Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 158 of 189
Found at i:47518137 original size:64 final size:64
Alignment explanation
Indices: 47518060--47518498 Score: 632
Period size: 64 Copynumber: 6.9 Consensus size: 64
47518050 ATAAATACAA
* ** *
47518060 ATACAAATT-AATTCGGCAATAGGTGTATACTTATACAATTCAATTCGGTGATATAAGTATACAT
1 ATAC-AATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
47518124 ATAAAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCTATATAAATATAAAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* *
47518188 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCCATTCGGTAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
47518252 ACACAATTCAATTCGGTAATAAGTGTATACCTATACAATTCCATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
*
47518316 ATACAATTCAATTCGACAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * *
47518380 ATACAATTCAATTCGGTAATAGGTGTATACTTATACAATTCAATTCGGCAATATAAATATATAT
1 ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
* * * *
47518444 ATACAATTCAATTCGACAAAATAAGTATATA--TATACAATTCAATTCAGCAATATA
1 ATACAATTCAATTCGGC--AATAGGTGTATACCTATACAATTCAATTCGGCAATATA
47518499 TAAAACATAT
Statistics
Matches: 342, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
63 4 0.01
64 328 0.96
66 10 0.03
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (64 bp):
ATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATATAT
Found at i:47521455 original size:3 final size:3
Alignment explanation
Indices: 47521447--47521492 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
47521437 TTCAAAGTAA
*
47521447 AAT AAT AAT AAT AAT AAC 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 AAT A
47521493 TATTAGCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:47521625 original size:19 final size:20
Alignment explanation
Indices: 47521603--47521660 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
47521593 AAAAATATAA
47521603 ATTTTAAATTTTTATAAA-T
1 ATTTTAAATTTTTATAAATT
*
47521622 ATTTTTAATTTTTGA-AAATT
1 ATTTTAAATTTTT-ATAAATT
47521642 ATTTTGAATATTTTTATAA
1 ATTTT-AA-ATTTTTATAA
47521661 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 15 0.47
20 7 0.22
21 2 0.06
22 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTAAATTTTTATAAATT
Found at i:47521629 original size:20 final size:21
Alignment explanation
Indices: 47521604--47521660 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
47521594 AAAATATAAA
47521604 TTTTAAATTTTTATAAA-TAT
1 TTTTAAATTTTTATAAATTAT
47521624 TTTT-AATTTTTGA-AAATTAT
1 TTTTAAATTTTT-ATAAATTAT
*
47521644 TTTGAATATTTTTATAA
1 TTTTAA-ATTTTTATAA
47521661 TTTTTGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 10 0.32
20 11 0.35
21 2 0.06
22 8 0.26
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTAAATTTTTATAAATTAT
Found at i:47535990 original size:43 final size:43
Alignment explanation
Indices: 47535932--47536015 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
47535922 CGCAAAATAT
* *
47535932 ATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGTACCGCTAAAA
1 ATCATGTTCTATAGCGGCGTTTGTAGTAAAAGCACCGCTAAAA
* * *
47535975 ATCATGTTCTATAGCGGTGTTTGTGGTAAAAGCGCCGCTAA
1 ATCATGTTCTATAGCGGCGTTTGTAGTAAAAGCACCGCTAA
47536016 CATTAATAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
ATCATGTTCTATAGCGGCGTTTGTAGTAAAAGCACCGCTAAAA
Found at i:47543726 original size:22 final size:23
Alignment explanation
Indices: 47543689--47543756 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
47543679 TTGCAGTTAC
47543689 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
47543712 TTCA-TGTT-TATAATATGA-TTAG
1 TTAAGTGTTCTA-AATA-GATTTAA
47543734 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
47543757 GTCAAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:47545936 original size:30 final size:30
Alignment explanation
Indices: 47545902--47545964 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
47545892 ACTTATTTTA
*
47545902 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
47545932 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
47545962 TTG
1 TTG
47545965 ATTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:47546083 original size:18 final size:18
Alignment explanation
Indices: 47546047--47546084 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47546037 GAAATATTTA
*
47546047 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
47546065 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
47546083 TT
1 TT
47546085 AAAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:47547718 original size:41 final size:42
Alignment explanation
Indices: 47547667--47547757 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
47547657 AAAATATTCA
* * *
47547667 CGGCATTTATGGGAAAAATGCCGCTATTGCTTT-ACCTTTAG
1 CGGCGTTTATGGGAAAAACGCCGCTATCGCTTTAACCTTTAG
* *
47547708 CGGCGTTTATGGGAAAAACGCCGCTATCGTTTTAACCTTTTG
1 CGGCGTTTATGGGAAAAACGCCGCTATCGCTTTAACCTTTAG
*
47547750 CGACGTTT
1 CGGCGTTT
47547758 GTTATTGCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 29 0.67
42 14 0.33
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (42 bp):
CGGCGTTTATGGGAAAAACGCCGCTATCGCTTTAACCTTTAG
Found at i:47547814 original size:69 final size:68
Alignment explanation
Indices: 47547691--47547825 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
47547681 AAAATGCCGC
* * * **
47547691 TATTGCTTTACCTTTAGCGGCGTTTATGGGAAAAACGCCGCTATCGTTTTAACCTTTTGCGACGT
1 TATTGCTTTACCTTTAGCGCCATTTATGGGAAAAACGCCGCTATCGGTAGAACC-TTTGCGACGT
47547756 TTGT
65 TTGT
* * *
47547760 TATTGCTTTACCTTTTGCGCCATTTATGGGAAAAACGTCGCTAAT-GGTAGAACCTTTGCGGCGT
1 TATTGCTTTACCTTTAGCGCCATTTATGGGAAAAACGCCGCT-ATCGGTAGAACCTTTGCGACGT
47547824 TT
65 TT
47547826 TCGATCTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 11 0.19
69 44 0.77
70 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (68 bp):
TATTGCTTTACCTTTAGCGCCATTTATGGGAAAAACGCCGCTATCGGTAGAACCTTTGCGACGTT
TGT
Found at i:47548815 original size:19 final size:20
Alignment explanation
Indices: 47548769--47548821 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
47548759 CTTAACTATT
47548769 TATGCATATATATATAAACTA
1 TATG-ATATATATATAAACTA
* *
47548790 T-TAATATAT-TATATACTA
1 TATGATATATATATAAACTA
47548808 TATGATATGATATA
1 TATGATAT-ATATA
47548822 GCATTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 3 0.12
21 3 0.12
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
TATGATATATATATAAACTA
Found at i:47549028 original size:32 final size:31
Alignment explanation
Indices: 47548966--47549035 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
47548956 TATGTGATAT
*
47548966 AGTATTATATAATGAAATAATATATTTTATA
1 AGTATTATATAATGAAATAATATATATTATA
*
47548997 AGTATTAATATAAT-AAATATTATTATATTAT-
1 AGTATT-ATATAATGAAATAATA-TATATTATA
47549028 AG-ATTATA
1 AGTATTATA
47549036 ATAAAAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 3 0.09
31 15 0.43
32 14 0.40
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (31 bp):
AGTATTATATAATGAAATAATATATATTATA
Found at i:47549038 original size:32 final size:32
Alignment explanation
Indices: 47548966--47549028 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
47548956 TATGTGATAT
*
47548966 AGTATT-ATATAATGAAATAATATATTTTATA
1 AGTATTAATATAATGAAATAATATATATTATA
*
47548997 AGTATTAATATAAT-AAATATTATTATATTATA
1 AGTATTAATATAATGAAATAATA-TATATTATA
47549029 GATTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (32 bp):
AGTATTAATATAATGAAATAATATATATTATA
Found at i:47553893 original size:22 final size:21
Alignment explanation
Indices: 47553850--47553915 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
47553840 AGGGATTAAA
47553850 GGTGAGAAGTAAAAGTTTGGG
1 GGTGAGAAGTAAAAGTTTGGG
47553871 GGTGAGAA-TGAAAAGTTTTGGG
1 GGTGAGAAGT-AAAAG-TTTGGG
* *
47553893 GGTTGAGGGAGTAAAATTTTGGG
1 GG-TGA-GAAGTAAAAGTTTGGG
47553916 AGAAGTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 1 0.03
21 13 0.34
22 8 0.21
23 9 0.24
24 6 0.16
25 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.42, T:0.27
Consensus pattern (21 bp):
GGTGAGAAGTAAAAGTTTGGG
Found at i:47554017 original size:30 final size:29
Alignment explanation
Indices: 47553978--47554036 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
47553968 GAGTGGGATG
* *
47553978 GGAAGGGAGTAAAAGTTTTGGGGAGAAAGT
1 GGAAAGGAGTAAAAGTTTTGAGG-GAAAGT
47554008 GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
1 GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
47554037 AAAGAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (29 bp):
GGAAAGGAGTAAAAGTTTTGAGGGAAAGT
Found at i:47556589 original size:29 final size:30
Alignment explanation
Indices: 47556542--47556598 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
47556532 TTACCCATCA
47556542 TTAATATTTTTTCCTCATTGATAATATTGC
1 TTAATATTTTTTCCTCATTGATAATATTGC
*
47556572 TTAA-ATTTTGTT-CTCATTGTTAATATT
1 TTAATATTTT-TTCCTCATTGATAATATT
47556599 ACTATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (30 bp):
TTAATATTTTTTCCTCATTGATAATATTGC
Found at i:47558963 original size:47 final size:47
Alignment explanation
Indices: 47558903--47558998 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
47558893 TAATTGTATT
*
47558903 CATAAGAGATATAAAGAGTTTCTAATAACAATACAAAGGTATTAATC
1 CATAAGAGATATAAAGAGTTTCTAACAACAATACAAAGGTATTAATC
* *
47558950 CATAAGAGATATAAGGAGTTTCTAACAACAATACGAAGGTATTAATC
1 CATAAGAGATATAAAGAGTTTCTAACAACAATACAAAGGTATTAATC
47558997 CA
1 CA
47558999 CCCGTACCCG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (47 bp):
CATAAGAGATATAAAGAGTTTCTAACAACAATACAAAGGTATTAATC
Found at i:47567548 original size:6 final size:6
Alignment explanation
Indices: 47567537--47567565 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47567527 CTGTCGTTTA
47567537 ATCTTC ATCTTC ATCTTC ATCTTC ATCTT
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTT
47567566 TGTCTTGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
ATCTTC
Found at i:47579903 original size:28 final size:27
Alignment explanation
Indices: 47579860--47579927 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
47579850 AAATTAAAAA
*
47579860 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
