Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 321 of 335
Found at i:94471529 original size:149 final size:150
Alignment explanation
Indices: 94471049--94471649 Score: 1109
Period size: 149 Copynumber: 4.0 Consensus size: 150
94471039 ACTACTAGTA
*
94471049 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGTAACCAGTGGT
1 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
94471114 GCAGCTGCAAATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCT
66 GCAGCTG--AATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCT
94471179 TGGAATAACACCTGCTTATTTG
129 TGGAATAACACCTGCTTATTTG
*
94471201 CCAGTCTCACTATCAGCTCGAGTTC-AACTCATTGAATTATGCAAATAGTGCAGCAACCAGTGGT
1 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
94471265 GCAGCTGCAAATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCT
66 GCAGCTG--AATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCT
94471330 TGGAATAACACCTGCTTATTTG
129 TGGAATAACACCTGCTTATTTG
94471352 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
1 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
* *
94471417 GCAGCTG-ATAATACTGATGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCATTTTCTTG
66 GCAGCTGAATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCTTG
94471481 GAATAACACCTGCTTATTTG
131 GAATAACACCTGCTTATTTG
94471501 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
1 CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
94471566 GCAGCTG-ATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCTTG
66 GCAGCTGAATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCTTG
94471630 GAATAACACCTGCTTATTTG
131 GAATAACACCTGCTTATTTG
94471650 TGGCAAACTC
Statistics
Matches: 441, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
149 222 0.50
151 149 0.34
152 70 0.16
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (150 bp):
CCAGTCTCACTATCAGCTCGAGTTCAAACTCATTGAATTATGCAAATAGTGCTGCAACCAGTGGT
GCAGCTGAATAATACTGGTGATTCAGGAGAACCTGGTGTTGGTGGTGTGCCTAATCGTTTTCTTG
GAATAACACCTGCTTATTTG
Found at i:94479821 original size:23 final size:23
Alignment explanation
Indices: 94479793--94479837 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
94479783 CGAAACTTGA
*
94479793 ATTACTTATTCGAGTTGACTCGT
1 ATTACTTATTCAAGTTGACTCGT
*
94479816 ATTACTTATTCAAGTTTACTCG
1 ATTACTTATTCAAGTTGACTCG
94479838 AATAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (23 bp):
ATTACTTATTCAAGTTGACTCGT
Found at i:94481411 original size:18 final size:17
Alignment explanation
Indices: 94481375--94481418 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
94481365 TTCGAAATAG
94481375 ATAAAAATAATAATAAA
1 ATAAAAATAATAATAAA
* *
94481392 ATAAAAATCATATATGAA
1 ATAAAAATAATA-ATAAA
*
94481410 ATAATAATA
1 ATAAAAATA
94481419 TTTAAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAAAATAATAATAAA
Found at i:94481646 original size:34 final size:33
Alignment explanation
Indices: 94481608--94481713 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
94481598 TTAGAAGAAG
94481608 ATATACATACATAAAATAATATGAAATTAATAAT
1 ATATACATACATAAAATAATA-GAAATTAATAAT
* * * **
94481642 ATATATACACATAAAA-AATGAAAAATTAA-AGG
1 ATATACATACATAAAATAAT-AGAAATTAATAAT
* ** *
94481674 ACATATTTACATAAAATAATAGGAAATCAATAAT
1 ATATACATACATAAAATAATA-GAAATTAATAAT
*
94481708 GTATAC
1 ATATAC
94481714 TTAGAGTAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
32 15 0.28
33 19 0.36
34 19 0.36
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.28
Consensus pattern (33 bp):
ATATACATACATAAAATAATAGAAATTAATAAT
Found at i:94481650 original size:32 final size:31
Alignment explanation
Indices: 94481608--94481712 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 31
94481598 TTAGAAGAAG
*
94481608 ATATACATACATAAAATAATATGAAATTAATA
1 ATATATATACATAAAATAATA-GAAATTAATA
*
94481640 ATATATATACACATAAAA-AATGAAAAATTAA-A
1 ATATATAT--ACATAAAATAAT-AGAAATTAATA
* * *
94481672 GGACATATTTACATAAAATAATAGGAAATCAATA
1 --ATATATATACATAAAATAATA-GAAATTAATA
*
94481706 ATGTATA
1 ATATATA
94481713 CTTAGAGTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
32 21 0.38
33 19 0.34
34 16 0.29
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (31 bp):
ATATATATACATAAAATAATAGAAATTAATA
Found at i:94486820 original size:16 final size:15
Alignment explanation
Indices: 94486798--94486839 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
94486788 AATACATAAT
94486798 AAATAATATATAAAA
1 AAATAATATATAAAA
*
94486813 ACAATAATAATATATAA
1 A-AATAAT-ATATAAAA
94486830 AAATAATATA
1 AAATAATATA
94486840 CGATAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 12 0.50
17 8 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAATATATAAAA
Found at i:94486823 original size:19 final size:19
Alignment explanation
Indices: 94486799--94486837 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
94486789 ATACATAATA
94486799 AATAATATATAAAAACAAT
1 AATAATATATAAAAACAAT
*
94486818 AATAATATATAAAAATAAT
1 AATAATATATAAAAACAAT
94486837 A
1 A
94486838 TACGATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AATAATATATAAAAACAAT
Found at i:94490980 original size:6 final size:6
Alignment explanation
Indices: 94490941--94491006 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
94490931 TATATTGTTG
* **
94490941 GAAAGT GAAATTT GAAA-T G-AATT GTTATT G-AATT GAAATT GAAATT
1 GAAATT GAAA-TT GAAATT GAAATT GAAATT GAAATT GAAATT GAAATT
94490987 GAAATT GAAA-T GTAAATT GA
1 GAAATT GAAATT G-AAATT GA
94491007 TTGGAAAAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 32 0.63
7 7 0.14
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (6 bp):
GAAATT
Found at i:94491926 original size:45 final size:45
Alignment explanation
Indices: 94491812--94492081 Score: 380
Period size: 45 Copynumber: 6.0 Consensus size: 45
94491802 TACTACTACT
* * *
94491812 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACT
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTACC
* *
94491857 GTT-CTGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACC
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTACC
* *
94491901 ATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACC
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTACC
* * *
94491946 GTTACCGATTTAGCACATTTTGTGTGTCGAATATTGTTATTGTTACT
1 GTTACCGATTCAGCAC--TTTGTGTGTCGAATATTGTTACTGTTACC
* *
94491993 GTTACCGATTCAGCACTTTGTGTGTCGAATAGTGTTATTGTTACC
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTACC
* * *
94492038 GTTACCGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTAC
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTAC
94492082 TATTACTGTT
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
44 40 0.20
45 123 0.60
47 42 0.20
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (45 bp):
GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGTTACC
Found at i:94492009 original size:92 final size:91
Alignment explanation
Indices: 94491808--94492087 Score: 395
Period size: 92 Copynumber: 3.1 Consensus size: 91
94491798 CTGCTACTAC
* * * * *
94491808 TACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTT-CTGATTCGGCAC
1 TACTATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTCAGCAC
94491872 -TTTGTGTGTCGAATATTGTTACTGT
66 ATTTGTGTGTCGAATATTGTTACTGT
* *
94491897 TACCATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTTAGCAC
1 TACTATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTCAGCAC
*
94491962 ATTTTGTGTGTCGAATATTGTTATTGT
66 A-TTTGTGTGTCGAATATTGTTACTGT
* * * * *
94491989 TACTGTTACCGATTCAGCACTTTGTGTGTCGAATAGTGTTATTGTTACCGTTACCGATTCAACAC
1 TACTATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTCAGCAC
* *
94492054 -TTTGTGTGTTGAATACTGTTACTGT
66 ATTTGTGTGTCGAATATTGTTACTGT
94492079 TACTATTAC
1 TACTATTAC
94492088 TGTTACTGCT
Statistics
Matches: 169, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
89 48 0.28
90 39 0.23
92 82 0.49
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (91 bp):
TACTATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACCGATTCAGCAC
ATTTGTGTGTCGAATATTGTTACTGT
Found at i:94492074 original size:137 final size:134
Alignment explanation
Indices: 94491812--94492081 Score: 396
Period size: 137 Copynumber: 2.0 Consensus size: 134
94491802 TACTACTACT
* * *
94491812 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTCTGATTCGGCACTTTGT
1 GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTCCGATTCAGCACTTTGT
* ** *
94491877 GTGTCGAATATTGTTACTGTTACCATTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGT
66 GTGTCGAATAGTGTTACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGTTACTGT
94491942 TACC
131 TACC
* * *
94491946 GTTACCGATTTAGCACATTTTGTGTGTCGAATATTGTTATTGTTACTGTTACCGATTCAGCACTT
1 GTTACCGATTCAGCAC--TTTGTGTGTCGAATATTGTTACTGCTACTGTT-CCGATTCAGCACTT
* * *
94492011 TGTGTGTCGAATAGTGTTATTGTTACCGTTACCGATTCAACACTTTGTGTGTTGAATACTGTTAC
63 TGTGTGTCGAATAGTGTTACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGTTAC
94492076 TGTTAC
128 TGTTAC
94492082 TATTACTGTT
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
134 14 0.12
136 30 0.25
137 76 0.63
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (134 bp):
GTTACCGATTCAGCACTTTGTGTGTCGAATATTGTTACTGCTACTGTTCCGATTCAGCACTTTGT
GTGTCGAATAGTGTTACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGTTACTGT
TACC
Found at i:94492078 original size:6 final size:6
Alignment explanation
Indices: 94492067--94492116 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
94492057 GTGTGTTGAA
* *
94492067 TACTGT TACTGT TACTAT TACTGT TACTGC TACTGT TACTGAT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT
94492116 T
1 T
94492117 CTGGTACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:94492124 original size:18 final size:17
Alignment explanation
Indices: 94492067--94492124 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
94492057 GTGTGTTGAA
*
94492067 TACTGTTACTGTTACTAT
1 TACTGTTACTGTT-CTGT
*
94492085 TACTGTTACTGCTACTGT
1 TACTGTTACTG-TTCTGT
*
94492103 TACTGATTACTGTTCTGG
1 TACTG-TTACTGTTCTGT
94492121 TACT
1 TACT
94492125 ATGTACCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 27 0.79
19 7 0.21
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (17 bp):
TACTGTTACTGTTCTGT
Found at i:94493023 original size:13 final size:13
Alignment explanation
Indices: 94493005--94493033 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
94492995 TAAAAATTAA
94493005 TAAAAATTAGAAT
1 TAAAAATTAGAAT
94493018 TAAAAATTAGAAT
1 TAAAAATTAGAAT
94493031 TAA
1 TAA
94493034 GCAAGCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
TAAAAATTAGAAT
Found at i:94493091 original size:3 final size:3
Alignment explanation
Indices: 94493085--94493134 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
94493075 TTAAATGATG
94493085 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
94493133 AT
1 AT
94493135 GATGATGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:94495064 original size:29 final size:29
Alignment explanation
Indices: 94495022--94495080 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
94495012 CATTTTCAAA
94495022 CTTAACAATGATCAAAAGAGTATTTACAC
1 CTTAACAATGATCAAAAGAGTATTTACAC
*
94495051 CTTAACAGTGATCAAAAGAGTATTTACAC
1 CTTAACAATGATCAAAAGAGTATTTACAC
94495080 C
1 C
94495081 AATTTATTAT
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:0.19, G:0.12, T:0.27
Consensus pattern (29 bp):
CTTAACAATGATCAAAAGAGTATTTACAC
Found at i:94495188 original size:59 final size:59
Alignment explanation
Indices: 94495096--94495225 Score: 242
Period size: 59 Copynumber: 2.2 Consensus size: 59
94495086 ATTATTCAAA
*
94495096 TTATTCGAGTTATTAGAATTGTAAAATTTAACTCGATTCGAACTTGAAACTTGAATTAC
1 TTATTCGAGTTATTAGAATTGTAAAATTTAACTCGATTCGAACTCGAAACTTGAATTAC
*
94495155 TTATTCGAGTTATTAGAATTGTAAAATTTAACTCGATTTGAACTCGAAACTTGAATTAC
1 TTATTCGAGTTATTAGAATTGTAAAATTTAACTCGATTCGAACTCGAAACTTGAATTAC
94495214 TTATTCGAGTTA
1 TTATTCGAGTTA
94495226 ACTCGAATAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (59 bp):
TTATTCGAGTTATTAGAATTGTAAAATTTAACTCGATTCGAACTCGAAACTTGAATTAC
Found at i:94504410 original size:6 final size:6
Alignment explanation
Indices: 94504395--94504424 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
94504385 TAATATTTTT
94504395 AATTTCA AATTTA AATTTA AATTTA AATTT
1 AATTT-A AATTTA AATTTA AATTTA AATTT
94504425 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:94505052 original size:27 final size:27
Alignment explanation
Indices: 94505022--94505073 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
94505012 GAAAATTAAT
94505022 AATTTTTAAAAAATATAT-AAATTTTGG
1 AATTTTT-AAAAATATATCAAATTTTGG
* *
94505049 AATTTTTATAAATATTTCAAATTTT
1 AATTTTTAAAAATATATCAAATTTT
94505074 AAAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (27 bp):
AATTTTTAAAAATATATCAAATTTTGG
Found at i:94512092 original size:19 final size:18
Alignment explanation
Indices: 94512055--94512092 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
94512045 GCCGGCGCCA
94512055 GCGACGGACGGTGGTCCG
1 GCGACGGACGGTGGTCCG
94512073 GCGATCGGACCGGTGG-CCG
1 GCGA-CGGA-CGGTGGTCCG
94512092 G
1 G
94512093 TCCATGGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.11, C:0.29, G:0.50, T:0.11
Consensus pattern (18 bp):
GCGACGGACGGTGGTCCG
Found at i:94512626 original size:18 final size:17
Alignment explanation
Indices: 94512601--94512646 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
94512591 ATTCTGTTAT
*
94512601 TTATTTATTTATTATTA
1 TTATTTATTTACTATTA
*
94512618 TTATGTTATTTACTGTTA
1 TTAT-TTATTTACTATTA
94512636 TTATTATATTT
1 TTATT-TATTT
94512647 TTTTGCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTATTTACTATTA
Found at i:94512812 original size:2 final size:2
Alignment explanation
Indices: 94512805--94512840 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
94512795 TTTATTCCTA
94512805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94512841 TGTGTATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94512946 original size:25 final size:24
Alignment explanation
Indices: 94512918--94512979 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
94512908 TATTTATATA
94512918 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
94512943 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
94512966 TATT-TTATGTATAT
1 TATTATTATGTATAT
94512980 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:94512997 original size:19 final size:19
Alignment explanation
Indices: 94512973--94513010 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
94512963 TACTATTTTA
*
94512973 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
94512992 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
94513011 CATTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:94513133 original size:23 final size:25
Alignment explanation
Indices: 94513084--94513133 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
94513074 TCGTTTCTAA
* *
94513084 TATATATGTGTATCGTATATGTTTT
1 TATATATGTGTATCGTATATATCTT
94513109 TATATATGT-TAT-GTATATATCTT
1 TATATATGTGTATCGTATATATCTT
94513132 TA
1 TA
94513134 GTATTATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (25 bp):
TATATATGTGTATCGTATATATCTT
Found at i:94513501 original size:21 final size:21
Alignment explanation
Indices: 94513477--94513528 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
94513467 ACTATTATTT
* *
94513477 TATTTATTTTTATTCCTAGTA
1 TATTTATTTTTAATACTAGTA
* *
94513498 TATTTATTATTAATATTAGTA
1 TATTTATTTTTAATACTAGTA
*
94513519 TATGTATTTT
1 TATTTATTTT
94513529 ATTATACGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTTATTTTTAATACTAGTA
Found at i:94516068 original size:14 final size:14
Alignment explanation
Indices: 94516049--94516075 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94516039 AGCGTTTGAT
94516049 CGAATTGAGTGAAC
1 CGAATTGAGTGAAC
94516063 CGAATTGAGTGAA
1 CGAATTGAGTGAA
94516076 AAATTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (14 bp):
CGAATTGAGTGAAC
Found at i:94516365 original size:10 final size:10
Alignment explanation
Indices: 94516350--94516378 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
94516340 TCTCAAAATT
94516350 ATTATTTTAA
1 ATTATTTTAA
94516360 ATTATTTTAA
1 ATTATTTTAA
94516370 ATT-TTTTAA
1 ATTATTTTAA
94516379 CTTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTTTAA
Found at i:94516427 original size:18 final size:18
Alignment explanation
Indices: 94516404--94516457 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
94516394 TTTAGAATTT
94516404 ATTTTTGAAAATTTTATA
1 ATTTTTGAAAATTTTATA
* **
94516422 ATTTTTTAAAA-AATATA
1 ATTTTTGAAAATTTTATA
* *
94516439 AATTTTGAAATTTTTATA
1 ATTTTTGAAAATTTTATA
94516457 A
1 A
94516458 ATATTTTGAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
ATTTTTGAAAATTTTATA
Found at i:94516465 original size:20 final size:19
Alignment explanation
Indices: 94516440--94516511 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
94516430 AAAAATATAA
*
94516440 ATTTTGAAATTTTTATAAAT
1 ATTTT-AAATTTTTAAAAAT
* *
94516460 ATTTT-GAGTTTTAAAAATT
1 ATTTTAAATTTTTAAAAA-T
*
94516479 ATTTTAAATTCTTGAAAAAT
1 ATTTTAAATT-TTTAAAAAT
94516499 ATTTTAAATTTTT
1 ATTTTAAATTTTT
94516512 TTTGTAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 9 0.21
19 8 0.19
20 18 0.43
21 7 0.17
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAAAT
Found at i:94519405 original size:22 final size:21
Alignment explanation
Indices: 94519380--94519433 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
94519370 ATTTTTTAAA
*
94519380 AATATTTATATTATTTTAATTT
1 AATATTTATATTATTTT-ATAT
94519402 AATATTTATA--ATTTTATAT
1 AATATTTATATTATTTTATAT
94519421 AAT-TTTAT-TTATT
