGGCAAGGCTAATCCGGGCCTGTGGGCCACATGAGCGTGTGTGC
1 CCACACGGGCAAGGCCAATCCGGGCCTGTGGGCCACATGAGCATGTGAGC
* **
33801244 CCACACTGGCAAGGCCAATCCGGGTGTGTGGGTCACACA-G-GCATGTGAGC
1 CCACACGGGCAAGGCCAATCCGGGCCTGTGGG-C-CACATGAGCATGTGAGC
33801294 CCA
1 CCA
33801297 TAATTCTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 39 0.87
51 2 0.04
52 4 0.09
ACGTcount: A:0.20, C:0.30, G:0.34, T:0.16
Consensus pattern (50 bp):
CCACACGGGCAAGGCCAATCCGGGCCTGTGGGCCACATGAGCATGTGAGC
Found at i:33807171 original size:14 final size:14
Alignment explanation
Indices: 33807148--33807177 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33807138 CATCCCTCAT
*
33807148 TCACATCTCTTCTC
1 TCACAACTCTTCTC
33807162 TCACAACTCTTCTC
1 TCACAACTCTTCTC
33807176 TC
1 TC
33807178 CTCTTTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:33812205 original size:11 final size:11
Alignment explanation
Indices: 33812189--33812224 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
33812179 TATAGTGAGA
33812189 TTTTATTTTAT
1 TTTTATTTTAT
*
33812200 TTTTATTTTAC
1 TTTTATTTTAT
*
33812211 TTTTATTTTGT
1 TTTTATTTTAT
33812222 TTT
1 TTT
33812225 CAAAAATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:33839128 original size:11 final size:12
Alignment explanation
Indices: 33839109--33839176 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
33839099 ATCTAGATAG
33839109 TATTT-TATTAA
1 TATTTATATTAA
33839120 TA-TTATATTAA
1 TATTTATATTAA
** *
33839131 TACGATATATTTA
1 TA-TTTATATTAA
33839144 -ATTTA-ATTTAA
1 TATTTATA-TTAA
*
33839155 TATTTATATTTA
1 TATTTATATTAA
33839167 TATTTATATT
1 TATTTATATT
33839177 GATAATATNN
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
10 3 0.07
11 15 0.33
12 19 0.42
13 8 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (12 bp):
TATTTATATTAA
Found at i:33839165 original size:6 final size:6
Alignment explanation
Indices: 33839136--33839176 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
33839126 ATTAATACGA
33839136 TATATT TA-ATT TA-ATT TAATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT T-ATATT TATATT TATATT TATATT
33839177 GATAATATNN
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.27
6 20 0.61
7 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:33844448 original size:9 final size:9
Alignment explanation
Indices: 33844429--33844465 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33844419 TGAGTTTTCG
*
33844429 AATTTGAAT
1 AATTCGAAT
*
33844438 AACTCGAAT
1 AATTCGAAT
33844447 AATTCGAAT
1 AATTCGAAT
33844456 AATTCGAAT
1 AATTCGAAT
33844465 A
1 A
33844466 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33845503 original size:5 final size:5
Alignment explanation
Indices: 33845493--33845518 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33845483 CTCGAAAATT
33845493 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
33845519 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:33862107 original size:14 final size:16
Alignment explanation
Indices: 33862088--33862131 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
33862078 AGCAGCCCAT
33862088 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
33862102 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
33862118 ATTAAGTTTAATTT
1 ATTTA-TTTAATTT
33862132 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:33867178 original size:48 final size:48
Alignment explanation
Indices: 33867126--33867264 Score: 133
Period size: 48 Copynumber: 3.1 Consensus size: 48
33867116 TAATTTGGAA
33867126 AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAGT
1 AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAGT
** * *
33867174 AAAAAA--TA-A-TA---TA-A--AATTCTATAA-ACTTAATTTGGAA--
1 AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATT--AAGT
33867211 AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAGT
1 AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAGT
33867259 AAAAAA
1 AAAAAA
33867265 TAATATAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 30
0.64 0.08 0.28
Matches are distributed among these distances:
37 14 0.21
38 7 0.10
39 4 0.06
40 2 0.03
41 4 0.06
44 4 0.06
45 2 0.03
46 4 0.06
47 7 0.10
48 20 0.29
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (48 bp):
AAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAGT
Found at i:33867205 original size:85 final size:85
Alignment explanation
Indices: 33867108--33867274 Score: 334
Period size: 85 Copynumber: 2.0 Consensus size: 85
33867098 TAAAAACCTA
33867108 TATAAACTTAATTTGGAAAAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAG
1 TATAAACTTAATTTGGAAAAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAG
33867173 TAAAAAATAATATAAAATTC
66 TAAAAAATAATATAAAATTC
33867193 TATAAACTTAATTTGGAAAAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAG
1 TATAAACTTAATTTGGAAAAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAG
33867258 TAAAAAATAATATAAAA
66 TAAAAAATAATATAAAA
33867275 ATCATACTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (85 bp):
TATAAACTTAATTTGGAAAAAAAACTTATACTAGGTTATATCCTTTTTATAATACTTAAATTAAG
TAAAAAATAATATAAAATTC
Found at i:33870587 original size:13 final size:13
Alignment explanation
Indices: 33870569--33870594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33870559 GTGGAATTCG
33870569 AATAAGGACACAA
1 AATAAGGACACAA
33870582 AATAAGGACACAA
1 AATAAGGACACAA
33870595 GGCCCCTTTA
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:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AATAAGGACACAA
Found at i:33874883 original size:5 final size:4