47579887 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
47579914 TTACCAAAATATAT
1 TTACCAAAATATAT
47579928 CAAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:47581451 original size:18 final size:18
Alignment explanation
Indices: 47581424--47581463 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47581414 AATGATCGCC
*
47581424 ACCACCTTCTTCTTCACA
1 ACCACATTCTTCTTCACA
*
47581442 ACCACATTCTTCTTCACC
1 ACCACATTCTTCTTCACA
47581460 ACCA
1 ACCA
47581464 ACCATATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (18 bp):
ACCACATTCTTCTTCACA
Found at i:47583574 original size:30 final size:30
Alignment explanation
Indices: 47583540--47583611 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
47583530 CTTCATTGGA
47583540 AATTATTTTAAAATAATAATTTATAATTAT
1 AATTATTTTAAAATAATAATTTATAATTAT
** *** *
47583570 AATTATTCCATGCTATTAATTTATAATTAT
1 AATTATTTTAAAATAATAATTTATAATTAT
47583600 --TTATTTTAAAAT
1 AATTATTTTAAAAT
47583612 TATTGATATA
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
28 7 0.23
30 24 0.77
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (30 bp):
AATTATTTTAAAATAATAATTTATAATTAT
Found at i:47585240 original size:25 final size:25
Alignment explanation
Indices: 47585186--47585240 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
47585176 GGCATCTACA
** *
47585186 TTATTTATTATTAAGTTTATATATG
1 TTATTTATTATTAAGAATATATATC
*
47585211 ATATTTATTATTATAGAATAT-TATC
1 TTATTTATTATTA-AGAATATATATC
47585236 TTATT
1 TTATT
47585241 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (25 bp):
TTATTTATTATTAAGAATATATATC
Found at i:47588622 original size:15 final size:15
Alignment explanation
Indices: 47588602--47588636 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
47588592 CGCAAGGAAC
47588602 ACCCTAGGTGCTAGA
1 ACCCTAGGTGCTAGA
47588617 ACCCTAGGTGCTAGA
1 ACCCTAGGTGCTAGA
47588632 ACCCT
1 ACCCT
47588637 TATATTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (15 bp):
ACCCTAGGTGCTAGA
Found at i:47596412 original size:18 final size:17
Alignment explanation
Indices: 47596384--47596432 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
47596374 TGAACTAACC
* *
47596384 TTTTCTATTTTTAATTA
1 TTTTTTATTTTTAATGA
47596401 TTGTTTTATTTTT-ATGA
1 TT-TTTTATTTTTAATGA
47596418 TTTTTTATTATTTAA
1 TTTTTTATT-TTTAA
47596433 CGAACTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 10 0.37
18 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTTTATTTTTAATGA
Found at i:47598634 original size:26 final size:25
Alignment explanation
Indices: 47598587--47598659 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
47598577 TTCTCGCCCT
*
47598587 AATTTTACCCT-AGTAAAGTTTTGAC
1 AATTTTACCCTGA-TAAAATTTTGAC
47598612 AATTTTACCCCTGATAAAATTTTGAC
1 AATTTTA-CCCTGATAAAATTTTGAC
*
47598638 GATTTTACCCTCGATAAAATTT
1 AATTTTACCCT-GATAAAATTT
47598660 CAAGAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 11 0.26
26 31 0.72
27 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (25 bp):
AATTTTACCCTGATAAAATTTTGAC
Found at i:47607275 original size:8 final size:8
Alignment explanation
Indices: 47607262--47607289 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47607252 GCATGTGTCA
47607262 ATTAAAAT
1 ATTAAAAT
47607270 ATTAAAAT
1 ATTAAAAT
47607278 ATTAAAAT
1 ATTAAAAT
47607286 ATTA
1 ATTA
47607290 TACATTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTAAAAT
Found at i:47617851 original size:37 final size:37
Alignment explanation
Indices: 47617800--47617958 Score: 165
Period size: 37 Copynumber: 4.3 Consensus size: 37
47617790 TCCATAGATC
* * *
47617800 ATCATATCTTGAAACATGAGGACAAGTCTAGCGGACT
1 ATCATAACTTGAAACATGAGGACAAGTCCAGCGAACT
* * * *
47617837 ATCTTAACTTGAAACATGAAGACAAGTCCAGTGCACT
1 ATCATAACTTGAAACATGAGGACAAGTCCAGCGAACT
** * *
47617874 ATCATAACTTGAAATGTGAGGACGAGTCCAACGAACT
1 ATCATAACTTGAAACATGAGGACAAGTCCAGCGAACT
* * * * *
47617911 GTCATAACTTGAAACATGAGGACGATTCCAGTGGACT
1 ATCATAACTTGAAACATGAGGACAAGTCCAGCGAACT
*
47617948 GTCATAACTTG
1 ATCATAACTTG
47617959 CGTATGCCCA
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (37 bp):
ATCATAACTTGAAACATGAGGACAAGTCCAGCGAACT
Found at i:47617921 original size:74 final size:74
Alignment explanation
Indices: 47617800--47617958 Score: 192
Period size: 74 Copynumber: 2.1 Consensus size: 74
47617790 TCCATAGATC
* * * * *
47617800 ATCATATCTTGAAACATGAGGACAAGTCTAGCGGACTATCTTAACTTGAAACATGAAGACAAGTC
1 ATCATAACTTGAAACATGAGGACAAGTCCAACGAACTATCATAACTTGAAACATGAAGACAAGTC
47617865 CAGTGCACT
66 CAGTGCACT
** * * * * *
47617874 ATCATAACTTGAAATGTGAGGACGAGTCCAACGAACTGTCATAACTTGAAACATGAGGACGATTC
1 ATCATAACTTGAAACATGAGGACAAGTCCAACGAACTATCATAACTTGAAACATGAAGACAAGTC
*
47617939 CAGTGGACT
66 CAGTGCACT
*
47617948 GTCATAACTTG
1 ATCATAACTTG
47617959 CGTATGCCCA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (74 bp):
ATCATAACTTGAAACATGAGGACAAGTCCAACGAACTATCATAACTTGAAACATGAAGACAAGTC
CAGTGCACT
Found at i:47628163 original size:27 final size:27
Alignment explanation
Indices: 47628109--47628166 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
47628099 AAAAAAACTA
* *
47628109 AAAATAATTTGTTTAGCAATACGAGAG
1 AAAATAATTGGTTTAGAAATACGAGAG
*
47628136 AAAATAATTGGTTTAAGAAAT-CGGGAG
1 AAAATAATTGGTTT-AGAAATACGAGAG
47628163 AAAA
1 AAAA
47628167 AAATGAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAATAATTGGTTTAGAAATACGAGAG
Found at i:47629832 original size:35 final size:34
Alignment explanation
Indices: 47629775--47629841 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
47629765 AGAATAGAAA
* *
47629775 TGAGAAAGAAAGAAACAGAGAAGCAAAACGAAAAT
1 TGAGAAAGAAAGAAACAAAGAAG-AAAAAGAAAAT
*
47629810 TGAGAAAGAAA-AAGAGAAAGAAGAAAAAGAAA
1 TGAGAAAGAAAGAA-ACAAAGAAGAAAAAGAAA
47629842 GAGAACCACG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (34 bp):
TGAGAAAGAAAGAAACAAAGAAGAAAAAGAAAAT
Found at i:47636425 original size:19 final size:19
Alignment explanation
Indices: 47636382--47636424 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
47636372 AATAAACACC
*
47636382 AAAAAATTATTTAAAAAAT
1 AAAAAAGTATTTAAAAAAT
*
47636401 AAAAAAGTATTT-TAAAAT
1 AAAAAAGTATTTAAAAAAT
47636419 AAAAAA
1 AAAAAA
47636425 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAAAGTATTTAAAAAAT
Found at i:47643089 original size:42 final size:42
Alignment explanation
Indices: 47643036--47643135 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
47643026 CTATATGAAC
* *
47643036 GGCACTAAGTGTGTGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
47643078 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
*
47643120 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
47643136 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
Found at i:47645783 original size:3 final size:3
Alignment explanation
Indices: 47645775--47645818 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
47645765 AAAACGTAAC
47645775 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47645819 GCAATATAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:47646585 original size:8 final size:8
Alignment explanation
Indices: 47646572--47646598 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47646562 AGAGAAGAAT
47646572 AAAAAATA
1 AAAAAATA
47646580 AAAAAATA
1 AAAAAATA
47646588 AAAAAATA
1 AAAAAATA
47646596 AAA
1 AAA
47646599 TCTAACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:47647452 original size:83 final size:83
Alignment explanation
Indices: 47647311--47647465 Score: 215
Period size: 83 Copynumber: 1.9 Consensus size: 83
47647301 GAGGCTGCGA
* * * * *
47647311 CTCTTCACCTACGAGCCTTAATATGATAGCTAAGAGCTTTGCTCTTGCTAATTGTGTTGGAGGCT
1 CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTTTGCTCTTCCTAACTATGTTGGAGGCT
47647376 GCGGCTCACAGGTTCCGG
66 GCGGCTCACAGGTTCCGG
**
47647394 CTCTTCACCTACGAGCCATAATATAATAGCTGGGAG-TTCTGCT-TTCCCTAACTATGTTGGAGG
1 CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTT-TGCTCTT-CCTAACTATGTTGGAGG
47647457 CTGCGGCTC
64 CTGCGGCTC
47647466 TTCACCTGCG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
82 4 0.06
83 59 0.94
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (83 bp):
CTCTTCACCTACGAGCCATAATATAATAGCTAAGAGCTTTGCTCTTCCTAACTATGTTGGAGGCT
GCGGCTCACAGGTTCCGG
Found at i:47647514 original size:69 final size:69
Alignment explanation
Indices: 47647391--47647755 Score: 369
Period size: 69 Copynumber: 5.3 Consensus size: 69
47647381 TCACAGGTTC
* * * * * * *
47647391 CGGCTCTTCACCTACGAGCCATAATATAATAGCTGGGAG-TTCTGCTT-TCCCTAACTATGTTGG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTT-TG-TTCTCGCTAACTGTGTTGG
47647454 AGGCTG
64 AGGCTG
* *
47647460 CGGCTCTTCACCTGCGAGCCTTAATATGACAGATGAGAGCTTTGTTCTCGCTAACTATGTTGGAG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
*
47647525 GCTA
66 GCTG
* ** * **
47647529 CGACTCTTCACCTATGAGCCTTAATATGACTGCTGAGAGCTTTACTCTCGCTAACTGTGTTGGAG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
47647594 GCTG
66 GCTG
* * * *
47647598 CGACTCTTCACCTGTGAACCTTAATATGACAGCTGAGAGC-TTGTAACTCTCGCTAACTGCGTTG
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGT---TCTCGCTAACTGTGTTG
47647662 GAGGCTG
63 GAGGCTG
* * * * * * * *
47647669 TGGCTCTTTACCTTCGAGCTTTAATATGACAGTTGGGAGCTTTGCTCTTGCT-ACTTGTGTTGGA
1 CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAAC-TGTGTTGGA
47647733 GGCTG
65 GGCTG
* * *
47647738 TGGTTATTCACCTGCGAG
1 CGGCTCTTCACCTGCGAG
47647756 TTTTATGTTC
Statistics
Matches: 250, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
68 6 0.02
69 185 0.74
70 2 0.01
71 54 0.22
72 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (69 bp):
CGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAG
GCTG
Found at i:47650587 original size:22 final size:22
Alignment explanation
Indices: 47650562--47650617 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 22
47650552 TGGATTGATC
47650562 TAGTTCTTAGTTTGTGTTGTAA
1 TAGTTCTTAGTTTGTGTTGTAA
* * **
47650584 TAG-T-TTAATTT-TTTTGTTC
1 TAGTTCTTAGTTTGTGTTGTAA
47650603 TAGTTCTTAGTTTGT
1 TAGTTCTTAGTTTGT
47650618 TTATGCTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 7 0.27
22 4 0.15
ACGTcount: A:0.16, C:0.05, G:0.18, T:0.61
Consensus pattern (22 bp):