1 AATATTTATATTATT
94519434 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 5 0.17
22 10 0.34
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
AATATTTATATTATTTTATAT
Found at i:94519431 original size:14 final size:14
Alignment explanation
Indices: 94519382--94519443 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
94519372 TTTTTAAAAA
*
94519382 TATTTATATTATTT
1 TATTTATATAATTT
94519396 TAATTTA-AT-ATTT
1 T-ATTTATATAATTT
94519409 ATAATTTTATATAATTT
1 -T-A-TTTATATAATTT
94519426 TATTTAT-TAATTT
1 TATTTATATAATTT
94519439 T-TTTA
1 TATTTA
94519444 CATATACATC
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.09
13 11 0.26
14 11 0.26
15 10 0.23
16 3 0.07
17 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTATATAATTT
Found at i:94520086 original size:17 final size:17
Alignment explanation
Indices: 94520040--94520086 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
94520030 AAAAAATTAT
*
94520040 TTTAATCATTTATTTAATT
1 TTTAATC-TTT-TTTAATA
*
94520059 TTTTATCTTTTTTAATA
1 TTTAATCTTTTTTAATA
94520076 TTTAAT-TTTTT
1 TTTAATCTTTTT
94520087 ATTGTTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 3 0.12
19 6 0.24
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAATCTTTTTTAATA
Found at i:94526434 original size:6 final size:5
Alignment explanation
Indices: 94526404--94526433 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
94526394 ATGGAAATTA
94526404 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
94526434 AAACTCACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:94532085 original size:10 final size:10
Alignment explanation
Indices: 94532048--94532083 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
94532038 AAAGAATAAA
94532048 AAAATGGAAG
1 AAAATGGAAG
94532058 AAAATGGAAG
1 AAAATGGAAG
94532068 AAAAT-GAAGG
1 AAAATGGAA-G
94532078 AAAATG
1 AAAATG
94532084 AAAAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 3 0.12
10 21 0.88
ACGTcount: A:0.61, C:0.00, G:0.28, T:0.11
Consensus pattern (10 bp):
AAAATGGAAG
Found at i:94534747 original size:20 final size:20
Alignment explanation
Indices: 94534709--94534748 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94534699 GCATTATGAA
*
94534709 ATTATTAAAAACATAAAAAT
1 ATTATTAAAAAAATAAAAAT
*
94534729 ATTATTAAAAAAATTAAAAT
1 ATTATTAAAAAAATAAAAAT
94534749 TATGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTATTAAAAAAATAAAAAT
Found at i:94535022 original size:13 final size:13
Alignment explanation
Indices: 94535006--94535067 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
94534996 AATTCTAATA
94535006 ATTTTTATAAATT
1 ATTTTTATAAATT
* *
94535019 ATTTTTTTCTAATT
1 ATTTTTAT-AAATT
*
94535033 -TTTTTAT-GA-T
1 ATTTTTATAAATT
*
94535043 -TTTTAATAAATT
1 ATTTTTATAAATT
94535055 ATTTTTATAAATT
1 ATTTTTATAAATT
94535068 TTATGAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 1 0.03
13 24 0.63
14 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTTTTATAAATT
Found at i:94535076 original size:23 final size:22
Alignment explanation
Indices: 94535029--94535079 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
94535019 ATTTTTTTCT
* *
94535029 AATTTTTTTATGATTTTTAATA
1 AATTTTTTTATAAATTTTAATA
94535051 AATTATTTTTATAAATTTT-ATGA
1 AATT-TTTTTATAAATTTTAAT-A
94535074 AATTTT
1 AATTTT
94535080 ATTGTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
AATTTTTTTATAAATTTTAATA
Found at i:94538662 original size:19 final size:19
Alignment explanation
Indices: 94538638--94538675 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94538628 TTTTTTCCTC
94538638 GTTTTGATCTATGTGATAA
1 GTTTTGATCTATGTGATAA
94538657 GTTTTGATCTATGTGATAA
1 GTTTTGATCTATGTGATAA
94538676 CGTGATACTT
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:0.21, T:0.47
Consensus pattern (19 bp):
GTTTTGATCTATGTGATAA
Found at i:94539287 original size:114 final size:112
Alignment explanation
Indices: 94538983--94539291 Score: 356
Period size: 114 Copynumber: 2.7 Consensus size: 112
94538973 ATTCAACGAT
* *
94538983 CAAGTT-GAGAAAGTTGTCAAGTTTAGGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAA
1 CAAGTTGGAAAAAGTTGCCAAGTTTA-GGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAA
* * *
94539047 AATTAGGTGATAATATGTCATAATCTCATAGTGTCATGTCAACATAGGAC
65 AATTAGGTGAT--GATGTCACAATCTCATAATGTCATGTCAACATAGGAC
* * * *
94539097 CAAGTTGGAAAAATTTGCCAAGTTTAGGGCTAAATGTTGACTTATTCCTAA-CTTGTAT-AAAAA
1 CAAGTTGGAAAAAGTTGCCAAGTTTAGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAA
* * * *
94539160 TTTAGTTGATGATGAGTCACAATCTCATAATGTTATGTCATCATAGGAAC
66 ATTAGGTGATGAT--GTCACAATCTCATAATGTCATGTCAACATAGG-AC
* * * *
94539210 TAAGATTGGGAAAAGTTGCCAAG-TTAGAGATTAAATGTTGAATTATCCCTAATTTTGTATAAAA
1 CAAG-TTGGAAAAAGTTGCCAAGTTTAG-GACTAAATGTTGACTTATCCCTAATTTTGTAT-AAA
94539274 AAAATTAGGTGATGATGT
63 AAAATTAGGTGATGATGT
94539292 GTAATAATTT
Statistics
Matches: 163, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
110 2 0.01
112 41 0.25
113 15 0.09
114 65 0.40
115 24 0.15
117 16 0.10
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (112 bp):
CAAGTTGGAAAAAGTTGCCAAGTTTAGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAA
ATTAGGTGATGATGTCACAATCTCATAATGTCATGTCAACATAGGAC
Found at i:94539337 original size:114 final size:114
Alignment explanation
Indices: 94538987--94539337 Score: 349
Period size: 114 Copynumber: 3.1 Consensus size: 114
94538977 AACGATCAAG
*
94538987 TTGAGAAAGTTGTCAAGTTTAGGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAAATTA
1 TTGA-AAAGTTGCCAAGTTTA-GGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAAATTA
* * *
94539052 GGTGATAATATGTCATAATCTCATAGTGTCATGTCA-ACATAGGACCAAGT-
64 GGTGATGATGTGTCATAATCTCATAGTGTCATGTCATACATAGGACTAA-TA
* * * * * *
94539102 TGGAAAAATTTGCCAAGTTTAGGGCTAAATGTTGACTTATTCCTAA-CTTGTAT-AAAAATTTAG
1 TTG-AAAAGTTGCCAAGTTTAGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAAATTAG
* * * * * *
94539165 TTGATGATGAGTCACAATCTCATAATGTTATGTCAT-CATAGGAACTAAGA
65 GTGATGATGTGTCATAATCTCATAGTGTCATGTCATACATAGG-ACTAATA
* *
94539215 TTGGGAAAAGTTGCCAAG-TTAGAGATTAAATGTTGAATTATCCCTAATTTTGTATAAAAAAAAT
1 TT--GAAAAGTTGCCAAGTTTAG-GACTAAATGTTGACTTATCCCTAATTTTGTAT-AAAAAAAT
* * * * *
94539279 TAGGTGATGATGTGTAATAATTTCAGAGTGTCATGGCATGACA-AGG-TTAATA
62 TAGGTGATGATGTGTCATAATCTCATAGTGTCATGTCAT-ACATAGGACTAATA
94539331 TTGAAAA
1 TTGAAAA
94539338 AAATACTCAA
Statistics
Matches: 189, Mismatches: 35, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
112 43 0.23
113 15 0.08
114 60 0.32
115 23 0.12
116 7 0.04
117 36 0.19
118 3 0.02
119 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (114 bp):
TTGAAAAGTTGCCAAGTTTAGGACTAAATGTTGACTTATCCCTAATTTTGTATAAAAAAATTAGG
TGATGATGTGTCATAATCTCATAGTGTCATGTCATACATAGGACTAATA
Found at i:94542133 original size:2 final size:2
Alignment explanation
Indices: 94542126--94542152 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94542116 GCTCTATTGC
94542126 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
94542153 CGACACAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94542264 original size:17 final size:17
Alignment explanation
Indices: 94542242--94542275 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
94542232 GATAGTTTTC
94542242 TTTGGAAGTAGTGTGTG
1 TTTGGAAGTAGTGTGTG
94542259 TTTGGAAGTAGTGTGTG
1 TTTGGAAGTAGTGTGTG
94542276 CGTATGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (17 bp):
TTTGGAAGTAGTGTGTG
Found at i:94545789 original size:3 final size:3
Alignment explanation
Indices: 94545781--94545809 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
94545771 CCGACCACCG
94545781 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
94545810 GAGCTCCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:94548903 original size:29 final size:30
Alignment explanation
Indices: 94548850--94548929 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
94548840 ATATTAAAAT
* *
94548850 TATATATGAATTATAATTTAATGTGTAATTG
1 TATATATGAATTTTGATTT-ATGTGTAATTG
*
94548881 TATATATGAATTTTGATTT-TGTGTAATTT
1 TATATATGAATTTTGATTTATGTGTAATTG
94548910 TATATATGAATTTTTGATTT
1 TATATATGAA-TTTTGATTT
94548930 GATACAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 19 0.42
30 9 0.20
31 17 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (30 bp):
TATATATGAATTTTGATTTATGTGTAATTG
Found at i:94548939 original size:30 final size:29
Alignment explanation
Indices: 94548849--94548940 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
94548839 AATATTAAAA
* * **
94548849 TTATATATGAATTATAATTTAATGTGTAATT
1 TTATATATGAATTTTGATTT--TGTACAATT
* **
94548880 GTATATATGAATTTTGATTTTGTGTAATT
1 TTATATATGAATTTTGATTTTGTACAATT
94548909 TTATATATGAATTTTTGA-TTTGATACAATT
1 TTATATATGAA-TTTTGATTTTG-TACAATT
94548939 TT
1 TT
94548941 TGTAATTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 23 0.43
