Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 355 of 770
Found at i:108864743 original size:20 final size:20
Alignment explanation
Indices: 108864720--108864802 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
108864710 GAACATCTCG
108864720 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
108864740 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
108864760 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
108864780 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
108864800 TGT
1 TGT
108864803 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:108864749 original size:11 final size:11
Alignment explanation
Indices: 108864720--108864791 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
108864710 GAACATCTCG
108864720 TGTGCATATCA
1 TGTGCATATCA
*
108864731 --TACATATCA
1 TGTGCATATCA
108864740 TGTGCATATCA
1 TGTGCATATCA
* *
108864751 --TACATGTCA
1 TGTGCATATCA
108864760 TGTGCATATCA
1 TGTGCATATCA
*
108864771 --TACATATCA
1 TGTGCATATCA
108864780 TGTGCATATCA
1 TGTGCATATCA
108864791 T
1 T
108864792 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:108864867 original size:25 final size:25
Alignment explanation
Indices: 108864839--108864886 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
108864829 ATATATAAAC
* * *
108864839 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
108864864 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
108864887 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:108866142 original size:27 final size:27
Alignment explanation
Indices: 108866122--108866562 Score: 546
Period size: 27 Copynumber: 16.6 Consensus size: 27
108866112 AGGGTATTTT
*
108866122 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866149 AGTAATT-T-TAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
108866174 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866201 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866228 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866255 -GATAATTATGTAAATCG-GGGT-AAA-
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
108866279 A-TAATTATGTAAATTG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
108866304 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
108866331 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
108866358 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
108866385 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
108866412 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866439 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
108866466 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
108866493 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
108866520 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
108866547 GGTAATT-TGTAAATCG
1 AGTAATTCTGTAAATCG
108866563 GGAGTACTTT
Statistics
Matches: 367, Mismatches: 33, Indels: 29
0.86 0.08 0.07
Matches are distributed among these distances:
23 18 0.05
24 3 0.01
25 26 0.07
26 29 0.08
27 289 0.79
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:108869452 original size:31 final size:31
Alignment explanation
Indices: 108869411--108869474 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
108869401 CCTTTTCATA
*
108869411 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
108869442 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
108869473 TT
1 TT
108869475 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:108869717 original size:23 final size:24
Alignment explanation
Indices: 108869666--108869830 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
108869656 GCTTTATCAT
*
108869666 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
108869691 ATAACT-GGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
108869714 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
108869737 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
108869761 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
108869785 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
108869808 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108869831 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 57 0.45
24 64 0.50
25 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:108869782 original size:71 final size:70
Alignment explanation
Indices: 108869666--108869830 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 70
108869656 GCTTTATCAT
* *
108869666 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
108869730 CCCTTTA
64 CCCTTTA
* * *
108869737 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
108869802 CCTTTA
65 CCTTTA
108869808 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108869831 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 15 0.17
71 72 0.83
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCC
CTTTA
Found at i:108869830 original size:47 final size:48
Alignment explanation
Indices: 108869666--108869830 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 48
108869656 GCTTTATCAT
* * *
108869666 ATAACTGGAGGCCT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
108869714 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
108869761 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
108869808 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108869831 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
46 10 0.09
47 64 0.60
48 33 0.31
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:108869902 original size:9 final size:9
Alignment explanation
Indices: 108869888--108869964 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
108869878 ATCTCGTGTG
108869888 CATATCATA
1 CATATCATA
*
108869897 CATATCATGTG
1 CATATCA--TA
108869908 CATATCATA
1 CATATCATA
* *
108869917 CATGTCATGTG
1 CATATCA--TA
108869928 CATATCATA
1 CATATCATA
*
108869937 CATATCATGTG
1 CATATCA--TA
108869948 CATATCATA
1 CATATCATA
108869957 CATATCAT
1 CATATCAT
108869965 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:108869907 original size:20 final size:20
Alignment explanation
Indices: 108869884--108869966 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
108869874 GAACATCTCG
108869884 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
108869904 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
108869924 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
108869944 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
108869964 TGT
1 TGT
108869967 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:108869913 original size:11 final size:11
Alignment explanation
Indices: 108869884--108869955 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
108869874 GAACATCTCG
108869884 TGTGCATATCA
1 TGTGCATATCA
*
108869895 --TACATATCA
1 TGTGCATATCA
108869904 TGTGCATATCA
1 TGTGCATATCA
* *
108869915 --TACATGTCA
1 TGTGCATATCA
108869924 TGTGCATATCA
1 TGTGCATATCA
*
108869935 --TACATATCA
1 TGTGCATATCA
108869944 TGTGCATATCA
1 TGTGCATATCA
108869955 T
1 T
108869956 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:108870031 original size:25 final size:25
Alignment explanation
Indices: 108870003--108870050 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
108869993 ATATATAAAC
* *
108870003 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
108870028 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
108870051 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:108872858 original size:29 final size:29
Alignment explanation
Indices: 108872830--108872933 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
108872820 CCTCCGAGCT
** * * *
108872830 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
108872859 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
108872888 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
108872917 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
108872934 CTCGACACCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:108874291 original size:10 final size:9
Alignment explanation
Indices: 108874261--108874294 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
108874251 AGGATGAGCA
108874261 TTCTTTTTT
1 TTCTTTTTT
*
108874270 TTTTTTTTT
1 TTCTTTTTT
108874279 TTCTTTTTCT
1 TTCTTTTT-T
108874289 TTCTTT
1 TTCTTT
108874295 ACTAACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:108875146 original size:40 final size:40
Alignment explanation
Indices: 108875101--108875226 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
108875091 CGGAATACAT
* *
108875101 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
108875141 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
