Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 20 of 328
Found at i:6121766 original size:6 final size:6
Alignment explanation
Indices: 6121755--6121782 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6121745 GCAACCTAAT
6121755 GGGAAG GGGAAG GGGAAG GGGAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGA
6121783 GAAGAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:6121947 original size:14 final size:14
Alignment explanation
Indices: 6121928--6121954 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6121918 AAAAAAGCCT
6121928 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
6121942 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
6121955 ACGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:6122724 original size:77 final size:78
Alignment explanation
Indices: 6122605--6122771 Score: 203
Period size: 77 Copynumber: 2.2 Consensus size: 78
6122595 TGAAATATGT
* ** * * * *
6122605 GATAAGTTGGTTTTATGTTGTGTATGCATATATAAATGTAAGGTTAAGAAAGGAACATCGA-CAT
1 GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATC-ACCAT
*
6122669 TACTG-AAATGTAC
65 TACTGAAAATATAC
* *
6122682 GATAAGTTGCTTTTATGCAGTGGATGCATCTCTAAATATAAGGTGAAGAAAGGAAAATCACCATT
1 GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATCACCATT
* *
6122747 AGTGAAAATATAT
66 ACTGAAAATATAC
6122760 GATAAGTTGCTT
1 GATAAGTTGCTT
6122772 CTATATAGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
76 1 0.01
77 57 0.75
78 18 0.24
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (78 bp):
GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATCACCATT
ACTGAAAATATAC
Found at i:6126682 original size:31 final size:31
Alignment explanation
Indices: 6126618--6126732 Score: 89
Period size: 31 Copynumber: 3.8 Consensus size: 31
6126608 CAATCTGGGA
*
6126618 TGGCAAGTCAT-AGTTGTCGGGCAA-TCCAGGG
1 TGGCAAGTCATCA-TTGTCGGGCAATTCGA-GG
6126649 TGGCAAGTCATCATTGTCGGGCAATTCGAGG
1 TGGCAAGTCATCATTGTCGGGCAATTCGAGG
* * *
6126680 TGG-TAG--GTCATTGTCGGG-AAATCTGAGG
1 TGGCAAGTCATCATTGTCGGGCAATTC-GAGG
** * *
6126708 TAACAAGTCATCGTTGTCGAGCAAT
1 TGGCAAGTCATCATTGTCGGGCAAT
6126733 CTGGGATGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
27 4 0.06
28 16 0.24
29 2 0.03
30 2 0.03
31 36 0.55
32 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (31 bp):
TGGCAAGTCATCATTGTCGGGCAATTCGAGG
Found at i:6132954 original size:22 final size:23
Alignment explanation
Indices: 6132927--6132971 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6132917 GGGTATCTAC
6132927 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
6132949 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
6132972 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:6132975 original size:17 final size:17
Alignment explanation
Indices: 6132953--6133003 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
6132943 ATTACAAAAT
6132953 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
6132970 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
6132989 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
6133004 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:6132976 original size:22 final size:22
Alignment explanation
Indices: 6132924--6132981 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
6132914 AAAGGGTATC
*
6132924 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6132945 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6132968 TACATATCATATCT
1 TACAAATCATATCT
6132982 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6132984 original size:19 final size:20
Alignment explanation
Indices: 6132937--6132994 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
6132927 AAATCAAATC
*
6132937 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
6132960 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
6132979 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
6132995 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:6133755 original size:43 final size:42
Alignment explanation
Indices: 6133707--6133813 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
6133697 ATGCCAACAT
* *
6133707 CCCAGACGTGGTCTTACATGTAATTAAATATCGATGCC-ACTGT
1 CCCAGACGTGGTCTTACATGTAATCAAATA-CGATGCCGA-TGC
* ***
6133750 TCCAGACAG-GGTCTTACACAAAATCAAATACGATGCCGATGC
1 CCCAGAC-GTGGTCTTACATGTAATCAAATACGATGCCGATGC
*
6133792 CCCAGACATGGTCTTACATGTA
1 CCCAGACGTGGTCTTACATGTA
6133814 GACCTCAAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
CCCAGACGTGGTCTTACATGTAATCAAATACGATGCCGATGC
Found at i:6145076 original size:334 final size:334
Alignment explanation
Indices: 6144467--6146476 Score: 3912
Period size: 334 Copynumber: 6.0 Consensus size: 334
6144457 AACCCCGAGC
* *
6144467 TTTGATCTGACTTTAAACAAATTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAGTCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6144532 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6144597 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6144662 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
*
6144727 AAAAAGGGTCTTCTCCACCCACCCACCTTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6144792 CTCCAATGA
326 CTCCAATGA
6144801 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6144866 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
*
6144931 CGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6144996 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
6145061 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6145126 CTCCAATGA
326 CTCCAATGA
6145135 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6145200 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6145265 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6145330 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTTATACGCTATTCGTG
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAA-TTTTTATACGCTATTCGTG
6145395 AAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCT
260 AAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCT
6145460 CCTCCAATGA
325 CCTCCAATGA
6145470 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6145535 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
*
6145600 CGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6145665 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
6145730 AAAAAGGGTCTTCTCCACCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCG
261 AAAAAGGGTCTTCT----CCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCG
6145795 TCTCCTCCAATGA
322 TCTCCTCCAATGA
6145808 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6145873 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6145938 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6146003 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
6146068 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6146133 CTCCAATGA
326 CTCCAATGA
6146142 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6146207 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
*
6146272 CGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6146337 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
*
6146402 AAAAAGGGTCTTCTCCACCCACGCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6146467 CTCCAATGA
326 CTCCAATGA
6146476 T
1 T
6146477 CGAAATAGTC
Statistics
Matches: 1662, Mismatches: 9, Indels: 10
0.99 0.01 0.01
Matches are distributed among these distances:
334 996 0.60
335 333 0.20
338 333 0.20
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (334 bp):
TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
CTCCAATGA
Found at i:6146381 original size:672 final size:668
Alignment explanation
Indices: 6144467--6146476 Score: 3939
Period size: 672 Copynumber: 3.0 Consensus size: 668
6144457 AACCCCGAGC
* *
6144467 TTTGATCTGACTTTAAACAAATTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAGTCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6144532 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6144597 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6144662 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
*
6144727 AAAAAGGGTCTTCTCCACCCACCCACCTTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6144792 CTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTT
326 CTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTT
6144857 AAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGAT
391 AAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGAT
6144922 CTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTT
456 CTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTT
6144987 TTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGC
521 TTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGC
6145052 TATTCGTGAAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTT
586 TATTCGTGAAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTT
6145117 CCTCGTCTCCTCCAATGA
651 CCTCGTCTCCTCCAATGA
6145135 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6145200 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6145265 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6145330 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTTATACGCTATTCGTG
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAA-TTTTTATACGCTATTCGTG
6145395 AAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCT
260 AAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCT
6145460 CCTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGT
325 CCTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGT
6145525 TAAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGA
390 TAAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGA
6145590 TCTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACT
455 TCTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACT
6145655 TTTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACG
520 TTTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACG
6145720 CTATTCGTGAAAAAAGGGTCTTCTCCACCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTT
585 CTATTCGTGAAAAAAGGGTCTTCT----CCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTT
6145785 TCCTTCCTCGTCTCCTCCAATGA
646 TCCTTCCTCGTCTCCTCCAATGA
6145808 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
1 TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
6145873 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
66 TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
6145938 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
131 CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
6146003 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
196 TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
6146068 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
261 AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
6146133 CTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTT
326 CTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTT
6146198 AAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGAT
391 AAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGAT
6146263 CTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTT
456 CTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTT
6146328 TTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGC
521 TTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGC
*
6146393 TATTCGTGAAAAAAGGGTCTTCTCCACCCACGCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTT
586 TATTCGTGAAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTT
6146458 CCTCGTCTCCTCCAATGA
651 CCTCGTCTCCTCCAATGA
6146476 T
1 T
6146477 CGAAATAGTC
Statistics
Matches: 1333, Mismatches: 4, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
668 298 0.22
669 367 0.28
672 368 0.28
673 300 0.23
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (668 bp):
TTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTTAAAATCTCG
TCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGATCTCACTAGA
CGTGTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTTTTTCTTACA
TGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGCTATTCGTGA
AAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTTCCTCGTCTC
CTCCAATGATTTGATCTGACTTTAAACAAACTTACCAATGCCCAAAGCAAAACATTTACAAGGTT
AAAATCTCGTCATGTATGAAAATGCAGCTCTCAGCGGTGCTAATCTACTGTTCACTGCCATAGAT
CTCACTAGACGTTTGCATTTGTTGTTTGCGTTTAACTACAGGGAAACTTGTTTTCTAAACCACTT
TTTCTTACATGGACATCATTTTGAGGTTAAATTGAATATAAGCTTTTGTGCTAATTTTTATACGC
TATTCGTGAAAAAAGGGTCTTCTCCACCCACCCACCCTCTCCTCTTTCCTCTTTTTCCTTTCCTT
CCTCGTCTCCTCCAATGA
Found at i:6147652 original size:31 final size:31
Alignment explanation
Indices: 6147617--6147677 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
6147607 AGTTAGATAT
*
6147617 TAAACTTGACAATTATTTCTATATTGGAGCC
1 TAAACTAGACAATTATTTCTATATTGGAGCC
* *
6147648 TAAACTAGGCAATTATTTTTATATTGGAGC
1 TAAACTAGACAATTATTTCTATATTGGAGC
6147678 TTGAACCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (31 bp):
TAAACTAGACAATTATTTCTATATTGGAGCC
Found at i:6150690 original size:14 final size:14
Alignment explanation
Indices: 6150671--6150700 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6150661 TTATATCGAG
6150671 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
6150685 ACCAATCCAATTCA
1 ACCAATCCAAATCA
6150699 AC
1 AC
6150701 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:6151407 original size:54 final size:53
Alignment explanation
Indices: 6151325--6151532 Score: 211
Period size: 54 Copynumber: 3.6 Consensus size: 53
6151315 AACCTTGCAG
6151325 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTTT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCA-AGAGTATTTT
*
6151379 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT-ATAA--ACTC-AA-GAG--T--AT-T---T
6151444 T
53 T
** * *
6151445 ACCAG-TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGT
1 -CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCA-AGAGTATTTT
*
6151499 CGGGATTACCAGTCCAGGCTAAATCCGCTGCAAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT
6151533 GACAATTACT
Statistics
Matches: 129, Mismatches: 9, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
53 2 0.02
54 63 0.49
55 3 0.02
57 6 0.05
58 6 0.05
60 2 0.02
62 6 0.05
63 5 0.04
65 3 0.02
66 31 0.24
67 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (53 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCAAGAGTATTTT
Found at i:6151543 original size:120 final size:120
Alignment explanation
Indices: 6151330--6151570 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
6151320 TGCAGCGGGA
*
6151330 TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTTTCGGGATTACCAGTCCA
1 TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGTCGGGATTACCAGTCCA
6151395 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
66 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
* *
6151450 TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGTCGGGATTACCAGTCCA
1 TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGTCGGGATTACCAGTCCA
* *
6151515 GGCTAAATCCGCTGCAATGACAATTACTCTAATGAGCTTGGATTTGAATTACCAG
66 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
6151570 T
1 T
6151571 CCAGGCTAAA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (120 bp):
TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGTCGGGATTACCAGTCCA
GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
Found at i:6154426 original size:2 final size:2
Alignment explanation
Indices: 6154419--6154452 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6154409 AAATAAGTAA
6154419 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
6154453 TTATTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6159129 original size:17 final size:18
Alignment explanation
Indices: 6159107--6159146 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
6159097 GTTTATTTTT
*
6159107 ATTTTATTTTTCA-AATA
1 ATTTTAGTTTTCATAATA
6159124 ATTTTAGTTTTCATAATA
1 ATTTTAGTTTTCATAATA
6159142 ATTTT
1 ATTTT
6159147 TTAAGCCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTAGTTTTCATAATA
Found at i:6159998 original size:5 final size:5
Alignment explanation
Indices: 6159967--6159995 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
6159957 TGTAAACATA
6159967 GTTTT GTTTT GTTTT GTTTT GTTTT -TTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
6159996 TTTGTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
GTTTT
Found at i:6160338 original size:26 final size:24
Alignment explanation
Indices: 6160294--6160343 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
6160284 ATTTGTTTTA
*
6160294 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
6160318 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
6160344 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:6162005 original size:21 final size:20
Alignment explanation
Indices: 6161973--6162030 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
6161963 TCATAATGCT
6161973 TATTTATATTTTAATTAATCA
1 TATTT-TATTTTAATTAATCA
*
6161994 TATTTTAGTTTTAATTAATCT
1 TATTTTA-TTTTAATTAATCA
*
6162015 TAATTTA-TTTAATTAA
1 TATTTTATTTTAATTAA
6162031 GCTTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 23 0.68
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTATTTTAATTAATCA
Found at i:6162027 original size:19 final size:20
Alignment explanation
Indices: 6161982--6162038 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
6161972 TTATTTATAT
* *
6161982 TTTAATTAATCATATTTTAG
1 TTTAATTAATCTTAATTTAG
6162002 TTTTAATTAATCTTAATTTA-
1 -TTTAATTAATCTTAATTTAG
*
6162022 TTTAATTAAGCTTAATT
1 TTTAATTAATCTTAATT
6162039 GTAAATTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAATTAATCTTAATTTAG
Found at i:6165869 original size:18 final size:17
Alignment explanation
Indices: 6165829--6165871 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
6165819 AACATTTTTA
6165829 TATATTTTTAATAATTT
1 TATATTTTTAATAATTT
6165846 TA-ATTTTTAGA-ATATTT
1 TATATTTTTA-ATA-ATTT
6165863 TATATTTTT
1 TATATTTTT
6165872 TAAATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATAATTT
Found at i:6169375 original size:28 final size:28
Alignment explanation
Indices: 6169343--6169398 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
6169333 GTTACTAAAA
* * *
6169343 ATATTTAAAAATATGAAAATGCTAAATT
1 ATATTTAAAAAAATCAAAATGATAAATT
6169371 ATATTTAAAAAAATCAAAATGATAAATT
1 ATATTTAAAAAAATCAAAATGATAAATT
6169399 TTACAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (28 bp):
ATATTTAAAAAAATCAAAATGATAAATT
Found at i:6170208 original size:2 final size:2
Alignment explanation
Indices: 6170201--6170234 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6170191 CTTTAAATTC
6170201 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
6170235 TCCAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6170597 original size:24 final size:27
Alignment explanation
Indices: 6170543--6170603 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 27
6170533 TTAGATTTAT