TAGTTCTTAGTTTGTGTTGTAA
Found at i:47656495 original size:17 final size:18
Alignment explanation
Indices: 47656473--47656509 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47656463 CATGCTCTCA
47656473 CACAT-GCCC-ATATGGCC
1 CACATGGCCCAAT-TGGCC
47656490 CACATGGCCCAATTGGCC
1 CACATGGCCCAATTGGCC
47656508 CA
1 CA
47656510 GACCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 11 0.61
19 2 0.11
ACGTcount: A:0.24, C:0.41, G:0.19, T:0.16
Consensus pattern (18 bp):
CACATGGCCCAATTGGCC
Found at i:47660730 original size:12 final size:11
Alignment explanation
Indices: 47660715--47660747 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
47660705 AAATGAGAAC
47660715 ACAAATAAATAA
1 ACAAATAAA-AA
47660727 ACAAATAAAAA
1 ACAAATAAAAA
47660738 ACAAA-AAAAA
1 ACAAATAAAAA
47660748 TATAAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 7 0.33
12 9 0.43
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
ACAAATAAAAA
Found at i:47661407 original size:26 final size:29
Alignment explanation
Indices: 47661364--47661418 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
47661354 CATAAAACTC
47661364 AATTACAACCCAAACCC-AAGACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
* *
47661392 AATTA-AA-CCAAGCCCAAATACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
47661419 GGCCCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.51, C:0.36, G:0.04, T:0.09
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAAGACCCAACA
Found at i:47665626 original size:44 final size:44
Alignment explanation
Indices: 47665576--47666308 Score: 688
Period size: 44 Copynumber: 16.6 Consensus size: 44
47665566 CCACTTTACT
* * *
47665576 ACCAATATAAGAAAACAGGATCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
47665620 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * * *
47665665 ACCAGTATGGGAAGATAAGATCTGC-ATATTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
*
47665707 TACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
47665752 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * * * *
47665797 ATCAGTATGGGAAGATAAGATCTGC-ATCTTCGATCCACTTCGC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
47665840 TACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
47665885 GCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * * *
47665930 ACCAGTATGGGAAGACAAAATCTGC-ATCTTTGATCGACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* ** *
47665972 TACCAATATAGGAAGACAGGGCCTACTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
47666017 GCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * * *
47666062 ACCAGTATGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCGC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
47666105 TACCAATATAGGAAGACATGATCTACTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
47666150 GCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTCCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
*
47666195 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
47666238 TACCGATATTGGAAGACAAGATCTGTTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
47666283 GCTAATACATGAAGACAAGATCTGCT
1 ACCAATATAGGAAGACAAGATCTGCT
47666309 GCTTTTTAGC
Statistics
Matches: 549, Mismatches: 123, Indels: 34
0.78 0.17 0.05
Matches are distributed among these distances:
42 2 0.00
43 42 0.08
44 354 0.64
45 151 0.28
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:47665929 original size:133 final size:132
Alignment explanation
Indices: 47665547--47666308 Score: 1193
Period size: 133 Copynumber: 5.7 Consensus size: 132
47665537 TCAAGGAGAT
* * * *
47665547 AAGATTTGCCATCTTC-AGTCCACTTTACTACCAATATAAGAAAACAGGATCTGCTATCTTCGAT
1 AAGATCTG-CATCTTCGA-TCCAC-TTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGAT
47665611 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
63 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
*
47665676 AAGAT
128 AAGAC
*
47665681 AAGATCTGCATATTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTA
1 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTA
*
47665746 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
47665811 AT
131 AC
*
47665813 AAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCT
1 AAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
*
47665878 ACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
65 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
47665943 GAC
130 GAC
* * * ** *
47665946 AAAATCTGCATCTTTGATCGACTTCCTACCAATATAGGAAGACAGGGCCTACTATCTTCGATCTA
1 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTA
*
47666011 CTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
47666076 AC
131 AC
* * * *
47666078 AAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTACTATCTTTGATCT
1 AAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
* * * *
47666143 ACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTCCGCCACCAATATAGGAA
65 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
47666208 GAC
130 GAC
* * * *
47666211 AAGATCTGCATCTTCGATCCACTTCACTACCGATATTGGAAGACAAGATCTGTTATCTTCGATCT
1 AAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
*
47666276 ACTTCACGCTAATACATGAAGACAAGATCTGCT
65 ACTTCACGCCAATACATGAAGACAAGATCTGCT
47666309 GCTTTTTAGC
Statistics
Matches: 582, Mismatches: 43, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
132 252 0.43
133 322 0.55
134 8 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (132 bp):
AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
AC
Found at i:47665976 original size:265 final size:265
Alignment explanation
Indices: 47665543--47666308 Score: 1219
Period size: 265 Copynumber: 2.9 Consensus size: 265
47665533 AACTTCAAGG
* ** * *
47665543 AGATAAGATTTGCCATCTTC-AGTCCACTTTACTACCAATATAAGAAAACAGGATCTGCTATCTT
1 AGATAAGATCTG-CATCTTCGA-TCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTT
47665607 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
64 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
* *
47665672 TGGGAAGATAAGATCTGCATATTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATC
129 TGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATC
*
47665737 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCAG
194 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
47665802 TATGGGA
259 TATGGGA
*
47665809 AGATAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGATAGGATCTGCTATCTTCG
1 AGATAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCG
*
47665874 ATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
66 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
* * * ** *
47665939 GGAAGACAAAATCTGCATCTTTGATCGACTTCCTACCAATATAGGAAGACAGGGCCTACTATCTT
131 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTT
*
47666004 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCACCAGTA
196 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
47666069 TGGGA
261 TGGGA
* * * * *
47666074 AGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTACTATCTTTG
1 AGATAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCG
* * * *
47666139 ATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTCCGCCACCAATATA
66 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
* * * *
47666204 GGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCGATATTGGAAGACAAGATCTGTTATCT
131 GGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCT
*
47666269 TCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCT
195 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
47666309 GCTTTTTAGC
Statistics
Matches: 459, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
265 383 0.83
266 76 0.17
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (265 bp):
AGATAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCG
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
TGGGA
Found at i:47667166 original size:25 final size:26
Alignment explanation
Indices: 47667128--47667176 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
47667118 GTGTCTTGAA
47667128 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
47667153 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
47667177 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:47667496 original size:53 final size:50
Alignment explanation
Indices: 47667430--47667555 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
47667420 GTCTCAAGGT
*
47667430 GCCCTTTGCGGGTTTTCACTTTGGCCTTTCTATTTTTTTTTTTGATTCAAAGC
1 GCCCTTTGCGGGTTTTCACTTTGGCCTCTCTA---TTTTTTTTGATTCAAAGC
* * *
47667483 GCCCTTTGTGGGTTTTCACCTTGGCCTCTCTATTTTTTTTGATTCAAAGT
1 GCCCTTTGCGGGTTTTCACTTTGGCCTCTCTATTTTTTTTGATTCAAAGC
*
47667533 GCCTTTTGCGGGTTTTCACTTTG
1 GCCCTTTGCGGGTTTTCACTTTG
47667556 ATTCCTTCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 37 0.56
53 29 0.44
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.49
Consensus pattern (50 bp):
GCCCTTTGCGGGTTTTCACTTTGGCCTCTCTATTTTTTTTGATTCAAAGC
Found at i:47687491 original size:17 final size:17
Alignment explanation
Indices: 47687471--47687508 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47687461 TTTGATTATA
47687471 AAATATGA-AAAATGTAT
1 AAATATGATAAAA-GTAT
*
47687488 AAATATTATAAAAGTAT
1 AAATATGATAAAAGTAT
47687505 AAAT
1 AAAT
47687509 GTACATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
AAATATGATAAAAGTAT
Found at i:47687651 original size:3 final size:3
Alignment explanation
Indices: 47687643--47687693 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
47687633 ATATGTAAGT
47687643 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47687691 ATA
1 ATA
47687694 TAACATAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47688784 original size:22 final size:24
Alignment explanation
Indices: 47688759--47688803 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
47688749 AAAATTTCAC
47688759 AAGTACCAAA-TAA-AAAAAAATT
1 AAGTACCAAATTAAGAAAAAAATT
47688781 AAGTACCAAATTAAGAAAAAAAT
1 AAGTACCAAATTAAGAAAAAAAT
47688804 CAAATTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.18
Consensus pattern (24 bp):
AAGTACCAAATTAAGAAAAAAATT
Found at i:47688877 original size:31 final size:30
Alignment explanation