108875181 CCGGATTTAACAACTTGCACGAATGCTTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
108875221 CCGGAT
1 CCGGAT
108875227 GTGGTCACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:108875249 original size:80 final size:80
Alignment explanation
Indices: 108875101--108875307 Score: 202
Period size: 80 Copynumber: 2.6 Consensus size: 80
108875091 CGGAATACAT
* * *
108875101 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAGG
108875166 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
* * * * ** * *
108875181 CCGGATTTAACAACTTGCACGAATGCTTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCATAACG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAG
* *
108875245 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAGC
* ** ** * *
108875261 CTGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
108875308 TCATTCAATT
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
79 1 0.01
80 99 0.97
81 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAGG
CCTTCGGGTATTAGC
Found at i:108875252 original size:40 final size:40
Alignment explanation
Indices: 108875125--108875308 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
108875115 ATGCACGAAT
* * * *
108875125 GCCTTCGGGTCTTAGCCCGGATAGAA-CGACTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAAG
* * * ** *
108875165 GCCTTCGGGTATTAGCCCGGATTTAA-CAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAAG
* * ** *
108875205 GCTTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAACG
1 GCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAG
* * * *
108875245 GCCTTCGGGTCTTAACCTGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAG
* *
108875285 GTCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
108875309 CATTCAATTG
Statistics
Matches: 115, Mismatches: 28, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
40 114 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAG
Found at i:108878157 original size:29 final size:29
Alignment explanation
Indices: 108878125--108878197 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
108878115 CTTCGAGCTC
*
108878125 GCACACCCAGTG-CAGTATTTTTCCAGCAT
1 GCACACCCAGTGCCA-TATATTTCCAGCAT
**
108878154 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
108878183 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
108878198 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:108879409 original size:24 final size:24
Alignment explanation
Indices: 108879368--108879423 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108879358 TTTTTTTCCT
108879368 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
108879393 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
108879416 TATTCTTT
1 T-TTCTTT
108879424 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:108886038 original size:29 final size:29
Alignment explanation
Indices: 108886006--108886078 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
108885996 CTTCGAGCTC
* *
108886006 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
108886035 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
108886064 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
108886079 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:108892828 original size:40 final size:40
Alignment explanation
Indices: 108892743--108892893 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
108892733 AATTGAATGA
* * *
108892743 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
108892783 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
108892824 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
108892863 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
108892894 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:108892907 original size:40 final size:40
Alignment explanation
Indices: 108892780--108892909 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
108892770 ATGCTGGAAA
* * * *
108892780 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
108892820 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
108892860 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
108892900 TTATATCCGG
1 TTATATCCGG
108892910 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:108900086 original size:40 final size:40
Alignment explanation
Indices: 108899959--108900088 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
108899949 ATGGTGGAAA
* * * *
108899959 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
108899999 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
108900039 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
108900079 TTATATCCGG
1 TTATATCCGG
108900089 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:108906794 original size:27 final size:26
Alignment explanation
Indices: 108906746--108906805 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
108906736 GCGAGGCTGC
* *
108906746 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTATGACGAAGCCACCAGA-A
* *
108906773 CAGATATTATGCCTAAGCCACCAGAA
1 CAGATATTATGACGAAGCCACCAGAA
*
108906799 CATATAT
1 CAGATAT
108906806 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (26 bp):
CAGATATTATGACGAAGCCACCAGAA
Found at i:108909616 original size:43 final size:41
Alignment explanation
Indices: 108909544--108909625 Score: 94
Period size: 43 Copynumber: 2.0 Consensus size: 41
108909534 TGACTCCGAT
* *
108909544 ATATGTGTACAAGTAAGACCCTATTTGGGACAG-TGGCATCG
1 ATATGTGTACAAGTAAGACCATATCTGGGAC-GTTGGCATCG
* *
108909585 ATATGTGGTTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 ATATGT-G-TACAAGTAAGACCATATCTGGGACGTTGGCAT
108909626 TGTACAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.18
42 2 0.06
43 26 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (41 bp):
ATATGTGTACAAGTAAGACCATATCTGGGACGTTGGCATCG
Found at i:108910222 original size:17 final size:17
Alignment explanation
Indices: 108910200--108910232 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
108910190 TCGGCCATAT
108910200 AATATGAATATGTATGA
1 AATATGAATATGTATGA
108910217 AATATGAATATGTATG
1 AATATGAATATGTATG
108910233 CGATTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
AATATGAATATGTATGA
Found at i:108914899 original size:21 final size:21
Alignment explanation
Indices: 108914875--108914929 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
108914865 AAAATAGGGC
108914875 ACACGCCCATGTGGAAGGGTA
1 ACACGCCCATGTGGAAGGGTA
108914896 ACACGCCCATGTGGAAGGGTA
1 ACACGCCCATGTGGAAGGGTA
*
108914917 ACACGCCCGTGTG
1 ACACGCCCATGTG
108914930 ACCATTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.33, T:0.15
Consensus pattern (21 bp):
ACACGCCCATGTGGAAGGGTA
Found at i:108921158 original size:30 final size:30
Alignment explanation
Indices: 108921122--108921179 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
108921112 GGTGTAGTTT
*
108921122 CCACACGGCTGTGTA-ACACGCCTATGTCAA
1 CCACACGGCTGAG-ACACACGCCTATGTCAA
*
108921152 CCACACGGCTGAGACACATGCCTATGTC
1 CCACACGGCTGAGACACACGCCTATGTC
108921180 TTTGCCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (30 bp):
CCACACGGCTGAGACACACGCCTATGTCAA
Found at i:108934241 original size:28 final size:28
Alignment explanation
Indices: 108934196--108934264 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
108934186 CCCCAATCCC
*
108934196 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
108934223 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
108934251 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
108934265 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:108935918 original size:20 final size:20
Alignment explanation
Indices: 108935895--108935932 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108935885 CACATCCAAA
*
108935895 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
108935915 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
108935933 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:108937155 original size:24 final size:24
Alignment explanation
Indices: 108936887--108937153 Score: 444
Period size: 24 Copynumber: 11.1 Consensus size: 24
108936877 GCAAAGACCA
*
108936887 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
108936911 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
108936935 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
108936959 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
108936983 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
108937007 TATGGCACTAGGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
108937031 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
108937055 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