30 13 0.25
31 17 0.32
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (29 bp):
TTATATATGAATTTTGATTTTGTACAATT
Found at i:94553042 original size:45 final size:46
Alignment explanation
Indices: 94552979--94553065 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
94552969 GTCTAAACTA
* * *
94552979 AAAAAATTTAATGTTATTTACTTTGAAATAAAA-AATAAAATAATT
1 AAAAAATGTAATCTTATTTACTTTAAAATAAAATAATAAAATAATT
** *
94553024 AAAAAATGTAATCTTATTTGTTTTAAAATAAAATAATTAAAT
1 AAAAAATGTAATCTTATTTACTTTAAAATAAAATAATAAAAT
94553066 TAAATTTGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 28 0.80
46 7 0.20
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (46 bp):
AAAAAATGTAATCTTATTTACTTTAAAATAAAATAATAAAATAATT
Found at i:94555292 original size:30 final size:30
Alignment explanation
Indices: 94555256--94555349 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 30
94555246 AACTAAAGAT
94555256 AATTTTGTCACTATACTTTAATTTTTATTG
1 AATTTTGTCACTATACTTTAATTTTTATTG
* * * *
94555286 AATTTTGTTACTTTACTTTTA-TTTGATTG
1 AATTTTGTCACTATACTTTAATTTTTATTG
** ** *
94555315 AATTTTACCACTA-AAATTATTTTTTATTG
1 AATTTTGTCACTATACTTTAATTTTTATTG
94555344 AATTTT
1 AATTTT
94555350 TTATTAAATT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
28 3 0.06
29 29 0.58
30 18 0.36
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (30 bp):
AATTTTGTCACTATACTTTAATTTTTATTG
Found at i:94560078 original size:17 final size:17
Alignment explanation
Indices: 94560058--94560094 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
94560048 TTAAATGCTT
*
94560058 TTAATTTTTATAAAAAG
1 TTAATTTTGATAAAAAG
*
94560075 TTAATTTTGATATAAAG
1 TTAATTTTGATAAAAAG
94560092 TTA
1 TTA
94560095 CCATCCTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
TTAATTTTGATAAAAAG
Found at i:94573484 original size:20 final size:21
Alignment explanation
Indices: 94573448--94573492 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
94573438 CATAAATTAT
*
94573448 TAAAATATTCATTTAATTACA
1 TAAAATATTCATCTAATTACA
*
94573469 TAAAATATT-ATCTAATTACG
1 TAAAATATTCATCTAATTACA
94573489 TAAA
1 TAAA
94573493 TCAGTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATATTCATCTAATTACA
Found at i:94577220 original size:6 final size:6
Alignment explanation
Indices: 94577209--94577259 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
94577199 CCCTACCCGG
94577209 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC
1 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC
94577257 TCC
1 TCC
94577260 ACCGTCTCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCCTC
Found at i:94587680 original size:14 final size:14
Alignment explanation
Indices: 94587669--94587739 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 14
94587659 GCTCTTTACT
94587669 TTTTTTATTTTATA
1 TTTTTTATTTTATA
94587683 TTTTTTAAATAAATTGTATA
1 TTTTTT--AT---TT-TATA
94587703 TTTTATTAGTTTTATA
1 TTTT-TTA-TTTTATA
94587719 TTTTTTA-TTTATA
1 TTTTTTATTTTATA
*
94587732 GTTTTTAT
1 TTTTTTAT
94587740 AATTTTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 18
0.71 0.02 0.27
Matches are distributed among these distances:
13 12 0.26
14 6 0.13
15 3 0.06
16 10 0.21
17 2 0.04
19 3 0.06
20 9 0.19
21 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (14 bp):
TTTTTTATTTTATA
Found at i:94587735 original size:21 final size:22
Alignment explanation
Indices: 94587704--94587749 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
94587694 AATTGTATAT
*
94587704 TTTATTAG-TTTTATATTTTTTA
1 TTTATTAGTTTTTATA-ATTTTA
94587726 TTTA-TAGTTTTTATAATTTTA
1 TTTATTAGTTTTTATAATTTTA
94587747 TTT
1 TTT
94587750 TAGGATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTATTAGTTTTTATAATTTTA
Found at i:94588308 original size:14 final size:13
Alignment explanation
Indices: 94588266--94588312 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 13
94588256 GAAGAGAATG
94588266 AAAAAT-AAAGAA
1 AAAAATAAAAGAA
94588278 AAAAATAAAAGTTAA
1 AAAAATAAAAG--AA
94588293 AAAATATAAAAGAA
1 AAAA-ATAAAAGAA
94588307 AAAAAT
1 AAAAAT
94588313 TAAATTACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.19
13 6 0.19
14 6 0.19
15 6 0.19
16 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAGAA
Found at i:94588316 original size:14 final size:14
Alignment explanation
Indices: 94588272--94588316 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
94588262 AATGAAAAAT
94588272 AAAGAAAAAAA-TA
1 AAAGAAAAAAATTA
*
94588285 AAAGTTAAAAAATATA
1 AAAG-AAAAAAAT-TA
94588301 AAAGAAAAAAATTA
1 AAAGAAAAAAATTA
94588315 AA
1 AA
94588317 TTACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 4 0.15
14 10 0.37
15 7 0.26
16 6 0.22
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (14 bp):
AAAGAAAAAAATTA
Found at i:94601520 original size:137 final size:134
Alignment explanation
Indices: 94601313--94601722 Score: 411
Period size: 137 Copynumber: 3.0 Consensus size: 134
94601303 ACTTAAATTT
* * * *
94601313 ACTTTGATTTTTCAATTAATCAAGTTGAGTTAATATTATAAGTTAATTTAGTATCAA-TTAAAAA
1 ACTTTGATTTTTCAATTAATCAAGCTGAGTT-ATATCACAAGTTAATTTAGTATCAACTGAAAAA
*** * *
94601377 TTTTAAAAT-CTGAATTTTTTTTAGTTTATTTCTTTAAATAAATTTATAATTTGTTTTAAATTAG
65 --TTAAAATACT-AAAAGTTTTTAATTTATGTCTTTAAATAAATTTATAATTT-TTTTAAATTAG
94601441 ATAATTTTG
126 ATAATTTTG
* * * *
94601450 ACTTTGATTTTTCGATTATTCAAGCTGAATTGATATCACAAGTTAATTT-GATACCAACTGAAAA
1 ACTTTGATTTTTCAATTAATCAAGCTGAGTT-ATATCACAAGTTAATTTAG-TATCAACTGAAAA
* * * *
94601514 GATT-AAATACTAAAAGTTTTTAATTTATGTCATCAGAT-AATTTCATAATTTATTTTTAAATCA
64 -ATTAAAATACTAAAAGTTTTTAATTTATGTCTTTAAATAAATTT-ATAA-TT-TTTTTAAATTA
*
94601577 GATAGTTTTTG
125 GATA-ATTTTG
* * * *
94601588 --TTCTGATTTTTCTATCAATCAAACCGAGTTAGTATCACAAGTTAATTTAGTATCAACTGAAAA
1 ACTT-TGATTTTTCAATTAATCAAGCTGAGTTA-TATCACAAGTTAATTTAGTATCAACTGAAAA
* *
94601651 ATTTAAAATACTAAAAGTTTTTAATTTATGTCTTTAAATAATTTTATAATTTTTTTAAATTAAAT
64 A-TTAAAATACTAAAAGTTTTTAATTTATGTCTTTAAATAAATTTATAATTTTTTTAAATTAGAT
94601716 AAATTTT
128 -AATTTT
94601723 ATACAATATT
Statistics
Matches: 225, Mismatches: 33, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
135 5 0.02
136 48 0.21
137 120 0.53
138 47 0.21
139 5 0.02
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (134 bp):
ACTTTGATTTTTCAATTAATCAAGCTGAGTTATATCACAAGTTAATTTAGTATCAACTGAAAAAT
TAAAATACTAAAAGTTTTTAATTTATGTCTTTAAATAAATTTATAATTTTTTTAAATTAGATAAT
TTTG
Found at i:94602007 original size:21 final size:19
Alignment explanation
Indices: 94601981--94602030 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
94601971 CATGTGACAC
94601981 ATTAAATATTTAATTTATTTA
1 ATTAAATATTTAATTTA--TA
*
94602002 ATTAAAT-TTTCATTTATA
1 ATTAAATATTTAATTTATA
94602020 ATTAATATATT
1 ATTAA-ATATT
94602031 GATACTCGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
20 10 0.38
21 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTAAATATTTAATTTATA
Found at i:94603410 original size:2 final size:2
Alignment explanation
Indices: 94603403--94603435 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
94603393 TTCCTTTGAA
*
94603403 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94603436 CCCAAAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94605512 original size:40 final size:40
Alignment explanation
Indices: 94605457--94605674 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
94605447 TGGATGATAA
* * *
94605457 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
94605497 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
94605537 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
94605577 CCGGGCTAAGTCCCGAAAGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * ***
94605617 TCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
94605657 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94605675 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94612911 original size:2 final size:2
Alignment explanation
Indices: 94612906--94612935 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94612896 ACACACACAC
94612906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94612936 TGCACATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94613810 original size:40 final size:40
Alignment explanation
Indices: 94613755--94613972 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
94613745 TGGATGATAA
* * *
94613755 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
94613795 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
94613835 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
94613875 CCGGGCTAAGTCCCGAAAGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
94613915 TCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
94613955 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94613973 TACTTGGCTT
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 16 0.10