6170543 TTAATTTTTTAATAATATAAAGATTAAA
1 TTAATTTTTTAATAATATAAAGATT-AA
6170571 TTAATTTATTTAAT-A-ATAAAGA-T-A
1 TTAATTT-TTTAATAATATAAAGATTAA
6170595 TTAATTTTT
1 TTAATTTTT
6170604 ATAAAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.06
24 8 0.25
26 1 0.03
27 7 0.22
28 8 0.25
29 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TTAATTTTTTAATAATATAAAGATTAA
Found at i:6170600 original size:28 final size:28
Alignment explanation
Indices: 6170535--6170600 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
6170525 ATTAAAATTT
*
6170535 AGATTTATTTAATTTTTTAATAATATAA
1 AGATTTAATTAATTTTTTAATAATATAA
*
6170563 AGATTAAATTAATTTATTTAAT-A-ATAA
1 AGATTTAATTAATTT-TTTAATAATATAA
6170590 AGATATTAATT
1 AGAT-TTAATT
6170601 TTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.24
28 19 0.58
29 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (28 bp):
AGATTTAATTAATTTTTTAATAATATAA
Found at i:6181520 original size:16 final size:16
Alignment explanation
Indices: 6181499--6181537 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6181489 GATTAGTTTA
*
6181499 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
6181515 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
6181531 CTGTAAT
1 CTGTAAT
6181538 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:6181711 original size:32 final size:33
Alignment explanation
Indices: 6181663--6181729 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 33
6181653 AATACCCTTA
6181663 GTAGAATTTTTTTTTTTAAGATAGATGATTATT
1 GTAGAATTTTTTTTTTTAAGATAGATGATTATT
6181696 GTAGAA-TTTTTTTTTTAAGATAGATGATTATT
1 GTAGAATTTTTTTTTTTAAGATAGATGATTATT
6181728 GT
1 GT
6181730 TATTGTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 28 0.82
33 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (33 bp):
GTAGAATTTTTTTTTTTAAGATAGATGATTATT
Found at i:6183377 original size:30 final size:30
Alignment explanation
Indices: 6183343--6183477 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
6183333 TAAATCTTAG
* *
6183343 CCTTTTCCACCACCAACTCCATTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
6183373 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
6183403 CATTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
6183433 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
6183463 -CTTGTTCCACCACCA
1 CCTT-TTCCACCACCA
6183478 CTTGTATCTA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 2 0.02
30 87 0.98
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.24
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:6183999 original size:23 final size:23
Alignment explanation
Indices: 6183962--6184093 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
6183952 CCTTTTTTGT
6183962 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
6183985 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
6184007 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
6184030 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
6184057 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
6184082 TATTATTTATAT
1 TATTATATATAT
6184094 ATATATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:6184057 original size:27 final size:27
Alignment explanation
Indices: 6184027--6184145 Score: 75
Period size: 27 Copynumber: 4.5 Consensus size: 27
6184017 ATTTTAAATT
6184027 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
6184054 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* ** *
6184079 TTATATTATTTATATATATATTTTTTTA
1 CTATATTACGTATATATATA-TTTTATA
* * * *
6184107 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
6184133 CTATATTATGTAT
1 CTATATTACGTAT
6184146 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 19, Indels: 11
0.69 0.19 0.11
Matches are distributed among these distances:
25 20 0.29
26 5 0.07
27 28 0.41
28 15 0.22
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:6184067 original size:25 final size:25
Alignment explanation
Indices: 6183976--6184182 Score: 79
Period size: 25 Copynumber: 8.2 Consensus size: 25
6183966 ATTATATTTC
* * *
6183976 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
6184000 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
6184021 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
6184048 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
6184073 TTAATATTATATTATTTATATATATATTTTT
1 TTAATACTATATTA--TGTATATATA----T
** * *
6184104 TTACATGTTATCTTATGTATATAT-C
1 TTA-ATACTATATTATGTATATATAT
* *
6184129 TT-A-ACTATATTATGTATGTATTT
1 TTAATACTATATTATGTATATATAT
* * *
6184152 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
6184177 TTAATA
1 TTAATA
6184183 TTATCACGTA
Statistics
Matches: 136, Mismatches: 31, Indels: 31
0.69 0.16 0.16
Matches are distributed among these distances:
21 2 0.01
22 29 0.21
23 11 0.08
24 3 0.02
25 50 0.37
26 1 0.01
27 19 0.14
30 8 0.06
31 4 0.03
32 9 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:6184089 original size:30 final size:30
Alignment explanation
Indices: 6184049--6184130 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
6184039 TATATATATT
*
6184049 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
6184079 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
6184107 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
6184131 AACTATATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:6184359 original size:16 final size:15
Alignment explanation
Indices: 6184335--6184382 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
6184325 TAATTATTAT
*
6184335 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
6184351 TATTTTAATATTTTA
1 TATTTTAATATTTTA
6184366 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
6184382 T
1 T
6184383 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:6184370 original size:7 final size:8
Alignment explanation
Indices: 6184335--6184386 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
6184325 TAATTATTAT
*
6184335 TATTCTAA
1 TATTTTAA
*
6184343 TATTTTGA
1 TATTTTAA
6184351 TATTTTAA
1 TATTTTAA
6184359 TATTTT-A
1 TATTTTAA
6184366 TATTTTATA
1 TATTTTA-A
*
6184375 TATTTTAT
1 TATTTTAA
6184383 TATT
1 TATT
6184387 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:6185962 original size:12 final size:12
Alignment explanation
Indices: 6185945--6185980 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6185935 ATTCATTTGA
6185945 CATTCATGCATT
1 CATTCATGCATT
6185957 CATTCATGCATT
1 CATTCATGCATT
*
6185969 CATTCATACATT
1 CATTCATGCATT
6185981 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:6193507 original size:30 final size:30
Alignment explanation
Indices: 6193473--6193607 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
6193463 TAAATCTTAG
*
6193473 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
6193503 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
6193533 CATTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
6193563 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
6193593 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
6193608 CTTGTACCTA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.02
30 89 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:6194173 original size:2 final size:2
Alignment explanation
Indices: 6194166--6194237 Score: 53
Period size: 2 Copynumber: 37.5 Consensus size: 2
6194156 CTATATTACG
* * * * *
6194166 TA TA TA TA TA TA TA TA TT TA TA CTA T- TT TA TG TA TA TA TC TT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
6194208 TA -A TA T- TA TA T- TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6194238 TTTTTACATG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
1 4 0.07
2 49 0.89
3 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:6194201 original size:55 final size:57
Alignment explanation
Indices: 6194112--6194238 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 57
6194102 TTCTTAATAT
*
6194112 TATAT-TATATATATTCTTTTAATATATTAGGTATAT-T-TTAAAT-TCTATATTACG
1 TATATATATATATATTCTTATAATATATTAGGTATATATCTTAAATAT-TATATTACG
* * * * **
6194166 TATATATATATATATAT-TTATACTATTTTATGTATATATCTTTAATATTATATTATT
1 TATATATATATATAT-TCTTATAATATATTAGGTATATATCTTAAATATTATATTACG
6194223 TATATATATATATATT
1 TATATATATATATATT
6194239 TTTTACATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
54 5 0.08
55 25 0.41
56 3 0.05
57 27 0.44
58 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (57 bp):
TATATATATATATATTCTTATAATATATTAGGTATATATCTTAAATATTATATTACG
Found at i:6194275 original size:57 final size:57
Alignment explanation
Indices: 6194143--6194282 Score: 146
Period size: 57 Copynumber: 2.5 Consensus size: 57
6194133 ATATATTAGG
* * *
6194143 TATAT-TTTAAATTCTATATTACGTATATATATATATATATTTATACTATTTTATGTA
1 TATATCTTT-AATACTATATTATGTATATATATATATATATTTATACTATCTTATGTA
* * *
6194200 TATATCTTTAATATTATATTATTTATATATATATATAT-TTTTTACATGTTATCTTATGTA
1 TATATCTTTAATACTATATTATGTATATATATATATATATTTATAC----TATCTTATGTA
6194260 TATATC-TT-A-ACTATATTATGTAT
1 TATATCTTTAATACTATATTATGTAT
6194283 GTATTTTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
56 6 0.09
57 42 0.60
58 4 0.06
59 2 0.03
60 16 0.23
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (57 bp):
TATATCTTTAATACTATATTATGTATATATATATATATATTTATACTATCTTATGTA
Found at i:6194279 original size:22 final size:24
Alignment explanation
Indices: 6194253--6194311 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
6194243 ACATGTTATC
6194253 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