108937079 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
108937103 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
108937127 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
108937151 TAT
1 TAT
108937154 AGTCACATTC
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:108944662 original size:28 final size:28
Alignment explanation
Indices: 108944617--108944685 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
108944607 CTTAAAACCC
*
108944617 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
108944644 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
108944672 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
108944686 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:108952353 original size:40 final size:40
Alignment explanation
Indices: 108952287--108952492 Score: 304
Period size: 40 Copynumber: 5.2 Consensus size: 40
108952277 GGATTTAGCA
* * * * * *
108952287 GGATATAACCACACGCCCAATTGCCTTCGGGTTTTAACCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
108952327 GGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
108952367 AGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
108952407 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
108952447 GGATATAACAACTCACACAAATGCCTTTGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
108952487 GGATAT
1 GGATAT
108952493 CATTCAAATG
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:108955053 original size:27 final size:27
Alignment explanation
Indices: 108955023--108955083 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
108955013 TCATACATCT
*
108955023 CATAAGGGC-ATAATAGTCATTTTACCA
1 CATAAGGGCAAT-ACAGTCATTTTACCA
*
108955050 CATAGGGGCAATACAGTCATTTTACCA
1 CATAAGGGCAATACAGTCATTTTACCA
108955077 CA-AAGGG
1 CATAAGGG
108955084 GGTCTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 24 0.80
28 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
CATAAGGGCAATACAGTCATTTTACCA
Found at i:108956410 original size:29 final size:30
Alignment explanation
Indices: 108956377--108956434 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
108956367 TTTACGAGCC
* *
108956377 TAGGGGCCAAAGTCCAAA-TGGTAAAAGTT
1 TAGGGGCCAAAATACAAATTGGTAAAAGTT
* *
108956406 TAGGGGTCAAAATACAAATTTGTAAAAGT
1 TAGGGGCCAAAATACAAATTGGTAAAAGT
108956435 ATATTTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (30 bp):
TAGGGGCCAAAATACAAATTGGTAAAAGTT
Found at i:108957065 original size:12 final size:14
Alignment explanation
Indices: 108957050--108957081 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
108957040 GTGAGAACAC
108957050 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
108957062 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
108957076 ATGTGT
1 ATGTGT
108957082 TTAAGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:108957126 original size:52 final size:50
Alignment explanation
Indices: 108957047--108957180 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 50
108957037 GTTGTGAGAA
*
108957047 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGAGAGTT-TTAAGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTG--TAAGAGA-TTGTTAAGT
* * * ** *
108957099 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTAAGAGATTGTTAAGT
* *
108957149 CGCATGTGTAGCACTAAGTGTAGGCTACTATG
1 CACATGTGTAGTACTAAGTGTAGGCTACTATG
108957181 CGCACCCGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 37 0.54
52 30 0.43
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTAAGAGATTGTTAAGT
Found at i:108970539 original size:40 final size:40
Alignment explanation
Indices: 108970454--108970604 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
108970444 AATTGAATGA
* * *
108970454 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
108970494 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
108970535 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
108970574 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
108970605 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:108970618 original size:40 final size:40
Alignment explanation
Indices: 108970490--108970620 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
108970480 TATGCTGGAA
* * *
108970490 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
108970530 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
108970570 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
108970610 ATTATATCCGG
1 ATTATATCCGG
108970621 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:108972838 original size:17 final size:17
Alignment explanation
Indices: 108972816--108972852 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
108972806 GTTTGTGGCA
108972816 TTCTCGAGATACGAGAG
1 TTCTCGAGATACGAGAG
108972833 TTCTCGAGATACGAGAG
1 TTCTCGAGATACGAGAG
108972850 TTC
1 TTC
108972853 GTAGTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (17 bp):
TTCTCGAGATACGAGAG
Found at i:108979741 original size:57 final size:58
Alignment explanation
Indices: 108979679--108979809 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
108979669 AATTTAAGCC
* * * * *
108979679 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTAT-TTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
108979736 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
108979794 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
108979810 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 38 0.61
58 24 0.39
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:108979769 original size:29 final size:29
Alignment explanation
Indices: 108979679--108979809 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
108979669 AATTTAAGCC
* *** * *
108979679 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
108979708 CGCACACCCAGTGCCGTAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
108979736 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
108979765 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
108979794 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
108979810 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 21 0.24
29 68 0.76
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:108981164 original size:18 final size:18
Alignment explanation
Indices: 108981143--108981180 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
108981133 ATCATTATCT
108981143 TTTTCTTTCT-TTTTTTTA
1 TTTT-TTTCTATTTTTTTA
*
108981161 TTTTTTTTTATTTTTTTA
1 TTTTTTTCTATTTTTTTA
108981179 TT
1 TT
108981181 CTCCCTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTTCTATTTTTTTA
Found at i:108988487 original size:28 final size:28
Alignment explanation
Indices: 108988422--108988493 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
108988412 ATAGTGAATC
*
108988422 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
108988451 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
108988479 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
108988494 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 18 0.44
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:108993409 original size:29 final size:29
Alignment explanation
Indices: 108993374--108993448 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
108993364 ATAATCGATT
***
108993374 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATACAATTTAAGC
* *
108993403 TCGCACACATAGTGCCATACAATTTAAGT
1 TCGCACACTTAGTGCCATACAATTTAAGC
108993432 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
108993449 ATCTTGTCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATACAATTTAAGC
Found at i:109028103 original size:22 final size:21
Alignment explanation
Indices: 109028070--109028122 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
109028060 TAACATGTGT
109028070 CACATATATCATGAGCTCAGAC
1 CACATA-ATCATGAGCTCAGAC
*
109028092 CACATAACTCATGAGCTCAGAT
1 CACATAA-TCATGAGCTCAGAC
109028114 CACATAATC
1 CACATAATC
109028123 CTTAGTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (21 bp):
CACATAATCATGAGCTCAGAC
Found at i:109036543 original size:50 final size:51
Alignment explanation
Indices: 109036426--109036555 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 51
109036416 GTTGTGAGAA
* * * ** *
109036426 CACATGTGTAGTACTATGTGCAGCCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAAT-GTGTTAGGT
* * *
109036478 CACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACCAAAT-TGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGTGTTAGGT
*
109036528 CACATGTGTAGTACTAAGTGTA-GCTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACT
109036556 TTGCGTACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 6 0.09
50 26 0.39
52 34 0.52