40 138 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94621272 original size:23 final size:23
Alignment explanation
Indices: 94621242--94621286 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
94621232 AAACCAGTAC
94621242 ATGGTGAAATACACGCCACCTCT
1 ATGGTGAAATACACGCCACCTCT
94621265 ATGGTGAAATACACGCCACCTC
1 ATGGTGAAATACACGCCACCTC
94621287 CATAGTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (23 bp):
ATGGTGAAATACACGCCACCTCT
Found at i:94623553 original size:21 final size:20
Alignment explanation
Indices: 94623512--94623553 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
94623502 TGAAATACTA
*
94623512 AAATTCAAGATAAAATCTTG
1 AAATTCAAGATAAAATATTG
*
94623532 AAATTCAGGATAAAAATATTG
1 AAATTCAAGAT-AAAATATTG
94623553 A
1 A
94623554 TGTGGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (20 bp):
AAATTCAAGATAAAATATTG
Found at i:94626315 original size:137 final size:138
Alignment explanation
Indices: 94626057--94626375 Score: 420
Period size: 137 Copynumber: 2.3 Consensus size: 138
94626047 ACTTAAATTT
* *
94626057 ACTTTGATTTTTCGATTAATCAAGCTAAATTAGTATCATAAGTTAATTTGATATCAACTAAAAGT
1 ACTTTGATTTTTCGATTAATCAAGCTGAATTAGTATCATAAGTTAATTTGATACCAACTAAAAGT
* * *
94626122 TTTAAAAATTAAAATTTTTTTAATTTGTATCTTTAAATAAATTTATAATTTGTTTTAAATTAGAT
66 ATTAAAAACTAAAATGTTTTTAATTTGTATCTTTAAATAAATTTATAATTTGTTTTAAATTAGAT
94626187 AG-TTTCG
131 AGTTTTCG
* *
94626194 ACTTTGATTTTTCGATTAATCAAGCTGAATT-GATATCACAAGTTAATTTGATACCAATTAAAAA
1 ACTTTGATTTTTCGATTAATCAAGCTGAATTAG-TATCATAAGTTAATTTGATACCAACT-AAAA
* *
94626258 G-ATTAAATACTAAAA-GTTTTTAA-TT-TATGTTATCAAAT-AATTTCATAATTTGTTTTTAAA
64 GTATTAAAAACTAAAATGTTTTTAATTTGTATCTT-T-AAATAAATTT-ATAATTTG-TTTTAAA
*
94626318 TTAGATAGTTTTTG
125 TTAGATAGTTTTCG
* *
94626332 -CTTTGATTTTTTGATTAATCAAGCTGAGTTAGTATCATAAGTTA
1 ACTTTGATTTTTCGATTAATCAAGCTGAATTAGTATCATAAGTTA
94626376 CAAAAAAATT
Statistics
Matches: 161, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
134 5 0.03
135 8 0.05
136 20 0.12
137 118 0.73
138 10 0.06
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (138 bp):
ACTTTGATTTTTCGATTAATCAAGCTGAATTAGTATCATAAGTTAATTTGATACCAACTAAAAGT
ATTAAAAACTAAAATGTTTTTAATTTGTATCTTTAAATAAATTTATAATTTGTTTTAAATTAGAT
AGTTTTCG
Found at i:94626735 original size:20 final size:21
Alignment explanation
Indices: 94626698--94626736 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
94626688 CATGTGACAC
94626698 ATTAAATATTTAATTTATATA
1 ATTAAATATTTAATTTATATA
*
94626719 ATTAAAT-TTTCATTTATA
1 ATTAAATATTTAATTTATA
94626737 ATTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTAAATATTTAATTTATATA
Found at i:94627123 original size:19 final size:20
Alignment explanation
Indices: 94627088--94627137 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
94627078 CTTTTAAATA
*
94627088 TAAATAAA-CTTAATA-TTT
1 TAAATAAATCTAAATATTTT
94627106 TAAATAAATCTAAATATTTT
1 TAAATAAATCTAAATATTTT
94627126 TAAATAAATCTA
1 TAAATAAATCTA
94627138 TTTTTATGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
20 15 0.52
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATAAATCTAAATATTTT
Found at i:94627303 original size:34 final size:37
Alignment explanation
Indices: 94627234--94627307 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 37
94627224 GTAAGAATAG
*
94627234 GAAAGATATATAATATATTCCTAAATATATGCCTAAAA
1 GAAAGATATACAATATATT-CTAAATATATGCCTAAAA
*
94627272 GAAAGATATACAATATATT-TAGATAT-T-CCTAAAA
1 GAAAGATATACAATATATTCTAAATATATGCCTAAAA
94627306 GA
1 GA
94627308 TAATATCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 9 0.26
35 1 0.03
36 6 0.18
38 18 0.53
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (37 bp):
GAAAGATATACAATATATTCTAAATATATGCCTAAAA
Found at i:94631767 original size:2 final size:2
Alignment explanation
Indices: 94631760--94631798 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
94631750 ATGTTGGAAA
94631760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94631799 AAAGGGTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94632157 original size:7 final size:7
Alignment explanation
Indices: 94632145--94632178 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
94632135 TTGGGAAAAG
94632145 AAAATAA
1 AAAATAA
94632152 AAAATAA
1 AAAATAA
94632159 AAAATAA
1 AAAATAA
94632166 AAAATAA
1 AAAATAA
94632173 AAAATA
1 AAAATA
94632179 TAGATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:94632813 original size:41 final size:41
Alignment explanation
Indices: 94632756--94632837 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
94632746 ATTAACAAGA
94632756 GATGCTATAGCTTCTAGTTTAATGAATTCACTTTAAAATGC
1 GATGCTATAGCTTCTAGTTTAATGAATTCACTTTAAAATGC
94632797 GATGCTATAGCTTCTAGTTTAATGAATTCACTTTAAAATGC
1 GATGCTATAGCTTCTAGTTTAATGAATTCACTTTAAAATGC
94632838 AAATGTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (41 bp):
GATGCTATAGCTTCTAGTTTAATGAATTCACTTTAAAATGC
Found at i:94636345 original size:20 final size:21
Alignment explanation
Indices: 94636320--94636373 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
94636310 ATATTATCAT
94636320 AATTATTAAAT-TAAATATTA
1 AATTATTAAATCTAAATATTA
* *
94636340 AATTATTGAATCTAATTATT-
1 AATTATTAAATCTAAATATTA
94636360 AATT-TTAAAATCTA
1 AATTATT-AAATCTA
94636374 TGTTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 20 0.69
21 7 0.24
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
AATTATTAAATCTAAATATTA
Found at i:94636768 original size:2 final size:2
Alignment explanation
Indices: 94636761--94636809 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
94636751 TTTCCAAAGC
94636761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94636803 AT AT AT A
1 AT AT AT A
94636810 ATAGCTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94639901 original size:26 final size:25
Alignment explanation
Indices: 94639862--94639945 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 25
94639852 TGATACAAAT
* *
94639862 TGATAATAGGTTAGGTCAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
94639888 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTTCA
94639914 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTTCA
94639940 TGATAA
1 TGATAA
94639946 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
25 2 0.04
26 52 0.96
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:94641425 original size:28 final size:26
Alignment explanation
Indices: 94641383--94641457 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
94641373 AAAAGTAGCT
* * *
94641383 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
94641411 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
94641437 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
94641458 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:94641602 original size:27 final size:27
Alignment explanation
Indices: 94641561--94641672 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
94641551 GAGGAAGCGT
*
94641561 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94641588 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94641615 TCTGGTGGCT-TGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94641642 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94641668 TCTGG
1 TCTGG
94641673 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 17 0.23
27 51 0.70
28 5 0.07
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94641665 original size:53 final size:54
Alignment explanation
Indices: 94641559--94641672 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
94641549 TGGAGGAAGC
*
94641559 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * *
94641613 GTTCTGGTGGCT-TGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
94641666 GTTCTGG
1 GTTCTGG
94641673 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 25 0.45
54 30 0.55
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:94645720 original size:25 final size:26
Alignment explanation
Indices: 94645626--94645734 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
94645616 TGATACAAAT
94645626 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
94645652 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
94645678 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
94645704 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
94645729 TGATAA
1 TGATAA
94645735 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:94647389 original size:27 final size:27
Alignment explanation
Indices: 94647348--94647460 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
94647338 GAGGAAGCGT
*
94647348 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94647375 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94647402 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94647430 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94647456 TCTGG
1 TCTGG