Alignment explanation
Indices: 33874855--33874919 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
33874845 TAGACGCTTT
*
33874855 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
33874903 -TTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTT
33874920 CAACTTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 9 0.18
4 26 0.51
5 14 0.27
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:33874903 original size:14 final size:12
Alignment explanation
Indices: 33874854--33874919 Score: 71
Period size: 14 Copynumber: 5.2 Consensus size: 12
33874844 TTAGACGCTT
33874854 TTTTATTTATTA
1 TTTTATTTATTA
33874866 TTTTATTTATTTA
1 TTTTATTTA-TTA
* *
33874879 CTTTAACTTATTTA
1 -TTTTATTTA-TTA
33874893 TTTTCATTTATTA
1 TTTT-ATTTATTA
33874906 -TTTATTTATTA
1 TTTTATTTATTA
33874917 TTT
1 TTT
33874920 CAACTTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.17
12 14 0.30
13 9 0.20
14 15 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:33886943 original size:14 final size:14
Alignment explanation
Indices: 33886924--33886958 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
33886914 CCCAATAAAG
*
33886924 ACCCAAACTTAACA
1 ACCCAAACATAACA
33886938 ACCCAAA-ATAACA
1 ACCCAAACATAACA
33886951 ACCCAAAC
1 ACCCAAAC
33886959 CCAACAGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.54, C:0.37, G:0.00, T:0.09
Consensus pattern (14 bp):
ACCCAAACATAACA
Found at i:33887524 original size:22 final size:22
Alignment explanation
Indices: 33887493--33887542 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
33887483 CACCGTGGAC
*
33887493 GGCGGTGCCGTCGTCAGTGATT
1 GGCGGCGCCGTCGTCAGTGATT
*
33887515 GGCGGCGCCGTCGTCGGTGATT
1 GGCGGCGCCGTCGTCAGTGATT
33887537 GGCGGC
1 GGCGGC
33887543 CTACACGGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.06, C:0.26, G:0.46, T:0.22
Consensus pattern (22 bp):
GGCGGCGCCGTCGTCAGTGATT
Found at i:33888086 original size:8 final size:9
Alignment explanation
Indices: 33888065--33888136 Score: 53
Period size: 10 Copynumber: 7.9 Consensus size: 9
33888055 ATTTAGACTC
33888065 TTTT-TTTA
1 TTTTATTTA
33888073 -TTTA-TTA
1 TTTTATTTA
33888080 TTTTATTTA
1 TTTTATTTA
33888089 -TTTACTTTA
1 TTTTA-TTTA
**
33888098 ACTTATTTA
1 TTTTATTTA
33888107 TTTTCATTTA
1 TTTT-ATTTA
33888117 TTATTTATTTA
1 -T-TTTATTTA
33888128 TTATTATTT
1 TT-TTATTT
33888137 CAACTTTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
7 6 0.12
8 8 0.15
9 14 0.27
10 15 0.29
11 6 0.12
12 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:33888097 original size:5 final size:4
Alignment explanation
Indices: 33888069--33888129 Score: 54
Period size: 4 Copynumber: 14.5 Consensus size: 4
33888059 AGACTCTTTT
*
33888069 TTTA TTTA -TTA TTTTA TTTA TTTA CTTTAA CTTA TTTA TTTTCA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTT-A TTTA TTTA -TTT-A TTTA
33888117 -TTA TTTA TTTA TT
1 TTTA TTTA TTTA TT
33888130 ATTATTTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 6 0.12
4 26 0.54
5 14 0.29
6 2 0.04
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:33888131 original size:14 final size:15
Alignment explanation
Indices: 33888069--33888136 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 15
33888059 AGACTCTTTT
*
33888069 TTTATTTATTATTTTA
1 TTTATTTATT-TATTA
33888085 TTTATTTACTTTAACTTA
1 TTTATTTA-TTT-A-TTA
33888103 TTTATTTTCATTTATTA
1 TTTA-TTT-ATTTATTA
33888120 TTTATTTA-TTATTA
1 TTTATTTATTTATTA
33888134 TTT
1 TTT
33888137 CAACTTTTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 12 0.26
17 9 0.20
18 8 0.17
19 6 0.13
20 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:33888315 original size:10 final size:9
Alignment explanation
Indices: 33888300--33888333 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
33888290 TCCTATTTTC
33888300 ATTTTATTCT
1 ATTTTATT-T
33888310 ATTTTATGTT
1 ATTTTAT-TT
33888320 ATTTTATTT
1 ATTTTATTT
33888329 ATTTT
1 ATTTT
33888334 GTTGTTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 15 0.65
11 1 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:33889753 original size:31 final size:31
Alignment explanation
Indices: 33889710--33889772 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
33889700 TAATAGTGCT
33889710 TGGTTACCCATTTGGGTTAAACCTACACGAA
1 TGGTTACCCATTTGGGTTAAACCTACACGAA
*
33889741 TGGTTACTCATTTGGGTTAAACCTACACGAA
1 TGGTTACCCATTTGGGTTAAACCTACACGAA
33889772 T
1 T
33889773 AATGAATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (31 bp):
TGGTTACCCATTTGGGTTAAACCTACACGAA
Found at i:33891864 original size:19 final size:18
Alignment explanation
Indices: 33891820--33891865 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
33891810 GAGTTAAACG
* * *
33891820 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAATC
33891838 AATCGAATTATTCGAATC
1 AATCGAATTATTCGAATC
33891856 AACTCGAATT
1 AA-TCGAATT
33891866 TTTTTTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:33891923 original size:9 final size:9
Alignment explanation
Indices: 33891906--33891942 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33891896 TGAGATTTCG
33891906 AATTCGAAT
1 AATTCGAAT
*
33891915 AACTCGAAT
1 AATTCGAAT
33891924 AATTCGAAT
1 AATTCGAAT
33891933 AATTCGAAT
1 AATTCGAAT
33891942 A
1 A
33891943 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33892750 original size:5 final size:5
Alignment explanation
Indices: 33892740--33892778 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
33892730 NNNNNNNNNN
33892740 CGATT CGATT CGATT CGATT CGATT CGATT CGATT CGAT
1 CGATT CGATT CGATT CGATT CGATT CGATT CGATT CGAT