6194275 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
6194300 TTATGTACATAT
1 TTATGTATATAT
6194312 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:6194301 original size:25 final size:25
Alignment explanation
Indices: 6194269--6194317 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6194259 ATATATCTTA
**
6194269 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
6194294 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
6194318 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:6194496 original size:16 final size:15
Alignment explanation
Indices: 6194472--6194519 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
6194462 TAATTATTAT
*
6194472 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
6194488 TATTTTAATATTTTA
1 TATTTTAATATTTTA
6194503 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
6194519 T
1 T
6194520 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:6194507 original size:7 final size:8
Alignment explanation
Indices: 6194472--6194523 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
6194462 TAATTATTAT
*
6194472 TATTCTAA
1 TATTTTAA
*
6194480 TATTTTGA
1 TATTTTAA
6194488 TATTTTAA
1 TATTTTAA
6194496 TATTTT-A
1 TATTTTAA
6194503 TATTTTATA
1 TATTTTA-A
*
6194512 TATTTTAT
1 TATTTTAA
6194520 TATT
1 TATT
6194524 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:6196307 original size:3 final size:3
Alignment explanation
Indices: 6196299--6196341 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6196289 ACTAATTTAA
6196299 AAT AAT 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 AAT AAT A
6196342 CAAACCAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6196834 original size:15 final size:15
Alignment explanation
Indices: 6196814--6196866 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
6196804 AATGTTCCTT
6196814 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
6196829 TTTTTTTTG-TTGAA
1 TTTTTTTTGCTGGAA
*
6196843 --ATTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
6196856 TTTTTTTTGCT
1 TTTTTTTTGCT
6196867 CTTTTTCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 6 0.19
13 4 0.13
14 4 0.13
15 17 0.55
ACGTcount: A:0.13, C:0.06, G:0.17, T:0.64
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:6197158 original size:30 final size:30
Alignment explanation
Indices: 6197103--6197218 Score: 137
Period size: 30 Copynumber: 3.9 Consensus size: 30
6197093 ATAATTTTTA
* * *
6197103 GAAAATTT-AGGGTTAAAATGCAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * *
6197132 GAAAGTTTAAGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
6197162 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* *
6197191 GAAAAGTTTAGGGGTCAAAATGTAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
6197219 TTATTTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
29 9 0.12
30 65 0.88
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:6197665 original size:54 final size:54
Alignment explanation
Indices: 6197480--6197780 Score: 440
Period size: 54 Copynumber: 5.7 Consensus size: 54
6197470 CATGTGAGCC
* *
6197480 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
6197535 AAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
6197585 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
6197639 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
6197693 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAG-AA--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAA
* *
6197746 AA-GCTCAACTCACTTCTCGTAATATGAGTTGATTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6197781 GAAAAGCAGA
Statistics
Matches: 229, Mismatches: 10, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
50 50 0.22
51 1 0.00
52 27 0.12
53 4 0.02
54 86 0.38
55 40 0.17
56 21 0.09
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:6197678 original size:104 final size:106
Alignment explanation
Indices: 6197480--6197792 Score: 446
Period size: 104 Copynumber: 3.0 Consensus size: 106
6197470 CATGTGAGCC
* * *
6197480 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
6197544 CTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAG-A-AA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATAA
6197585 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
6197650 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AA-TAA
6197693 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAG-AA--AAAA-GCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGG--TTTTTGAAAAACAGAAATTAAAAGGCTCAA
* * *
6197754 CTCACTTCTCGTAATATGAGTTGA--TTTGAAAAGCAGAAT
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAT
6197793 TAGTAAAGCA
Statistics
Matches: 194, Mismatches: 7, Indels: 17
0.89 0.03 0.08
Matches are distributed among these distances:
102 1 0.01
103 2 0.01
104 59 0.30
105 37 0.19
106 40 0.21
107 4 0.02
108 35 0.18
109 2 0.01
110 14 0.07
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (106 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAATAA
Found at i:6197773 original size:160 final size:158
Alignment explanation
Indices: 6197480--6197776 Score: 488
Period size: 160 Copynumber: 1.9 Consensus size: 158
6197470 CATGTGAGCC
* *
6197480 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
6197545 TCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAAAAGGCTCAACTCACCTCTCGCAATA
65 TCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAAAAAGCTCAACTCACCTCTCGCAATA
6197610 TGAGTTGGTTTTTGAAAAACAGAAATTAA
130 TGAGTTGGTTTTTGAAAAACAGAAATTAA
6197639 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
** * *
6197703 TCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAAAAAGCTCAACTCACTTCTCGTAA
65 TCACCTCTCGCAATATGAGTT--AATTTTTGAAAAACAGAAAAAAGCTCAACTCACCTCTCGCAA
6197768 TATGAGTTG
128 TATGAGTTG
6197777 ATTTGAAAAG
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
158 33 0.26
159 38 0.30
160 57 0.45
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (158 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAAAAAGCTCAACTCACCTCTCGCAATAT
GAGTTGGTTTTTGAAAAACAGAAATTAA
Found at i:6197902 original size:15 final size:16
Alignment explanation
Indices: 6197869--6197902 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6197859 TTGATTTTTG
*
6197869 AAAAGCATAAATTGAA
1 AAAAACATAAATTGAA
6197885 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
6197901 AA
1 AA
6197903 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:6197947 original size:91 final size:87
Alignment explanation
Indices: 6197749--6197977 Score: 270
Period size: 91 Copynumber: 2.6 Consensus size: 87
6197739 CAGAAAAAAG
* * * ** *
6197749 CTCAACTCACTTCTCGTAATATGAGTTGA--TTTGAAAAGCAGAATT-AGTAAAGCAGAAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAATTGAAAAAAACAGAAATTGA
*
6197811 AAATACCTCAGCATGCCTTGAGG
66 AAATACCTCAGCATGCC-TGAGA
* *
6197834 CTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAAACATAAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCA-AAATTGAAAAAAACAGAAATTG
6197899 AAAATACCTCAGCATGTGAGCC-GAGA
65 AAAATACCTCAGCA--T--GCCTGAGA
6197925 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAA-CAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAGCA-AAATTGAAAA
6197978 TACCTCAGCG
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
85 26 0.21
87 11 0.09
88 4 0.03
89 26 0.21
91 51 0.41
92 3 0.02
93 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (87 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAATTGAAAAAAACAGAAATTGA
AAATACCTCAGCATGCCTGAGA
Found at i:6198016 original size:73 final size:73
Alignment explanation
Indices: 6197885--6198423 Score: 490
Period size: 73 Copynumber: 7.1 Consensus size: 73
6197875 ATAAATTGAA
* *
6197885 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGACTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGA
6197949 GTTGATTTTTG
63 GTTGATTTTTG
* * *
6197960 AGAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6198025 GATTTTTTTG
66 GA--TTTTTG
*** * * *
6198035 AAAAACAGAAATTGAAGAACAGAAATGGAAAACA-CCTCAGCGTCTTGAGGTTCAACTCACCTCT
1 AAAAACAGAAATT---G---A-AAAT--ACCTCAGCGTGA-C--C-TGAGGCTCAACTCACCTCT
* *
6198099 CACAATATAAGTTGATTTTTTTG
53 CGCAATATGAGTTGA--TTTTTG
* * * ** *
6198122 AAAGATAGAAATTGAAAATACCTCAACGTCTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6198187 GATTTTTG
66 GATTTTTG
* * * * *
6198195 ACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6198260 GATTTTTTTTG
66 GA---TTTTTG
* * *
6198271 AAAAACAAAAATTGAAAATACCTCAACGTGTGAAAC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTC-A-GCGTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6198335 GTTGATTTTTT
63 GTTGATTTTTG
*** ** * ** *
6198346 TTTATGATAAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6198411 GATTTTTG
66 GATTTTTG
6198419 AAAAA
1 AAAAA
6198424 TAAATTAAAA
Statistics
Matches: 384, Mismatches: 56, Indels: 50
0.78 0.11 0.10
Matches are distributed among these distances:
72 3 0.01
73 142 0.37
74 1 0.00
75 97 0.25
76 28 0.07
77 1 0.00
78 41 0.11
79 4 0.01
80 4 0.01
81 2 0.01
82 4 0.01
83 2 0.01
84 5 0.01
86 1 0.00
87 49 0.13
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:6198055 original size:14 final size:14
Alignment explanation
Indices: 6198032--6198066 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6198022 GTTGATTTTT
6198032 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
6198046 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
*
6198060 TGGAAAA
1 TTGAAAA