94647461 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94647453 original size:54 final size:54
Alignment explanation
Indices: 94647346--94647460 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
94647336 TGGAGGAAGC
*
94647346 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
94647400 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
94647454 GTTCTGG
1 GTTCTGG
94647461 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:94648505 original size:36 final size:36
Alignment explanation
Indices: 94648456--94648535 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
94648446 GGCCCCCGGT
*
94648456 ACGACGTCGTTTTGGGGCGTGCATTCAGCACACAAA
1 ACGACGTCATTTTGGGGCGTGCATTCAGCACACAAA
*
94648492 ACGACGTCATTTTGGGGCGTGCATTCAGCACCCAAA
1 ACGACGTCATTTTGGGGCGTGCATTCAGCACACAAA
94648528 ACGACGTC
1 ACGACGTC
94648536 GTTTAGTGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (36 bp):
ACGACGTCATTTTGGGGCGTGCATTCAGCACACAAA
Found at i:94649731 original size:18 final size:18
Alignment explanation
Indices: 94649698--94649733 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94649688 TTATATATCG
* *
94649698 TTATTATTAGTCTTTTTA
1 TTATTATTACTATTTTTA
94649716 TTATTATTACTATTTTTA
1 TTATTATTACTATTTTTA
94649734 ATAAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTATTACTATTTTTA
Found at i:94652128 original size:18 final size:18
Alignment explanation
Indices: 94652087--94652128 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
94652077 ATACATCTAT
*
94652087 AAAATAATAGTATTAATA
1 AAAATAATAGGATTAATA
*
94652105 ACAATAATAAGGATT-ATA
1 AAAATAAT-AGGATTAATA
94652123 AAAATA
1 AAAATA
94652129 CATACATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AAAATAATAGGATTAATA
Found at i:94652490 original size:20 final size:19
Alignment explanation
Indices: 94652467--94652514 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
94652457 ACTACTTCAC
94652467 AAATATAT-ATACATATACTA
1 AAATATATAATA-ATATA-TA
94652487 AAATATACATAATAATATATA
1 AAATAT--ATAATAATATATA
94652508 AAATATA
1 AAATATA
94652515 ATATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 6 0.24
21 8 0.32
22 7 0.28
23 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATATAATAATATATA
Found at i:94652573 original size:26 final size:26
Alignment explanation
Indices: 94652544--94652621 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 26
94652534 ATGATATATG
94652544 AAAATATATATAATATA-ATATTAATA
1 AAAATATATATAATATACATATTAA-A
*
94652570 AAAATACATATATATGTAATACATATTAAA
1 AAAAT--ATATATA-AT-ATACATATTAAA
* *
94652600 AGAATACATATAATATACATAT
1 AAAATATATATAATATACATAT
94652622 ATTTCAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 13 0.30
27 1 0.02
28 13 0.30
29 1 0.02
30 8 0.19
31 7 0.16
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.35
Consensus pattern (26 bp):
AAAATATATATAATATACATATTAAA
Found at i:94652581 original size:30 final size:29
Alignment explanation
Indices: 94652547--94652622 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
94652537 ATATATGAAA
94652547 ATATATATAATATAATATTAATAAAAATAC
1 ATATATATAATATAATATTAA-AAAAATAC
* *
94652577 ATATATATGTAATA-CATATTAAAAGAATAC
1 ATATATA--TAATATAATATTAAAAAAATAC
94652607 ATATAATATACATATA
1 ATAT-ATATA-ATATA
94652623 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 2 0.05
30 21 0.55
31 10 0.26
32 5 0.13
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (29 bp):
ATATATATAATATAATATTAAAAAAATAC
Found at i:94652687 original size:2 final size:2
Alignment explanation
Indices: 94652680--94652731 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
94652670 TTACATAAAG
94652680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94652722 TA TA TA TA TA
1 TA TA TA TA TA
94652732 ATAATGGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94653086 original size:14 final size:15
Alignment explanation
Indices: 94653053--94653099 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
94653043 AGGAATATAT
*
94653053 TAATAATGATAAGA-A
1 TAATAATAATAA-ATA
*
94653068 TAATAGTAAT-AATA
1 TAATAATAATAAATA
94653082 TAATAATAATAAATA
1 TAATAATAATAAATA
94653097 TAA
1 TAA
94653100 AAAACAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 11 0.41
15 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:94654182 original size:37 final size:36
Alignment explanation
Indices: 94654124--94654197 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
94654114 TGATTAGGGT
* *
94654124 TAGGGTGGTTAGGGTATTGGGTATGGGTTAGTGGGC
1 TAGGGTGGTTAGGCTAGTGGGTATGGGTTAGTGGGC
*
94654160 TAGGTTGGTTTAGGCTAGTGGGTATGGGTTAGTGGGC
1 TAGGGTGG-TTAGGCTAGTGGGTATGGGTTAGTGGGC
94654197 T
1 T
94654198 TCTGAATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.14, C:0.04, G:0.47, T:0.35
Consensus pattern (36 bp):
TAGGGTGGTTAGGCTAGTGGGTATGGGTTAGTGGGC
Found at i:94656530 original size:37 final size:36
Alignment explanation
Indices: 94656472--94656545 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
94656462 TGATTAGGGT
* *
94656472 TAGGGTGGTTAGGGTATTGGGTATGGGTTAGTGGGC
1 TAGGGTGGTTAGGCTAGTGGGTATGGGTTAGTGGGC
*
94656508 TAGGTTGGTTTAGGCTAGTGGGTATGGGTTAGTGGGC
1 TAGGGTGG-TTAGGCTAGTGGGTATGGGTTAGTGGGC
94656545 T
1 T
94656546 TCTGAATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.14, C:0.04, G:0.47, T:0.35
Consensus pattern (36 bp):
TAGGGTGGTTAGGCTAGTGGGTATGGGTTAGTGGGC
Found at i:94660955 original size:30 final size:30
Alignment explanation
Indices: 94660909--94660993 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
94660899 ACTTTTCTCA
*
94660909 ACTAGCTACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
94660939 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
94660969 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
94660994 CTTGTACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.24
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:94661566 original size:2 final size:2
Alignment explanation
Indices: 94661559--94661632 Score: 57
Period size: 2 Copynumber: 38.5 Consensus size: 2
94661549 CTATATTACG
* * * * *
94661559 TA TA TA TA TA TA T- TT TA TA CTA T- TT TA TG TA TA TA TC TT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
94661600 -A TA T- TA TA TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94661633 TTTTTTTACA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
1 4 0.07
2 52 0.90
3 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (2 bp):
TA
Found at i:94661599 original size:14 final size:14
Alignment explanation
Indices: 94661559--94661632 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 14
94661549 CTATATTACG
94661559 TATATATATATATT
1 TATATATATATATT
*
94661573 T-TATA-CTAT-TT
1 TATATATATATATT
* *
94661584 TATGTATATATCTT
1 TATATATATATATT
94661598 TA-ATATTATATATT
1 TATATA-TATATATT
*
94661612 TATATATATATATA
1 TATATATATATATT
94661626 TATATAT
1 TATATAT
94661633 TTTTTTTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
11 3 0.06
12 6 0.12
13 9 0.18
14 28 0.57
15 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (14 bp):
TATATATATATATT
Found at i:94661678 original size:22 final size:24
Alignment explanation
Indices: 94661650--94661708 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
94661640 ACATGTTATC
94661650 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
94661672 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
94661697 TTATGTACATAT
1 TTATGTATATAT
94661709 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:94661698 original size:25 final size:25
Alignment explanation
Indices: 94661666--94661714 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94661656 ATATATCTTA
**
94661666 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
94661691 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
94661715 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:94661891 original size:16 final size:15
Alignment explanation
Indices: 94661867--94661914 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
94661857 TAATTATTAT
*
94661867 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
94661883 TATTTTAATATTTTA
1 TATTTTAATATTTTA
94661898 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
94661914 T
1 T
94661915 TATTCATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:94661902 original size:7 final size:8
Alignment explanation
Indices: 94661867--94661918 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
94661857 TAATTATTAT
*
94661867 TATTCTAA
1 TATTTTAA
*
94661875 TATTTTGA
1 TATTTTAA
94661883 TATTTTAA
1 TATTTTAA
94661891 TATTTT-A
1 TATTTTAA
94661898 TATTTTATA
1 TATTTTA-A
*
94661907 TATTTTAT
1 TATTTTAA
94661915 TATT
1 TATT
94661919 CATCATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:94663504 original size:12 final size:12
Alignment explanation
Indices: 94663484--94663519 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
