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 298 of 770
Found at i:90927430 original size:80 final size:81
Alignment explanation
Indices: 90927283--90927488 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
90927273 CGGAATACAA
* * * *
90927283 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
90927347 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
90927363 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
90927426 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * * *
90927443 CCGGATTTAACTACTAGCATAAATGTCTTTGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
90927489 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:90929666 original size:30 final size:30
Alignment explanation
Indices: 90929632--90929692 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
90929622 TTCCCGAGCC
90929632 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
90929662 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
90929692 T
1 T
90929693 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:90930507 original size:64 final size:64
Alignment explanation
Indices: 90930426--90930609 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
90930416 AGACATTGTG
* * * *
90930426 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGAGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
90930490 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-AGTACACCATGTAGACAAGAGAGCTACGAGAT
90930555 AA
63 AA
* * *
90930557 AT-TGGCTAGGTCACATGGGTGGTACTGA-GAGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGAGTACACCATGTAG-ACAAGAGAGC
90930610 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGAGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:90932841 original size:40 final size:40
Alignment explanation
Indices: 90932796--90932921 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
90932786 CGGAATACAA
* * *
90932796 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
90932836 CCGGATAGAACGACTTGCAAAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
*
90932876 CCGGATTTAACAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
90932916 CCGGAT
1 CCGGAT
90932922 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:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:90939189 original size:84 final size:85
Alignment explanation
Indices: 90939029--90939190 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 85
90939019 GTCTGAGACA
* * * *
90939029 TCGTGTAAGACCGTGTATGGGACACAGGCCTCGATTGAGATTTACATGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTATATGGGACACAGGCATCGATTGAGATTTACATGTAAGACCACGTCTGGGA
* **
90939094 CATTGGTATTGTATCTGATT
66 CATCGACATTGTATCTGATT
* * * *
90939114 TCGTGTAAGACCCTATTTGGGACAGAGGCATCATATTGA-A-TTACATGTAAGACCACGTTTGGG
1 TCGTGTAAGACCCTATATGGGACACAGGCATC-GATTGAGATTTACATGTAAGACCACGTCTGGG
90939177 ACATCGACATTGTA
65 ACATCGACATTGTA
90939191 CTTGTTTATG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 32 0.49
85 28 0.43
86 5 0.08
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (85 bp):
TCGTGTAAGACCCTATATGGGACACAGGCATCGATTGAGATTTACATGTAAGACCACGTCTGGGA
CATCGACATTGTATCTGATT
Found at i:90942289 original size:47 final size:48
Alignment explanation
Indices: 90942230--90942330 Score: 170
Period size: 47 Copynumber: 2.1 Consensus size: 48
90942220 TAAGTTGAAT
*
90942230 TTAAAGCTTGTTAAATTTGCTCTTAATATTTCC-AGATAAGTTACTTAG
1 TTAAAGCTTGTTAAATTTGCCCTTAATATTTCCGA-ATAAGTTACTTAG
90942278 TTAAA-CTTGTTAAATTTGCCCTTAATATTTCCGAATAAGTTACTTAG
1 TTAAAGCTTGTTAAATTTGCCCTTAATATTTCCGAATAAGTTACTTAG
90942325 TTAAAG
1 TTAAAG
90942331 AAAATTTTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (48 bp):
TTAAAGCTTGTTAAATTTGCCCTTAATATTTCCGAATAAGTTACTTAG
Found at i:90943188 original size:45 final size:45
Alignment explanation
Indices: 90943118--90943276 Score: 198
Period size: 45 Copynumber: 3.6 Consensus size: 45
90943108 CGTACAGTAT
* *
90943118 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGC
1 TATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGATGC
* *
90943163 TATTCGGGCCTTTGAGCCTAACAGGCTATAATACCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGATGC
* * * * *
90943208 TATTCAGGCTTTTGAGCCTAGCAGGCTATAAAGCCGGTGA-AGTGA
1 TATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGA-TGC
*
90943253 TA-TCGGG-CTTTGAGCCTAATAGGC
1 TATTCGGGCCTTTGAGCCTAACAGGC
90943277 GAAATGTCAG
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 14 0.14
44 5 0.05
45 79 0.81
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGATGC
Found at i:90950777 original size:27 final size:27
Alignment explanation
Indices: 90950747--90950951 Score: 218
Period size: 27 Copynumber: 7.6 Consensus size: 27
90950737 AAAGTACTCC
90950747 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
90950774 CGATTTACAGAATTA-TCGTTTTAGCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* ** * *
90950801 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
90950828 CGATTTACAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACTGTTTTACCCT
**
90950855 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* **
90950882 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
90950909 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* * *
90950936 CAATTTGCAAAATTAC
1 CGATTTACAGAATTAC
90950952 CAAAATATCC
Statistics
Matches: 151, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.02
27 146 0.97
28 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:90950838 original size:81 final size:80
Alignment explanation
Indices: 90950747--90950953 Score: 272
Period size: 81 Copynumber: 2.5 Consensus size: 80
90950737 AAAGTACTCC
* * * **
90950747 CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTAGCCTCAATTTTTAAA
1 CGATTTACAGAATTACTGTTTTACCCTC-ATTTACAGAATTACCATTTTACCCTCAATTTACAAA
*
90950812 ATTACCGTTTTACCCT
65 ATTACCATTTTACCCT
* *
90950828 CGATTTACAGAATTACTGTTTTACCTTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACTGTTTTACCCTCA-TTTACAGAATTACCATTTTACCCTCAATTTACAAA
90950893 ATTACCATTTTACCCT
65 ATTACCATTTTACCCT
* * *
90950909 C-AGTTTACAGAATTACTATTTTACCCTCAATTTGCAAAATTACCA
1 CGA-TTTACAGAATTACTGTTTTACCCTC-ATTTACAGAATTACCA
90950954 AAATATCCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.02
81 108 0.97
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (80 bp):
CGATTTACAGAATTACTGTTTTACCCTCATTTACAGAATTACCATTTTACCCTCAATTTACAAAA
TTACCATTTTACCCT
Found at i:90950968 original size:54 final size:53
Alignment explanation
Indices: 90950856--90951032 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 53
90950846 TTTTACCTTC
* * * ***
90950856 AGTTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCT
1 AGTTTACAAAATTACCATTTTACCCTCAATTTGCAAAATTACCAAAATACCCT
* *
90950909 CAGTTTACAGAATTACTATTTTACCCTCAATTTGCAAAATTACCAAAATATCCCT
1 -AGTTTACAAAATTACCATTTTACCCTCAATTTGCAAAATTACCAAAATA-CCCT
* *** * *
90950964 AGTTTGCAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCAT
1 AGTTTACAAAATTACCATTTTACCCTC-AATTTGCAAAATTACCAAAATACCC-T
*
90951018 GGTTTACAAAATTAC
1 AGTTTACAAAATTAC
90951033 TAAAATACCC
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 4 0.04
54 96 0.92
55 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (53 bp):
AGTTTACAAAATTACCATTTTACCCTCAATTTGCAAAATTACCAAAATACCCT
Found at i:90950969 original size:27 final size:27
Alignment explanation
Indices: 90950939--90951071 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 27
90950929 TTACCCTCAA
*
90950939 TTTGCAAAATTACCAAAATATCCCTAG
1 TTTGCAAAATTACCAAAATACCCCTAG
90950966 TTTGCAAAATTACCAAAATACCCCTAG
1 TTTGCAAAATTACCAAAATACCCCTAG
* * *
90950993 TTTGTAAAATTACCAAAATACCCATGG
1 TTTGCAAAATTACCAAAATACCCCTAG
* *
90951020 TTTACAAAATTACTAAAATACCCCT-G
1 TTTGCAAAATTACCAAAATACCCCTAG
** * *
90951046 TAAGGTAAAATTACCGAAATACCCCT
1 T-TTGCAAAATTACCAAAATACCCCT
90951072 GTAGGGTAGA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 89 0.98
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
TTTGCAAAATTACCAAAATACCCCTAG
Found at i:90950974 original size:81 final size:81
Alignment explanation
Indices: 90950747--90950980 Score: 222
Period size: 81 Copynumber: 2.9 Consensus size: 81
90950737 AAAGTACTCC
* * * * **** * **
90950747 CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTAGCCTCA-ATTTTTAA
1 CGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCT-AGATTTACAA
*
90950811 AATTACCGTTTTACCCT
65 AATTACCATTTTACCCT
* * * * *** *
90950828 CGATTTACAGAATTACTGTTTTACCTTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTACAAA
90950893 ATTACCATTTTACCCT
66 ATTACCATTTTACCCT
* *
90950909 C-AGTTTACAGAATTACTATTTTACCCTCAATTTGCAAAATTACCAAAATATCCCTAG-TTTGCA
1 CGA-TTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATA-CCCTAGATTTACA
90950972 AAATTACCA
64 AAATTACCA
90950981 AAATACCCCT
Statistics
Matches: 130, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 124 0.95
82 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
CGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTACAAA
ATTACCATTTTACCCT
Found at i:90950988 original size:81 final size:81
Alignment explanation
Indices: 90950728--90950988 Score: 197
Period size: 81 Copynumber: 3.2 Consensus size: 81
90950718 CTCGACTTGT
* * * * * *
90950728 AAAATTACCAAAGTACTCC-CGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCG
1 AAAATTACCAAAATAC-CCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCA
*** * **
90950792 TTTTAGCCTCA-ATTTTT
65 AAATACCCT-AGATTTAC
**** * * * * *
90950809 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCTTCAGTTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAA
** *
90950874 TTTACCCTCGATTTAC
66 AATACCCTAGATTTAC
*** *
90950890 AAAATTACCATTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCAATTTGCAAAATTACCA
1 AAAATTACCAAAATACCCTCGA-TTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCA
*
90950954 AAATATCCCTAG-TTTGC
65 AAATA-CCCTAGATTTAC
90950971 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
90950989 CTAGTTTGTA
Statistics
Matches: 149, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
80 3 0.02
81 141 0.95
82 5 0.03
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAA
AATACCCTAGATTTAC
Found at i:90951072 original size:27 final size:27
Alignment explanation
Indices: 90950944--90951088 Score: 109
Period size: 27 Copynumber: 5.4 Consensus size: 27
90950934 CTCAATTTGC
* ** *
90950944 AAAATTACCAAAATATCCCTAGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAAGGT
**
90950971 AAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAAGGT
* * *
90950998 AAAATTACCAAAATACCCATGGTTTA--C
1 AAAATTACCAAAATACCCCT-G-TAAGGT
*
90951025 AAAATTACTAAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTGTAAGGT
* *
90951052 AAAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAAGGT
*
90951079 AGAATTACCA
1 AAAATTACCA
90951089 TTTTGCCCCG
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 95 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAAGGT
Found at i:90952984 original size:47 final size:47
Alignment explanation
Indices: 90952930--90953025 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
90952920 GTTGAATTTA
* *
90952930 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
90952977 AAGCTTGTTAAATTTTCCCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
90953024 AA
1 AA
90953026 AGAAAATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:90953896 original size:45 final size:44
Alignment explanation
Indices: 90953832--90954003 Score: 217
Period size: 45 Copynumber: 3.9 Consensus size: 44
90953822 CGCACAGTAT
*
90953832 TATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
90953877 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
90953922 TATTTGGGCTTTCGAGCCTAGCAGGCTATAATGCCAGTGAAATGA-
1 TATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* *
90953967 TA-TCAGGCTTTGAGCCTAGTAGG-TGA-AATGCCGGTGA
1 TATTCGGGCTTTGAGCCTAGCAGGCT-ATAATGCCGGTGA
90954004 ATTAATCTAG
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
42 11 0.09
43 12 0.10
44 11 0.09
45 81 0.70
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:90955789 original size:33 final size:34
Alignment explanation
Indices: 90955721--90955796 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
90955711 ATTTTAGAAA
* **
90955721 CAGTAGCAGTCTGGGCCTAAACCCATTTCAGTAT
1 CAGTAGCAGTCGGGGCCTAAACCCATAACAGTAT
*
90955755 CAGTAGCAGT-GGGGCCTAAGCCCAATAACA-TAT
1 CAGTAGCAGTCGGGGCCTAAACCC-ATAACAGTAT
90955788 CAGTA-CAGT
1 CAGTAGCAGT
90955797 ATGCAAACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.11
33 19 0.51
34 14 0.38
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (34 bp):
CAGTAGCAGTCGGGGCCTAAACCCATAACAGTAT
Found at i:90959857 original size:56 final size:56
Alignment explanation
Indices: 90959732--90959865 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 56
90959722 CCAGACAGGG
* * * * **
90959732 TCTTACTCACACACATATATCAGAATTACATATCGATGCCAACGTATAAAGCATGG
1 TCTTACTCTCACACATATATCAGAATCACATATCAATGCCAACGTATAAAACATCA
* * *
90959788 TCCTACT-TGCACACATATATCAGAATCACATATCAATGCCAACGTTTAAAACGTCA
1 TCTTACTCT-CACACATATATCAGAATCACATATCAATGCCAACGTATAAAACATCA
90959844 TCTTACTCTCACACATATATCA
1 TCTTACTCTCACACATATATCA
90959866 ATGCCATGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 65 0.98
57 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (56 bp):
TCTTACTCTCACACATATATCAGAATCACATATCAATGCCAACGTATAAAACATCA
Found at i:90963108 original size:27 final size:26
Alignment explanation
Indices: 90963060--90963111 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90963050 GCGAGGCTAC
*
90963060 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90963086 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90963112 TTGTAGGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90963802 original size:27 final size:27
Alignment explanation
Indices: 90963764--90963882 Score: 150
Period size: 27 Copynumber: 4.4 Consensus size: 27
90963754 GGGGCAAAAT
* * *
90963764 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
90963791 GGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
90963818 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90963845 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
90963872 GGTAATTCTAC
1 GGTAATTCTAC
90963883 AACTTATCCA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.05
27 72 0.91
28 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90969525 original size:40 final size:40
Alignment explanation
Indices: 90969470--90969685 Score: 195
Period size: 40 Copynumber: 5.4 Consensus size: 40
90969460 TGATATCTGA
* * *
90969470 GCTAAGTCCCGAAGGCTTTTATGCTAGTGATTAATTCCGG
1 GCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCGG
* * *
90969510 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGG
1 GCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCGG
** * **
90969550 GCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTTTGG
1 GCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCGG
* **
90969590 GCTAAGTCCCGAAGGCATTTGTATGAGTTG-CT-ATATCCGG
1 GCTAAGTCCCGAAGGCATTTATGCGAG-TGACTAAT-TCCGG
* * * * * *
90969630 GCTAAGACCTGAAGGCATTTATGCTAGTGGC-CATATCCAG
1 GCTAAGTCCCGAAGGCATTTATGCGAGTGACTAAT-TCCGG
*
90969670 GCTAAGACCCGAAGGC
1 GCTAAGTCCCGAAGGC
90969686 CTTGTGCGAG
Statistics
Matches: 150, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
39 4 0.03
40 145 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCGG
Found at i:90969603 original size:80 final size:80
Alignment explanation
Indices: 90969462--90969685 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 80
90969452 TATTCGAATG
* * * * *
90969462 ATATCTGAGCTAAGTCCCGAAGGCTTTTATGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATATCTGGGCTAAGTCCCGAAGGCATTGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA
*
90969527 TTTGTGCGAGTTACT
66 TTTGTACGAGTTACT
* * **
90969542 A-ATTCTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTTTGGGCTAAGTCCCGAAGGC
1 ATA-TCTGGGCTAAGTCCCGAAGGCATTGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGC
* *
90969606 ATTTGTATGAGTTGCT
65 ATTTGTACGAGTTACT
* * * * * * * * *
90969622 ATATCCGGGCTAAGACCTGAAGGCATTTATGCTAGTGGC-CATATCCAGGCTAAGACCCGAAGGC
1 ATATCTGGGCTAAGTCCCGAAGGCATTGATGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGC
90969686 CTTGTGCGAG
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
79 3 0.03
80 112 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCTGGGCTAAGTCCCGAAGGCATTGATGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA
TTTGTACGAGTTACT
Found at i:90977299 original size:47 final size:48
Alignment explanation
Indices: 90977187--90977302 Score: 180
Period size: 48 Copynumber: 2.4 Consensus size: 48
90977177 TATATATATG
* *
90977187 TGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAGAGATGTATA
* *
90977235 TGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG-GATGTATA
1 TGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAGAGATGTATA
*
90977282 TTTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
90977303 TTGTGCAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 26 0.42
48 36 0.58
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAGAGATGTATA
Found at i:90977511 original size:37 final size:37
Alignment explanation
Indices: 90977461--90977541 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
90977451 GGAAATATAT
* *
90977461 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
*
90977498 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
90977535 TCCGGGT
1 TCCGGGT
90977542 TAAAACCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:90981392 original size:40 final size:40
Alignment explanation
Indices: 90981337--90981552 Score: 177
Period size: 40 Copynumber: 5.4 Consensus size: 40
90981327 ATGATATCCG
* * * *
90981337 GGCTAAGTCCCGAAGGCTTTTATGCTAGTGATTAGTTCCA
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCA
* * *