33892779 CGAATGCTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (5 bp):
CGATT
Found at i:33896462 original size:12 final size:12
Alignment explanation
Indices: 33896445--33896482 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
33896435 CGACCCGCCC
33896445 ATATTAATTTTT
1 ATATTAATTTTT
33896457 ATATT-ATTTTT
1 ATATTAATTTTT
*
33896468 ATA-TAATTTTA
1 ATATTAATTTTT
33896479 ATAT
1 ATAT
33896483 ATATAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33896625 original size:30 final size:30
Alignment explanation
Indices: 33896581--33896643 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
33896571 ACTTAATAAG
33896581 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
33896611 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
33896641 CAA
1 CAA
33896644 TAAAATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:33897013 original size:30 final size:30
Alignment explanation
Indices: 33896969--33897031 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
33896959 ACTTAATAAG
33896969 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
33896999 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
33897029 CAA
1 CAA
33897032 TAAAAGGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:33903972 original size:208 final size:209
Alignment explanation
Indices: 33903576--33903991 Score: 735
Period size: 208 Copynumber: 2.0 Consensus size: 209
33903566 TCGAACTGAA
* * * *
33903576 GAGATTGGTCCAAAATATTGGATGATGCTTTATGGGCTTACAGGACAACATACAAGACACCTTTA
1 GAGAATGGTCCAAAAGACTGGATGATGCTTTATGGGCTTACAAGACAACATACAAGACACCTTTA
* *
33903641 GGGATGTCAACCTATAGGTTAGTCTTTGGGAAAGCCTGGCATCTACCCTTGGAGTTAGAACACAA
66 GGGATGTCAACCTATAGGTTAGTCTTTGGGAAAGCCTGACATCTACCATTGGAGTTAGAACACAA
33903706 AGCTTACTGGGCTCTCCAACGACTTAACCTGGATCTTAAAAGTGCCAAAGAGAAACGGATGCTTC
131 AGCTTACTGGGCTCTCCAACGACTTAACCTGGATCTTAAAAGTGCCAAAGAGAAACGGATGCTTC
33903771 AACTTAACGAGTTT
196 AACTTAACGAGTTT
* *
33903785 GAGAATGGTCCAAAAGACTGGATGATGCTTTATGGGCTTACAAGATAGCATACAAGACACCTTTA
1 GAGAATGGTCCAAAAGACTGGATGATGCTTTATGGGCTTACAAGACAACATACAAGACACCTTTA
* *
33903850 GGGATGTCACCCTATAGGTTAGTTTTTGGGAAAG-CTGACATCTACCATTGGAGTTAGAACACAA
66 GGGATGTCAACCTATAGGTTAGTCTTTGGGAAAGCCTGACATCTACCATTGGAGTTAGAACACAA
33903914 AGCTTACTGGGCTCTCCAACGACTTAACCTGGATCTTAAAAGTGCCAAAGAGAAACGGATGCTTC
131 AGCTTACTGGGCTCTCCAACGACTTAACCTGGATCTTAAAAGTGCCAAAGAGAAACGGATGCTTC
33903979 AACTTAACGAGTT
196 AACTTAACGAGTT
33903992 AGAAGATTTT
Statistics
Matches: 197, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
208 106 0.54
209 91 0.46
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (209 bp):
GAGAATGGTCCAAAAGACTGGATGATGCTTTATGGGCTTACAAGACAACATACAAGACACCTTTA
GGGATGTCAACCTATAGGTTAGTCTTTGGGAAAGCCTGACATCTACCATTGGAGTTAGAACACAA
AGCTTACTGGGCTCTCCAACGACTTAACCTGGATCTTAAAAGTGCCAAAGAGAAACGGATGCTTC
AACTTAACGAGTTT
Found at i:33906161 original size:25 final size:25
Alignment explanation
Indices: 33906125--33906185 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
33906115 CTCCTAAATT
*
33906125 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
33906150 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
33906175 TTAATTAAATT
1 TTAATTAAATT
33906186 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:33913267 original size:6 final size:6
Alignment explanation
Indices: 33913243--33913286 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
33913233 CGCCTTCTTC
* * *
33913243 TCCCCTT TCCCCT TTCCCT TCCCCT TCCCTT TTCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
33913287 GGGTTGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:33913270 original size:18 final size:18
Alignment explanation
Indices: 33913243--33913286 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33913233 CGCCTTCTTC
33913243 TCCCCTTTCCCCTTTCCCT
1 TCCCC-TTCCCCTTTCCCT
*
33913262 TCCCCTTCCCTTTTCCCT
1 TCCCCTTCCCCTTTCCCT
33913280 TCCCCTT
1 TCCCCTT
33913287 GGGTTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTCCCCTTTCCCT
Found at i:33913368 original size:14 final size:13
Alignment explanation
Indices: 33913348--33913405 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
33913338 GGTAAGGCTC
33913348 CTTCTTCTTCTTT
1 CTTCTTCTTCTTT
33913361 CGTTCTTCATTCCTTT
1 C-TTCTTC-TT-CTTT
33913377 -TTCTTCTTCTGTT
1 CTTCTTCTTCT-TT
*
33913390 CTTCATCTTCTCTT
1 CTTCTTCTTCT-TT
33913404 CT
1 CT
33913406 CAGCATATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 2 0.05
13 5 0.13
14 25 0.66
15 2 0.05
16 4 0.11
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.62
Consensus pattern (13 bp):
CTTCTTCTTCTTT
Found at i:33913380 original size:25 final size:25
Alignment explanation
Indices: 33913346--33913395 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
33913336 CAGGTAAGGC
33913346 TCCTTCTTCTTCTT-TCGTTCTTCAT
1 TCCTTCTTCTTCTTCT-GTTCTTCAT
*
33913371 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCTGTTCTTCAT
33913396 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCTGTTCTTCAT
Found at i:33915782 original size:22 final size:20
Alignment explanation
Indices: 33915739--33915777 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33915729 TAATTTAAAA
33915739 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
33915759 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
33915778 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:33915921 original size:34 final size:35
Alignment explanation
Indices: 33915864--33915929 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
33915854 CAAACACCAG
*