94663474 AGTCATTTGA
94663484 CATTCATGCATT
1 CATTCATGCATT
*
94663496 CATTTATGCATT
1 CATTCATGCATT
*
94663508 CATTCATTCATT
1 CATTCATGCATT
94663520 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:94670329 original size:71 final size:69
Alignment explanation
Indices: 94670231--94670405 Score: 201
Period size: 71 Copynumber: 2.5 Consensus size: 69
94670221 TTTTCAAGGG
* ** *
94670231 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCTTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTAT
94670295 GTTTT
65 GTTTT
** * *
94670300 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTA
94670365 TGTTTT
64 TGTTTT
** *
94670371 AAATTGACTCATATTGCGA-AAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCT
94670406 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
68 2 0.02
69 29 0.32
71 58 0.64
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAATTTATG
TTTT
Found at i:94670741 original size:140 final size:140
Alignment explanation
Indices: 94670499--94671044 Score: 898
Period size: 140 Copynumber: 3.9 Consensus size: 140
94670489 TGTTTTAATT
*
94670499 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
* * *
94670564 TACAAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCGATTTACGT
66 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
*
94670629 TGTTTAAGAA
131 TGTTCAAGAA
* *
94670639 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAGTCAACTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
*
94670704 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAATTTACGT
66 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
94670769 TGTTCAAGAA
131 TGTTCAAGAA
* *
94670779 TCAACTCATATTGTGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
* *
94670844 TGCGAGAGGTGAGTTGAACCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTATGT
66 TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
94670909 TGTTCAAGAA
131 TGTTCAAGAA
*
94670919 TCAACTCATATTGCGAGAGGTGGGTTGAACTTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
1 TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
* *
94670984 TGCGAG-GGCTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTTAATTTCTATCTTTCAA
66 TGCGAGAGG-TGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TTTCAA
94671045 AAAAAAAATT
Statistics
Matches: 380, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
139 4 0.01
140 349 0.92
142 21 0.06
143 6 0.02
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
TCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATAT
TGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGT
TGTTCAAGAA
Found at i:94670900 original size:13 final size:13
Alignment explanation
Indices: 94670882--94670915 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
94670872 CGCTGAGGTA
*
94670882 TTTTCAATTTCTG
1 TTTTCAATTTATG
94670895 TTTTCAATTTATG
1 TTTTCAATTTATG
94670908 TTGTTCAA
1 TT-TTCAA
94670916 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:94671162 original size:72 final size:72
Alignment explanation
Indices: 94671049--94671189 Score: 282
Period size: 72 Copynumber: 2.0 Consensus size: 72
94671039 TTTCAAAAAA
94671049 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
94671114 TGTTTTC
66 TGTTTTC
94671121 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
94671186 TGTT
66 TGTT
94671190 CAAAATGAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:94671200 original size:49 final size:49
Alignment explanation
Indices: 94671143--94671238 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
94671133 ATATTGCGAG
*
94671143 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
94671192 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
94671239 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:94671277 original size:274 final size:272
Alignment explanation
Indices: 94670964--94671463 Score: 754
Period size: 274 Copynumber: 1.8 Consensus size: 272
94670954 AATTTCTACT
* *** *
94670964 TTTTCAAAATCAGCTCATATTGCGAGGGCTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTGAGGTATTTT
*
94671028 TAATTTCTATCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
63 CAATTTCTATCTTTCAAAAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
94671093 CGTTGAGGTAATTTCAATTTCTG-TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
127 CGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
*
94671156 CTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAG
192 CTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAG
94671221 GTAATTTCAATTTCTG
257 GTAATTTCAATTTCTG
*
94671237 TTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
* * * *
94671302 ATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGC
65 ATTTCTATCTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
* * **
94671367 TGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT
130 TGAGGTAATTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
94671432 CAGGACACGCTGAGGTAATTTCAATTTCTGTT
194 CAAGACACGCTGAGGTAATTTCAATTTCTGTT
94671464 GTCAAAAAAA
Statistics
Matches: 203, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
271 58 0.29
272 44 0.22
273 9 0.04
274 91 0.45
275 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (272 bp):
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
TTTCTATCTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGACACGCTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
TTTCAATTTCTG
Found at i:94671285 original size:121 final size:121
Alignment explanation
Indices: 94671071--94671310 Score: 435
Period size: 121 Copynumber: 2.0 Consensus size: 121
94671061 ATATTGCGAG
*
94671071 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
94671136 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
94671192 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
94671257 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
94671311 TTTCAAAAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:94671444 original size:75 final size:75
Alignment explanation
Indices: 94671192--94671545 Score: 448
Period size: 78 Copynumber: 4.7 Consensus size: 75
94671182 TTTCTGTTCA
* *
94671192 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
94671254 ATATTGCGAG
66 ATATTGTGAG
* *
94671264 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCAA
94671329 CTCATATTGTGAG
63 CTCATATTGTGAG
*
94671342 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
94671407 ATATTGCT-AG
66 ATATTG-TGAG
** * * *
94671417 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
94671481 GTATTGTGAG
66 ATATTGTGAG
*** * * **
94671491 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
94671546 TTTCTGCCTT
Statistics
Matches: 252, Mismatches: 19, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
72 42 0.17
73 6 0.02
74 43 0.17
75 62 0.25
76 23 0.09
77 6 0.02
78 70 0.28
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGTGAG
Found at i:94671472 original size:153 final size:150
Alignment explanation
Indices: 94671192--94671545 Score: 464
Period size: 153 Copynumber: 2.4 Consensus size: 150
94671182 TTTCTGTTCA
* *
94671192 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
94671254 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC---A
94671319 AAAAAATCAACTCATATTGTGAG
128 AAAAAATCAACTCATATTGTGAG
*
94671342 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* ** *
94671407 ATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
*
94671471 AAATCAACTCGTATTGTGAG
131 AAATCAACTCATATTGTGAG
*** * * **
94671491 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
94671546 TTTCTGCCTT
Statistics
Matches: 179, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
149 38 0.21
150 43 0.24
151 35 0.20
152 4 0.02
153 59 0.33
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (150 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
AAATCAACTCATATTGTGAG
Found at i:94671640 original size:96 final size:96
Alignment explanation
Indices: 94671467--94671641 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
94671457 TTCTGTTGTC
* * *
94671467 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
94671532 TTTCCATTTTTCAATTTCTGCCTTTCAAAAA
66 TTTCCATCTTTCAATTTCTGCCTTTCAAAAA
* * * *
94671563 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
**
94671627 ATTTCTGTCTTTCAA
65 ATTTCCATCTTTCAA
94671642 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
95 2 0.03
96 66 0.97
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (96 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCCATCTTTCAATTTCTGCCTTTCAAAAA
Found at i:94671767 original size:80 final size:77
Alignment explanation
Indices: 94671563--94671923 Score: 283
Period size: 80 Copynumber: 4.5 Consensus size: 77
94671553 CTTTCAAAAA
* * * *
94671563 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