6198067 CACCTCAGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.20, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6198112 original size:87 final size:88
Alignment explanation
Indices: 6197963--6198137 Score: 253
Period size: 87 Copynumber: 2.0 Consensus size: 88
6197953 ATTTTTGAGA
* * * *
6197963 AACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATGGAAAACACCTCAGCGT-CCCCGAGGCTCAACTCACCTCTCACAATATAAGTTGAT
6198028 TTTTTTGAAAAACAGAAATTGAAG
65 TTTTTTGAAAAACAGAAATTGAAG
** *
6198052 AACAGAAATGGAAAACACCTCAGCGT-CTTGAGGTTCAACTCACCTCTCACAATATAAGTTGATT
1 AACAGAAATGGAAAACACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCACAATATAAGTTGATT
* *
6198116 TTTTTGAAAGATAGAAATTGAA
66 TTTTTGAAAAACAGAAATTGAA
6198138 AATACCTCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 53 0.69
89 24 0.31
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
AACAGAAATGGAAAACACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCACAATATAAGTTGATT
TTTTTGAAAAACAGAAATTGAAG
Found at i:6198497 original size:85 final size:83
Alignment explanation
Indices: 6198354--6198750 Score: 302
Period size: 85 Copynumber: 4.8 Consensus size: 83
6198344 TTTTTATGAT
* * **
6198354 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
6198419 AAAAATAA-ATTAAA-ACACAA
65 AAAAA-AACA-TAAATA-ACAA
* * *
6198439 AAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
*
6198504 AAAAAACATAAATTGAACAG
66 AAAAAACATAAA-T-AACAA
* **
6198524 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
* * *
6198588 --------T-GAT--GAT
66 AAAAAACATAAATAACAA
* * ** *
6198595 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
******** * *
6198660 TGATTTTTTTTTGAAA-GACAG
64 T-AAAAAAACAT-AAATAACAA
* ** *
6198681 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
6198746 AAAAA
66 AAAAA
6198751 TAAATTGAAA
Statistics
Matches: 260, Mismatches: 32, Indels: 42
0.78 0.10 0.13
Matches are distributed among these distances:
71 57 0.22
73 5 0.02
74 1 0.00
75 1 0.00
76 1 0.00
83 7 0.03
84 11 0.04
85 119 0.46
86 58 0.22
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (83 bp):
AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
AAAAAACATAAATAACAA
Found at i:6198640 original size:71 final size:71
Alignment explanation
Indices: 6198524--6198659 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
6198514 AATTGAACAG
*
6198524 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6198589 GATGAT
66 GATGAT
* *
6198595 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTT
1 AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6198660 TGATTTTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GATGAT
Found at i:6198724 original size:157 final size:157
Alignment explanation
Indices: 6198439--6199128 Score: 899
Period size: 157 Copynumber: 4.4 Consensus size: 157
6198429 TAAAACACAA
* *
6198439 AAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTT-
*** *** ***
6198504 AAAAAACATAAATTG--A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
65 -TTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
**
6198566 CTCGCAATATGAGTTGATTTTTTG-ATGAT
129 CTCGCAATATGAGTTGA-TTTTTGAAAAAT
** * * * *
6198595 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTT
6198660 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
6198725 CGCAATATGAGTTGATTTTTGAAAAAT
131 CGCAATATGAGTTGATTTTTGAAAAAT
**
6198752 AAATTGAAAATACCTCAGCGTGCCCTGAGGCAAAACTCACCTCTCGCAACATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTT-
*** *** *** * * *
6198817 AAAAACATAAATTG--A-ATAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
65 TTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
6198879 TCGCAATATGAGTTGATTTTTTTGAAAAACAG
130 TCGCAATATGAGTTGA--TTTTTG-AAAA-AT
* * * * *
6198911 AAATTGAAATTACCTCAGCGTGTCCTGAGTCTCAACTCATCTCTCGCAACGTGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTT
6198976 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
6199041 CGCAATATGAGTTGATTTTTGAAAAAT
131 CGCAATATGAGTTGATTTTTGAAAAAT
*
6199068 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATT
6199129 ATTGACAAAC
Statistics
Matches: 456, Mismatches: 66, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
154 5 0.01
155 60 0.13
156 64 0.14
157 184 0.40
158 18 0.04
159 64 0.14
160 1 0.00
161 60 0.13
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (157 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTT
TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAAAT
Found at i:6198760 original size:71 final size:72
Alignment explanation
Indices: 6198667--6198974 Score: 330
Period size: 71 Copynumber: 4.1 Consensus size: 72
6198657 TTTTGATTTT
* *
6198667 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACA
6198732 TGAGTTGA
65 TGAGTTGA
* * * **
6198740 TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCAAAACTCACCTCTCGCAACAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACAT
6198804 GAGTTGA
66 GAGTTGA
* *
6198811 TTTTTAAAAAACATAAATTGAATAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCAC
1 TTTTT-GAAAAC-----------AGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCAC
*
6198876 CTCTCGCAATATGAGTTGA
54 CTCTCGCAACATGAGTTGA
* * * *
6198895 TTTTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGTCTCAACTCATCTCTCGCAA
1 --TTTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
6198960 CGTGAGTTGA
63 CATGAGTTGA
6198970 TTTTT
1 TTTTT
6198975 TTGATTTTTT
Statistics
Matches: 196, Mismatches: 23, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
71 59 0.30
72 5 0.03
73 14 0.07
75 54 0.28
84 54 0.28
86 10 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACAT
GAGTTGA
Found at i:6198985 original size:86 final size:86
Alignment explanation
Indices: 6198895--6199060 Score: 260
Period size: 86 Copynumber: 1.9 Consensus size: 86
6198885 TATGAGTTGA
* * * *
6198895 TTTTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGTCTCAACTCATCTCTCGCAA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
6198960 CGTGAGTTGATTTTTTTGATT
66 CATGAGTTGATTTTTTTGATT
* *
6198981 TTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
6199046 TATGAGTTGATTTTT
66 CATGAGTTGATTTTT
6199061 GAAAAATAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (86 bp):
TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
CATGAGTTGATTTTTTTGATT
Found at i:6199016 original size:316 final size:314
Alignment explanation
Indices: 6197804--6199148 Score: 1521
Period size: 316 Copynumber: 4.3 Consensus size: 314
6197794 AGTAAAGCAG
* * *
6197804 AAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
6197869 AAAAGCATAAATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGACTCAACTC
66 AAAAACATAAATTG-----AACAGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTC
* * * *
6197933 ACCTCTCGCAATATGAGTTGA-TTTTTGAGAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAG
123 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAG
******* *
6197997 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAACAGAAATG
188 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG---ATTTTTTTTTGAAG-ACAGAAATT
* * * * *
6198062 GAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCACAATATAAGTTGATTTTTTTGAAA
249 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
*
6198125 GATAG
312 -A-AT
* *
6198130 AAATTGAAAATACCTCAACGT-CTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGC-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
6198194 G----AC----A---AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTC
65 GAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
* *
6198248 GCAATATGAGTTGATTTTTTTTGAAAAACAAAAATTGAAAATACCTCAACGTGTGAAAC-GAGGC
130 GCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGT---CCTGAGGC
* *
6198312 TCAACTCACCTCTCGCAATATGA---G------TTGATTTTTTTTT-ATG--ATAAATTGAAAAT
190 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTGAAGACAGAAATTGAAAAT
* *
6198365 ACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATT
255 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AA-AAA-T
* * *
6198430 AAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAACATGAGT
1 ---------AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
6198495 TGATTTTTAAAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
57 TGATTTTT-GAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAAC
** * * * *
6198560 TCACCTCTCGCAATATGAGTTGATTTTTTG---ATGATAAATTGAAAATACCTCAATGTGACTTG
121 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTG
*
6198622 AGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGATTTTTTTTTGAAAGACAGAAATTG
186 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTG-AAGACAGAAATTG
6198687 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
250 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
** * *
6198752 AAATTGAAAATACCTCAGCGTGCCCTGAGGCAAAACTCACCTCTCGCAACATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
6198817 AAAAACATAAATTGAATAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 AAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
* * *
6198882 CAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGTCTCAAC
131 CAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAAC
* **
6198947 TCATCTCTCGCAACGTGAGTTGATTTTTTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCT
195 TCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTG-AAGACAGAAATTGAAAATACCT
6199012 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
259 CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
*