33915864 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
*
33915899 AAAACATTTTCCAA-AAATCATTTTACGGAAA
1 AAAACATTTTCCAATAAATCATTTTACAGAAA
33915930 TTATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (35 bp):
AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
Found at i:33917302 original size:15 final size:15
Alignment explanation
Indices: 33917284--33917317 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
33917274 ATAAATGTCG
33917284 CAATAACAAATACAA
1 CAATAACAAATACAA
*
33917299 CAATAATAAATACAA
1 CAATAACAAATACAA
33917314 CAAT
1 CAAT
33917318 GGCATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:33919179 original size:45 final size:45
Alignment explanation
Indices: 33919118--33919241 Score: 122
Period size: 45 Copynumber: 2.8 Consensus size: 45
33919108 TTGTTTATTT
* * * * ** *
33919118 AGTCTGCCCCACTGCAATTTTAGGGGGATAAGACTTACTTTCTTG
1 AGTCTGCTCCATTGCAACTTCAGGGAAATAAGACTCACTTTCTTG
* *
33919163 AGTCTGTTCCATTGCAACTTCAGGGAAATAAGACTCCCTTTCTTG
1 AGTCTGCTCCATTGCAACTTCAGGGAAATAAGACTCACTTTCTTG
* * * * *
33919208 GGTCTGCTCCACTACAACTTCAAGGAGATAAGAC
1 AGTCTGCTCCATTGCAACTTCAGGGAAATAAGAC
33919242 CCGATGTGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
AGTCTGCTCCATTGCAACTTCAGGGAAATAAGACTCACTTTCTTG
Found at i:33919818 original size:44 final size:43
Alignment explanation
Indices: 33919760--33920305 Score: 439
Period size: 44 Copynumber: 12.9 Consensus size: 43
33919750 TAGATTCATG
* *
33919760 ATCTTCAACCTATTCCACCGCTGACCAGGGAGATAGGACCTACA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGA-CTACA
* * * * *
33919804 ATCTTCAATCTATTCCACTACTG-CACAGGGAGATAGAATTATCA
1 ATCTTTAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTA-CA
* * *
33919848 ATCTTCAACCTATTCCACTGCTGA-CAAGGAGATAGGATTCACA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACA
* **
33919891 ATCTTTAACCTATTCTACTGCTTTCCAGGGAGATAGGA-T---
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTACA
* * * * *
33919930 -TCTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCT-CA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGA--CTACA
*
33919973 AT-TTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTCACA
1 ATCTTT-AACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACA
* * * *
33920017 ATCTTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTCACA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACA
* * *
33920061 ATCTTTAACCTATTCCACTACTGTCCAGGGAGATAAGA-T---
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTACA
* * *
33920100 -TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCT-CA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGA--CTACA
* * * * *
33920143 ATCTTCAACCTATTACACTGCTGACTAGGGAGATAGGATTCATA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACA
*
33920187 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG---GC-
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTACA
* * * ** *
33920226 -TCTTTAATCTATTCCACAGCTGCCCAATGAGATAGGATTCACA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACA
* * *
33920269 ATCTTTAACCTATTCCTCTACTGACCAGGAAGATAGG
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
33920306 GCTGGGGTCA
Statistics
Matches: 407, Mismatches: 66, Indels: 58
0.77 0.12 0.11
Matches are distributed among these distances:
38 93 0.23
41 2 0.00
42 4 0.01
43 43 0.11
44 262 0.64
45 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTACA
Found at i:33920108 original size:170 final size:169
Alignment explanation
Indices: 33919802--33920223 Score: 623
Period size: 170 Copynumber: 2.5 Consensus size: 169
33919792 ATAGGACCTA
* * *
33919802 CAATCTTCAATCTATTCCACTACTG-CACAGGGAGATA-GAATTATCAATCTTCAACCTATTCCA
1 CAATCTTCAACCTATTCCACTACTGAC-CAGGGAGATAGGAATCA-CAATCTTTAACCTATTCCA
* * * * *
33919865 CTGCTGACAAGGAGATAGGATTCACAATCTTTAACCTATTCTACTGCTTTCCAGGGAGATAGGAT
64 CTGCTGACAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAAGAT
33919930 TCTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCT
129 TCTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCT
* *
33919971 CAATTTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTCACAATCTTTAACCTATTCCACT
1 CAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAATCACAATCTTTAACCTATTCCACT
* *
33920036 GTTGTCTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAAGATT
66 GCTGAC-AGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAAGATT
* *
33920101 CTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCT
130 CTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCT
* * * * *
33920141 CAATCTTCAACCTATTACACTGCTGACTAGGGAGATAGGATTCATAATCTTTAACCTATTCCACT
1 CAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAATCACAATCTTTAACCTATTCCACT
33920206 GCTGACCAGGGAGATAGG
66 GCTGA-CAGGGAGATAGG
33920224 GCTCTTTAAT
Statistics
Matches: 227, Mismatches: 22, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
169 57 0.25
170 169 0.74
171 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (169 bp):
CAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAATCACAATCTTTAACCTATTCCACT
GCTGACAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAAGATTC
TTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCT
Found at i:33920112 original size:126 final size:128
Alignment explanation
Indices: 33919719--33920305 Score: 535
Period size: 126 Copynumber: 4.6 Consensus size: 128
33919709 GATCTGTTAT
* * ** ** * *
33919719 TTTCAACCTACTCCACTGCTG-CTCCGGGAGATA-GATTCATGATCTTCAACCTATTCCACCGCT
1 TTTCAACCTATTCCACTACTGAC-CAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT
* * *