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGTGTTAGGT
Found at i:109041153 original size:29 final size:29
Alignment explanation
Indices: 109041119--109041192 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
109041109 AATCAACCAT
* *
109041119 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
109041148 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
109041177 GCACACTTAGTGCCAT
1 GCACACTTAGTGCCAT
109041193 TCTCTCAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:109049322 original size:46 final size:46
Alignment explanation
Indices: 109049272--109049447 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
109049262 TGGTTGAGCA
109049272 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
109049318 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
109049363 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
109049411 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109049448 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:109049428 original size:93 final size:93
Alignment explanation
Indices: 109049269--109049440 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
109049259 GGATGGTTGA
* *
109049269 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
109049334 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
109049362 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
109049427 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
109049441 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:109053534 original size:68 final size:70
Alignment explanation
Indices: 109053462--109053659 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
109053452 ACACCCTGTA
* * * *
109053462 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
109053524 ATAAAT
65 ATAAAT
*
109053530 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
109053595 ATAAAT
65 ATAAAT
*
109053601 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
109053660 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:109053573 original size:41 final size:41
Alignment explanation
Indices: 109053528--109053645 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
109053518 TGAAAGATAA
109053528 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
109053569 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109053599 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109053640 ATGTAG
1 ATGTAG
109053646 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:109053585 original size:71 final size:71
Alignment explanation
Indices: 109053496--109053659 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109053486 GAGATGTATC
109053496 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109053561 AGGACA
66 AGGACA
109053567 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109053632 AGGACA
66 AGGACA
109053638 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
109053660 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:109066309 original size:17 final size:17
Alignment explanation
Indices: 109066284--109066317 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109066274 AGTATGGTGA
*
109066284 GAAAGGGTTGTGAAGCT
1 GAAAAGGTTGTGAAGCT
109066301 GAAAAGGTTGTGAAGCT
1 GAAAAGGTTGTGAAGCT
109066318 TATTTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.38, T:0.24
Consensus pattern (17 bp):
GAAAAGGTTGTGAAGCT
Found at i:109071373 original size:43 final size:41
Alignment explanation
Indices: 109071323--109071416 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 41
109071313 TCCCAGATGT
*
109071323 GGTCTTACATGTAATCAAATATCGATGAC-ACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAATAT-GAT-ACGA-TGTCCCAGACAG
*
109071366 GGTCTTACATGAAATCAAATATGATACTGATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATGATAC-GATGTCCCAGACAG
109071408 GGTCTTACA
1 GGTCTTACA
109071417 CATAAATCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
41 2 0.04
42 23 0.49
43 22 0.47
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (41 bp):
GGTCTTACATGAAATCAAATATGATACGATGTCCCAGACAG
Found at i:109071413 original size:42 final size:43
Alignment explanation
Indices: 109071312--109071416 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
109071302 CAATGCCAAC
** *
109071312 GTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGACACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGACACT
*
109071355 GTCCCAGACAGGGTCTTACATGAAATCAAATAT-GAT-ACTGA-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGAC--ACT
109071397 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
109071417 CATAAATCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.04
42 23 0.42
43 30 0.55
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGACACT
Found at i:109071424 original size:43 final size:44
Alignment explanation
Indices: 109071312--109071461 Score: 118
Period size: 43 Copynumber: 3.5 Consensus size: 44
109071302 CAATGCCAAC
** **
109071312 GTCCCAGATGTGGTCTTACATGT-AATCAAATATCGATGACACT
1 GTCCCAGACATGGTCTTACACATAAATCAAATATCGATGACACT
*
109071355 GTCCCAGACAGGGTCTT--ACATGAAATCAAATAT-GAT-ACTGA-T
1 GTCCCAGACATGGTCTTACACAT-AAATCAAATATCGATGAC--ACT
*
109071397 GTCCCAGACATGGTCTTACACATAAATCATAA-ATCGATGCCAACT
1 GTCCCAGACATGGTCTTACACATAAATCA-AATATCGATGAC-ACT
* **
109071442 -TCCCCGATGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
109071462 GAAAACACTT
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
41 4 0.05
42 20 0.23
43 33 0.38
44 27 0.31
45 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACATAAATCAAATATCGATGACACT
Found at i:109074731 original size:39 final size:39
Alignment explanation
Indices: 109074661--109074837 Score: 239
Period size: 39 Copynumber: 4.5 Consensus size: 39
109074651 ACAAAGCATG
* * * *
109074661 CGGGACTTTAAGCCCGGATATAATACTAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
109074701 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
109074741 CGGGACTTAGACCGGATATAACAGCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
109074780 CGGGACTTCGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
109074819 CGGGACTTAGCCCAGATAT
1 CGGGACTTAGCCCGGATAT
109074838 TGTGACAGCC
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
39 102 0.83
40 21 0.17
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:109076555 original size:40 final size:40
Alignment explanation
Indices: 109076497--109076664 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
109076487 CAATTGAATG
* *
109076497 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
109076538 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
109076577 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
109076617 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
109076657 ATATCCGG
1 ATATCCGG
109076665 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:109076635 original size:80 final size:79
Alignment explanation
Indices: 109076497--109076664 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
109076487 CAATTGAATG
* * *
109076497 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
109076562 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
109076577 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
109076641 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
109076657 ATATCCGG
1 ATATCCGG
109076665 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:109084561 original size:40 final size:40
Alignment explanation
Indices: 109084503--109084670 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
109084493 CAATTGAATG
* *
109084503 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
109084544 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
109084583 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
109084623 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
109084663 ATATCCGG
1 ATATCCGG
109084671 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:109084641 original size:80 final size:79
Alignment explanation
Indices: 109084503--109084670 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
109084493 CAATTGAATG
* * *
109084503 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
109084568 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
109084583 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
109084647 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
109084663 ATATCCGG
1 ATATCCGG
109084671 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:109089556 original size:46 final size:46
Alignment explanation
Indices: 109089489--109089661 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
109089479 TGTAACCCGC
*
109089489 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