6199068 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
6199133 ACAAACAGAAATTGAA
66 AAAAACATAAATTGAA
6199149 ACATCAAAAT
Statistics
Matches: 881, Mismatches: 83, Indels: 120
0.81 0.08 0.11
Matches are distributed among these distances:
297 21 0.02
298 1 0.00
299 36 0.04
300 5 0.01
301 4 0.00
304 3 0.00
307 2 0.00
308 34 0.04
309 57 0.06
310 22 0.02
311 33 0.04
312 76 0.09
313 95 0.11
314 31 0.04
316 246 0.28
318 2 0.00
319 7 0.01
321 59 0.07
322 2 0.00
323 16 0.02
324 2 0.00
325 3 0.00
326 60 0.07
327 64 0.07
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (314 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTGAAGACAGAAATTGAAAATACCTCA
ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
Found at i:6199076 original size:71 final size:72
Alignment explanation
Indices: 6198983--6199149 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 72
6198973 TTTTGATTTT
* *
6198983 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
6199048 TGAGTTGA
65 TGAGTTGA
* *
6199056 TTTTTGAAAA-ATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
6199120 GAGTTGA
66 GAGTTGA
*
6199127 TTATTGACAAACAGAAATTGAAA
1 TTTTTGA-AAACAGAAATTGAAA
6199150 CATCAAAATA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 63 0.73
72 4 0.05
73 19 0.22
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (72 bp):
TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGA
Found at i:6201347 original size:11 final size:11
Alignment explanation
Indices: 6201331--6201370 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
6201321 GATCTCTCTT
6201331 TTTATTTTTTG
1 TTTATTTTTTG
6201342 TTTATTTTTTG
1 TTTATTTTTTG
*
6201353 TTT-TTTGTT-
1 TTTATTTTTTG
6201362 TTTATTTTT
1 TTTATTTTT
6201371 ATTTTCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 9 0.35
11 14 0.54
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTATTTTTTG
Found at i:6201369 original size:18 final size:18
Alignment explanation
Indices: 6201329--6201375 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
6201319 TTGATCTCTC
6201329 TTTTTATTTTTTGTTTAT
1 TTTTTATTTTTTGTTTAT
* *
6201347 TTTTTGTTTTTTGTTTTT
1 TTTTTATTTTTTGTTTAT
6201365 ATTTTTATTTT
1 -TTTTTATTTT
6201376 CATGACTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (18 bp):
TTTTTATTTTTTGTTTAT
Found at i:6211539 original size:10 final size:10
Alignment explanation
Indices: 6211524--6211584 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
6211514 AGTCTTTCTT
6211524 TTTATTTTTA
1 TTTATTTTTA
*
6211534 TTTATTTTTTCT
1 TTTA-TTTTT-A
6211546 TTTATTATTTA
1 TTTATT-TTTA
6211557 -TTATTTTCT-
1 TTTATTTT-TA
6211566 TTTATTTTTA
1 TTTATTTTTA
6211576 TTTTATTTT
1 -TTTATTTT
6211585 AGTTAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
9 3 0.07
10 17 0.40
11 15 0.36
12 7 0.17
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:6211548 original size:16 final size:17
Alignment explanation
Indices: 6211529--6211585 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
6211519 TTCTTTTTAT
6211529 TTTTATTTATT-TTTTC
1 TTTTATTTATTATTTTC
6211545 TTTTATTATTTATTATTTTC
1 --TT-TTATTTATTATTTTC
*
6211565 TTTTATTT-TTATTTTA
1 TTTTATTTATTATTTTC
6211581 TTTTA
1 TTTTA
6211586 GTTAAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 12 0.33
17 6 0.17
18 4 0.11
19 9 0.25
20 5 0.14
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTATTTTC
Found at i:6211555 original size:19 final size:19
Alignment explanation
Indices: 6211531--6211579 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
6211521 CTTTTTATTT
6211531 TTATTTATTTTTTCTTTTA
1 TTATTTATTTTTTCTTTTA
6211550 TTATTTATTATTTTCTTTTA
1 TTATTTATT-TTTTCTTTTA
6211570 TT-TTTATTTT
1 TTATTTATTTT
6211580 ATTTTAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 12 0.41
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTATTTATTTTTTCTTTTA
Found at i:6211777 original size:43 final size:42
Alignment explanation
Indices: 6211694--6211784 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
6211684 TCCATGCTGT
* * * *
6211694 CAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGC
1 CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
*
6211736 CAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCAGC
1 CAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCAGC
6211779 CAAACA
1 CAAACA
6211785 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 19 0.45
43 18 0.43
44 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (42 bp):
CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
Found at i:6212662 original size:118 final size:118
Alignment explanation
Indices: 6212454--6212684 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
6212444 TGTTTTCCAT
* *
6212454 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
6212519 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
6212572 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
6212637 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
6212685 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:6212830 original size:15 final size:14
Alignment explanation
Indices: 6212810--6212853 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6212800 AATAAAATTT
*
6212810 AAAAAAAATCAAAA
1 AAAAAAAAACAAAA
*
6212824 AAAAAAAAAGAAAA
1 AAAAAAAAACAAAA
* *
6212838 AAAAAAGAAGAAAA
1 AAAAAAAAACAAAA
6212852 AA
1 AA
6212854 TAAGTACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.89, C:0.02, G:0.07, T:0.02
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:6212837 original size:11 final size:11
Alignment explanation
Indices: 6212823--6212853 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
6212813 AAAAATCAAA
6212823 AAAAAAAAAAG
1 AAAAAAAAAAG
6212834 AAAAAAAAAAG
1 AAAAAAAAAAG
6212845 AAGAAAAAA
1 AA-AAAAAA
6212854 TAAGTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6214741 original size:18 final size:18
Alignment explanation
Indices: 6214699--6214743 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
6214689 GAAAAATGAG
6214699 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
6214716 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
6214733 AATTTTTGAAA
1 AATTTTTGAAA
6214744 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:6215456 original size:3 final size:3
Alignment explanation
Indices: 6215448--6215484 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6215438 ACTAATTTAA
6215448 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
6215485 CAAACCAATC
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:6215988 original size:17 final size:17
Alignment explanation
Indices: 6215968--6216006 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6215958 TTTTTTTTGG
*
6215968 TTTTTTTTTTGCTGGAA
1 TTTTTTTTTTGCTGAAA
6215985 TTTTTTTTTTGCTGAAA
1 TTTTTTTTTTGCTGAAA
6216002 TTTTT
1 TTTTT
6216007 GCTGGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.69
Consensus pattern (17 bp):
TTTTTTTTTTGCTGAAA
Found at i:6216315 original size:30 final size:30
Alignment explanation
Indices: 6216260--6216375 Score: 137
Period size: 30 Copynumber: 3.9 Consensus size: 30
6216250 ATAATTTTTA
* * *
6216260 GAAAATTT-AGGGTTAAAATGCAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * *
6216289 GAAAGTTTAAGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
6216319 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* *
6216348 GAAAAGTTTAGGGGTCAAAATGCAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
6216376 TTGTTTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
29 9 0.12
30 65 0.88
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:6220470 original size:2 final size:2
Alignment explanation
Indices: 6220423--6220454 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6220413 GAGTATAGTA
6220423 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
6220455 GATTAGTAGA
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:6222802 original size:2 final size:2
Alignment explanation
Indices: 6222795--6222828 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6222785 ACATATGTAT
6222795 TA TA TA TA TA TA TA TA TA 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
6222829 GGATAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6223305 original size:17 final size:16
Alignment explanation
Indices: 6223278--6223309 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6223268 AAAATTATAT
6223278 AAAATTTTAAAAATAA
1 AAAATTTTAAAAATAA
6223294 AAAATATTTAAAAATA
1 AAAAT-TTTAAAAATA
6223310 TATATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTTTAAAAATAA
Found at i:6231959 original size:7 final size:8
Alignment explanation
Indices: 6231942--6231976 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
6231932 CCAATTTGAG
6231942 AAAAATAA
1 AAAAATAA
6231950 AAAAATAAAA
1 AAAAAT--AA
6231960 AAAAATAA
1 AAAAATAA
6231968 AAAAATAA
1 AAAAATAA
6231976 A
1 A
6231977 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:6231963 original size:10 final size:10
Alignment explanation
Indices: 6231948--6231972 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6231938 TGAGAAAAAT
6231948 AAAAAAATAA
1 AAAAAAATAA
6231958 AAAAAAATAA
1 AAAAAAATAA
6231968 AAAAA
1 AAAAA
6231973 TAAAGAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:6231965 original size:18 final size:18
Alignment explanation
Indices: 6231942--6231976 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6231932 CCAATTTGAG
6231942 AAAAATAAAAAAATAAAA
1 AAAAATAAAAAAATAAAA
6231960 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