90981377 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCA
** * * *
90981417 GGCTAAGTCCCGAAGGCATTGGTCCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCA
* ** * *
90981457 GGATAAGTATCGAAGGCATTTGTGCGAGTTG-CT-ATATCCG
1 GGCTAAGTCCCGAAGGCATTTATGCGAG-TGACTAAT-TCCA
* * * * *
90981497 GGCTAAGACCCAAAGGCATTTATGCTAGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAAT-TCCA
*
90981537 GGCTAAGACCCGAAGG
1 GGCTAAGTCCCGAAGG
90981553 TCTTGTGCGA
Statistics
Matches: 149, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAATTCCA
Found at i:90981537 original size:80 final size:80
Alignment explanation
Indices: 90981330--90981589 Score: 264
Period size: 80 Copynumber: 3.3 Consensus size: 80
90981320 TATTCGAATG
* * * *
90981330 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGATTAGT-TCCAGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA-TATCCGGGCTAAGTACCGAAGGC
*
90981394 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTGCT
** * * * * *
90981410 A-ATTCCGGGCTAAGTCCCGAAGGCATTGGTCCGAGTTACTA-ATTCCGGGATAAGTATCGAAGG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATA-TCCGGGCTAAGTACCGAAGG
90981473 CATTTGTGCGAGTTGCT
64 CATTTGTGCGAGTTGCT
* * *
90981490 ATATCCGGGCTAAGACCCAAAGGCATTTATGCTAGTGACCATATCCGGGCTAAG-ACCCGAAGG-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTA-CCGAAGGC
* *
90981553 -TCTTGTGCGAGTGGTT
65 AT-TTGTGCGAGTTGCT
*
90981569 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
90981590 ATACTTGGGT
Statistics
Matches: 146, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
78 13 0.09
79 20 0.14
80 111 0.76
81 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTACCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:90983810 original size:28 final size:28
Alignment explanation
Indices: 90983741--90983841 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
90983731 GACAAGATTG
* * * *
90983741 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
90983771 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
90983799 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
90983828 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90983842 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:90987548 original size:27 final size:26
Alignment explanation
Indices: 90987500--90987551 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90987490 GCGAGGTTGT
*
90987500 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90987526 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90987552 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90988234 original size:27 final size:27
Alignment explanation
Indices: 90988203--90988318 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
90988193 GGAGCAAAAT
* *
90988203 GGTAATTTTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90988230 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90988257 GGTATTTCTACCATACAAGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90988284 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
90988311 GGTAATTC
1 GGTAATTC
90988319 AACAACTTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90994410 original size:26 final size:26
Alignment explanation
Indices: 90994374--90994424 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
90994364 GCGAGGCTGC
*
90994374 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90994400 CAGATATTGTGGCGAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
90994425 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:91001747 original size:29 final size:29
Alignment explanation
Indices: 91001708--91001786 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
91001698 CTTAATAATC
*
91001708 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
91001738 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
91001767 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
91001787 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:91002922 original size:17 final size:18
Alignment explanation
Indices: 91002885--91002922 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
91002875 CACTTTTTTT
91002885 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
91002904 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
91002921 TT
1 TT
91002923 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:91007982 original size:17 final size:18
Alignment explanation
Indices: 91007945--91007982 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
91007935 ACACTTTTTT
91007945 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
91007964 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
91007981 TT
1 TT
91007983 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:91013723 original size:40 final size:40
Alignment explanation
Indices: 91013664--91013881 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
91013654 CGGATGATAA
* * *
91013664 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T
* * *
91013704 CCAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
91013744 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
** * *
91013784 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * **
91013824 CCGGGCTAAGTCCCGAAGACATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
*
91013864 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
91013882 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:91016783 original size:30 final size:30
Alignment explanation
Indices: 91016747--91016847 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
91016737 GACAAGATTG
* * *
91016747 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
91016777 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
91016805 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
91016834 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
91016848 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:91016859 original size:29 final size:28
Alignment explanation
Indices: 91016776--91016851 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
91016766 AAAATTGTAC
* *
91016776 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
91016804 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
91016833 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
91016852 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:91023602 original size:30 final size:30
Alignment explanation
Indices: 91023566--91023666 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
91023556 GACAAGATTG
* * *
91023566 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
91023596 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
91023624 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
91023653 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
91023667 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:91023678 original size:29 final size:28
Alignment explanation
Indices: 91023595--91023670 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
91023585 AAAATTGTAC
* *
91023595 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
91023623 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
91023652 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
91023671 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:91029690 original size:26 final size:26
Alignment explanation
Indices: 91029622--91029893 Score: 273
Period size: 27 Copynumber: 10.3 Consensus size: 26
91029612 TTGGGTTGCT
* *
91029622 AATACCCCCGGTTTGTAAAATTATTGA
1 AATA-CCCCGATTTGTAAAATTATCGA
* *
91029649 AATACCCCCGGTTTGTAAAATTATCAA
1 AATA-CCCCGATTTGTAAAATTATCGA
*
91029676 AATACCCCGATTTGTAAAATTACCGA
1 AATACCCCGATTTGTAAAATTATCGA
* * *
91029702 AATACCCCAATTTATAAAATT-TCTA
1 AATACCCCGATTTGTAAAATTATCGA
* *
91029727 AACTACCCCTGGTTTGTAAAATTACCGA
1 AA-TACCCC-GATTTGTAAAATTATCGA
*
91029755 AATACCCC-AGTTTGTAAAATTATCCA
1 AATACCCCGA-TTTGTAAAATTATCGA
*
91029781 AATA-CCCAATTTGTAAAATTA-CTGA
1 AATACCCCGATTTGTAAAATTATC-GA
* *
91029806 AATACCCCTAATTTGTAAAATTACCGA
1 AATACCCC-GATTTGTAAAATTATCGA
*
91029833 AATACCCCTGATTTGTAAGATTATCGA
1 AATACCCC-GATTTGTAAAATTATCGA
* * *
91029860 AATATCCTCAATTTGTAAAATTATTGA
1 AATA-CCCCGATTTGTAAAATTATCGA
91029887 AATACCC
1 AATACCC
91029894 TTGTAGGGTA
Statistics
Matches: 209, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.00
25 24 0.11
26 68 0.33
27 108 0.52
28 8 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (26 bp):
AATACCCCGATTTGTAAAATTATCGA
Found at i:91029769 original size:79 final size:79
Alignment explanation
Indices: 91029633--91029893 Score: 341
Period size: 79 Copynumber: 3.3 Consensus size: 79
91029623 ATACCCCCGG
* * * *
91029633 TTTGTAAAATTATTGAAATACCCCCGGTTTGTAAAATTATCAAAATACCCCGATTTGTAAAATTA
1 TTTGTAAAATTACTGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCCGATTTGTAAAATTA
91029698 CCGAAATACCCCAA
66 CCGAAATACCCCAA
* *
91029712 TTTATAAAATTTCT-AAACTACCCCTGGTTTGTAAAATTACCGAAATACCCC-AGTTTGTAAAAT
1 TTTGTAAAATTACTGAAA-TACCCCTGGTTTGTAAAATTACCGAAATACCCCGA-TTTGTAAAAT