109089535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
109089585 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
109089626 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
109089662 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:109089654 original size:91 final size:92
Alignment explanation
Indices: 109089497--109089666 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
109089487 GCCCATAAGT
*
109089497 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
109089562 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
109089590 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
109089654 GAGTTCGGATGCC
66 GAGTTCGGATGCC
109089667 CAAATATCCA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:109092090 original size:30 final size:30
Alignment explanation
Indices: 109092046--109092134 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
109092036 CAAAGATAAC
109092046 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
109092075 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
109092105 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
109092135 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:109092094 original size:15 final size:15
Alignment explanation
Indices: 109092046--109092125 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
109092036 CAAAGATAAC
*
109092046 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
109092060 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
109092075 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
109092090 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
109092105 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
109092120 AAGAAA
1 AAGAAA
109092126 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:109092134 original size:15 final size:15
Alignment explanation
Indices: 109092057--109092134 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
109092047 AGAAAACCGA
109092057 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
109092072 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
109092086 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
109092101 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
109092117 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
109092132 ATA
1 ATA
109092135 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:109095141 original size:46 final size:46
Alignment explanation
Indices: 109095074--109095247 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
109095064 TGTAACCCGC
*
109095074 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
109095120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
109095170 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
109095212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
109095248 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:109095240 original size:92 final size:93
Alignment explanation
Indices: 109095082--109095252 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
109095072 GCCCATAAGT
* *
109095082 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
109095147 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
109095175 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
109095239 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
109095253 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:109097309 original size:40 final size:40
Alignment explanation
Indices: 109097219--109097354 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
109097209 TCGAATGATG
* * *
109097219 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
109097260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
109097300 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109097341 -CCGGGCTATGTCCC
1 TCCGGGCTAAGTCCC
109097355 AAAGACAATC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 55 0.65
41 29 0.35
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109105020 original size:28 final size:28
Alignment explanation
Indices: 109104951--109105051 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
109104941 GACAAGATTG
* * * *
109104951 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
109104981 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
109105009 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
109105038 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109105052 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:109105045 original size:29 final size:28
Alignment explanation
Indices: 109104980--109105051 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
109104970 AAAATTGTAC
*
109104980 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
109105008 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
109105037 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
109105052 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:109112871 original size:28 final size:28
Alignment explanation
Indices: 109112802--109112902 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
109112792 GACAAGATTG
* * * *
109112802 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
109112832 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
109112860 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
109112889 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109112903 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:109112896 original size:29 final size:28
Alignment explanation
Indices: 109112831--109112902 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
109112821 AAAATTGTAC
*
109112831 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
109112859 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
109112888 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
109112903 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:109122062 original size:54 final size:54
Alignment explanation
Indices: 109121974--109122106 Score: 178
Period size: 54 Copynumber: 2.5 Consensus size: 54
109121964 CATCTTACAG
* *
109121974 CGGGATTACCAGTCCAGGCTAAATTCCCCATAATATCAACTCATAGGGTGATGC
1 CGGGATTACCAGTCCAGACTAAATCCCCCATAATATCAACTCATAGGGTGATGC
* * *
109122028 CGGGATTACCAGTCCAGACTAAATCCCCCGTAATATCCACTTATAGGGTGATGC
1 CGGGATTACCAGTCCAGACTAAATCCCCCATAATATCAACTCATAGGGTGATGC
* **
109122082 CAGGATTATTAGTCCA-AGCTAAATC
1 CGGGATTACCAGTCCAGA-CTAAATC
109122107 TCTTGTAGTG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 69 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGACTAAATCCCCCATAATATCAACTCATAGGGTGATGC
Found at i:109126581 original size:40 final size:40
Alignment explanation
Indices: 109126473--109126682 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
109126463 CGGGATTTAA
* * * * *
109126473 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
109126513 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109126553 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109126593 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109126633 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109126673 CCGGATATAT
1 CCGGATATAT
109126683 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:109134716 original size:40 final size:40
Alignment explanation
Indices: 109134608--109134817 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
109134598 CGGGATTTAA
* * * * *
109134608 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
109134648 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109134688 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109134728 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109134768 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
109134808 CCGGATATAT
1 CCGGATATAT
109134818 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:109138830 original size:41 final size:40
Alignment explanation
Indices: 109138703--109138847 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
109138693 CTCGCCCAAG
* * *
109138703 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
109138743 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
109138783 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
109138824 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
109138848 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:109142029 original size:41 final size:41
Alignment explanation
Indices: 109141984--109142101 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
109141974 TGAAAGATAA
109141984 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
109142025 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109142055 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109142096 ATGTAG