6231977 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAA
Found at i:6233560 original size:25 final size:25
Alignment explanation
Indices: 6233498--6233560 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
6233488 GTATATTAAA
* *
6233498 TTATTATTATTATTATTTATTATGG
1 TTATTTTTATTAATATTTATTATGG
**
6233523 TT-TTTACATTTAATATTTATTAAT-G
1 TTATTTTTA-TTAATATTTATT-ATGG
6233548 TTATTTTTATTAA
1 TTATTTTTATTAA
6233561 ATTGATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (25 bp):
TTATTTTTATTAATATTTATTATGG
Found at i:6233816 original size:17 final size:15
Alignment explanation
Indices: 6233794--6233832 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6233784 GAAATAAGGG
6233794 AAGGAAAGAAGGAAAAA
1 AAGGAAAGAA--AAAAA
6233811 AAGGAAAGAAAAAAA
1 AAGGAAAGAAAAAAA
*
6233826 AGGGAAA
1 AAGGAAA
6233833 ATTTGGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
17 10 0.48
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAGGAAAGAAAAAAA
Found at i:6235601 original size:18 final size:18
Alignment explanation
Indices: 6235580--6235770 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
6235570 TAACTTATTA
*
6235580 TTACTGAATAATTGACTG
1 TTACTGAATAATTGATTG
* *
6235598 TTAC-CAGATAATTGACTG
1 TTACTGA-ATAATTGATTG
* *
6235616 TTAGTGGAT-ATTAGATTG
1 TTACTGAATAATT-GATTG
* * * *
6235634 GTACTGAATAACTGAATA
1 TTACTGAATAATTGATTG
**
6235652 TTACTGAATAATTGATCA
1 TTACTGAATAATTGATTG
*
6235670 TTACTGAATAACTGATTG
1 TTACTGAATAATTGATTG
** *
6235688 TCGCTGAATGAA-TGACTG
1 TTACTGAAT-AATTGATTG
*
6235706 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGATTG
6235725 TTACTGAAT-ATCTGATT-
1 TTACTGAATAAT-TGATTG
6235742 TTACTGAATAATTGATTG
1 TTACTGAATAATTGATTG
*
6235760 TTACTGGATAA
1 TTACTGAATAA
6235771 CCGATCAATT
Statistics
Matches: 136, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
17 21 0.15
18 98 0.72
19 17 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:6237927 original size:12 final size:12
Alignment explanation
Indices: 6237912--6237942 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6237902 TTCTCTTTTA
6237912 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
6237924 TTTTTCTTTCTC
1 TTTTTCTTTCCC
6237936 TTTTTCT
1 TTTTTCT
6237943 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:6238043 original size:16 final size:16
Alignment explanation
Indices: 6238022--6238052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6238012 TTTATTATTT
6238022 TATTAACATAATATAA
1 TATTAACATAATATAA
*
6238038 TATTAATATAATATA
1 TATTAACATAATATA
6238053 TTAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:6240662 original size:2 final size:2
Alignment explanation
Indices: 6240657--6240691 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6240647 ATACACACAC
6240657 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 A
6240692 AGTATAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6240836 original size:2 final size:2
Alignment explanation
Indices: 6240829--6240865 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6240819 TATTATAAAG
6240829 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6240866 GTATTATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6245605 original size:2 final size:2
Alignment explanation
Indices: 6245565--6245595 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6245555 TCTCTTTCAC
*
6245565 AG AG AG AG AG AG AG AG AG AG AG AG TG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6245596 AAAAAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:6249227 original size:2 final size:2
Alignment explanation
Indices: 6249159--6249216 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
6249149 TTTTAATACC
*
6249159 AT AT AT AC 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
6249201 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
6249217 CTCTTATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6249464 original size:3 final size:3
Alignment explanation
Indices: 6249456--6249488 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6249446 ATCTATATAG
6249456 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6249489 CCCTAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6249851 original size:17 final size:18
Alignment explanation
Indices: 6249829--6249879 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
6249819 CTATTATTAT
6249829 TATTTTATTTATTA-TAA
1 TATTTTATTTATTACTAA
*
6249846 TATTTTATTT-TTACTAT
1 TATTTTATTTATTACTAA
6249863 TATTGTTA-TTATTACTA
1 TATT-TTATTTATTACTA
6249880 CTATCATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.10
17 18 0.60
18 9 0.30
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTTATTTATTACTAA
Found at i:6261057 original size:1 final size:1
Alignment explanation
Indices: 6261051--6261076 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6261041 AAAGAAAGTG
6261051 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
6261077 GTTCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6264900 original size:80 final size:80
Alignment explanation
Indices: 6264793--6264983 Score: 321
Period size: 80 Copynumber: 2.4 Consensus size: 80
6264783 TGCGAGTCCT
* *
6264793 ATATTGGTT-AGGAAGGGTAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
1 ATATTGATTAAGG-AGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
6264857 AAAAATTGTGAGTTTC
65 AAAAATTGTGAGTTTC
6264873 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
**
6264938 ACGATTGTGAGTTTC
66 AAAATTGTGAGTTTC
*
6264953 ATATTGATTAAGGAGGGCAAAGAGGTCTTGG
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGG
6264984 TCAATTCATT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 102 0.97
81 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (80 bp):
ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
AAAATTGTGAGTTTC
Found at i:6265064 original size:79 final size:79
Alignment explanation
Indices: 6264933--6265135 Score: 273
Period size: 79 Copynumber: 2.6 Consensus size: 79
6264923 CAAGGGAGTC
* * *
6264933 GGAAAACGATTGTGAGTTTCATATTGATTAAGGAGGGCAAAGAGGTCTTGGTCAATTCATTCTTT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
6264998 AATATAGTACAATT
66 AATATAGTACAATT
* * * *
6265012 GGAAAATGATTGTGAGTTCCATATTGATTAGGGATGGCAAAGTGGTCTTGGTCAATACGTTCTTT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
* *
6265077 AATATAGTAGAGTT
66 AATATAGTACAATT
* * * * *
6265091 GGAAAACGA-TGTGAGTCCCATATTGGTTAGGAAGGGAAAAAAGGT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGT
6265136 ATTGCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
78 29 0.27
79 78 0.73
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.32
Consensus pattern (79 bp):
GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
AATATAGTACAATT
Found at i:6268236 original size:151 final size:148
Alignment explanation
Indices: 6267923--6268328 Score: 410
Period size: 151 Copynumber: 2.7 Consensus size: 148
6267913 AATGATGCGA
* * ** * ** * *
6267923 GTCTCATATTGGTTAGGAAAGG-CAAAGATGTATTGGAATTTATATGCTCTACATAGAATGGAAT
1 GTCT-ATATTAGTTAGG-AAGGACAAAGAGGTATTGGAACATATATGTTCTATGTACAATGGAGT
* * * * *
6267987 CGAAAAACGATTTG-AGTTCCATATTGATTAGGAAGGCATAGAGGCCTAGTTGATATGTTCATTG
64 CAAAAAATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATG
**
6268051 GAGTCAGAAAGTGATGTAAG
129 GAGTCAGAAAGCAATGTAAG
*
6268071 GTCTATATTAGTTAGGAAGTG-CAAAGAGGTATT-GAACATGATATGTTCTATGTACAGTGGAGT
1 GTCTATATTAGTTAGGAAG-GACAAAGAGGTATTGGAACAT-ATATGTTCTATGTACAATGGAGT
* * * * * *
6268134 CAAAAAATGATGTGACAAGTTCCATATTGGTTTGGAAGGCAAAGCAGTCTTAGTTGATTTGTTTA
64 CAAAAAATGATGTG--AAGTTCCATATTGATTAGGAAGGCAAAG-AGGCCTAGTTGATATGTTCA
* *
6268199 ATGGAGTCGGAAAGCAATGT-TG
126 ATGGAGTCAGAAAGCAATGTAAG
* * * *
6268221 GTCCTATATTGGTTAGGAAGGACAAAGAGGTCTTGGAATATATATGTTCTATGTATAATGGAGTC
1 GT-CTATATTAGTTAGGAAGGACAAAGAGGTATTGGAACATATATGTTCTATGTACAATGGAGTC
* *
6268286 AGAAAATTATGTGAA-TTCCATATTGATTAGGAAGGGCAAAGAG
65 AAAAAATGATGTGAAGTTCCATATTGATTAGGAA-GGCAAAGAG
6268329 ATTTTGGAAT
Statistics
Matches: 214, Mismatches: 34, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
146 7 0.03
147 51 0.24
148 22 0.10
149 9 0.04
150 28 0.13
151 92 0.43
152 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (148 bp):
GTCTATATTAGTTAGGAAGGACAAAGAGGTATTGGAACATATATGTTCTATGTACAATGGAGTCA
AAAAATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATGGA
GTCAGAAAGCAATGTAAG
Found at i:6268840 original size:18 final size:20
Alignment explanation
Indices: 6268819--6268859 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
6268809 AAAATATTTA
*
6268819 TTTTGATGT-TTTTA-GTAT
1 TTTTGATGTATTATATGTAT
*
6268837 TTTTTATGTATTATATGTAT
1 TTTTGATGTATTATATGTAT
6268857 TTT
1 TTT
6268860 AAAATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTGATGTATTATATGTAT
Found at i:6269898 original size:36 final size:36
Alignment explanation
Indices: 6269851--6269920 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
6269841 TTACCATAAG
6269851 TTAATTTTTAATTTAATCATCTTATAGGGACTTATA
1 TTAATTTTTAATTTAATCATCTTATAGGGACTTATA
6269887 TTAATTTTTAATTTAATCATCTTATAGGGACTTA
1 TTAATTTTTAATTTAATCATCTTATAGGGACTTA
6269921 AACAGTCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (36 bp):
TTAATTTTTAATTTAATCATCTTATAGGGACTTATA
Found at i:6272640 original size:76 final size:75
Alignment explanation
Indices: 6272510--6272650 Score: 192
Period size: 76 Copynumber: 1.9 Consensus size: 75
6272500 TGAATTTTTT
** * * * *
6272510 AAAAGAAATGATTTGTTTGCTTTTTAATATAATGTACAGGAACTAATTTGTCCATTTTTTGAGTA