91029775 TATCC-AAATA-CCCAA
64 TA-CCGAAATACCCCAA
** *
91029790 TTTGTAAAATTACTGAAATACCCCTAATTTGTAAAATTACCGAAATACCCCTGATTTGTAAGATT
1 TTTGTAAAATTACTGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCC-GATTTGTAAAATT
* *
91029855 ATCGAAATATCCTCAA
65 ACCGAAATA-CCCCAA
*
91029871 TTTGTAAAATTATTGAAATACCC
1 TTTGTAAAATTACTGAAATACCC
91029894 TTGTAGGGTA
Statistics
Matches: 159, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
78 53 0.33
79 77 0.48
80 3 0.02
81 26 0.16
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (79 bp):
TTTGTAAAATTACTGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCCGATTTGTAAAATTA
CCGAAATACCCCAA
Found at i:91029904 original size:27 final size:27
Alignment explanation
Indices: 91029874--91029993 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
91029864 TCCTCAATTT
91029874 GTAAAATTATTGAAATACCCTTGTAGG
1 GTAAAATTATTGAAATACCCTTGTAGG
91029901 GTAAAATTATTGAAATACTCC-TGTAGG
1 GTAAAATTATTGAAATAC-CCTTGTAGG
* *** *
91029928 GTAAAAGTACCAAAATACCCTTGTAGT
1 GTAAAATTATTGAAATACCCTTGTAGG
***
91029955 GTAAAATTACCAAAATACCCTTGTAGG
1 GTAAAATTATTGAAATACCCTTGTAGG
* *
91029982 GCAAAATGATTG
1 GTAAAATTATTG
91029994 TTTTGCCCTT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 75 0.95
28 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (27 bp):
GTAAAATTATTGAAATACCCTTGTAGG
Found at i:91030494 original size:32 final size:32
Alignment explanation
Indices: 91030431--91030494 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
91030421 CTGATGGTTA
* *
91030431 TGTGCCAAACATAATACAGTTACCGATGGCTT
1 TGTGCCAAACATAATACAGCTACCGAAGGCTT
** * *
91030463 TGTGCCAATTATAATACCGCTACTGAAGGCTT
1 TGTGCCAAACATAATACAGCTACCGAAGGCTT
91030495 AGAGCCGCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (32 bp):
TGTGCCAAACATAATACAGCTACCGAAGGCTT
Found at i:91033488 original size:20 final size:20
Alignment explanation
Indices: 91033450--91033509 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
91033440 ATAGGTTGTT
91033450 CTGGGCCATGTTGGG-CCAAA
1 CTGGGCCATG-TGGGCCCAAA
*
91033470 CTGGGCCGTGTGGGCCC-AA
1 CTGGGCCATGTGGGCCCAAA
* *
91033489 -TGGG-CTTGTGGGCCCACA
1 CTGGGCCATGTGGGCCCAAA
91033507 CTG
1 CTG
91033510 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 10 0.29
18 5 0.15
19 8 0.24
20 11 0.32
ACGTcount: A:0.13, C:0.28, G:0.38, T:0.20
Consensus pattern (20 bp):
CTGGGCCATGTGGGCCCAAA
Found at i:91033988 original size:27 final size:26
Alignment explanation
Indices: 91033958--91034244 Score: 308
Period size: 27 Copynumber: 10.9 Consensus size: 26
91033948 ATACCCTCGA
*
91033958 TTTGTAAAATTATCGAAATACCCTCAG
1 TTTGTAAAATTACCGAAATACCC-CAG
91033985 TTTGTAAAATTACCGAAATACCCC-G
1 TTTGTAAAATTACCGAAATACCCCAG
* ***
91034010 GTTGTAAAATTTTTGAAATACCCCCTA-
1 TTTGTAAAATTACCGAAATA-CCCC-AG
* *
91034037 TTTTTAAAATTACCGAAATACCCTAG
1 TTTGTAAAATTACCGAAATACCCCAG
* *
91034063 TTTGTAAAATTACTGAAATACCTCAG
1 TTTGTAAAATTACCGAAATACCCCAG
* *
91034089 TTTTTAAAATTACCGAAATACCCCCG
1 TTTGTAAAATTACCGAAATACCCCAG
* *
91034115 ATTTGTAAAATTATCAAAATACCCCAG
1 -TTTGTAAAATTACCGAAATACCCCAG
** *
91034142 TTTGTAAAATTAGAGAAATACCCCGG
1 TTTGTAAAATTACCGAAATACCCCAG
*
91034168 TTTGTAAGATTACCGAAATACCCCAAG
1 TTTGTAAAATTACCGAAATACCCC-AG
* * *
91034195 TTTGTAAGATTATCAAAATACCCCAG
1 TTTGTAAAATTACCGAAATACCCCAG
* *
91034221 ATTTGCAAAATTACTGAAATACCC
1 -TTTGTAAAATTACCGAAATACCC
91034245 TTGTAGGGTA
Statistics
Matches: 215, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
25 18 0.08
26 97 0.45
27 100 0.47
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCCAG
Found at i:91034075 original size:26 final size:26
Alignment explanation
Indices: 91033947--91034326 Score: 264
Period size: 27 Copynumber: 14.3 Consensus size: 26
91033937 TTGGGTTGTT
* *
91033947 AATACCCTCGATTTGTAAAATTATCGA
1 AATACCCTAG-TTTGTAAAATTACCGA
91033974 AATACCCTCAGTTTGTAAAATTACCGA
1 AATACCCT-AGTTTGTAAAATTACCGA
* * ***
91034001 AATACCC-CGGTTGTAAAATTTTTGA
1 AATACCCTAGTTTGTAAAATTACCGA
*
91034026 AATACCCCCTA-TTTTTAAAATTACCGA
1 AATA--CCCTAGTTTGTAAAATTACCGA
*
91034053 AATACCCTAGTTTGTAAAATTACTGA
1 AATACCCTAGTTTGTAAAATTACCGA
*
91034079 AATA-CCTCAGTTTTTAAAATTACCGA
1 AATACCCT-AGTTTGTAAAATTACCGA
** * *
91034105 AATACCCCCGATTTGTAAAATTATCAA
1 AATACCCTAG-TTTGTAAAATTACCGA
* **
91034132 AATACCCCAGTTTGTAAAATTAGAGA
1 AATACCCTAGTTTGTAAAATTACCGA
** *
91034158 AATACCCCGGTTTGTAAGATTACCGA
1 AATACCCTAGTTTGTAAAATTACCGA
* * * *
91034184 AATACCCCAAGTTTGTAAGATTATCAA
1 AATA-CCCTAGTTTGTAAAATTACCGA
* * *
91034211 AATACCCCAGATTTGCAAAATTACTGA
1 AATACCCTAG-TTTGTAAAATTACCGA
* ** * **
91034238 AATACCCTTGTAGGGTAAAAGTACTAA
1 AATACCCTAGT-TTGTAAAATTACCGA
** * *
91034265 AATACCCTTA-TAGGGTAAAAATACCAA
1 AATACCC-TAGT-TTGTAAAATTACCGA
* * *
91034292 AATACCCTTGTAGTGTAAAATTACCAA
1 AATACCCTAGT-TTGTAAAATTACCGA
91034319 AATACCCT
1 AATACCCT
91034327 TATAGGGCAA
Statistics
Matches: 287, Mismatches: 53, Indels: 26
0.78 0.14 0.07
Matches are distributed among these distances:
25 25 0.09
26 85 0.30
27 175 0.61
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.30
Consensus pattern (26 bp):
AATACCCTAGTTTGTAAAATTACCGA
Found at i:91034097 original size:79 final size:78
Alignment explanation
Indices: 91033947--91034244 Score: 355
Period size: 79 Copynumber: 3.8 Consensus size: 78
91033937 TTGGGTTGTT
* * * * *
91033947 AATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGTTTGTAAAATTACCGAAATACCCCGGT
1 AATACCCCCGATTTGTAAAATTATCAAAATACCC-CAGTTTGTAAAATTACTGAAATACCCAGTT
***
91034012 TGTAAAATTTTTGA
65 TGTAAAATTACCGA
* * * * *
91034026 AATACCCCCTATTTTTAAAATTACCGAAATACCCTAGTTTGTAAAATTACTGAAATACCTCAGTT
1 AATACCCCCGATTTGTAAAATTATCAAAATACCCCAGTTTGTAAAATTACTGAAATACC-CAGTT
*
91034091 TTTAAAATTACCGA
65 TGTAAAATTACCGA
** *
91034105 AATACCCCCGATTTGTAAAATTATCAAAATACCCCAGTTTGTAAAATTAGAGAAATACCCCGGTT
1 AATACCCCCGATTTGTAAAATTATCAAAATACCCCAGTTTGTAAAATTACTGAAATA-CCCAGTT
*
91034170 TGTAAGATTACCGA
65 TGTAAAATTACCGA
* * *
91034184 AATA-CCCCAAGTTTGTAAGATTATCAAAATACCCCAGATTTGCAAAATTACTGAAATACCC
1 AATACCCCCGA-TTTGTAAAATTATCAAAATACCCCAG-TTTGTAAAATTACTGAAATACCC
91034245 TTGTAGGGTA
Statistics
Matches: 188, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
78 28 0.15
79 141 0.75
80 19 0.10
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (78 bp):
AATACCCCCGATTTGTAAAATTATCAAAATACCCCAGTTTGTAAAATTACTGAAATACCCAGTTT
GTAAAATTACCGA
Found at i:91034257 original size:27 final size:27
Alignment explanation
Indices: 91034227--91034339 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 27
91034217 CCAGATTTGC
* *
91034227 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTAAAATACCCTTATAGGGT
*
91034254 AAAAGTACTAAAATACCCTTATAGGGT
1 AAAATTACTAAAATACCCTTATAGGGT
* * * *
91034281 AAAAATACCAAAATACCCTTGTAGTGT
1 AAAATTACTAAAATACCCTTATAGGGT
* *
91034308 AAAATTACCAAAATACCCTTATAGGGC
1 AAAATTACTAAAATACCCTTATAGGGT
91034335 AAAAT
1 AAAAT
91034340 GACTGTTTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTATAGGGT
Found at i:91041847 original size:11 final size:11
Alignment explanation
Indices: 91041831--91041855 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91041821 TTCAGACGTT
91041831 GAAACTTTCTC
1 GAAACTTTCTC
91041842 GAAACTTTCTC
1 GAAACTTTCTC
91041853 GAA
1 GAA
91041856 TAGAACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (11 bp):
GAAACTTTCTC
Found at i:91054912 original size:43 final size:42
Alignment explanation
Indices: 91054865--91054963 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 42
91054855 TCCCGGATGT
91054865 GGTCTTACATGTAATCCA-ACATCGATGC-CACTGTCCCAGACAA
1 GGTCTTACATGTAAT-CAGACAT-GATGCTCA-TGTCCCAGACAA
* * * *
91054908 GGTCTTACATGAAATCAGATATGATGCTGATGTCCCAGACAT
1 GGTCTTACATGTAATCAGACATGATGCTCATGTCCCAGACAA
*
91054950 GGTCTTACACGTAA
1 GGTCTTACATGTAA
91054964 AACAGATGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAGACATGATGCTCATGTCCCAGACAA
Found at i:91054944 original size:42 final size:43
Alignment explanation
Indices: 91054846--91055010 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
91054836 AACATATACA
* * ** * *
91054846 ATGCCAACGTCCCGGATGTGGTCTTACATGTAATCCA-ACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAAT-CAGATATCG
* *
91054889 ATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAGATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAGATATCG
** * * *
91054931 ATGCTGATGTCCCAGACATGGTCTTACACGTAAAACAGATGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAATCAGATATCG
** *
91054975 ATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
91055011 CATAACGAAA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
42 28 0.29
43 44 0.45
44 25 0.26
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAGATATCG
Found at i:91059487 original size:28 final size:27
Alignment explanation
Indices: 91059448--91059529 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
91059438 TTTGAATCAT
*
91059448 TCAATAGTTCGCACACTAAGTGTCATTC
1 TCAATA-TTCGCACACTAAGTGCCATTC
* *