33919782 GACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTACTGCACAGGGAGATAGAATTATC
65 GACCAGGGAGATAGGATC-ACAATCTTTAACCTATTCCACTACTGC-CAGGGAGATAGAATTATC
33919847 AA
128 -A
* *
33919849 TCTTCAACCTATTCCACTGCTGA-CAAGGAGATAGGATTCACAATCTTTAACCTATTCTACTGCT
1 T-TTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT
** * * *
33919913 TTCCAGGGAGATAGGAT-----TCTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCTCA
65 GACCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTACTG-CCAGGGAGATAGAATTATC-
33919973 A
128 A
* * *
33919974 TTTTCAACCTATTCCACTACTGACCAGGGAGATAGGACTCACAATCTTTAACCTATTCCACTGTT
1 -TTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT
* *
33920039 GTCTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATA-AGA-T-T
65 GACCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTACTG-CCAGGGAGATAGA-ATTAT
33920101 C-
127 CA
* * * * * * * *
33920102 TTT-AATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTACACTGCTG
1 TTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTG
* * * ***
33920166 ACTAGGGAGATAGGATTCATAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAG--GGCTC-
66 ACCAGGGAGATAGGA-TCACAATCTTTAACCTATTCCACTACTG-CCAGGGAGATAGAATTATCA
* * * * *
33920228 TTT-AATCTATTCCAC-AGCTGCCCAATGAGATAGGATTCACAATCTTTAACCTATTCCTCTACT
1 TTTCAACCTATTCCACTA-CTGACCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT
*
33920291 GACCAGGAAGATAGG
65 GACCAGGGAGATAGG
33920306 GCTGGGGTCA
Statistics
Matches: 391, Mismatches: 49, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
125 59 0.15
126 225 0.58
127 4 0.01
130 11 0.03
131 60 0.15
132 32 0.08
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (128 bp):
TTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTG
ACCAGGGAGATAGGATCACAATCTTTAACCTATTCCACTACTGCCAGGGAGATAGAATTATCA
Found at i:33920276 original size:170 final size:165
Alignment explanation
Indices: 33919761--33920304 Score: 560
Period size: 170 Copynumber: 3.2 Consensus size: 165
33919751 AGATTCATGA
* ** * * * *
33919761 TCTTCAACCTATTCCACCGCTGACCAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTAC
1 TCTTTAACCTATTCCACTACTGACCAGGAAGATAGAATTCT-CAATCTTCAACCTATTCCACTAC
* * *
33919825 TGCACAGGGAGATAGAATT-ATCAATCTTCAACCTATTCCACTGCTGA-CAAGGAGATAGGATTC
65 TG-ACAGGGAGATAGGATTCAT-AATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG--T-
* * *
33919888 ACAATCTTTAACCTATTCTACTGCTTTCCAGGGAGATAGGAT
125 AC-ATCTTTAACCTATTCCACAGCTGTCCAGGGAGATAGGAT
* * *
33919930 TCTTTAATCTATTCCACTACTGCCCAGGAAGATAGAATTCTCAATTTTCAACCTATTCCACTACT
1 TCTTTAACCTATTCCACTACTGACCAGGAAGATAGAATTCTCAATCTTCAACCTATTCCACTACT
* * * * *
33919995 GACCAGGGAGATAGGACTCACAATCTTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTCAC
66 GA-CAGGGAGATAGGATTCATAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG--T-AC
*
33920060 AATCTTTAACCTATTCCACTA-CTGTCCAGGGAGATAAGAT
127 -ATCTTTAACCTATTCCAC-AGCTGTCCAGGGAGATAGGAT
* * * * * *
33920100 TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTACACTGCT
1 TCTTTAACCTATTCCACTACTGACCAGGAAGATAGAATTCTCAATCTTCAACCTATTCCACTACT
*
33920165 GACTAGGGAGATAGGATTCATAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG-GC-TC
66 GAC-AGGGAGATAGGATTCATAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGTACATC
* * **
33920228 TTTAATCTATTCCACAGCTGCCCAATGAGATAGGATT
130 TTTAACCTATTCCACAGCTGTCCAGGGAGATAGGA-T
*
33920265 CACAATCTTTAACCTATTCCTCTACTGACCAGGAAGATAG
1 -----TCTTTAACCTATTCCACTACTGACCAGGAAGATAG
33920305 GGCTGGGGTC
Statistics
Matches: 319, Mismatches: 43, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
163 1 0.00
164 30 0.09
165 1 0.00
166 1 0.00
168 1 0.00
169 89 0.28
170 196 0.61
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (165 bp):
TCTTTAACCTATTCCACTACTGACCAGGAAGATAGAATTCTCAATCTTCAACCTATTCCACTACT
GACAGGGAGATAGGATTCATAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGTACATCT
TTAACCTATTCCACAGCTGTCCAGGGAGATAGGAT
Found at i:33920421 original size:88 final size:87
Alignment explanation
Indices: 33920305--33920622 Score: 465
Period size: 88 Copynumber: 3.6 Consensus size: 87
33920295 AGGAAGATAG
* * * * *
33920305 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATTTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
33920370 TCCGCTGCAATCCAGGGAGGCAA
66 TCCGCTGCAA-CCAGGGAGGCAA
* * * *
33920393 GGCTGGTGCCTTCGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATTTACTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
33920458 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAA-CCAGGGAGGCAA
*
33920481 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
33920546 TTCACTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACC-AGGGAGGCAA
* * *
33920569 GGCTAGTGTCTTCGATCTGCTTCGCTATCGGTACAGGAAGGCAAGATCTGCTAT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
33920623 CTTCGATCTA
Statistics
Matches: 208, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 2 0.01
88 206 0.99
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (87 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCAGGGAGGCAA
Found at i:33920523 original size:44 final size:45
Alignment explanation
Indices: 33920470--33920682 Score: 120
Period size: 44 Copynumber: 4.8 Consensus size: 45
33920460 CGCTGTAACC
* * * *
33920470 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGAGCTGCTATCTTCGATCTGCTTCACTGTCGGTA
* ** * *
33920514 CAGGAAGGCAAGATCTGCTAT-TTTTAGCCTGCTTCACTG-C--AA
1 CAGGAAGGCAAGAGCTGCTATCTTCGA-TCTGCTTCACTGTCGGTA
* * * *
33920556 CCTAGGGAGGCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTATCGGTA
1 -C-AGGAAGGCAAGAGCT-GCTATCTTCGATCTGCTTCACTGTCGGTA
* * **
33920602 CAGGAAGGCAAGATCTGCTATCTTCGATCTACTTCAC-G-CTAATA
1 CAGGAAGGCAAGAGCTGCTATCTTCGATCTGCTTCACTGTC-GGTA
* * * * *
33920646 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC
1 CAGGAAGGCAAGAGCTGCTATCTTCGATCTGCTTCAC
33920683 CACCAGTATG
Statistics
Matches: 128, Mismatches: 29, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
43 15 0.12
44 77 0.60
45 35 0.27
46 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGGAAGGCAAGAGCTGCTATCTTCGATCTGCTTCACTGTCGGTA
Found at i:33920714 original size:44 final size:45
Alignment explanation
Indices: 33920603--33920759 Score: 192
Period size: 44 Copynumber: 3.5 Consensus size: 45
33920593 CTATCGGTAC
* * * *
33920603 AGGAAGGCAAGATCTGCTATCTTCGATCTACTTCA-CGCTAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATAT
* * *
33920647 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATAT
* * * *
33920692 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATAT
*
33920736 AGGAAGACAGGATCTGCTATCTTC
1 AGGAAGACAAGATCTGCTATCTTC
33920760 ACTGATCTGC
Statistics
Matches: 95, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 69 0.73
45 26 0.27
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATAT
Found at i:33929435 original size:3 final size:3
Alignment explanation
Indices: 33929427--33929470 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
33929417 GACTTTTTAT
33929427 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33929471 CTTTAAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33930507 original size:19 final size:19
Alignment explanation
Indices: 33930461--33930508 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
33930451 GTATATATTT
*
33930461 TAAA-TTTATTTAGTTAGA
1 TAAATTTTATTTAGGTAGA
*
33930479 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
33930498 TAAGTTTTATT
1 TAAATTTTATT
33930509 CATATCCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:33932121 original size:42 final size:42
Alignment explanation
Indices: 33932040--33932123 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
33932030 ATATTTTATT
33932040 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
* *
33932082 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTTTTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
33932124 AATTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
Found at i:33933795 original size:31 final size:31
Alignment explanation
Indices: 33933757--33933816 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
33933747 TTGCATGGTC
33933757 AATTTTGTTTTTGAGATTTCAATATCAATGG
1 AATTTTGTTTTTGAGATTTCAATATCAATGG
*
33933788 AATTTTGTTTTTGAGATTTTAATATCAAT
1 AATTTTGTTTTTGAGATTTCAATATCAAT
33933817 TACAGGTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (31 bp):
AATTTTGTTTTTGAGATTTCAATATCAATGG
Found at i:33937076 original size:59 final size:60
Alignment explanation
Indices: 33936980--33937106 Score: 204
Period size: 59 Copynumber: 2.1 Consensus size: 60
33936970 AATAAAATTT
*
33936980 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTTCAACAAGAG-ATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGAATGACAA
* *
33937039 TTCAAGCACAAATACTTAAACAAGACATAAACGTATTGAATTGCAAGAAGAGATATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGA-ATGACAA
33937100 TT-AAGCA
1 TTCAAGCA
33937107 TTGGAGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
59 49 0.78
60 5 0.08
61 9 0.14
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.22
Consensus pattern (60 bp):
TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTGCAACAAGAGAATGACAA
Found at i:33938193 original size:13 final size:13
Alignment explanation
Indices: 33938159--33938197 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
33938149 CTAACCTATT
33938159 AACTTAAGTT-TA
1 AACTTAAGTTCTA
* *
33938171 ATCCTAAGTTCTA
1 AACTTAAGTTCTA
33938184 AACTTAAGTTCTA
1 AACTTAAGTTCTA
33938197 A
1 A
33938198 GTTTTTAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AACTTAAGTTCTA
Found at i:33945553 original size:9 final size:9
Alignment explanation
Indices: 33945539--33945564 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33945529 TAACTTCTGG
33945539 TACATAATA
1 TACATAATA
33945548 TACATAATA
1 TACATAATA
33945557 TACATAAT
1 TACATAAT
33945565 TTAAGGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (9 bp):
TACATAATA
Found at i:33947091 original size:18 final size:16
Alignment explanation
Indices: 33947060--33947093 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
33947050 ATAATTATTC
33947060 ATTTAATATTATAATT
1 ATTTAATATTATAATT
33947076 ATTTAAATAGTTATAATT
1 ATTT-AATA-TTATAATT
33947094 TTTTTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTAATATTATAATT
Found at i:33948997 original size:23 final size:24
Alignment explanation
Indices: 33948967--33949016 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
33948957 CTTTATTGTG
*
33948967 TTTTGATTTATTTTGAACT-ATTA
1 TTTTGATTTATTGTGAACTGATTA
* *
33948990 TTTTGATTTCTTGTGAGCTGATTA
1 TTTTGATTTATTGTGAACTGATTA
33949014 TTT
1 TTT
33949017 CTCTATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTTGATTTATTGTGAACTGATTA
Found at i:33949629 original size:2 final size:2
Alignment explanation
Indices: 33949622--33949661 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
33949612 ATCTTAGTCT
*
33949622 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33949662 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:33966441 original size:20 final size:20
Alignment explanation