* *
94671628 TTTCTGTCTTTC
66 TTTATATCTTTC
* * *
94671640 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTA---TTTT
*
94671705 CAATTTATATTTTTC
63 CAATTTATATCTTTC
* * * * * ** *
94671720 AAAAAAATCAACTCACATTGTGAAATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACT-GAGCTATTTTC-
* *
94671784 AAATATGTTTTTCAGATTCTGTTT
64 --A-A----TTT-ATA-TCT-TTC
** * * * ***
94671808 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
* * *
94671873 TTTTTTTTTCTTC
66 TTTATATCT-TTC
94671886 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
94671924 TTTTTAATTT
Statistics
Matches: 224, Mismatches: 43, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
77 56 0.25
78 9 0.04
79 30 0.13
80 67 0.30
81 1 0.00
84 1 0.00
85 4 0.02
86 2 0.01
87 2 0.01
88 51 0.23
89 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCAA
TTTATATCTTTC
Found at i:94671948 original size:30 final size:30
Alignment explanation
Indices: 94671907--94671965 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
94671897 ACTCATATTG
94671907 CGAGAGGTGAGTTGAG-CTTTTTAATTTCTA
1 CGAGAGGTGAGTTGAGTC-TTTTAATTTCTA
*
94671937 CGAGAGTTGAGTTGAGTCTTTTAATTTCT
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCT
94671966 GTTTTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.42
Consensus pattern (30 bp):
CGAGAGGTGAGTTGAGTCTTTTAATTTCTA
Found at i:94672077 original size:251 final size:245
Alignment explanation
Indices: 94671319--94672169 Score: 792
Period size: 251 Copynumber: 3.5 Consensus size: 245
94671309 TTTTTCAAAA
* ** ** * *
94671319 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * * *
94671381 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAG--GACACGCTG
65 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
* * * * ** * * * *
94671444 AGGTA---ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCC
130 AGGTAGTCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAAAGGTGAGTTGAACC
*** * * * ** *
94671505 TC-AGGTCACACGCCGAGGTATTTTC--AATTTCCATTTTTCA-ATTTCTGCCTTTC
194 TCGA-GTCACATATCAAGGTATTTTCAAAATATGC--TTTTCAGA-TTAAG-TTTTC
*
94671558 AAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 ------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
*
94671623 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACA
60 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACA
* * * *
94671688 CACTGAGGTATTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGTGAAATGTGAGTT
125 CACTGAGGTAGTCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAAAGGTGAGTT
* * * * * **
94671753 GAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATATGTTTTTCAGATTCTGTTTTC
189 GAACCTCGAGTCACATATCAAGGTATTTTCAAAATATGCTTTTCAGATTAAGTTTTC
*
94671810 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* * *
94671874 TTTTTTTTCTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTAC
66 TTCTGTTT-TTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC-AC
* * * * * * *
94671938 GAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGA
124 -ACA-CTGAGGT-AGTCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAAAGGTGA
*
94672001 GTTGAACCTTC-AGTCACATATCAAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
186 GTTGAACC-TCGAGTCACATATCAAGGTATTTTCAAAATATGCTTTTCAGA-TTAAGTTTTC
*
94672060 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* *
94672125 TTCTGCTTTTC--AAAAATCAATTCATATTGCGAGAGGTGAGTTGAG
66 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
94672170 TCTCGGGCCA
Statistics
Matches: 520, Mismatches: 60, Indels: 50
0.83 0.10 0.08
Matches are distributed among these distances:
245 101 0.19
246 11 0.02
247 126 0.24
248 7 0.01
249 15 0.03
250 10 0.02
251 135 0.26
252 18 0.03
253 86 0.17
254 7 0.01
255 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (245 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
GGTAGTCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAAAGGTGAGTTGAACCTC
GAGTCACATATCAAGGTATTTTCAAAATATGCTTTTCAGATTAAGTTTTC
Found at i:94672188 original size:75 final size:76
Alignment explanation
Indices: 94672056--94672209 Score: 186
Period size: 75 Copynumber: 2.0 Consensus size: 76
94672046 TCAAGTTAAG
** ***
94672056 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGCTCACACACTGAGCTATTTT
*
94672121 CAATTTCTGCT
66 CAAATTCTGCT
* * * *
94672132 TTTC-AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-CACACACTGAGGTCTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGCTCACACACTGAGCTATTT
*
94672195 TCAAATTCTGTT
65 TCAAATTCTGCT
94672207 TTT
1 TTT
94672210 AATTTCTGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
75 60 0.91
76 6 0.09
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGCTCACACACTGAGCTATTTT
CAAATTCTGCT
Found at i:94673101 original size:30 final size:30
Alignment explanation
Indices: 94673055--94673139 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
94673045 ACTTTTCTCA
*
94673055 ACTAGCTACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
94673085 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
94673115 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
94673140 CTTGTACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.24
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:94673712 original size:2 final size:2
Alignment explanation
Indices: 94673705--94673776 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
94673695 CTATATTACG
* * * * *
94673705 TA TA TA TA TA TA TT TA TA CTA T- TT TA TG TA TA TA TC TT TA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
94673746 TA T- TA TA TGA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T
94673777 TTTTTTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
1 3 0.05
2 48 0.87
3 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (2 bp):
TA
Found at i:94673722 original size:23 final size:23
Alignment explanation
Indices: 94673673--94673722 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
94673663 ATTCTTTTAA
* *
94673673 TATATTAGGTATATTTTAAATTC
1 TATATTACGTATATTATAAATTC
*
94673696 TATATTACGTATATATATATATT-
1 TATATTACGTATAT-TATAAATTC
94673719 TATA
1 TATA
94673723 CTATTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (23 bp):
TATATTACGTATATTATAAATTC
Found at i:94673749 original size:22 final size:24
Alignment explanation
Indices: 94673709--94673776 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 24
94673699 ATTACGTATA
*
94673709 TATATATATTTATACTATTTTATG
1 TATATATATTTATACTATTATATG
*
94673733 TATATATCTTTA-A-TATTATATG
1 TATATATATTTATACTATTATATG
* *
94673755 -ATTTATATATATA-TATATATAT
1 TATATATATTTATACTAT-TATAT
94673777 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 8 0.22
22 12 0.32
23 6 0.16
24 11 0.30
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (24 bp):
TATATATATTTATACTATTATATG
Found at i:94673827 original size:22 final size:24
Alignment explanation
Indices: 94673799--94673857 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
94673789 ACATGTTATC
94673799 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
94673821 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
94673846 TTATGTACATAT
1 TTATGTATATAT
94673858 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:94673847 original size:25 final size:25
Alignment explanation
Indices: 94673815--94673863 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
94673805 ATATATCTTA
**
94673815 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
94673840 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
94673864 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:94674041 original size:16 final size:15
Alignment explanation
Indices: 94674017--94674064 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
94674007 TAATTATTAT
*
94674017 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
94674033 TATTTTAATATTTTA
1 TATTTTAATATTTTA
94674048 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
94674064 T
1 T
94674065 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:94674052 original size:7 final size:8
Alignment explanation
Indices: 94674017--94674068 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
94674007 TAATTATTAT
*
94674017 TATTCTAA
1 TATTTTAA
*
94674025 TATTTTGA
1 TATTTTAA
94674033 TATTTTAA
1 TATTTTAA
94674041 TATTTT-A
1 TATTTTAA
94674048 TATTTTATA
1 TATTTTA-A
*
94674057 TATTTTAT
1 TATTTTAA
94674065 TATT
1 TATT
94674069 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:94674877 original size:16 final size:16
Alignment explanation
Indices: 94674858--94674891 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94674848 TTAAAATTTC
94674858 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
* *
94674874 AAAAAGAAAAAAGAAG
1 AAAAAAAAAAAAAAAG
94674890 AA
1 AA
94674892 GAATAGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Done.