91059476 TCAATATCTCGCACGCTAAGTGCCCTTC
1 TCAATAT-TCGCACACTAAGTGCCATTC
* *
91059504 TCAATATTTCGTACACTGAGTGCCAT
1 TCAATA-TTCGCACACTAAGTGCCAT
91059530 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 43 0.96
29 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (27 bp):
TCAATATTCGCACACTAAGTGCCATTC
Found at i:91062936 original size:40 final size:40
Alignment explanation
Indices: 91062881--91063084 Score: 232
Period size: 40 Copynumber: 5.1 Consensus size: 40
91062871 TGAATGATAC
* *
91062881 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
91062921 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
91062961 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATAT
* * * * ** *
91063001 TCTGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
91063041 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
91063081 CCGG
1 CCGG
91063085 TTAAATTCCA
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:91066564 original size:42 final size:43
Alignment explanation
Indices: 91066461--91066573 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
91066451 CAAGGGCAAC
* *** *
91066461 GTCCCCGACATGGTCTTACATGTAATCAAATATTGATTCCACT
1 GTCCCAGACATGGTCTTACACAAAATCAAATATTGATGCCACT
*
91066504 ATCCCAGACATGGTCTTACACAAAATCAAATA-TGATGCCGA-T
1 GTCCCAGACATGGTCTTACACAAAATCAAATATTGATGCC-ACT
91066546 GTCCCAGACATGGTCTTACACATAAATC
1 GTCCCAGACATGGTCTTACACA-AAATC
91066574 TCAAGTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACAAAATCAAATATTGATGCCACT
Found at i:91071883 original size:14 final size:15
Alignment explanation
Indices: 91071866--91071894 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91071856 TAACGAAAAT
91071866 TTCACACAT-ATAAA
1 TTCACACATAATAAA
91071880 TTCACACATAATAAA
1 TTCACACATAATAAA
91071895 CAATGAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:91073113 original size:28 final size:28
Alignment explanation
Indices: 91073053--91073117 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
91073043 GTGGGAAGTA
* *
91073053 GTTGGGCCTGATGGGCCATATGAATGTG
1 GTTGGGCCTGATGGGCCATATGAACGAG
* * *
91073081 ATTGGGCCTGATGGGTCATGTGAACGAG
1 GTTGGGCCTGATGGGCCATATGAACGAG
91073109 GTTGGGCCT
1 GTTGGGCCT
91073118 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.15, G:0.40, T:0.28
Consensus pattern (28 bp):
GTTGGGCCTGATGGGCCATATGAACGAG
Found at i:91073464 original size:27 final size:27
Alignment explanation
Indices: 91073434--91073498 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
91073424 TAATAAAGAG
91073434 AAATTACTGAAATACCCTCGA-TTTGTA
1 AAATTACTGAAATACCCTC-ATTTTGTA
91073461 AAATTA-TAGAAATACCCTCATTTTGTA
1 AAATTACT-GAAATACCCTCATTTTGTA
91073488 AAATTACTGAA
1 AAATTACTGAA
91073499 GTGCATCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.06
27 32 0.91
28 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCATTTTGTA
Found at i:91074996 original size:40 final size:40
Alignment explanation
Indices: 91074912--91075054 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
91074902 TATCTTGCAC
* * * *
91074912 AAATGCCTTCGGGTCTTAGCCC-GATATGA-CAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAATC-ACTAGCAT
* * *
91074951 GAATGCCTTCAGGTCTTAGCCCGGATATAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
*
91074991 AAATGCCTTCGGGACTTAGCCCGGATATATTCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
91075031 AAATGCCTTCGGGACTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGG
91075055 GTATCATTCA
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 20 0.22
40 72 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
Found at i:91087973 original size:40 final size:40
Alignment explanation
Indices: 91087864--91088071 Score: 163
Period size: 40 Copynumber: 5.2 Consensus size: 40
91087854 TCTTCGGAAT
* * * * *
91087864 TTAG-CCGGATATAACCACAAGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATATGACAACTAGCACAAATGCCTTCGGGTC
* * ** * * *
91087903 TTAACCCGGATTTGGTATCTTGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATGACAACTAGCACAAATGCCTTCGGGTC
* * * *
91087943 TTAGCCCGAATATGACAACTCGCACGAATGCCTTCAGGTC
1 TTAGCCCGGATATGACAACTAGCACAAATGCCTTCGGGTC
* * *
91087983 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATGA-CAACTAGCACAAATGCCTTCGGGTC
* * *
91088023 TTAGCCCGGCTATAT-TC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGG--ATATGACAACTAGCACAAATGCCTTCGGGTC
91088063 TTAGCCCGG
1 TTAGCCCGG
91088072 GTATCATTCA
Statistics
Matches: 137, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.02
40 129 0.94
41 1 0.01
42 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATGACAACTAGCACAAATGCCTTCGGGTC
Found at i:91094880 original size:63 final size:63
Alignment explanation
Indices: 91094791--91094917 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
91094781 GGGGTAAAAT
* * * * *
91094791 TGTAACGCCTCGAACTTGGGCCTAGAAGTATTGGGCCTTTAGTATGGGTTCATAAGGAGGTTG
1 TGTAACACCCCGAACTTGGGCCTAGAAGTATTGGGCCTTGAGTACGGGTCCATAAGGAGGTTG
* * * *
91094854 TGTAACACCCCGAATTTGGGCTTAGAAGTATTGGGCCTTGAGTCCGGGTCCGTAAGGAGGTTG
1 TGTAACACCCCGAACTTGGGCCTAGAAGTATTGGGCCTTGAGTACGGGTCCATAAGGAGGTTG
91094917 T
1 T
91094918 ATATAGGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (63 bp):
TGTAACACCCCGAACTTGGGCCTAGAAGTATTGGGCCTTGAGTACGGGTCCATAAGGAGGTTG
Found at i:91097216 original size:30 final size:29
Alignment explanation
Indices: 91097122--91097223 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
91097112 TATAGTGAAT
* * *
91097122 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
91097151 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
91097179 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
91097209 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
91097224 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:91105101 original size:30 final size:29
Alignment explanation
Indices: 91105007--91105108 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
91104997 TATAGTGAAT
* * *
91105007 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
91105036 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
91105064 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
91105094 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
91105109 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:91108723 original size:40 final size:40
Alignment explanation
Indices: 91108678--91108844 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
91108668 CGGAATATAA
91108678 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
91108718 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
91108758 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
91108798 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
91108837 CCGGATAT
1 CCGGATAT
91108845 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:91108828 original size:80 final size:79
Alignment explanation
Indices: 91108678--91108844 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
91108668 CGGAATATAA
* *
91108678 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
91108743 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
91108758 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
91108820 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
91108837 CCGGATAT
1 CCGGATAT
91108845 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:91109691 original size:17 final size:19
Alignment explanation
Indices: 91109668--91109713 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
91109658 AAGAAGCATG
91109668 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
91109686 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
91109704 AATCATGCTC
1 AATCATGCTC
91109714 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:91115360 original size:2 final size:2
Alignment explanation
Indices: 91115347--91115381 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
91115337 TAAAACATAC
*
91115347 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91115382 CATGACATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:91116364 original size:11 final size:11
Alignment explanation
Indices: 91116348--91116372 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91116338 GTTTTGTATA
91116348 TATATTTTTAT
1 TATATTTTTAT
91116359 TATATTTTTAT
1 TATATTTTTAT
91116370 TAT
1 TAT
91116373 TATGATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:91116447 original size:18 final size:18
Alignment explanation
Indices: 91116411--91116465 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
91116401 TCGAAAAAGG
*
91116411 AAAAAAAATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
91116427 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
91116445 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
91116462 AAAA
1 AAAA
91116466 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:91116448 original size:17 final size:17
Alignment explanation
Indices: 91116428--91116466 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