1 ATGTAG
109142102 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:109142040 original size:71 final size:71
Alignment explanation
Indices: 109141952--109142115 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109141942 GAGATGTATC
109141952 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109142017 AGGACA
66 AGGACA
109142023 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109142088 AGGACA
66 AGGACA
109142094 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
109142116 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:109154129 original size:24 final size:24
Alignment explanation
Indices: 109154078--109154289 Score: 326
Period size: 23 Copynumber: 9.0 Consensus size: 24
109154068 GCTTTATCAT
*
109154078 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
109154103 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
109154127 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
109154150 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
109154173 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
109154197 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
109154221 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
109154244 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
109154267 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
109154290 GCACTTCCTC
Statistics
Matches: 179, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
23 91 0.51
24 76 0.42
25 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:109154204 original size:94 final size:94
Alignment explanation
Indices: 109154078--109154290 Score: 356
Period size: 94 Copynumber: 2.3 Consensus size: 94
109154068 GCTTTATCAT
* *
109154078 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
109154142 GCCCTTTAATAACTGGGGCATAAGCCCTTTA
64 GCCCTTTAATAACTGGGGCATAAGCCCTTTA
* *
109154173 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
*
109154238 CCTTTGATAACTGGGGCATAAGCCCTTTA
66 CCTTTAATAACTGGGGCATAAGCCCTTTA
109154267 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
109154291 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 100 0.89
95 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (94 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:109154363 original size:20 final size:20
Alignment explanation
Indices: 109154335--109154385 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
109154325 GCATTTATGA
*
109154335 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
109154355 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
109154375 ACATATCATGT
1 ACATATCATGT
109154386 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:109156635 original size:20 final size:21
Alignment explanation
Indices: 109156572--109156745 Score: 64
Period size: 20 Copynumber: 8.7 Consensus size: 21
109156562 CACATACATG
109156572 CCCTTGTTTGTACTT-CGGTAC
1 CCCTTGTTTGTACTTAC-GTAC
* * *
109156593 CCC-TGATTGCACTTACGT-G
1 CCCTTGTTTGTACTTACGTAC
*
109156612 CCCTTGTTTGTACTT-TGTAC
1 CCCTTGTTTGTACTTACGTAC
* * * *
109156632 CCC-TGATTGCACATACGT-G
1 CCCTTGTTTGTACTTACGTAC
*
109156651 CCCTTATTTGTACTT-CGGTAC
1 CCCTTGTTTGTACTTAC-GTAC
** * * *
109156672 CCC-TAATTGCACATACGT-G
1 CCCTTGTTTGTACTTACGTAC
**
109156691 CCCTTGTTTGTACTTTGGTAC
1 CCCTTGTTTGTACTTACGTAC
* ** * *
109156712 CCC-TGATTACACATACGTGC
1 CCCTTGTTTGTACTTACGTAC
109156732 CCC-TGTTTGTACTT
1 CCCTTGTTTGTACTT
109156746 CGGTATTCCT
Statistics
Matches: 104, Mismatches: 39, Indels: 21
0.63 0.24 0.13
Matches are distributed among these distances:
19 20 0.19
20 73 0.70
21 11 0.11
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (21 bp):
CCCTTGTTTGTACTTACGTAC
Found at i:109156729 original size:119 final size:119
Alignment explanation
Indices: 109156516--109156783 Score: 374
Period size: 119 Copynumber: 2.2 Consensus size: 119
109156506 TAATTATTGG
* * * *
109156516 TGATTGCACATACGTGCCCTTGTTTATACTTTGGTACCCTTGATTGCACATACATGCCCTTGTTT
1 TGATTGCACATACGTGCCCTTATTTATACTTCGGTACCCCTAATTGCACATACATGCCCTTGTTT
* * *
109156581 GTACTTCGGTACCCCTGATTGCACTTACGTGCCCTTGTTTGTACTTTGTACCCC
66 GTACTTCGGTACCCCTGATTACACATACGTGCCCCTGTTTGTACTTTGTACCCC
* *
109156635 TGATTGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCTTGTTT
1 TGATTGCACATACGTGCCCTTATTTATACTTCGGTACCCCTAATTGCACATACATGCCCTTGTTT
* * **
109156700 GTACTTTGGTACCCCTGATTACACATACGTGCCCCTGTTTGTACTTCGGTATTCC
66 GTACTTCGGTACCCCTGATTACACATACGTGCCCCTGTTTGTACTT-TGTACCCC
* * * *
109156755 TAAATGCACTTACGTGCCCCTATTTATAC
1 TGATTGCACATACGTGCCCTTATTTATAC
109156784 CCGGTAACTC
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
119 101 0.78
120 29 0.22
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (119 bp):
TGATTGCACATACGTGCCCTTATTTATACTTCGGTACCCCTAATTGCACATACATGCCCTTGTTT
GTACTTCGGTACCCCTGATTACACATACGTGCCCCTGTTTGTACTTTGTACCCC
Found at i:109156775 original size:40 final size:40
Alignment explanation
Indices: 109156516--109156773 Score: 365
Period size: 40 Copynumber: 6.5 Consensus size: 40
109156506 TAATTATTGG
* * *
109156516 TGATTGCACATACGTGCCCTTGTTTATACTTTGGTACCCT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
109156556 TGATTGCACATACATGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* *
109156596 TGATTGCACTTACGTGCCCTTGTTTGTACTT-TGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
109156635 TGATTGCACATACGTGCCCTTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* *
109156675 TAATTGCACATACGTGCCCTTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * **
109156715 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTATTCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
109156755 TAAATGCACTTACGTGCCC
1 TGATTGCACATACGTGCCC
109156774 CTATTTATAC
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
39 36 0.19
40 158 0.81
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:109162175 original size:29 final size:28
Alignment explanation
Indices: 109162141--109162243 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
109162131 TACTCAATCA
*
109162141 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
109162170 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
109162199 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
109162228 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
109162244 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:109163064 original size:13 final size:14
Alignment explanation
Indices: 109163040--109163075 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
109163030 GTACCATGGC
109163040 CAAATGATATTAGA
1 CAAATGATATTAGA
109163054 CAAAT-ATATTAGA
1 CAAATGATATTAGA
109163067 CAAATGATA
1 CAAATGATA
109163076 AAAGCTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (14 bp):
CAAATGATATTAGA
Found at i:109164061 original size:46 final size:46
Alignment explanation
Indices: 109164011--109164182 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
109164001 TGAGCATCCA
* *
109164011 AACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
109164057 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
109164104 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
109164150 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109164183 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:109164163 original size:93 final size:93
Alignment explanation
Indices: 109164004--109164174 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
109163994 GGATGGTTGA
* **
109164004 GCATCCAAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
109164069 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
109164097 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
109164162 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
109164175 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:109170208 original size:14 final size:16
Alignment explanation
Indices: 109170189--109170221 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
109170179 ACAAAATTGG
109170189 AAAGATGA-AAA-AAT
1 AAAGATGATAAATAAT
109170203 AAAGATGATAAATAAT
1 AAAGATGATAAATAAT
109170219 AAA
1 AAA
109170222 ATAAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAGATGATAAATAAT
Found at i:109175018 original size:40 final size:40
Alignment explanation
Indices: 109174973--109175156 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
109174963 GCTACTAGCT
* *
109174973 CAAATGTCATCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
109175013 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
109175053 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
109175093 CAAATGCCTTC-GGTCTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