Indices: 47688828--47688887 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
47688818 AAATTAGACG
* *
47688828 ATTTAAGTATAATTTAAGAAAAAATGTCAA
1 ATTTAAATATAAATTAAGAAAAAATGTCAA
*
47688858 ATTTAAATACTAAATTAAGAAAAAGTGTCA
1 ATTTAAATA-TAAATTAAGAAAAAATGTCA
47688888 CCAAACACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (30 bp):
ATTTAAATATAAATTAAGAAAAAATGTCAA
Found at i:47688881 original size:30 final size:31
Alignment explanation
Indices: 47688828--47688887 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
47688818 AAATTAGACG
* *
47688828 ATTTAAGTATAATTTAAGAAAAAA-TGTCAA
1 ATTTAAATATAAATTAAGAAAAAAGTGTCAA
47688858 ATTTAAATACTAAATTAAG-AAAAAGTGTCA
1 ATTTAAATA-TAAATTAAGAAAAAAGTGTCA
47688888 CCAAACACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTTAAATATAAATTAAGAAAAAAGTGTCAA
Found at i:47696459 original size:82 final size:82
Alignment explanation
Indices: 47696336--47696533 Score: 317
Period size: 82 Copynumber: 2.4 Consensus size: 82
47696326 TTGAGATGGT
* * * *
47696336 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACATCTTATTGCTATA
1 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATA
*
47696401 GGATAATTTTGTTAGCA
66 AGATAATTTTGTTAGCA
47696418 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATA
1 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATA
* *
47696483 AGATCATTTTGTTAGTA
66 AGATAATTTTGTTAGCA
*
47696500 TAACATATTTTGTTTG-TTTTTTAAATGATCTGTT
1 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTT
47696534 GAAAGATGTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 17 0.16
82 91 0.84
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (82 bp):
TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATA
AGATAATTTTGTTAGCA
Found at i:47698581 original size:17 final size:17
Alignment explanation
Indices: 47698559--47698600 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
47698549 TAGTTAGGGG
*
47698559 TTTTAAATGTTTTTTAA
1 TTTTAAATATTTTTTAA
*
47698576 TTTTAATTATTTTTTAA
1 TTTTAAATATTTTTTAA
*
47698593 GTTTAAAT
1 TTTTAAAT
47698601 TCATTTGCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTAAATATTTTTTAA
Found at i:47698601 original size:18 final size:18
Alignment explanation
Indices: 47698568--47698606 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
47698558 GTTTTAAATG
*
47698568 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
47698585 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
47698604 TTT
1 TTT
47698607 GCTGACGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:47699666 original size:3 final size:3
Alignment explanation
Indices: 47699648--47699709 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
47699638 AAATTTTAAA
* * * * *
47699648 AAT AAA AAT AAAT AAT AAT GAAA AAT AAAT AAT AAC AAT AAT AAT GAG
1 AAT AAT AAT -AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT
47699696 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
47699710 GAACAAAATG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 38 0.83
4 8 0.17
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:47701539 original size:51 final size:50
Alignment explanation
Indices: 47701484--47701653 Score: 190
Period size: 51 Copynumber: 3.5 Consensus size: 50
47701474 GCACCATTGT
* *
47701484 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTAC
1 AACTTCAGGGAAATAAGATTTGTAA-TTGTAGCTTTAATCTGTTCCACTGC
* * *
47701535 AACTTTTAGGGAAATAAGA----T--TTGTAGCTTTAATCTGCTCAACTGC
1 AAC-TTCAGGGAAATAAGATTTGTAATTGTAGCTTTAATCTGTTCCACTGC
* * * *
47701580 AACTTCAGGGAGATAAAATTCGTAATTTGTAGCTTTAATTTGTTCCACTGC
1 AACTTCAGGGAAATAAGATTTGTAA-TTGTAGCTTTAATCTGTTCCACTGC
47701631 AACTTCAGGGAAATAAGATTTGT
1 AACTTCAGGGAAATAAGATTTGT
47701654 TATCTTTAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.12
45 25 0.26
48 2 0.02
51 45 0.46
52 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (50 bp):
AACTTCAGGGAAATAAGATTTGTAATTGTAGCTTTAATCTGTTCCACTGC
Found at i:47701699 original size:96 final size:96
Alignment explanation
Indices: 47701365--47701685 Score: 312
Period size: 96 Copynumber: 3.4 Consensus size: 96
47701355 GTTTTGCTGG
* ** * * *
47701365 TTGTAGCTTTAACCTATTCCATTGCAACTTCAGGGAGATAGGACTTAC-T-A-TGGTAGATTTAA
1 TTGTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGA-TT-CGTAACTTGTAGCTTTAA
*** * * * * *
47701427 TCCAATCCATTGCAAC-TTCAGAGG-TATAGGAC
64 TCTGTTCCACTACAACTTTCAG-GGAAATAAGAT
* * * * *
47701459 TTGTTGCTTCAATCTGCACCATTGTAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATC
1 TTGTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGTAACTTGTAGCTTTAATC
*
47701524 TGTTCCACTACAACTTTTAGGGAAATAAGAT
66 TGTTCCACTACAACTTTCAGGGAAATAAGAT
* * * * *
47701555 TTGTAGCTTTAATCTGCTCAACTGCAACTTCAGGGAGATAAAATTCGTAATTTGTAGCTTTAATT
1 TTGTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGTAACTTGTAGCTTTAATC
*
47701620 TGTTCCACTGCAAC-TTCAGGGAAATAAGAT
66 TGTTCCACTACAACTTTCAGGGAAATAAGAT
* *
47701650 TTGTTATCTTTAATTTGCTCCATTGCAACTTCAGGG
1 TTG-TAGCTTTAATCTGCTCCATTGCAACTTCAGGG
47701686 TGACGAGACT
Statistics
Matches: 185, Mismatches: 36, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
93 3 0.02
94 36 0.19
95 41 0.22
96 105 0.57
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGTAACTTGTAGCTTTAATC
TGTTCCACTACAACTTTCAGGGAAATAAGAT
Found at i:47702121 original size:139 final size:139
Alignment explanation
Indices: 47701936--47702205 Score: 373
Period size: 139 Copynumber: 1.9 Consensus size: 139
47701926 AAGTTATCAT
* **
47701936 TTCAATCTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGCTATTTTTAACTTGGTCCACTACA
1 TTCAATCTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGCTATTTTTAACCTACTCCACTACA
* * * *
47702001 ATTTTAAGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACTGCAACTTCA-ATGAGATAAGATTT
66 ACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTT
47702065 GTAGCCTGTC
130 GTAGCCTGTC
* * *** *
47702075 TTCAATCTGCTCCACTGC-AATTTTAGGTAGATAAGATTTGTTTATTTTTAACCTACTCCACTAC
1 TTCAATCTGCTCCACTGCAAACTTCAAAAAGATAAGATTTG-CTATTTTTAACCTACTCCACTAC
* *
47702139 AACTTCAAGGAGATAAAGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
65 AACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
47702204 GT
130 GT
47702206 TATCTCTGAT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 17 0.15
139 96 0.84
140 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (139 bp):
TTCAATCTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGCTATTTTTAACCTACTCCACTACA
ACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
TAGCCTGTC
Found at i:47702261 original size:89 final size:89
Alignment explanation
Indices: 47701520--47702574 Score: 487
Period size: 89 Copynumber: 11.4 Consensus size: 89
47701510 TTGTAGCTTT
* * * * * * *
47701520 AATCTGTTCCACTACAACTTTTAGGGAAATAAGATTTG-TAGCTTTAATCTGCTCAACTGCAACT
1 AATCTGCTCCACTGCAAC-TTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACT
* * *
47701584 TCAGGGAGATAAAATTCGTAATTTGTAGCTTT
65 TCA-GGAGATAAGATTC-T-A----TAACTTC
* * * * * * * *
47701616 AATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTTATCTTTAATTTGCTCCATTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACTT
* ** *
47701681 CAGGGTGACGAGACTCGTAT--CTTC
66 CA-GGAGATAAGATTC-TATAACTTC
* * * * * * * **
47701705 AATCTACTCCATTGCAACTTCAGGGAGATGAGATTTG-TAACTTCAATCTAATCCACTATAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACTT
47701769 CAGAGAGATAAGATTTGCTAT--CTTC
66 CAG-GAGATAAGA-TT-CTATAACTTC
* * * *
47701794 AATTTGCTCCACTTCAACTTCA-AGGATATAAGATTTGAAGCTTGTAGCTTTAATCTATTCCACT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTT---G--T-TAGCTTTAATCTACTCCACT
* * *
47701858 GCAACTTCAGGGAGATAAGGCTTGCTATAGTAGATTT
59 GCAACTTCA-GGAGATAA-GATT-CTATA--A-CTTC
* * * *
47701895 AATCTGGC-CTACTGCAACTTCAGAG-GCAT-AGA--AGTTATCATTTCAATCTGCTCCACTGCA
1 AATCT-GCTCCACTGCAACTTCAGAGAG-ATAAGATTTGTTAGC-TTT-AATCTACTCCACTGC-
** * *
47701955 AACTTCAAAAAGATAAGATTTGCTAT--TTTT
61 AACTTC-AGGAGATAAGA-TT-CTATAACTTC
* * * * * * *
47701985 AA-CTTGGTCCACTACAATTTTA-AGGAGATAAGGTTTG-CAGCTTTAATCTGCTCCACTGCAAC
1 AATC-TGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAAC
* * **
47702047 TTCAATGAGATAAGATTTGTAGCCTGTCTTC
64 TTC-AGGAGATAAGA-TTCTA---TAACTTC
* * ** * *
47702078 AATCTGCTCCACTGCAATTTTAG-GTAGATAAGATTTGTTTATTTTTAACCTACTCCACTACAAC
1 AATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTG-TTAGCTTTAATCTACTCCACTGCAAC
* *
47702142 TTCAAGGAGATAA-AGTT-TATAGCTTT
64 TTC-AGGAGATAAGA-TTCTATAACTTC
* * * *
47702168 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTGATCTACTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACTT
47702233 CAGTGAGATAAGA-TCTATAACTTC
66 CAG-GAGATAAGATTCTATAACTTC
* * * *
47702257 AATCTACTCCACTGCAGCTTCAGAGAGATAAGATTTGTGATTTGTAGCTTTAATCTGCTCTACTG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TG---T-TAGCTTTAATCTACTCCACTG
* *
47702322 CAACTTCATAGAGATAAGATTTGCTAT-A-TCC
60 CAACTTCA-GGAGATAAGA-TT-CTATAACTTC
* ** * * * *
47702353 GATCTATTCCACTGTAACTTCAGGGAGATAAGATTTG-TAGCTTCAA-CATACTCTACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATC-TACTCCACTGCAACT
*
47702416 TTAGAGAGATAAGATTC-ATTATAC-TC
65 TCAG-GAGATAAGATTCTA-TA-ACTTC
* * *
47702442 AATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTG-TGGCTTTAATCTACTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACTT
* *
47702506 CAAGGAGATAAAATTCGCCATGATGACTTC
66 C-AGGAGATAAGATT---C-T-ATAACTTC
* *
47702536 AATCCG-TCCCACTGCAACTTCA-AGGGTATAAGATTTGTT
1 AATCTGCT-CCACTGCAACTTCAGAGAG-ATAAGATTTGTT
47702575 GTTTCATTGA
Statistics
Matches: 752, Mismatches: 131, Indels: 153
0.73 0.13 0.15
Matches are distributed among these distances:
86 1 0.00
87 3 0.00
88 35 0.05
89 259 0.34
90 77 0.10
91 11 0.01
92 8 0.01
93 43 0.06
94 52 0.07
95 107 0.14
96 121 0.16
97 4 0.01
98 4 0.01
100 3 0.00
101 21 0.03
102 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTAGCTTTAATCTACTCCACTGCAACTT
CAGGAGATAAGATTCTATAACTTC
Found at i:47702326 original size:140 final size:134
Alignment explanation
Indices: 47702023--47702516 Score: 437
Period size: 140 Copynumber: 3.6 Consensus size: 134
47702013 TAAGGTTTGC
* * * *
47702023 AGCTTTAATCTGCTCCACTGCAACTTCA-ATGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTC
1 AGCTTTAATCTGCTCTACTGCAACTTCAGA-GAGATAAGATTTGTA---TCTC-T-GATCTACTC
* * * * ** * * *
47702087 CACTGCAATTTTAGGTAGATAAGATTTGTTTATTTTTAACCTACTCCACTACAACTTCA-AGGAG
60 CACTGCAACTTCAGG-AGATAAGA--TCTATAACTTCAACATACTCCACTGCAACTTCAGA-GAG
*
47702151 ATAA-AGT--TTAT
121 ATAAGATTCATTAT
47702162 AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTGATCTACTCCACTG
1 AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TATCTCTGATCTACTCCACTG
*
47702227 CAACTTCAGTGAGATAAGATCTATAACTTCAATC-TACTCCACTGCAGCTTCAGAGAGATAAGAT
65 CAACTTCAG-GAGATAAGATCTATAACTTCAA-CATACTCCACTGCAACTTCAGAGAGATAAGA-
* *
47702291 TTGTGATTTGT
127 -T-TCA-TTAT
* * * *
47702302 AGCTTTAATCTGCTCTACTGCAACTTCATAGAGATAAGATTTGCTATATCCGATCTATTCCACTG
1 AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TATCTCTGATCTACTCCACTG
* * * * * *
47702367 TAACTTCAGGGAGATAAGATTTGTAGCTTCAACATACTCTACTGCAACTTTAGAGAGATAAGATT
65 CAACTTCA-GGAGATAAGATCTATAACTTCAACATACTCCACTGCAACTTCAGAGAGATAAGATT
47702432 CATTAT
129 CATTAT
* * * * ** * *
47702438 A-C-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTTAATCTACTCCACTGC
1 AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATCTCTGATCTACTCCACTGC
47702501 AACTTCAAGGAGATAA
66 AACTTC-AGGAGATAA
47702517 AATTCGCCAT
Statistics
Matches: 298, Mismatches: 42, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
133 59 0.20
134 38 0.13
135 28 0.09
136 6 0.02
137 6 0.02
138 1 0.00
139 41 0.14
140 118 0.40
141 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (134 bp):
AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATCTCTGATCTACTCCACTGC
AACTTCAGGAGATAAGATCTATAACTTCAACATACTCCACTGCAACTTCAGAGAGATAAGATTCA
TTAT
Found at i:47702520 original size:44 final size:44
Alignment explanation
Indices: 47701604--47702516 Score: 436
Period size: 44 Copynumber: 20.0 Consensus size: 44
47701594 AAAATTCGTA
* ** * *
47701604 ATTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* * * * * * **
47701648 ATTTGTTATCTTTAATTTGCTCCATTGCAACTTCAGGGTGACGAG
1 ATTTG-TAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* * * * * * *
47701693 ACTCGTATCTTCAATCTACTCCATTGCAACTTCAGGGAGATGAG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* * * **
47701737 ATTTGTAACTTCAATCTAATCCACTATAACTTC-AGAGAGATAAG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAG-GAGATAAG
* * * * * *
47701781 ATTTGCTATCTTCAATTTGCTCCACTTCAACTTCAAGGATATAAG
1 ATTTG-TAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* *
47701826 ATTTGAAGCTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAGATAAGG
1 A--T-----TTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAA-G
* * * * *
47701878 CTTGCTATAGTAGATTTAATCTGGC-CTACTGCAACTTCAGAGG-CAT-AG
1 -AT--T-T-GTAGCTTTAATCT-ACTCCACTGCAACTTCA-AGGAGATAAG
** * * **
47701926 AAGT-TATCATTTCAATCTGCTCCACTGCAAACTTCAAAAAGATAAG
1 ATTTGTAGC-TTT-AATCTACTCCACTGC-AACTTCAAGGAGATAAG
** ** * * *
47701972 ATTTGCTATTTTTAA-CTTGGTCCACTACAATTTTAAGGAGATAAG
1 ATTTG-TAGCTTTAATC-TACTCCACTGCAACTTCAAGGAGATAAG
* * * *
47702017 GTTTGCAGCTTTAATCTGCTCCACTGCAACTTCAATGAGATAAG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* **
47702061 ATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAA-TTTTAGGTAGATAAG
1 ATTTGTAG-C--T-TT-AATCTACTCCACTGCAACTTCAAGG-AGATAAG
** * *
47702110 ATTTGTTTATTTTTAACCTACTCCACTACAACTTCAAGGAGATAA-
1 ATTTG--TAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* * *
47702155 AGTTTATAGCTTTAATCTGCTCTACTGCAACTTC-AGAGAGATAAG
1 A-TTTGTAGCTTTAATCTACTCCACTGCAACTTCAAG-GAGATAAG
* * *
47702200 ATTTGTTATCTCTGATCTACTCCACTGCAACTTC-AGTGAGATAAG
1 ATTTG-TAGCTTTAATCTACTCCACTGCAACTTCAAG-GAGATAAG
* * * * *
47702245 ATCTATAACTTCAATCTACTCCACTGCAGCTTC-AGAGAGATAAGATTTGTG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAG-GAGAT-A-A-----G
* *
47702296 ATTTGTAGCTTTAATCTGCTCTACTGCAACTTCATA-GAGATAAG
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCA-AGGAGATAAG
** *** * * *
47702340 ATTTGCTATATCCGATCTATTCCACTGTAACTTCAGGGAGATAAG
1 ATTTG-TAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
* * *
47702385 ATTTGTAGCTTCAA-CATACTCTACTGCAACTT-TAGAGAGATAAG
1 ATTTGTAGCTTTAATC-TACTCCACTGCAACTTCAAG-GAGATAAG
* * * * *
47702429 ATTCAT-TATAC-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAA
1 ATT--TGTA-GCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
*
47702474 ATTTGTGGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAA
1 ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAA
47702517 AATTCGCCAT
Statistics
Matches: 666, Mismatches: 143, Indels: 120
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.00
43 12 0.02
44 253 0.38
45 196 0.29
46 45 0.07
47 12 0.02
48 14 0.02
49 32 0.05
50 28 0.04
51 67 0.10
52 4 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
ATTTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAG
Found at i:47709205 original size:26 final size:27
Alignment explanation
Indices: 47709176--47709228 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
47709166 TAAAAATTTT
47709176 AAAAAATAAA-AA-AATAAATAATAATG
1 AAAAAATAAATAATAA-AAATAATAATG
*
47709202 -AAAAATAAATAATAACAATAATAATG
1 AAAAAATAAATAATAAAAATAATAATG
47709228 A
1 A
47709229 GAATAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
25 9 0.39
26 12 0.52
27 2 0.09
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAAAATAAATAATAAAAATAATAATG
Found at i:47709329 original size:4 final size:4
Alignment explanation
Indices: 47709304--47709373 Score: 104
Period size: 4 Copynumber: 17.5 Consensus size: 4
47709294 ATACAAAAAG
* * * *
47709304 AATA AATG AATC AATG AATA AATA AATA CATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
47709352 AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AA
47709374 AGCTTTCATG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:47717875 original size:19 final size:19
Alignment explanation
Indices: 47717838--47717877 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47717828 AAATATTTGG
*
47717838 TTGAATTTTAATGAAAATT
1 TTGAATTTTAATAAAAATT
47717857 TTGAATTTT-ATAAATAATT
1 TTGAATTTTAATAAA-AATT
47717876 TT
1 TT
47717878 TTTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
TTGAATTTTAATAAAAATT
Found at i:47718929 original size:14 final size:17
Alignment explanation
Indices: 47718899--47718935 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
47718889 TATAGAAATG
47718899 AGTAATTGAATTAAAGT
1 AGTAATTGAATTAAAGT
47718916 -GTAATT-AA-TAAAGT
1 AGTAATTGAATTAAAGT
47718930 AGTAAT
1 AGTAAT
47718936 CATATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (17 bp):
AGTAATTGAATTAAAGT
Found at i:47723273 original size:14 final size:16
Alignment explanation
Indices: 47723253--47723287 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
47723243 GTTCTGTTCC
*
47723253 TTTTTTTTCTTTTT-A
1 TTTTTTTCCTTTTTCA
47723268 TTTTTTTCCTTTTTCA
1 TTTTTTTCCTTTTTCA
47723284 TTTT
1 TTTT
47723288 CTATCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTCCTTTTTCA
Found at i:47723866 original size:3 final size:3
Alignment explanation
Indices: 47723849--47723908 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
47723839 TAGTCCTTTT
*
47723849 TTA TTA -TA TTA -TA TTA TTTG TTA TTA TTA TTA TTA TTA TTGCA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT--A TTA
47723895 TATA TTA TTA TTA T
1 T-TA TTA TTA TTA T
47723909 ACTTATGTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 4 0.08
3 37 0.76
4 5 0.10
5 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:47724068 original size:7 final size:7
Alignment explanation
Indices: 47724056--47724146 Score: 51
Period size: 7 Copynumber: 12.0 Consensus size: 7
47724046 CGTATATCCA
47724056 TTTATAT
1 TTTATAT
47724063 TTTATAAT
1 TTTAT-AT
47724071 ATTCATATATT
1 -TT--TATA-T
47724082 TTTTATAT
1 T-TTATAT
*
47724090 TTTACAT
1 TTTATAT
47724097 TTTATACAT
1 TTTAT--AT
*
47724106 ATATATAT
1 -TTTATAT
47724114 TTTATAT
1 TTTATAT
*
47724121 ATTAT-T
1 TTTATAT
47724127 TTT-TAT
1 TTTATAT
*
47724133 TTTATTT
1 TTTATAT
47724140 TTTATAT
1 TTTATAT
47724147 AATATATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
5 1 0.02
6 7 0.11
7 32 0.49
8 6 0.09
9 8 0.12
10 6 0.09
11 5 0.08
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTATAT
Found at i:47724072 original size:20 final size:20
Alignment explanation
Indices: 47724049--47724088 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47724039 ATATACACGT
*
47724049 ATATCCATTTATATTTTATA
1 ATATCCATATATATTTTATA
* *
47724069 ATATTCATATATTTTTTATA
1 ATATCCATATATATTTTATA
47724089 TTTTACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATCCATATATATTTTATA
Found at i:47724115 original size:33 final size:34
Alignment explanation
Indices: 47724056--47724123 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
47724046 CGTATATCCA
* *
47724056 TTTATATTTTATAATATTCATATATTTTTTATAT
1 TTTACATTTTATAATATTCATATATTTTATATAT
47724090 TTTACATTTTATACATA-T-ATATATTTTATATAT
1 TTTACATTTTATA-ATATTCATATATTTTATATAT
47724123 T
1 T
47724124 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 15 0.48
34 13 0.42
35 3 0.10
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTACATTTTATAATATTCATATATTTTATATAT
Found at i:47724120 original size:9 final size:9
Alignment explanation
Indices: 47724058--47724147 Score: 57
Period size: 9 Copynumber: 10.4 Consensus size: 9
47724048 TATATCCATT
47724058 TATATTTTA
1 TATATTTTA
*
47724067 TA-ATATTCA
1 TATAT-TTTA
*
47724076 TATATTTTT
1 TATATTTTA
47724085 TATA-TTT-
1 TATATTTTA
*
47724092 TACATTTTA
1 TATATTTTA
* *
47724101 TACA-TATA
1 TATATTTTA
47724109 TATATTTTA
1 TATATTTTA
*
47724118 TATATTATTT
1 TATATT-TTA
*
47724128 TTTATTTTA
1 TATATTTTA
47724137 T-T-TTTTA
1 TATATTTTA
47724144 TATA
1 TATA
47724148 ATATATATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
7 9 0.14
8 16 0.25
9 29 0.46
10 9 0.14
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATTTTA
Found at i:47724128 original size:12 final size:12
Alignment explanation
Indices: 47724104--47724146 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
47724094 CATTTTATAC
47724104 ATATATATATTTT
1 ATATAT-TATTTT
47724117 ATATATTATTTT
1 ATATATTATTTT
* *
47724129 TTATTTTATTTT
1 ATATATTATTTT
*
47724141 TTATAT
1 ATATAT