91116418 ATAAAAAATA
*
91116428 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
91116445 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
91116462 AAAAT
1 AAAAT
91116467 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:91116737 original size:16 final size:18
Alignment explanation
Indices: 91116703--91116745 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
91116693 TTTTTCTTCT
91116703 TTTTTTTTGGGGGGTTAGG
1 TTTTTTTT-GGGGGTTAGG
91116722 TTTTTTTT-GGGG-TAGG
1 TTTTTTTTGGGGGTTAGG
91116738 TTTTTTTT
1 TTTTTTTT
91116746 TTCTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
19 8 0.33
ACGTcount: A:0.05, C:0.00, G:0.33, T:0.63
Consensus pattern (18 bp):
TTTTTTTTGGGGGTTAGG
Found at i:91118711 original size:41 final size:41
Alignment explanation
Indices: 91118666--91118783 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
91118656 TGAAAGATAA
91118666 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
91118707 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91118737 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91118778 ATGTAG
1 ATGTAG
91118784 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:91118722 original size:71 final size:71
Alignment explanation
Indices: 91118634--91118797 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
91118624 GAGATGTATC
91118634 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91118699 AGGACA
66 AGGACA
91118705 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91118770 AGGACA
66 AGGACA
91118776 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
91118798 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:91133085 original size:2 final size:2
Alignment explanation
Indices: 91133078--91133103 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
91133068 GACCAGTTAC
91133078 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
91133104 GTAATTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91133664 original size:42 final size:42
Alignment explanation
Indices: 91133594--91133674 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
91133584 AGTTACACGA
* * *
91133594 CCTAAACACATGCTTGTGTCCCTGCCCGTGTGACTCACATGG
1 CCTAAACACACGCCTGTGTCCCTACCCGTGTGACTCACATGG
* *
91133636 CCTAGACACACGCCTGTGTCCTTACCCGTGTGACTCACA
1 CCTAAACACACGCCTGTGTCCCTACCCGTGTGACTCACA
91133675 CAGCCTGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.25
Consensus pattern (42 bp):
CCTAAACACACGCCTGTGTCCCTACCCGTGTGACTCACATGG
Found at i:91133697 original size:42 final size:42
Alignment explanation
Indices: 91133609--91133701 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
91133599 ACACATGCTT
* ** * *
91133609 GTGTCCCTGCCCGTGTGACTCACATGGCCTAGACACACGCCT
1 GTGTCCCTACCCGTGTGACTCACACAGCCTAGACACACACCC
* * *
91133651 GTGTCCTTACCCGTGTGACTCACACAGCCTGGATACACACCC
1 GTGTCCCTACCCGTGTGACTCACACAGCCTAGACACACACCC
91133693 GTGTCCCTA
1 GTGTCCCTA
91133702 GTCTTGTGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.18, C:0.38, G:0.22, T:0.23
Consensus pattern (42 bp):
GTGTCCCTACCCGTGTGACTCACACAGCCTAGACACACACCC
Found at i:91137235 original size:51 final size:51
Alignment explanation
Indices: 91137180--91137279 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
91137170 CTACCACATA
*
91137180 ACATGTAA-CACATCCATAATGAACTTGAACCTATCAACGAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTTGAACCTATCAACGAGCTCAGATGTT
* * * *
91137231 ACATGAATCGCATCCATTATGAACTTGGACCTCTCAACGAGCTCAGATG
1 ACATGAATCACATCCATAATGAACTTGAACCTATCAACGAGCTCAGATG
91137280 CTCGCATCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTTGAACCTATCAACGAGCTCAGATGTT
Found at i:91141305 original size:28 final size:28
Alignment explanation
Indices: 91141269--91141327 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
91141259 TAGAGGTATA
91141269 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
91141297 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
91141325 TCG
1 TCG
91141328 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:91141978 original size:27 final size:27
Alignment explanation
Indices: 91141948--91142009 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
91141938 GGGCAAAATG
91141948 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
91141975 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
91142002 GTAATTTT
1 GTAATTTT
91142010 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:91142023 original size:54 final size:54
Alignment explanation
Indices: 91141965--91142115 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
91141955 TACCCCACAA
** * * *
91141965 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
91142019 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
91142073 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
91142116 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:91142081 original size:81 final size:81
Alignment explanation
Indices: 91141963--91142115 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
91141953 TTTACCCCAC
** *
91141963 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
91142027 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
91142044 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
91142108 TGGTAATT
65 TGGTAATT
91142116 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:91142122 original size:27 final size:27
Alignment explanation
Indices: 91141992--91142115 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
91141982 TACCCTACAG
* *
91141992 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
91142019 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
91142046 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
91142073 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
91142100 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
91142116 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:91142129 original size:27 final size:27
Alignment explanation
Indices: 91142099--91142169 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
91142089 TTATAAACCA
* *
91142099 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
91142126 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
91142153 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
91142170 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:91142131 original size:54 final size:54
Alignment explanation
Indices: 91141992--91142115 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
91141982 TACCCTACAG
* *
91141992 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
91142046 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
91142100 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
91142116 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:91142141 original size:81 final size:81
Alignment explanation
Indices: 91141989--91142142 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
91141979 TTTTACCCTA
* * ***
91141989 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
91142054 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
91142070 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
91142134 ACGGTAATT
65 ACAGTAATT
91142143 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:91145431 original size:28 final size:28
Alignment explanation
Indices: 91145395--91145453 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
91145385 TAGAGGTATA
91145395 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
91145423 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
91145451 TCG
1 TCG
91145454 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:91146104 original size:27 final size:27
Alignment explanation
Indices: 91146074--91146135 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
91146064 GGGCAAAATG
91146074 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
91146101 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
91146128 GTAATTTT
1 GTAATTTT
91146136 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:91146149 original size:54 final size:54
Alignment explanation
Indices: 91146091--91146241 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
91146081 TACCCCACAA
** * * *
91146091 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * *
91146145 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
91146199 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
91146242 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:91146207 original size:81 final size:81
Alignment explanation
Indices: 91146089--91146241 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
91146079 TTTACCCCAC
** *
91146089 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
91146153 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
91146170 AAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
91146234 TGGTAATT
65 TGGTAATT
91146242 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 3 0.05
81 60 0.94