Indices: 33966413--33966452 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33966403 CTCTAACCAG
*
33966413 AATCTCTAAAAATTAGCTAT
1 AATCCCTAAAAATTAGCTAT
*
33966433 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATTAGCTAT
33966453 TTGGTACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
AATCCCTAAAAATTAGCTAT
Found at i:33971655 original size:27 final size:27
Alignment explanation
Indices: 33971624--33971691 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
33971614 TAAAGTTCAA
*
33971624 TTTGAATTAAAGACTTGATTTTATAAT
1 TTTGAAATAAAGACTTGATTTTATAAT
* *
33971651 TTTGAAACAAAGATTTGATTTTATAAT
1 TTTGAAATAAAGACTTGATTTTATAAT
33971678 TTTGAAATAAAGAC
1 TTTGAAATAAAGAC
33971692 ATGAGTGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (27 bp):
TTTGAAATAAAGACTTGATTTTATAAT
Found at i:33973135 original size:12 final size:13
Alignment explanation
Indices: 33973117--33973144 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33973107 TTTAGAAAAA
33973117 CATTTTTAACATT
1 CATTTTTAACATT
33973130 CATTTTTAACATT
1 CATTTTTAACATT
33973143 CA
1 CA
33973145 ATTGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (13 bp):
CATTTTTAACATT
Found at i:33975907 original size:184 final size:185
Alignment explanation
Indices: 33975672--33976046 Score: 590
Period size: 184 Copynumber: 2.0 Consensus size: 185
33975662 TCGATACTTT
*
33975672 TTGTGATTGTTTAAAAATCATTAAGTCAGAACGCAAAAACGGTATCGATATCAAAGATGGTATTG
1 TTGTGATTGTTTAAAAATC--TAAGTCAGAACGCAAAAACGGTATCGATATCAAAGATGGTATCG
* * ** *
33975737 ATAAAAATACAATAGGTATCCATATTTTTTGAAAAGTATTGATACTTTTTGTTTTTGTTCAGTTT
64 ATAAAAATACAATAGGTATACATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAATTT
* * *
33975802 TTGTTTCAAGTCAGTAAGCAAGTTTGGTATCGATCTTTAAATAGGTATCAATAAAAA
129 TTATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
* * *
33975859 TTGTGATTGTTTAAAAATC-AAGTTATAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
1 TTGTGATTGTTTAAAAATCTAAGTCAGAACGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
* * *
33975923 AAAAATACAATAGGTATAGATATTTTTTGATAGGTATCGATACTTTTTACTTTTGTTCAATTTTT
66 AAAAATACAATAGGTATACATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAATTTTT
33975988 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
131 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
33976043 TTGT
1 TTGT
33976047 ATGGGTATTG
Statistics
Matches: 173, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
184 154 0.89
187 19 0.11
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (185 bp):
TTGTGATTGTTTAAAAATCTAAGTCAGAACGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
AAAAATACAATAGGTATACATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAATTTTT
ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
Found at i:33975910 original size:18 final size:18
Alignment explanation
Indices: 33975889--33975923 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33975879 AGTTATAATG
33975889 CAAAAACGGTATCGATAT
1 CAAAAACGGTATCGATAT
* *
33975907 CAAAGATGGTATCGATA
1 CAAAAACGGTATCGATA
33975924 AAAATACAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
CAAAAACGGTATCGATAT
Found at i:33975957 original size:20 final size:21
Alignment explanation
Indices: 33975932--33975970 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33975922 TAAAAATACA
33975932 ATAGGTATAGATA-TTTTTTG
1 ATAGGTATAGATACTTTTTTG
*
33975952 ATAGGTATCGATACTTTTT
1 ATAGGTATAGATACTTTTT
33975971 ACTTTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (21 bp):
ATAGGTATAGATACTTTTTTG
Found at i:33985159 original size:5 final size:5
Alignment explanation
Indices: 33985139--33985173 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
33985129 ACGTGAGTAT
*
33985139 TCGA- TCGAG TCAAG TCGAG TCGAG TCGAG TCGAG T
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG T
33985174 TGAATTGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (5 bp):
TCGAG
Found at i:33985502 original size:70 final size:70
Alignment explanation
Indices: 33985416--33985597 Score: 274
Period size: 76 Copynumber: 2.5 Consensus size: 70
33985406 AACTTAATGA
*
33985416 GTAAACATTTATCAAAACAATGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGA
1 GTAAATATTTATCAAAACAATGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGA
33985481 AAAAG
66 AAAAG
*
33985486 GTAAATATTTATCAAAACGATAACAAAGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAA
1 GTAAATATTTATC---A--A-AACAATGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAA
33985551 CTTTGAAAAAG
60 CTTTGAAAAAG
* *
33985562 GTAAATATTTATCAAAACGATGTACTTTTGCCTTTT
1 GTAAATATTTATCAAAACAATGTAGTTTTGCCTTTT
33985598 CTTATTCAGA
Statistics
Matches: 101, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
70 30 0.30
71 1 0.01
73 2 0.02
75 1 0.01
76 67 0.66
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (70 bp):
GTAAATATTTATCAAAACAATGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGA
AAAAG
Found at i:33985524 original size:76 final size:76
Alignment explanation
Indices: 33985431--33985582 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
33985421 CATTTATCAA
*
33985431 AACAATGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGAAAAAGGTAAATATTT
1 AACAAAGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGAAAAAGGTAAATATTT
33985496 ATCAAAACGAT
66 ATCAAAACGAT
33985507 AACAAAGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGAAAAAGGTAAATATTT
1 AACAAAGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGAAAAAGGTAAATATTT
33985572 ATCAAAACGAT
66 ATCAAAACGAT
33985583 GTACTTTTGC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (76 bp):