47724147 AATATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATATATTATTTT
Found at i:47728696 original size:18 final size:18
Alignment explanation
Indices: 47728659--47728694 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47728649 TTATTATTTT
*
47728659 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
47728677 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
47728695 TATTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:47728988 original size:19 final size:19
Alignment explanation
Indices: 47728941--47728988 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
47728931 GAAAAAGACT
47728941 TATTTTCCGTTGACCTGTAAG
1 TATTTTCCGTTGACC--TAAG
47728962 TCATTTTCCGTTGACC-AAG
1 T-ATTTTCCGTTGACCTAAG
47728981 CTATTTTC
1 -TATTTTC
47728989 TGTAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
21 1 0.04
22 14 0.56
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (19 bp):
TATTTTCCGTTGACCTAAG
Found at i:47730112 original size:13 final size:13
Alignment explanation
Indices: 47730094--47730120 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47730084 ATCAACTACT
47730094 TGAATATTTTTGC
1 TGAATATTTTTGC
47730107 TGAATATTTTTGC
1 TGAATATTTTTGC
47730120 T
1 T
47730121 TAAATATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TGAATATTTTTGC
Found at i:47732268 original size:16 final size:16
Alignment explanation
Indices: 47732247--47732277 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47732237 TTTGATTCGC
47732247 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
47732263 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
47732278 ACGTAATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:47732283 original size:16 final size:16
Alignment explanation
Indices: 47732248--47732284 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47732238 TTGATTCGCT
**
47732248 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGAC
47732264 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
47732280 GTAAT
1 GTAAT
47732285 AGGTAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:47732358 original size:44 final size:46
Alignment explanation
Indices: 47732266--47732359 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
47732256 ATAGAGGTGT
* *
47732266 AATGGAATAGAGACGTAATAGGTAATCCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGACGTAATAGGTAATCATTGTGTTTGGTTGAATGG
*
47732312 AATGGAATAGA-ACTGTAATA-GT-ATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAGAC-GTAATAGGTAATCATTGTGTTTGGTTGAATGG
47732356 AATG
1 AATG
47732360 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 23 0.52
45 4 0.09
46 17 0.39
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAGACGTAATAGGTAATCATTGTGTTTGGTTGAATGG
Found at i:47732524 original size:26 final size:26
Alignment explanation
Indices: 47732495--47732609 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
47732485 TTAATCATAT
47732495 TTTAACATAATTATTATTAAATATAA
1 TTTAACATAATTATTATTAAATATAA
* * * * * *
47732521 TTTAATAAAATATATGAATTTACTAAAA
1 TTTAACATAAT-TAT-TATTAAATATAA
* * * *
47732549 TCATAATATATAATATTATAAAATATAA
1 T-TTAACATA-ATTATTATTAAATATAA
*
47732577 TTTAAAATAATTATTATTAAATATAA
1 TTTAACATAATTATTATTAAATATAA
47732603 TTTAACA
1 TTTAACA
47732610 AAAATATATA
Statistics
Matches: 66, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
26 30 0.45
27 9 0.14
28 17 0.26
29 9 0.14
30 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
TTTAACATAATTATTATTAAATATAA
Found at i:47732542 original size:18 final size:17
Alignment explanation
Indices: 47732515--47732631 Score: 59
Period size: 18 Copynumber: 7.0 Consensus size: 17
47732505 TTATTATTAA
47732515 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
47732532 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
* * *
47732550 -CATAATAT-ATAATATT
1 ATATAATTTAATAA-AAT
* *
47732566 ATAAAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
47732585 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
*
47732597 ATATAATTTAACAAAAAT
1 ATATAATTTAA-TAAAAT
47732615 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47732632 TCTTAGTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 24
0.64 0.14 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.07
14 3 0.04
15 4 0.06
16 7 0.10
17 20 0.28
18 26 0.36
19 3 0.04
20 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47735286 original size:51 final size:50
Alignment explanation
Indices: 47735209--47735313 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 50
47735199 ATGCTGGTTT
* * *
47735209 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATTTAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAACAAA
* *
47735260 TGATACGCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
47735310 TGAT
1 TGAT
47735314 TTATAGCTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 15 0.31
51 34 0.69
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
Found at i:47737867 original size:15 final size:16
Alignment explanation
Indices: 47737846--47737888 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
47737836 ATAAAATATA
47737846 AATTAAAATA-ATTAT
1 AATTAAAATATATTAT
*
47737861 TATT-AAATATATTAT
1 AATTAAAATATATTAT
47737876 AATTAAAATATAT
1 AATTAAAATATAT
47737889 AATTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:47737881 original size:120 final size:120
Alignment explanation
Indices: 47737735--47738142 Score: 656
Period size: 120 Copynumber: 3.4 Consensus size: 120
47737725 ATTTTAACAC
*
47737735 AATTATTTTTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
47737800 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAAAT
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAAAT
* *
47737855 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAATTCTTAATAATTAATATTC
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
* * * *
47737920 TTATATGAATTTACTCAAATCATAATATATGTTACTATAAAAGATAATTTAACAT
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAAAT
* * *
47737975 AATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATCCTTAATAATCAATATTC
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
* * *
47738040 TTATATGAATTTACTAAAATCATAATATATGATGCTATAAAATAT-AATTGGAAAT
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-AAAAT
* * *
47738095 AATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
47738143 TAAAATAATT
Statistics
Matches: 264, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
119 3 0.01
120 261 0.99
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAAAT
Found at i:47737898 original size:59 final size:59
Alignment explanation
Indices: 47737735--47738156 Score: 196
Period size: 59 Copynumber: 7.0 Consensus size: 59
47737725 ATTTTAACAC
* * * *
47737735 AATTATTTTTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAT
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAA-TATAAATAAT-AAT
* * * * * * * **
47737796 -ATTCTTATATGAATTTACTCA-AATCATAATATATGATACTATAAAATATAAATTAA-AAT
1 AATTATTAT-TAAATATA-TTATAATTAAAATATATAATTTTATAAAATATAAA-TAATAAT
* *
47737855 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAATTCTTAATAATTAAT
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAA-TATAAATAA-TAAT
* * * * * * * * * * *
47737916 -ATTCTTATATGAATTTACTCA-AATCATAATATAT-GTTACTATAAAAGATAATTTAA-CAT
1 AATTATTAT-TAAATATA-TTATAATTAAAATATATAATT-TTATAAAATATAA-ATAATAAT
* * * * *
47737975 AATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATCCTTAATAATCAAT
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAAT-ATAAATAAT-AAT
* * * * * * * * ** * *
47738036 -ATTCTTATATGAATTTACTAAAATCATAATATATGATGCTATAAAATATAATTGGA-AAT
1 AATTATTAT-TAAATATATTATAATTAAAATATATAATTTTATAAAATATAAAT-AATAAT
* * * * * *
47738095 AATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATAATTAT
1 AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAATAT-AAATAATAAT
47738155 AA
1 AA
47738157 CTAATAAATT
Statistics
Matches: 252, Mismatches: 86, Indels: 47
0.65 0.22 0.12
Matches are distributed among these distances:
58 3 0.01
59 93 0.37
60 64 0.25
61 88 0.35
62 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (59 bp):
AATTATTATTAAATATATTATAATTAAAATATATAATTTTATAAAATATAAATAATAAT
Found at i:47738009 original size:18 final size:17
Alignment explanation
Indices: 47737987--47738021 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47737977 TAATTATTAA
*
47737987 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47738005 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47738022 CCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47738080 original size:61 final size:60
Alignment explanation
Indices: 47737775--47738082 Score: 217
Period size: 61 Copynumber: 5.1 Consensus size: 60
47737765 ATATAATTTA
*
47737775 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * * * * * * **
47737836 ATAAAA-TATAAATTAA-AATAATTATTAT-TAAATATATTATAATTAAAATATATAATTTT
1 ATAAAATTCTTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* *
47737895 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGTTACT
1 ATAAAATTCTTAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
** * * *
47737956 ATAAAAGATAAT-TTAACATAATAATTATT-AAATAT-ATTTTAATTAAAAT-AT-ATA-AT-TT
1 AT-AAA-AT--TCTT-A-ATAATAA-TATTCTTATATGAATTT-ACTAAAATCATAATATATGAT
47738014 A--
58 ACT
* *
47738015 ATAAAATCCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATGCT
1 ATAAAATTCTTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
47738076 ATAAAAT
1 ATAAAAT
47738083 ATAATTGGAA
Statistics
Matches: 184, Mismatches: 39, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
54 9 0.05
55 14 0.08
56 8 0.04
57 5 0.03
58 5 0.03
59 36 0.20
60 22 0.12
61 44 0.24
62 5 0.03
63 5 0.03
64 8 0.04
65 15 0.08
66 8 0.04
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (60 bp):
ATAAAATTCTTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:47738193 original size:47 final size:46
Alignment explanation
Indices: 47738124--47738378 Score: 176
Period size: 47 Copynumber: 5.6 Consensus size: 46
47738114 TTAATTAAAA
*
47738124 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
47738171 TATATGAATTTGTATAATTTAAAATAATTATTATTAATTATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATAA-TA-AATTTTCT