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:91146257 original size:27 final size:27
Alignment explanation
Indices: 91146118--91146241 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
91146108 TACCCTACAG
* *
91146118 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
91146145 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
91146172 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
91146199 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
91146226 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
91146242 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:91146257 original size:54 final size:54
Alignment explanation
Indices: 91146118--91146243 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
91146108 TACCCTACAG
* * * *
91146118 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
91146172 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
*
91146226 GGGTATTTTGGTAATTCT
1 GGGTATTTTAGTAATTCT
91146244 GTAAATTGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:91148411 original size:18 final size:17
Alignment explanation
Indices: 91148388--91148429 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
91148378 TTATATTTTA
91148388 AAAAATATTAATTACT-AT
1 AAAAATATTAA-TA-TGAT
*
91148406 AAAAATGTTAATATGAT
1 AAAAATATTAATATGAT
91148423 AAAAATA
1 AAAAATA
91148430 ATTTCTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.48
18 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAAATATTAATATGAT
Found at i:91149943 original size:21 final size:21
Alignment explanation
Indices: 91149893--91149943 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
91149883 TGATAAAAAT
91149893 TATA-ACATT-TTTTTATGAA
1 TATATACATTATTTTTATGAA
* *
91149912 TAAATATATTATTTTTAT-AA
1 TATATACATTATTTTTATGAA
91149932 TATATAGCATTA
1 TATATA-CATTA
91149944 AGCATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 11 0.44
21 11 0.44
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
TATATACATTATTTTTATGAA
Found at i:91151043 original size:32 final size:32
Alignment explanation
Indices: 91150965--91151026 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
91150955 CGTCAATCAT
91150965 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
*
91150997 TTCAATATCTAACAAGTTTAAAACATAATA
1 TTCAATATCTAACAAGCTTAAAACATAATA
91151027 TGTTCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.31
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:91156090 original size:17 final size:17
Alignment explanation
Indices: 91156068--91156100 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91156058 CACTAACGCC
*
91156068 TTTTTTTTTTTATATAG
1 TTTTTTTTTCTATATAG
91156085 TTTTTTTTTCTATATA
1 TTTTTTTTTCTATATA
91156101 ACCCTAATTC
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:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTTTCTATATAG
Found at i:91156186 original size:22 final size:21
Alignment explanation
Indices: 91156151--91156195 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
91156141 TCTCTCACAT
*
91156151 TCTCAAATCTCTCTCAAATTTC
1 TCTCAAATCCCTCT-AAATTTC
* *
91156173 TCTCAATTCCCTCTTAATTTC
1 TCTCAAATCCCTCTAAATTTC
91156194 TC
1 TC
91156196 ACTCAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCAAATCCCTCTAAATTTC
Found at i:91161010 original size:27 final size:28
Alignment explanation
Indices: 91160953--91161022 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
91160943 AAATTTGTAC
**
91160953 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
91160981 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
91161008 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
91161023 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:91161031 original size:27 final size:27
Alignment explanation
Indices: 91160953--91161034 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
91160943 AAATTTGTAC
* *
91160953 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
91160981 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
91161008 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
91161035 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:91168933 original size:27 final size:28
Alignment explanation
Indices: 91168876--91168945 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
91168866 AAATTTGTAC
**
91168876 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
91168904 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
91168931 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
91168946 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:91168954 original size:27 final size:27
Alignment explanation
Indices: 91168876--91168957 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
91168866 AAATTTGTAC
* *
91168876 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
91168904 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
91168931 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
91168958 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:91172181 original size:42 final size:42
Alignment explanation
Indices: 91172103--91172183 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
91172093 TCGATGCCGA
** * **
91172103 TGCCATGTCTTAGACATGGTTTTACATGGGACCTCATATTGG
1 TGCCATGTCGCAGACATGGTCTTACATGAAACCTCATATTGG
*
91172145 TGCCATGTCGCAGACATGGTCTTACATGAAATCTCATAT
1 TGCCATGTCGCAGACATGGTCTTACATGAAACCTCATAT
91172184 CAACGCCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TGCCATGTCGCAGACATGGTCTTACATGAAACCTCATATTGG
Found at i:91172264 original size:48 final size:47
Alignment explanation
Indices: 91172188--91172357 Score: 205
Period size: 48 Copynumber: 3.6 Consensus size: 47
91172178 TCATATCAAC
* * *
91172188 GCCATATCCCAGATATGGTCTTACACTGGCACACATATCAACATCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGC-CACATATCAACACCGAT
* * * * **
91172236 GCCATGTCCTAGATATGGTCTTATACTGGCTCACATATTAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGC-CACATATCAACACCGAT
** *
91172284 ATCATGTCCCAGACATGGTCTTACACTAGTCCACATATCAACACCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GGCCACATATCAACACCGAT
91172332 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
91172358 GAGATTTCGT
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 100 0.98
49 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCCACATATCAACACCGAT
Found at i:91179868 original size:24 final size:24
Alignment explanation
Indices: 91179837--91179882 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
91179827 AATTATTTTC
91179837 AAAAATT-AAAAAATTAAATATTCT
1 AAAAATTAAAAAAATT-AATATTCT
91179861 AAAAATTAAAAAAATTAATATT
1 AAAAATTAAAAAAATTAATATT
91179883 AAATGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAATTAAAAAAATTAATATTCT
Found at i:91180620 original size:4 final size:4
Alignment explanation
Indices: 91180611--91180681 Score: 54
Period size: 4 Copynumber: 16.5 Consensus size: 4
91180601 TTTTTTCTTC
* *
91180611 TTTA TTTA TTTA TTTA TTTA CTTTC TTTAA GTTT- TTTA TTTG TCCTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTT-A -TTTA TTTA TTTA T--TTA
*
91180659 TTTA TTTTA TTTA TTTG TTTA TT
1 TTTA -TTTA TTTA TTTA TTTA TT
91180682 ATTGATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
3 3 0.06
4 38 0.70
5 7 0.13
6 6 0.11
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:91180671 original size:23 final size:22
Alignment explanation
Indices: 91180612--91180676 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
91180602 TTTTTCTTCT
* *
91180612 TTATTTATTTATTTATTT-ACT
1 TTATTTATTTATTTATTTGTCC
*
91180633 TTCTTTAAGTTT-TTTATTTGTCC
1 TTATTT-A-TTTATTTATTTGTCC
91180656 TTATTTATTTTATTTATTTGT
1 TTATTTA-TTTATTTATTTGT
91180677 TTATTATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 5 0.14
22 12 0.34
23 18 0.51
ACGTcount: A:0.18, C:0.06, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTTATTTATTTATTTGTCC
Found at i:91180755 original size:21 final size:21
Alignment explanation
Indices: 91180726--91180811 Score: 53
Period size: 21 Copynumber: 4.4 Consensus size: 21
91180716 ATGTTTTATA
91180726 ATATTTTTTTAATTTTTAAAT
1 ATATTTTTTTAATTTTTAAAT
* * *
91180747 ATATATTTTTGA-----AATT
1 ATATTTTTTTAATTTTTAAAT
** *
91180763 AT-TTTTTAAAATTTTAAATAT
1 ATATTTTTTTAATTTTTAA-AT
91180784 -TATTTTTTTAA-TTTTAAAT
1 ATATTTTTTTAATTTTTAAAT
91180803 ATATTTTTT
1 ATATTTTTT
91180812 AATAATATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 17
0.62 0.15 0.23
Matches are distributed among these distances:
15 5 0.11
16 5 0.11
19 2 0.04
20 16 0.35
21 18 0.39
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (21 bp):
ATATTTTTTTAATTTTTAAAT
Found at i:91180771 original size:57 final size:55
Alignment explanation
Indices: 91180697--91180811 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 55
91180687 TTTTAAAAAA
*
91180697 TTTGAAATGTATATTTAAAATGTTT-TATAATATTTTTTTAATTTTTAAATATATATT
1 TTTGAAATGTATATTTAAAAT-TTTAAATAATATTTTTTTAA-TTTTAAATATAT-TT
* *