AACAAAGTAGTTTTGCCTTTTAACTTAATGGTTTTGGCTTTTAACTTTGAAAAAGGTAAATATTT
ATCAAAACGAT
Found at i:33986364 original size:21 final size:23
Alignment explanation
Indices: 33986326--33986371 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
33986316 CAATTAAGTT
33986326 TAATTTTTTTAATATTTTA-AAA
1 TAATTTTTTTAATATTTTATAAA
* *
33986348 TAATTTTTTT-GTCTTTTATAAA
1 TAATTTTTTTAATATTTTATAAA
33986370 TA
1 TA
33986372 GGTGAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TAATTTTTTTAATATTTTATAAA
Found at i:33995890 original size:15 final size:15
Alignment explanation
Indices: 33995865--33995899 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
33995855 GACTCTATTT
*
33995865 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
33995879 TAATTAATATTAAGA
1 TAATTAATATTAAGA
33995894 TAATTA
1 TAATTA
33995900 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:34008224 original size:13 final size:13
Alignment explanation
Indices: 34008206--34008232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34008196 TCCAAAAAAT
34008206 AAGAAAAATCAAA
1 AAGAAAAATCAAA
34008219 AAGAAAAATCAAA
1 AAGAAAAATCAAA
34008232 A
1 A
34008233 TCAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
AAGAAAAATCAAA
Found at i:34008239 original size:34 final size:35
Alignment explanation
Indices: 34008200--34008346 Score: 136
Period size: 34 Copynumber: 4.1 Consensus size: 35
34008190 ATCCAATCCA
*
34008200 AAAAATAAGAAAAATCAAAAAGAAAAATCAAAATC
1 AAAAATAAGAAAAATCAAAAAGAAAAATCAAAGTC
* **
34008235 AAAATAAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAGTC
1 AAAA-ATAAG---AAAA-ATCAAAAAGAAAAATCAAAGTC
* **
34008275 AAAAAGAAGAAAAATC-AAAATCAAAATCAAAGTC
1 AAAAATAAGAAAAATCAAAAAGAAAAATCAAAGTC
* * **
34008309 AAAAAGAAGAAAAA-GAAAAATCAAAATCAAAGTC
1 AAAAATAAGAAAAATCAAAAAGAAAAATCAAAGTC
34008343 AAAA
1 AAAA
34008347 TGAAAATGAA
Statistics
Matches: 96, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
34 52 0.54
35 5 0.05
36 8 0.08
39 8 0.08
40 23 0.24
ACGTcount: A:0.71, C:0.09, G:0.10, T:0.10
Consensus pattern (35 bp):
AAAAATAAGAAAAATCAAAAAGAAAAATCAAAGTC
Found at i:34008284 original size:22 final size:22
Alignment explanation
Indices: 34008219--34008300 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
34008209 AAAAATCAAA
34008219 AAGAAAAATCAAAATC---AA-
1 AAGAAAAATCAAAATCAAAAAG
* * **
34008237 AATAAAAGTCAAAAAGAAGAAA-
1 AAGAAAAATCAAAATCAA-AAAG
*
34008259 AAGAAAAATCAAAGTCAAAAAG
1 AAGAAAAATCAAAATCAAAAAG
34008281 AAGAAAAATCAAAATCAAAA
1 AAGAAAAATCAAAATCAAAA
34008301 TCAAAGTCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
18 12 0.24
21 3 0.06
22 34 0.69
ACGTcount: A:0.72, C:0.09, G:0.10, T:0.10
Consensus pattern (22 bp):
AAGAAAAATCAAAATCAAAAAG
Found at i:34008291 original size:62 final size:62
Alignment explanation
Indices: 34008219--34008339 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
34008209 AAAAATCAAA
*
34008219 AAGAAAAATCAAAATCAAAATAAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAGTCAAAAAG
1 AAGAAAAATCAAAATCAAAATAAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAATCAAAAAG
*
34008281 AAGAAAAATCAAAATCAAAATCAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAATCAAA
1 AAGAAAAATCAAAATCAAAATAAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAATCAAA
34008340 GTCAAAATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.71, C:0.09, G:0.10, T:0.10
Consensus pattern (62 bp):
AAGAAAAATCAAAATCAAAATAAAAGTCAAAAAGAAGAAAAAGAAAAATCAAAATCAAAAAG
Found at i:34008294 original size:6 final size:6
Alignment explanation
Indices: 34008285--34008358 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
34008275 AAAAAGAAGA
* * ** **
34008285 AAAATC AAAATC AAAATC AAAGTC AAAA-- AGAAGA AAAAGA AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* * *
34008331 AAAATC AAAGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAA
34008359 AGAGAAAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 3 0.05
6 54 0.95
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:34008328 original size:28 final size:28
Alignment explanation
Indices: 34008235--34008339 Score: 129
Period size: 28 Copynumber: 3.5 Consensus size: 28
34008225 AATCAAAATC
*
34008235 AAAATAAAAGTCAAAAAGAAGAAAAAGA
1 AAAATCAAAGTCAAAAAGAAGAAAAAGA
*
34008263 AAAATCAAAGTCAAAAAGAAGAAAAATCAAAA
1 AAAATCAAAGTCAAAAAGAAG--AAA--AAGA
34008295 TCAAAATCAAAGTCAAAAAGAAGAAAAAGA
1 --AAAATCAAAGTCAAAAAGAAGAAAAAGA
*
34008325 AAAATCAAAATCAAA
1 AAAATCAAAGTCAAA
34008340 GTCAAAATGA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
28 34 0.51
30 6 0.09
32 6 0.09
34 21 0.31
ACGTcount: A:0.71, C:0.09, G:0.10, T:0.10
Consensus pattern (28 bp):
AAAATCAAAGTCAAAAAGAAGAAAAAGA
Found at i:34008372 original size:6 final size:6
Alignment explanation
Indices: 34008343--34008391 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
34008333 AATCAAAGTC
* *
34008343 AAAATG AAAATG AAAAAG AGAAAAG AAAAAAG AAAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG A-AAAAG -AAAAAG -AAAAAG AAAAAG AAAA
34008392 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 22 0.55
7 17 0.43
8 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:34008372 original size:14 final size:14
Alignment explanation
Indices: 34008355--34008391 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
34008345 AATGAAAATG
*
34008355 AAAAAGAGAAAAGA
1 AAAAAGAAAAAAGA
34008369 AAAAAGAAAAAAG-
1 AAAAAGAAAAAAGA
34008382 AAAAAGAAAA
1 AAAAAGAAAA
34008392 GGAGAGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Done.