109175132 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
109175157 GTATCAATCC
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 101 0.75
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:109183176 original size:40 final size:40
Alignment explanation
Indices: 109183125--109183268 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
109183115 ACTACTAGCT
*
109183125 CAAATGTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
109183165 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*** * *
109183205 CAAATGCCTTCGGG-CTTAGCCC-AAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
109183244 CAAATGCCTTCTGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
109183269 GTATCAGTCC
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.33
40 61 0.66
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:109187992 original size:30 final size:30
Alignment explanation
Indices: 109187958--109188017 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
109187948 ATTTATGAGC
* *
109187958 CTAAGAGCAAAATTGT-AATTTTTGTAAAGT
1 CTAAGAGCAAAATAGTCAATTTGT-TAAAGT
*
109187988 CTAAGGGCAAAATAGTCAATTTGTTAAAGT
1 CTAAGAGCAAAATAGTCAATTTGTTAAAGT
109188018 ATGAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (30 bp):
CTAAGAGCAAAATAGTCAATTTGTTAAAGT
Found at i:109188399 original size:46 final size:46
Alignment explanation
Indices: 109188346--109188509 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
109188336 TATGTGTGCG
*
109188346 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATA-AGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATC-GCCACATTATACAGAGCT
* * * *
109188392 AGTGTAAGACATGTCCAGGACATGCATCG--ATATTAAGACGAGAGCA
1 AGTGTAAGACATGTCTAGGACATGCATCGCCACATT-ATAC-AGAGCT
* * *
109188438 AGTGTAAGACATGTTTAGGACATGCATCAGCCTCGAGATATACA-AGCT
1 AGTGTAAGACATGTCTAGGACATGCATC-GCCAC-A-TTATACAGAGCT
* * *
109188486 AGTGTAAGACCTGTTTGGGACATG
1 AGTGTAAGACATGTCTAGGACATG
109188510 GCGTCAGCTT
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 1 0.01
46 57 0.59
47 1 0.01
48 25 0.26
49 1 0.01
50 4 0.04
51 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGCCACATTATACAGAGCT
Found at i:109191382 original size:40 final size:40
Alignment explanation
Indices: 109191338--109191602 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
109191328 TAATTATTGG
* * * *
109191338 TGATTGCACATATGTGCCCCTGTTTATACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
109191378 TGATTGCACATACATGCCCTTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
109191418 TGATTGCACATACGTGCCCTTGTTTGTACTTTGGTATCCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCC
* * * * *
109191459 -GATTGTACATACGTGCTCCTATTTGTACTTCGGTGCCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
109191498 TGATTGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
**
109191538 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTATTCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
109191578 TGAATGCACTTACATTCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTT
109191603 ATATCCGGTA
Statistics
Matches: 197, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 190 0.96
41 4 0.02
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.38
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:109191516 original size:20 final size:20
Alignment explanation
Indices: 109191491--109191559 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
109191481 TTGTACTTCG
* *
109191491 GTGCCCTTGATTGCACATGC
1 GTGCCCCTGATTGCACATAC
* * *
109191511 GTGCCCCTGTTTGTAC-TTC
1 GTGCCCCTGATTGCACATAC
*
109191530 GGTACCCCTGATTGCACATAC
1 -GTGCCCCTGATTGCACATAC
109191551 GTGCCCCTG
1 GTGCCCCTG
109191560 TTTGTACTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCCCCTGATTGCACATAC
Found at i:109194478 original size:17 final size:17
Alignment explanation
Indices: 109194453--109194485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
109194443 ACATATCTGA
109194453 TAAAGCCCGATAAATGT
1 TAAAGCCCGATAAATGT
*
109194470 TAAATCCCGATAAATG
1 TAAAGCCCGATAAATG
109194486 ATTGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
TAAAGCCCGATAAATGT
Found at i:109195758 original size:10 final size:10
Alignment explanation
Indices: 109195743--109195767 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
109195733 ATGAATATTT
109195743 AATTGAAATC
1 AATTGAAATC
109195753 AATTGAAATC
1 AATTGAAATC
109195763 AATTG
1 AATTG
109195768 TGAGCCTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
AATTGAAATC
Found at i:109196362 original size:49 final size:49
Alignment explanation
Indices: 109196297--109196522 Score: 226
Period size: 49 Copynumber: 4.6 Consensus size: 49
109196287 TGTTGTGTGT
** *
109196297 CAGTGTAAGACCTATCTGGGACATGGCATCGACACT-GATAGGTGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATATATGAAAGC
* * *
109196346 CAGTGTAAGATCTATCTGGGACATGACATC-AGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGA-CCTCGATATATGAAAGC
* * * * *
109196395 TAGTGTAAGACCTATCTGGGACAAGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAAAGC
* * * * **
109196444 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG--ATGTGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAAAGC
* *
109196491 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TATCTGGGACATGGCATCG
109196523 GCATCTTATC
Statistics
Matches: 151, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
47 17 0.11
48 22 0.15
49 112 0.74
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAAAGC
Found at i:109197848 original size:19 final size:19
Alignment explanation
Indices: 109197812--109197850 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
109197802 TTTTCATCAT
* *
109197812 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
109197831 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
109197850 A
1 A
109197851 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:109199565 original size:12 final size:13
Alignment explanation
Indices: 109199546--109199578 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
109199536 GGGTTTGGCT
109199546 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
109199559 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
109199571 ATGGAGAA
1 ATGGAGAA
109199579 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:109202947 original size:40 final size:40
Alignment explanation
Indices: 109202880--109203047 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
109202870 AGAAATTGAA
* * *
109202880 TATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
* * ***
109202919 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
*
109202959 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAAT
* * ** *
109202999 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
109203039 TATATCCGG
1 TATATCCGG
109203048 TTATATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 17 0.16
40 87 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAAT
Found at i:109209843 original size:28 final size:29
Alignment explanation
Indices: 109209811--109209909 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
109209801 ATAATAAGCC
*
109209811 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
109209839 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
109209867 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
109209896 CGCACACTTAGTGC
1 CGCACACTTAGTGC
109209910 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:109210032 original size:2 final size:2
Alignment explanation
Indices: 109210025--109210051 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
109210015 TGCATACATG
109210025 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
109210052 CATTCCATTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109214766 original size:41 final size:41
Alignment explanation
Indices: 109214721--109214838 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
109214711 TGAAAGATAA
109214721 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
109214762 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109214792 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
109214833 ATGTAG
1 ATGTAG
109214839 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:109214777 original size:71 final size:71
Alignment explanation
Indices: 109214689--109214852 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109214679 GAGATGTATC
109214689 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109214754 AGGACA
66 AGGACA
109214760 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109214825 AGGACA
66 AGGACA
109214831 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