91180754 TTTGAAAT-TATTTTTTAAAATTTTAAATATTATTTTTTTAATTTTAAATATATTT
1 TTTGAAATGTA-TATTTAAAATTTTAAATAATATTTTTTTAATTTTAAATATATTT
91180809 TTT
1 TTT
91180812 AATAATATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
55 5 0.09
56 17 0.32
57 31 0.58
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (55 bp):
TTTGAAATGTATATTTAAAATTTTAAATAATATTTTTTTAATTTTAAATATATTT
Found at i:91180822 original size:21 final size:22
Alignment explanation
Indices: 91180753--91180817 Score: 84
Period size: 21 Copynumber: 3.0 Consensus size: 22
91180743 AAATATATAT
91180753 TTTTGAAAT-TATTTTTTAA-AA
1 TTTT-AAATATATTTTTTAATAA
91180774 TTTTAAATATTATTTTTT--TAA
1 TTTTAAATA-TATTTTTTAATAA
91180795 TTTTAAATATATTTTTTAATAA
1 TTTTAAATATATTTTTTAATAA
91180817 T
1 T
91180818 ATAAAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 12 0.31
21 15 0.38
22 12 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTAAATATATTTTTTAATAA
Found at i:91181082 original size:19 final size:20
Alignment explanation
Indices: 91181054--91181098 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
91181044 AATAGAAAAA
*
91181054 TATTTGTTAAAAAAGGA-TT
1 TATTTATTAAAAAAGGACTT
*
91181073 TATTTATTAAAAAATGACTT
1 TATTTATTAAAAAAGGACTT
91181093 TATTTA
1 TATTTA
91181099 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (20 bp):
TATTTATTAAAAAAGGACTT
Found at i:91181150 original size:20 final size:21
Alignment explanation
Indices: 91181101--91181150 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
91181091 TTTATTTAAT
91181101 ATATATATT-AAAAAGTAAAA
1 ATATATATTAAAAAAGTAAAA
* * *
91181121 ATTTAAATTAAAAAATTAAAA
1 ATATATATTAAAAAAGTAAAA
91181142 A-ATATATTA
1 ATATATATTA
91181151 TGACTGGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATATATTAAAAAAGTAAAA
Found at i:91186872 original size:15 final size:15
Alignment explanation
Indices: 91186852--91186881 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91186842 AATACAAAAA
91186852 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
91186867 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
91186882 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:91187579 original size:41 final size:43
Alignment explanation
Indices: 91187481--91187593 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 43
91187471 TTCATGTAAA
* * *
91187481 ACCACGTCTGGGACGTTGGCATCGATATGTGGTTACGTATAAG
1 ACCATGTCTGGGACATTGGCATCGATATGTGATTACGTATAAG
* * *
91187524 ACCATGTATGGGACATTGGCATCG-TATTTGATT-CGTGTAAG
1 ACCATGTCTGGGACATTGGCATCGATATGTGATTACGTATAAG
* * * *
91187565 ACCTTGTCTAGGACAGTGGCATCAATATG
1 ACCATGTCTGGGACATTGGCATCGATATG
91187594 AGATAGCATG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 26 0.46
42 10 0.18
43 21 0.37
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATCGATATGTGATTACGTATAAG
Found at i:91191854 original size:40 final size:41
Alignment explanation
Indices: 91191810--91191916 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 41
91191800 TAATAGCTCG
* *
91191810 CACAAATGCCTTCGGGACTTAACCCGGATTTGGGAAC-TCC
1 CACAAATGCCTTCGGGACTTAACCCGGATATGGGAACTTAC
** ** *
91191850 CACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAG
1 CACAAATGCCTTCGGGA-CTTAACCCGGATATGGGAACTTAC
91191891 CACAAA-GCCTTCGGGACTT-ACCCGGA
1 CACAAATGCCTTCGGGACTTAACCCGGA
91191917 CATCATTCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 8 0.15
40 37 0.67
41 10 0.18
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CACAAATGCCTTCGGGACTTAACCCGGATATGGGAACTTAC
Found at i:91193577 original size:40 final size:40
Alignment explanation
Indices: 91193532--91193698 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
91193522 CGGAATATAA
*
91193532 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
91193572 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
91193612 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
91193652 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
91193691 CCGGATAT
1 CCGGATAT
91193699 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:91193682 original size:80 final size:79
Alignment explanation
Indices: 91193548--91193698 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
91193538 ATAACCATGT
*
91193548 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
91193613 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
91193628 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
91193691 CCGGATAT
64 CCGGATAT
91193699 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:91197086 original size:19 final size:21
Alignment explanation
Indices: 91197043--91197091 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
91197033 AATTTTAAAA
91197043 TTAATAATTTTAAAAAATTATAT
1 TTAA-AATTTTAAAAAA-TATAT
91197066 TTAAAATTTT-AAAAA-ATAT
1 TTAAAATTTTAAAAAATATAT
91197085 TTAAAAT
1 TTAAAAT
91197092 ATACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
21 5 0.19
22 6 0.23
23 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTTTAAAAAATATAT
Found at i:91197174 original size:9 final size:9
Alignment explanation
Indices: 91197160--91197228 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
91197150 AATATATTTT
91197160 AAAAAATTA
1 AAAAAATTA
91197169 AAAAAATTA
1 AAAAAATTA
*
91197178 AAAATATTATA
1 AAAA-AAT-TA
*
91197189 AAAAAACTA
1 AAAAAATTA
*
91197198 AAAATATTTA
1 AAAA-AATTA
* *
91197208 AAATATTTA
1 AAAAAATTA
91197217 AAACAAATTA
1 AAA-AAATTA
91197227 AA
1 AA
91197229 CATATTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 27 0.56
10 15 0.31
11 6 0.12
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAAATTA
Found at i:91197192 original size:20 final size:19
Alignment explanation
Indices: 91197166--91197210 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
91197156 TTTTAAAAAA
*
91197166 TTAAAAAAATTAAAAATAT
1 TTAAAAAAACTAAAAATAT
91197185 TATAAAAAAACTAAAAATAT
1 T-TAAAAAAACTAAAAATAT
91197205 TTAAAA
1 TTAAAA
91197211 TATTTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAAAACTAAAAATAT
Found at i:91197210 original size:29 final size:28
Alignment explanation
Indices: 91197153--91197240 Score: 113
Period size: 29 Copynumber: 3.1 Consensus size: 28
91197143 TAAAAATAAT
* * *
91197153 ATATTTTAAAAAATTAAAAAAATTAAAA
1 ATATTTAAAAAAATTAAAAATATTTAAA
*
91197181 ATATTATAAAAAAACTAAAAATATTTAAA
1 ATATT-TAAAAAAATTAAAAATATTTAAA
*
91197210 ATATTTAAAACAAATTAAACATATTTAAA
1 ATATTTAAAA-AAATTAAAAATATTTAAA
91197239 AT
1 AT
91197241 TTAAAATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 10 0.19
29 42 0.81
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (28 bp):
ATATTTAAAAAAATTAAAAATATTTAAA
Found at i:91197346 original size:156 final size:152
Alignment explanation
Indices: 91197083--91197371 Score: 368
Period size: 156 Copynumber: 1.9 Consensus size: 152
91197073 TTTAAAAAAT
* *
91197083 ATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
1 ATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAAATTGAAAGGTCATATATTTAAAA
**
91197148 ATAATATATTTTAAAAAATTAAAAAAATTAAAAATATTATAAAAAAACTAAAAATATTTAAAATA
66 ATAATATATTTTAAAAAATTAAAAAAATTAAAAATAAAATAAAAAAA-T---AATATTTAAAATA
91197213 TTTAAAACAAATTAAACATATTTAAA
127 TTTAAAACAAATTAAACATATTTAAA
*
91197239 ATTTAAAATATACATTTAAAATATTATAAAACTAATAATAAAATTGAAAGGTCATATATTTAAAA
1 ATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAAATTGAAAGGTCATATATTTAAAA
* * ** * * ** *
91197304 TATTTAA-ATGTTTTATATTATT-AAGAAA-TATATTTAAAATAAAAAAATAATATTTAAAATTT
66 -A--TAATATATTTTAAAAAATTAAAAAAATTAAAAATAAAATAAAAAAATAATATTTAAAATAT
91197366 TTAAAA
128 TTAAAA
91197372 ATAATTTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
152 19 0.16
155 1 0.01
156 76 0.66
157 6 0.05
158 11 0.09
159 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (152 bp):
ATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAAATTGAAAGGTCATATATTTAAAA
ATAATATATTTTAAAAAATTAAAAAAATTAAAAATAAAATAAAAAAATAATATTTAAAATATTTA
AAACAAATTAAACATATTTAAA
Found at i:91197396 original size:14 final size:12
Alignment explanation
Indices: 91197346--91197397 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
91197336 TTTAAAATAA
91197346 AAAAATAATATTT
1 AAAAATAAT-TTT
91197359 -AAAAT--TTTT
1 AAAAATAATTTT
91197368 AAAAATAATTTT
1 AAAAATAATTTT
91197380 AAAAATATATATTT
1 AAAAATA-AT-TTT
91197394 AAAA
1 AAAA
91197398 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.09
10 6 0.18
12 16 0.47
13 2 0.06
14 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATAATTTT
Found at i:91197417 original size:34 final size:34
Alignment explanation
Indices: 91197346--91197417 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 34
91197336 TTTAAAATAA
* *
91197346 AAAAATAATATTTAAAATTTTTAAAAATAATTTT
1 AAAAATAATATTTAAAATTTTAAAAAATAATTAT
91197380 AAAAATATATATTTAAAATTTTAAAAAAT-ATTAT
1 AAAAATA-ATATTTAAAATTTTAAAAAATAATTAT
91197414 AAAA
1 AAAA
91197418 CATTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 15 0.43
35 20 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAAATAATATTTAAAATTTTAAAAAATAATTAT
Done.