* * *
47738219 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
47738262 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * * *
47738307 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTAT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
47738353 TATATGAATTTATATAATTTAAAATA
1 TATATGAATTTATATAATTTAAAATA
47738379 TTAATATTAA
Statistics
Matches: 162, Mismatches: 23, Indels: 46
0.70 0.10 0.20
Matches are distributed among these distances:
42 2 0.01
43 10 0.06
44 42 0.26
45 14 0.09
46 14 0.09
47 62 0.38
48 16 0.10
49 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:47738232 original size:18 final size:17
Alignment explanation
Indices: 47738205--47738243 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
47738195 TAATTATTAT
47738205 TAATTATAATTTAATAA
1 TAATTATAATTTAATAA
*
47738222 TAATATATAATTTCATAA
1 TAAT-TATAATTTAATAA
47738240 -AATT
1 TAATT
47738244 CTTGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 7 0.35
18 12 0.60
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTATAATTTAATAA
Found at i:47738253 original size:91 final size:91
Alignment explanation
Indices: 47738158--47738403 Score: 440
Period size: 91 Copynumber: 2.7 Consensus size: 91
47738148 TAATTATAAC
* * *
47738158 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAATTATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
47738223 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
47738249 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
47738314 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
*
47738340 TAATAAATTTTATTATATGAATTTATATAATTTAAAAT-ATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
47738404 GAACGATCAA
Statistics
Matches: 150, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 26 0.17
91 124 0.83
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:47738583 original size:20 final size:22
Alignment explanation
Indices: 47738547--47738587 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
47738537 ATGGCTATGC
47738547 TTAAATAATATTTTTTAATTAT
1 TTAAATAATATTTTTTAATTAT
47738569 TTAAA-AATA-TTTTTAATTA
1 TTAAATAATATTTTTTAATTA
47738588 AGAGAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAATAATATTTTTTAATTAT
Found at i:47738684 original size:20 final size:22
Alignment explanation
Indices: 47738643--47738688 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
47738633 TATATGTAAT
47738643 ATTATTAAAATAATATTTTTTA
1 ATTATTAAAATAATATTTTTTA
*
47738665 ATTATTTAAA-AATA-TTTTTA
1 ATTATTAAAATAATATTTTTTA
47738685 ATTA
1 ATTA
47738689 ATGCGGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 4 0.17
22 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTAAAATAATATTTTTTA
Found at i:47744648 original size:25 final size:25
Alignment explanation
Indices: 47744619--47744669 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47744609 CACATATACT
47744619 AAGTATTAATTTCACATTAAAATCA
1 AAGTATTAATTTCACATTAAAATCA
47744644 AAGTATTAATTTCACATTAAAATCA
1 AAGTATTAATTTCACATTAAAATCA
47744669 A
1 A
47744670 TTTCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
AAGTATTAATTTCACATTAAAATCA
Found at i:47745312 original size:13 final size:13
Alignment explanation
Indices: 47745294--47745325 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
47745284 ATCGACTAAG
47745294 CAATTCCAAGCTT
1 CAATTCCAAGCTT
47745307 CAATTCCAAGCTT
1 CAATTCCAAGCTT
47745320 CAATTC
1 CAATTC
47745326 TGATTATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (13 bp):
CAATTCCAAGCTT
Found at i:47750895 original size:19 final size:19
Alignment explanation
Indices: 47750873--47750910 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47750863 GAGTTTATCT
47750873 TAGTTAATTAAGTTGCTGG
1 TAGTTAATTAAGTTGCTGG
47750892 TAGTTAATTAAGTTGCTGG
1 TAGTTAATTAAGTTGCTGG
47750911 AATAAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TAGTTAATTAAGTTGCTGG
Found at i:47750948 original size:19 final size:19
Alignment explanation
Indices: 47750921--47750959 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47750911 AATAAATTAC
47750921 TCATATTAGTTAATTAAGT
1 TCATATTAGTTAATTAAGT
* *
47750940 TCATCTTAGTTAATTTAGT
1 TCATATTAGTTAATTAAGT
47750959 T
1 T
47750960 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATATTAGTTAATTAAGT
Found at i:47751085 original size:9 final size:10
Alignment explanation
Indices: 47751062--47751098 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
47751052 TAAGTCTAAT
47751062 ATGTGTTTAA
1 ATGTGTTTAA
47751072 ATGTGTTT-A
1 ATGTGTTTAA
47751081 ATGTGTTTAA
1 ATGTGTTTAA
47751091 ATGTGTTT
1 ATGTGTTT
47751099 GTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:47751086 original size:19 final size:19
Alignment explanation
Indices: 47751062--47751098 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
47751052 TAAGTCTAAT
47751062 ATGTGTTTAAATGTGTTTA
1 ATGTGTTTAAATGTGTTTA
47751081 ATGTGTTTAAATGTGTTT
1 ATGTGTTTAAATGTGTTT
47751099 GTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (19 bp):
ATGTGTTTAAATGTGTTTA
Found at i:47751150 original size:64 final size:64
Alignment explanation
Indices: 47751076--47751195 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
47751066 GTTTAAATGT
*
47751076 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACATGTGACTATTTAGTTGCTTATTAA
1 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTGCTTATTAA
* * *
47751140 GTTTAGTGTGTTTAAATGTGTTTGTTAATAAATGTTTGCAGGTGACTATTTAGTTG
1 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTG
47751196 GAATCAGTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (64 bp):
GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTGCTTATTAA
Found at i:47753872 original size:102 final size:104
Alignment explanation
Indices: 47753739--47753951 Score: 378
Period size: 102 Copynumber: 2.1 Consensus size: 104
47753729 TTTTATAACA
47753739 AAAATAACTTTTTTATTTTTAAACTAATAGGATACAAATACTAAATCAATCTACAAATAATTCTA
1 AAAATAACTTTTTTATTTTTAAACTAATAGGATACAAATACTAAATCAATCTACAAATAATTCTA
47753804 TAAATCAATTTATTAAAAA-AATAAAGTTATTATTATTT
66 TAAATCAATTTATTAAAAATAATAAAGTTATTATTATTT
*
47753842 AAAATAAC-TTTTTATTTTTTAAA-TAATAGGATACAAATACTAAATCGATCTACAAATAATTCT
1 AAAATAACTTTTTTA-TTTTTAAACTAATAGGATACAAATACTAAATCAATCTACAAATAATTCT
*
47753905 ATAAATCAATTTATTAAAAATAATAGAGTTATTATTATTT
65 ATAAATCAATTTATTAAAAATAATAAAGTTATTATTATTT
47753945 AAAATAA
1 AAAATAA
47753952 TAATTATTTA
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
102 65 0.61
103 41 0.39
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (104 bp):
AAAATAACTTTTTTATTTTTAAACTAATAGGATACAAATACTAAATCAATCTACAAATAATTCTA
TAAATCAATTTATTAAAAATAATAAAGTTATTATTATTT
Found at i:47762265 original size:11 final size:11
Alignment explanation
Indices: 47762245--47762288 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
47762235 AGATAAATGT
*
47762245 TATTTAATTAA
1 TATTTTATTAA
47762256 TATTTTATTAA
1 TATTTTATTAA
* *
47762267 GATTTTTATTAT
1 TA-TTTTATTAA
47762279 TATTTTATTA
1 TATTTTATTA
47762289 TTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:47764883 original size:19 final size:18
Alignment explanation
Indices: 47764831--47764883 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
47764821 AAATAGATAT
47764831 AATTATTTTGGTTAAAGTTA
1 AATTATTTTGG--AAAGTTA
*
47764851 AAATATTTAT-GAAAGTTA
1 AATTATTT-TGGAAAGTTA
47764869 ATATTATTTTGGAAA
1 A-ATTATTTTGGAAA
47764884 AAAATATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 10 0.36
20 8 0.29
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
AATTATTTTGGAAAGTTA
Found at i:47767007 original size:17 final size:17
Alignment explanation
Indices: 47766968--47767009 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47766958 AATTAGAATG
*
47766968 TAAAAATTAAAATAAAA
1 TAAAAAATAAAATAAAA
*
47766985 -ACAAAAATATAATAAAA
1 TA-AAAAATAAAATAAAA
47767002 TAAAAAAT
1 TAAAAAAT
47767010 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAAATAAAATAAAA
Found at i:47770600 original size:30 final size:30
Alignment explanation
Indices: 47770564--47770632 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
47770554 TCCACTTGAC
* *
47770564 TTAGATAGCCAC-AGAGGTGTCCATACATCA
1 TTAGATAGCCACAAG-GGTGTCCACAAATCA
47770594 TTAGATAGCCACAAGGGTGTCCACAAATCA
1 TTAGATAGCCACAAGGGTGTCCACAAATCA
47770624 TTAGATAGC
1 TTAGATAGC
47770633 AATAAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (30 bp):
TTAGATAGCCACAAGGGTGTCCACAAATCA
Found at i:47771086 original size:54 final size:54
Alignment explanation
Indices: 47771026--47771221 Score: 236
Period size: 53 Copynumber: 3.7 Consensus size: 54
47771016 CACATGATAC
* * * * **
47771026 CATAGTCCCAGATTAGGTCTTACACTATGTGGTCTTCGTATCCCCATATGAT-T
1 CATAGTCCTAGACTAGGTCTTACACTATATGGTCTTCTTATCTTCATATGATGT
* * * *
47771079 CCATAGTCTTAGATTAGGTCTTACATTATATGATCTTCTTATCTTCATATGATGT
1 -CATAGTCCTAGACTAGGTCTTACACTATATGGTCTTCTTATCTTCATATGATGT
* *
47771134 -TTAGTCTTAGACTAGGTCTTACACTATATGGTCTTCTTATCTTCATATGATGT
1 CATAGTCCTAGACTAGGTCTTACACTATATGGTCTTCTTATCTTCATATGATGT
* *
47771187 C-TAATCCTAGACTAGGTCTTACACTATATGATCTT
1 CATAGTCCTAGACTAGGTCTTACACTATATGGTCTT
47771222 TTTGCCATGG
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
53 80 0.64
54 44 0.35
55 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (54 bp):
CATAGTCCTAGACTAGGTCTTACACTATATGGTCTTCTTATCTTCATATGATGT
Found at i:47771837 original size:27 final size:26
Alignment explanation
Indices: 47771807--47771872 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
47771797 TTATACAGTA
47771807 ACAGTACAGTATAGCCCTTGGCCCAAT
1 ACAGTACAGTAT-GCCCTTGGCCCAAT
* * *
47771834 ACAGTAACAGTGTGGCCTTGGCCCAGT
1 ACAGT-ACAGTATGCCCTTGGCCCAAT
*
47771861 TCAGTATCAGTA
1 ACAGTA-CAGTA
47771873 CAGTGCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 25 0.78
28 6 0.19
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (26 bp):
ACAGTACAGTATGCCCTTGGCCCAAT
Found at i:47772273 original size:27 final size:27
Alignment explanation
Indices: 47772235--47772511 Score: 303
Period size: 27 Copynumber: 10.3 Consensus size: 27
47772225 ACCCTACGAG
47772235 GTCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCA
**
47772262 GTCATTTTACCCTTTAGGGGTATTTC-
1 GTCATTTTACCCTTCGGGGGTATTTCA
47772288 GATCATTTTACCCCTT--GGGGTATTTC-
1 G-TCATTTTA-CCCTTCGGGGGTATTTCA
* *
47772314 GATCATTTTACCCTACGGGGGTATTTTA
1 G-TCATTTTACCCTTCGGGGGTATTTCA
* * * *
47772342 GTCATTTTACCCTACAGAGTTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCA
*
47772369 GTCATTTTACCCTTCGGGGGTATTT-T
1 GTCATTTTACCCTTCGGGGGTATTTCA
* *
47772395 GATTATTTTACCCTTCGAGGGTATTTCA
1 G-TCATTTTACCCTTCGGGGGTATTTCA
**
47772423 GTCATTTTACCCTTCAAGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCA
* *
47772450 GTCATTTTACCCCTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCA
* * ** *
47772477 GTCATTTTATCTTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGGGGGTATTTCA
47772504 GTCATTTT
1 GTCATTTT
47772512 CCCAAAAATC
Statistics
Matches: 218, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.02
26 22 0.10
27 185 0.85
28 7 0.03
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTCA
Found at i:47773934 original size:48 final size:48
Alignment explanation
Indices: 47773861--47773954 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
47773851 TTTTTTGGCT
* *
47773861 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAAAGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
47773909 TAAAAACGCCTAAGTCAG-CTCAACTTGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTCCAACAATAAAGGATTCAAC
47773955 AGAAATTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:47776456 original size:48 final size:48
Alignment explanation
Indices: 47776372--47776465 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
47776362 TTTCTTGGCT
* * *
47776372 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAAAGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATGCAACCG
47776420 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATGCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATGCAAC
47776466 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATGCAACCG
Found at i:47782032 original size:10 final size:9
Alignment explanation
Indices: 47782007--47782031 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47781997 ATTTTTAAAG
47782007 AATTTTTGT
1 AATTTTTGT
47782016 AATTTTTGT
1 AATTTTTGT
47782025 AATTTTT
1 AATTTTT
47782032 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
AATTTTTGT
Found at i:47787821 original size:29 final size:29
Alignment explanation
Indices: 47787787--47787845 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47787777 TGAGGAATAA
*
47787787 TAATAATTTATTTTCTCAAAAGAATTCAT
1 TAATAATTAATTTTCTCAAAAGAATTCAT
47787816 TAATAATTAATTTTCTCAAAAGAATTCAT
1 TAATAATTAATTTTCTCAAAAGAATTCAT
47787845 T
1 T
47787846 CTTTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (29 bp):
TAATAATTAATTTTCTCAAAAGAATTCAT
Found at i:47792096 original size:50 final size:50
Alignment explanation
Indices: 47792005--47792236 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 50
47791995 TCTTGTACTA
* * * **
47792005 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGATG
* * * * * *
47792055 CCCATGCCCTGTTCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGATG
* * * *
47792105 CCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATTTCAATAATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--TC---GATG
* *
47792161 CCAATGCCATGTCCCAGACATGGTCTTACACTG-G--CTCACATATCGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCTCATATCGATG
* * * * *
47792209 TCGATGCCATGTCCTAGACATGTTCTTA
1 CCAACGCCATGTCCCAGACATGGTCTTA
47792237 TACGAGATCG
Statistics
Matches: 147, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
48 27 0.18
50 77 0.52
51 2 0.01
53 3 0.02
54 6 0.04
56 30 0.20
57 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGATG
Found at i:47795653 original size:20 final size:21
Alignment explanation
Indices: 47795622--47795660 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47795612 TTAATGTATG
*
47795622 ATCATATTAAATTATTTAAAT
1 ATCATATTAAATTAATTAAAT
47795643 ATCAT-TTAAATTAATTAA
1 ATCATATTAAATTAATTAA
47795661 TTAATGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
ATCATATTAAATTAATTAAAT
Found at i:47809395 original size:22 final size:22
Alignment explanation
Indices: 47809370--47809413 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47809360 CAATCATGGA
*
47809370 TCTCCTTAAGAATAATCTTCCT
1 TCTCCTAAAGAATAATCTTCCT
47809392 TCTCCTAAAGAATAATCTTCCT
1 TCTCCTAAAGAATAATCTTCCT
47809414 AACACTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (22 bp):
TCTCCTAAAGAATAATCTTCCT
Found at i:47812785 original size:41 final size:41
Alignment explanation
Indices: 47812724--47812827 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
47812714 ACTGGCCTTT
* * * *
47812724 AGCCTGCTAGACCTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
* *
47812765 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
*
47812806 AGCCTGCTAGATGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTG
47812828 TATTACATTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
Found at i:47813091 original size:12 final size:12
Alignment explanation
Indices: 47813076--47813131 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
47813066 ACTCAAAACT
47813076 TATATATATACA
1 TATATATATACA
**
47813088 TATATATATTTGA
1 TATATATA-TACA
*
47813101 GTATTATACATACA
1 -TA-TATATATACA
47813115 TATATATATACA
1 TATATATATACA
47813127 TATAT
1 TATAT
47813132 TAGACTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 22 0.63
13 4 0.11
14 4 0.11
15 5 0.14
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (12 bp):
TATATATATACA
Found at i:47818500 original size:14 final size:15
Alignment explanation
Indices: 47818473--47818501 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47818463 TTGATGACTT
47818473 CCTAAGGTTTTCAAG
1 CCTAAGGTTTTCAAG
47818488 CCTAAGG-TTTCAAG
1 CCTAAGGTTTTCAAG
47818502 ATCTTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (15 bp):
CCTAAGGTTTTCAAG
Found at i:47820728 original size:238 final size:238
Alignment explanation
Indices: 47820302--47820781 Score: 775
Period size: 238 Copynumber: 2.0 Consensus size: 238
47820292 TAAGGTTAAA
*
47820302 TTAGTAAATTAGTTAATAAGTGAATTAAAACAAAAGAAATAATGTATTATCTTCTTTAATTTGTT
1 TTAGTAAATTAGTTAATAAGTGAATTAAAACAAAAGAAATAATGTATCATCTTCTTTAATTTGTT
* * * *
47820367 AAACACCATCGAAAATTGAACGAAAAGAAACCATAGAAGCTTGAACATTTGGCCATCCTTATTTT
66 AAACACCACCGAAAATTGAACGAAAAGAAACCATAAAAGCTTGAACATTCGACCATCCTTATTTT
* *
47820432 GCTTGCATGTGAGTATTTTTCGTCCTATTTTTAATGATTTCTATGTTTTAGGATCGTTGTAGCTT
131 GCTTGCATGTGAGTATTTTTCGTCCTAGTTTTAATGATTTCTATGTTTTAGAATCGTTGTAGCTT
47820497 AATCTAGCAAGCTCGGGGACTAATTTGCAAACCTGTTAATAA-G
196 AATCTAGCAAGCTCGGGGACTAATTTGCAAACCTGTTAA-AAGG
* * *
47820540 TTAGTAAATTAGTTAATAAGTGAATTAAAATAAAATAAATAATGTATCATCTTTTTTAATTTGTT
1 TTAGTAAATTAGTTAATAAGTGAATTAAAACAAAAGAAATAATGTATCATCTTCTTTAATTTGTT
* * *
47820605 AAACACCACCGAAAGTTGAAGGAAAAGAAACTA-AAAAGCTTGAACATTCGACCATCCTTATTTT
66 AAACACCACCGAAAATTGAACGAAAAGAAACCATAAAAGCTTGAACATTCGACCATCCTTATTTT
* *
47820669 GCTTGCATGTGAGTATTTTTTGTCCTGGTTTTAATGATTTCTATGTTTTTAGAATCGTTGTAGCT
131 GCTTGCATGTGAGTATTTTTCGTCCTAGTTTTAATGATTTCTATG-TTTTAGAATCGTTGTAGCT
* *
47820734 TAATCTAGCTAGCTTGGGGACTAATTTGCAAACCTGTTAAAAGG
195 TAATCTAGCAAGCTCGGGGACTAATTTGCAAACCTGTTAAAAGG
47820778 TTAG
1 TTAG
47820782 GGTTTTGCCA
Statistics
Matches: 223, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
237 72 0.32
238 151 0.68
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (238 bp):
TTAGTAAATTAGTTAATAAGTGAATTAAAACAAAAGAAATAATGTATCATCTTCTTTAATTTGTT
AAACACCACCGAAAATTGAACGAAAAGAAACCATAAAAGCTTGAACATTCGACCATCCTTATTTT
GCTTGCATGTGAGTATTTTTCGTCCTAGTTTTAATGATTTCTATGTTTTAGAATCGTTGTAGCTT
AATCTAGCAAGCTCGGGGACTAATTTGCAAACCTGTTAAAAGG
Found at i:47821082 original size:21 final size:20
Alignment explanation
Indices: 47821053--47821105 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
47821043 ATTTTGATAA
47821053 AATATGAATTTTGATTGAATTG
1 AATA-GAATTTT-ATTGAATTG
*
47821075 AATAGAATAATTATTGAATTG
1 AATAGAAT-TTTATTGAATTG
*
47821096 AATTGAATTT
1 AATAGAATTT
47821106 GTTCATTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (20 bp):
AATAGAATTTTATTGAATTG
Found at i:47825351 original size:88 final size:88
Alignment explanation
Indices: 47825227--47825399 Score: 337
Period size: 88 Copynumber: 2.0 Consensus size: 88
47825217 TCATCTAGCT
*
47825227 TTGTTTCCTAATCCTTTCAACTTGGGTTTTCTGTTTTCTTTAGAATCTGTTTTATTTCACAATTA
1 TTGTTTCCTAATCCTTTCAACTTGGGTTTTCTGTTTTCTTTAGAATCTATTTTATTTCACAATTA
47825292 GACACTTTTGCTTGCCCATTAGA
66 GACACTTTTGCTTGCCCATTAGA
47825315 TTGTTTCCTAATCCTTTCAACTTGGGTTTTCTGTTTTCTTTAGAATCTATTTTATTTCACAATTA
1 TTGTTTCCTAATCCTTTCAACTTGGGTTTTCTGTTTTCTTTAGAATCTATTTTATTTCACAATTA
47825380 GACACTTTTGCTTGCCCATT
66 GACACTTTTGCTTGCCCATT
47825400 TTACAAATTC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.50
Consensus pattern (88 bp):
TTGTTTCCTAATCCTTTCAACTTGGGTTTTCTGTTTTCTTTAGAATCTATTTTATTTCACAATTA
GACACTTTTGCTTGCCCATTAGA
Found at i:47828955 original size:17 final size:17
Alignment explanation
Indices: 47828935--47828979 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
47828925 GTTGTTCTAG
* *
47828935 TTTGAAAGTATTTTGTT
1 TTTGAAAATATTTGGTT
47828952 TTTGAAAAATATTTGGTT
1 TTTG-AAAATATTTGGTT
*
47828970 TTTGATAATA
1 TTTGAAAATA
47828980 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
TTTGAAAATATTTGGTT
Found at i:47837909 original size:60 final size:61
Alignment explanation
Indices: 47837780--47837932 Score: 193
Period size: 60 Copynumber: 2.5 Consensus size: 61
47837770 AATTTCTAGT
* * *
47837780 CCCAAATTTTAAACCGTAGTTTAAAAAAGAA-TTCCTTTTCAAATTTTGATTATTTTAGTTTA
1 CCCAAATTATAAACCGTA-ATTAAAAAA-AACTTCCTTTTCAAATTTTGAATATTTTAGTTTA
* ** * *
47837842 CCCAAATTATAAACGGTAATTAAAAAAAACTTTTTTTTCAAATTTT-AATATTTTGGTTTG
1 CCCAAATTATAAACCGTAATTAAAAAAAACTTCCTTTTCAAATTTTGAATATTTTAGTTTA
*
47837902 CCCAAATTATAAACCGTAGTTAAAAAAAACT
1 CCCAAATTATAAACCGTAATTAAAAAAAACT
47837933 CTTTCTTCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 42 0.52
61 22 0.28
62 16 0.20
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (61 bp):
CCCAAATTATAAACCGTAATTAAAAAAAACTTCCTTTTCAAATTTTGAATATTTTAGTTTA
Done.