109214853 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:109221391 original size:49 final size:49
Alignment explanation
Indices: 109221323--109221445 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
109221313 TACATATATG
*
109221323 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
109221372 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
109221421 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
109221446 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:109221591 original size:37 final size:37
Alignment explanation
Indices: 109221548--109221662 Score: 230
Period size: 37 Copynumber: 3.1 Consensus size: 37
109221538 GTTCCGGGCG
109221548 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
109221585 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
109221622 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
109221659 AGAC
1 AGAC
109221663 TTCTTTATAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:109223764 original size:29 final size:29
Alignment explanation
Indices: 109223673--109224211 Score: 933
Period size: 29 Copynumber: 18.7 Consensus size: 29
109223663 CGAATGATTA
* * *
109223673 GAGGCACTGTGTGTGC-AAATTCCGTTAACC
1 GAGGCACTGTGTGTGCGAGA-TCAG-TAATC
*
109223703 GA-GCACTATGTGTGCGAGA-CAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
109223730 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223759 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223788 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223817 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223846 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223875 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223904 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223933 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223962 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109223991 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109224020 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109224049 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109224078 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109224107 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
109224136 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
109224165 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
109224194 GAGG-ACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
109224212 TTTTTCAACA
Statistics
Matches: 495, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
27 6 0.01
28 31 0.06
29 454 0.92
30 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:109224793 original size:40 final size:41
Alignment explanation
Indices: 109224695--109224793 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
109224685 TTCGAATGGT
* ** * *
109224695 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
109224736 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
109224777 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
109224794 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:109227960 original size:49 final size:49
Alignment explanation
Indices: 109227892--109228014 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
109227882 TACATATATG
*
109227892 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
109227941 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
109227990 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
109228015 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:109228160 original size:37 final size:37
Alignment explanation
Indices: 109228117--109228194 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
109228107 GTTCCGGGCG
109228117 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
109228154 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
109228191 AGAC
1 AGAC
109228195 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:109230298 original size:29 final size:29
Alignment explanation
Indices: 109230207--109230717 Score: 866
Period size: 29 Copynumber: 17.7 Consensus size: 29
109230197 CGAATGATTA
* * *
109230207 GAGGCACTGTGTGTGC-AAATTCCGTTAACC
1 GAGGCACTGTGTGTGCGAGA-TCAG-TAATC
*
109230237 GA-GCACTATGTGTGCGAGA-CAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
109230264 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
109230293 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230322 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230351 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230380 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230409 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230438 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230467 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230496 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230525 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230554 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230583 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
109230612 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
109230641 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
109230670 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
109230699 GAGGTACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
109230718 TTTTTCAACA
Statistics
Matches: 466, Mismatches: 12, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
27 6 0.01
28 19 0.04
29 437 0.94
30 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:109231299 original size:40 final size:41
Alignment explanation
Indices: 109231201--109231299 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
109231191 TTCGAATGGT
* ** * *
109231201 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
109231242 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
109231283 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
109231300 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:109235518 original size:40 final size:40
Alignment explanation
Indices: 109235459--109235627 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
109235449 CGGGACTTTA
* * *
109235459 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
109235499 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
109235539 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
109235579 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
109235619 CCCGGATAT
1 CCCGGATAT
109235628 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:109243521 original size:40 final size:40
Alignment explanation
Indices: 109243462--109243630 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
109243452 CGGGACTTTA
* * *
109243462 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
109243502 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
109243542 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
109243582 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
109243622 CCCGGATAT
1 CCCGGATAT
109243631 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:109246153 original size:25 final size:26
Alignment explanation
Indices: 109246116--109246164 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
109246106 GTTGTAAATC
109246116 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTTAGAGAATTTTCT
* *
109246141 AGAATAATCTCTTTAGAGAATTTT
1 AGAAAAATATCTTTAGAGAATTTT
109246165 TTATCTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAAATATCTTTAGAGAATTTTCT
Found at i:109246358 original size:20 final size:18
Alignment explanation
Indices: 109246311--109246359 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
109246301 CAAGATAAAC
109246311 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
109246328 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
109246348 ATTAAATTAATA
1 ATTAAATTAATA
109246360 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:109246390 original size:68 final size:71
Alignment explanation
Indices: 109246269--109246400 Score: 198
Period size: 68 Copynumber: 1.9 Consensus size: 71
109246259 AACTTAATAT
* *
109246269 CTTTAATATTAAATTAATATAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAG
1 CTTTAATATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATATTAAG
109246334 ATAATCA
65 ATAATCA
**
109246341 CTTTAATATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATTTAATATTAA
1 CTTTAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAA
109246401 AGTGTTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 29 0.52
70 1 0.02
71 3 0.05
72 23 0.41
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (71 bp):
CTTTAATATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGA
TAATCA
Done.