1 AAAAGAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGTA
6272575 AATGGGACAA
66 AATGGGACAA
* * *
6272585 AAAATGAAATGATTAATTTGCTCTTTAATCTAACGTATAAGAATTAATTTATCCATTTTTTGAGT
1 AAAA-GAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGT
6272650 A
65 A
6272651 GATGAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
75 4 0.07
76 52 0.93
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (75 bp):
AAAAGAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGTA
AATGGGACAA
Found at i:6275198 original size:1 final size:1
Alignment explanation
Indices: 6275187--6275224 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
6275177 AAGGAATCTG
*
6275187 AAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6275225 CAACGAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6275604 original size:15 final size:15
Alignment explanation
Indices: 6275570--6275610 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6275560 TTTTAAATTT
* *
6275570 TTTTATATTATATTAT
1 TTTTATATT-TAATAA
6275586 TTTTATATTTAATAA
1 TTTTATATTTAATAA
6275601 TTTTATATTT
1 TTTTATATTT
6275611 TTTGGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATATTTAATAA
Found at i:6276906 original size:92 final size:92
Alignment explanation
Indices: 6276749--6276934 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
6276739 TTTTGGGCAT
6276749 GAATGTAGGCATAAGAGGTTAATTTGCATGTCGGTTTCTTATCTTACGTTGTAGCCAAGGAAGCA
1 GAATGTAGGCATAAGAGGTTAATTTGCATGTCGGTTTCTTATCTTACGTTGTAGCCAAGGAAGCA
6276814 ATTATGGAAGCATTCAAGAACAACAAA
66 ATTATGGAAGCATTCAAGAACAACAAA
6276841 GAATGTAGGCATAAGAGGTTAATTTGCATGTCGGTTTCTTATCTTACGTTGTAGCCAAGGAAGCA
1 GAATGTAGGCATAAGAGGTTAATTTGCATGTCGGTTTCTTATCTTACGTTGTAGCCAAGGAAGCA
6276906 ATTATGGAAGCATTCAAGAACAACAAA
66 ATTATGGAAGCATTCAAGAACAACAAA
6276933 GA
1 GA
6276935 GAAATACAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (92 bp):
GAATGTAGGCATAAGAGGTTAATTTGCATGTCGGTTTCTTATCTTACGTTGTAGCCAAGGAAGCA
ATTATGGAAGCATTCAAGAACAACAAA
Found at i:6288453 original size:4 final size:4
Alignment explanation
Indices: 6288444--6288470 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6288434 GCATCGCAAA
6288444 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6288471 GGAAAACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6291347 original size:18 final size:18
Alignment explanation
Indices: 6291324--6291384 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
6291314 TAACCCCTTG
* *
6291324 TTCCTCACCTACATCTTT
1 TTCCTCACCTGCATCTTC
**
6291342 TTCCTCGGCTGCATCTTC
1 TTCCTCACCTGCATCTTC
* *
6291360 TTACTCACCTGCATCCTC
1 TTCCTCACCTGCATCTTC
6291378 TTCCTCA
1 TTCCTCA
6291385 TATGCACCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.13, C:0.41, G:0.07, T:0.39
Consensus pattern (18 bp):
TTCCTCACCTGCATCTTC
Found at i:6294503 original size:17 final size:16
Alignment explanation
Indices: 6294478--6294514 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
6294468 AATTACAATA
*
6294478 TATTTTTAAATTTATT
1 TATTTTTAAATATATT
6294494 TATTTATTAAATATATT
1 TATTT-TTAAATATATT
6294511 TATT
1 TATT
6294515 ATTTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAAATATATT
Found at i:6295241 original size:5 final size:5
Alignment explanation
Indices: 6295231--6295261 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6295221 TTAAGTATGA
6295231 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
6295262 TAATCGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:6297531 original size:2 final size:2
Alignment explanation
Indices: 6297524--6297556 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6297514 TCTTTTGTGT
6297524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6297557 GTAATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6297646 original size:2 final size:2
Alignment explanation
Indices: 6297639--6297670 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6297629 CTTCTTTTGT
6297639 TA TA TA TA TA TA TA TA 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
6297671 ATGTAATATT
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):
TA
Found at i:6297683 original size:6 final size:5
Alignment explanation
Indices: 6297642--6297710 Score: 57
Period size: 6 Copynumber: 12.6 Consensus size: 5
6297632 CTTTTGTTAT
*
6297642 ATATA TATATA TATATA TATATA TATATA ATGTA ATATTA ATATA ATAATA
1 ATATA -ATATA -ATATA -ATATA -ATATA ATATA ATA-TA ATATA AT-ATA
* *
6297693 AAATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
6297711 AAAATCTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
5 23 0.42
6 32 0.58
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:6301833 original size:8 final size:8
Alignment explanation
Indices: 6301820--6301845 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6301810 TTAAATTCAG
6301820 AATAATAA
1 AATAATAA
6301828 AATAATAA
1 AATAATAA
6301836 AATAATAA
1 AATAATAA
6301844 AA
1 AA
6301846 CCTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:6305241 original size:29 final size:25
Alignment explanation
Indices: 6305211--6305279 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 25
6305201 CAAAATATTA
6305211 AAAATATTTTTTATTTGTTTATATTTGT
1 AAAATATTTTTTATTT-TTT-TATTT-T
6305239 -AAATATTTTTAATATTTTTTTATTTTT
1 AAAATATTTTT--TATTTTTTTA-TTTT
*
6305266 AAAATAATTTTTAT
1 AAAATATTTTTTAT
6305280 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 3 0.08
27 13 0.36
28 15 0.42
29 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
AAAATATTTTTTATTTTTTTATTTT
Found at i:6305242 original size:27 final size:26
Alignment explanation
Indices: 6305211--6305279 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 26
6305201 CAAAATATTA
6305211 AAAATATTTTTTATTTGTTTATATTTGT
1 AAAATATTTTTTATTT-TTT-TATTTGT
*
6305239 -AAATATTTTTAATATTTTTTTATTTTT
1 AAAATATTTTT--TATTTTTTTATTTGT
*
6305266 AAAATAATTTTTAT
1 AAAATATTTTTTAT
6305280 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 3 0.08
27 16 0.44
28 12 0.33
29 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
AAAATATTTTTTATTTTTTTATTTGT
Found at i:6306405 original size:16 final size:15
Alignment explanation
Indices: 6306386--6306420 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6306376 ATCCTAATAA
*
6306386 TATTTACATCTTTTAT
1 TATTTACAT-TATTAT
6306402 TATTTACATTATTAT
1 TATTTACATTATTAT
6306417 TATT
1 TATT
6306421 GTAGCAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTACATTATTAT
Found at i:6307742 original size:28 final size:30
Alignment explanation
Indices: 6307666--6307747 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
6307656 AAGACTTGAT
* *
6307666 TCACAAATTAGTATCTAAACTATATCATTTT
1 TCAC-AATTAGTACCTAAACTATATCATTTG
* * *
6307697 TCCCAAGTTAATACCTAAACT-T-TTATTTG
1 TCACAA-TTAGTACCTAAACTATATCATTTG
6307726 TCACAATTAGTACCTAAACTAT
1 TCACAATTAGTACCTAAACTAT
6307748 TTTTCTGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 13 0.31
29 11 0.26
30 3 0.07
31 15 0.36
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (30 bp):
TCACAATTAGTACCTAAACTATATCATTTG
Found at i:6308827 original size:2 final size:2
Alignment explanation
Indices: 6308820--6308849 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6308810 TTTGTATGTC
6308820 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
6308850 CCAGATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6311435 original size:10 final size:11
Alignment explanation
Indices: 6311417--6311448 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6311407 CAATTTTTGA
6311417 TTTCTTTTTTT
1 TTTCTTTTTTT
6311428 TTTCTTTTTTT
1 TTTCTTTTTTT
*
6311439 TTTCATTTTT
1 TTTCTTTTTT
6311449 GATTTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6312458 original size:20 final size:20
Alignment explanation
Indices: 6312435--6312473 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6312425 TTTTTATATT
*
6312435 ACTATTATTGTTA-TATTATC
1 ACTATT-TTCTTACTATTATC
6312455 ACTATTTTCTTACTATTAT
1 ACTATTTTCTTACTATTAT
6312474 TATTACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ACTATTTTCTTACTATTATC
Found at i:6312493 original size:3 final size:3
Alignment explanation
Indices: 6312360--6312478 Score: 109
Period size: 3 Copynumber: 39.7 Consensus size: 3
6312350 TTGTTGTTTA
*
6312360 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTCCGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT
* * * * * *
6312411 TAC TAT TAT TAT TAT TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6312457 TAT T-T TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
6312479 CTACAACTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
2 6 0.06
3 84 0.90
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6312662 original size:21 final size:21
Alignment explanation
Indices: 6312617--6312685 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
6312607 TTTCTCTGTA
* **
6312617 TTATTACTATTATTAATATCA
1 TTATTACTATTATTATTATTT
*
6312638 TTATTACTATTATTTTTATTT
1 TTATTACTATTATTATTATTT
* * *
6312659 TTATTACTACTACTGTTATTT
1 TTATTACTATTATTATTATTT
6312680 TTATTA
1 TTATTA
6312686 ACATATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (21 bp):
TTATTACTATTATTATTATTT
Found at i:6312797 original size:15 final size:15
Alignment explanation
Indices: 6312777--6312807 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6312767 TATTATTTTC
6312777 TATTTATTACTATTA
1 TATTTATTACTATTA
6312792 TATTTATTACTATTA
1 TATTTATTACTATTA
6312807 T
1 T
6312808 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Done.