Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 39 of 85
Found at i:13153893 original size:31 final size:31
Alignment explanation
Indices: 13153847--13153916 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
13153837 AAACTGGTAA
*
13153847 TCAGC-ATGCAAACAACGTGGCTGTATAACT
1 TCAGCAATACAAACAACGTGGCTGTATAACT
13153877 TCAGCAATACAAACAACGTGGCTGTATAACT
1 TCAGCAATACAAACAACGTGGCTGTATAACT
13153908 TCAGCAATA
1 TCAGCAATA
13153917 AGTTATGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (31 bp):
TCAGCAATACAAACAACGTGGCTGTATAACT
Found at i:13154976 original size:13 final size:13
Alignment explanation
Indices: 13154938--13154980 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13154928 GCTCAATGCA
*
13154938 AAATTGTAATTTT
1 AAATTCTAATTTT
* * *
13154951 GAATTTTATTTTT
1 AAATTCTAATTTT
13154964 AAATTCTAATTTT
1 AAATTCTAATTTT
13154977 AAAT
1 AAAT
13154981 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
AAATTCTAATTTT
Found at i:13157502 original size:146 final size:147
Alignment explanation
Indices: 13157006--13158565 Score: 2697
Period size: 146 Copynumber: 10.6 Consensus size: 147
13156996 TTTTTTAAAG
* * *
13157006 GCCGCTATTGCTTACCTTTAGCGGTGTTTTTCATAAAAGCGCCAC-AAAAAAATTCATCTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
** *
13157070 AAAACTAATCCGTTTTGCTATGTTATGCTAAAA-GGGGCTTTTTTTTAAAGTAAAATTATTTTGT
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGC-TTTTTTTAAAGTAAAATTATTTTGT
13157134 GGCGTTTTTTTATAAAAAC
130 GGCG-TTTTTTATAAAAAC
* *
13157153 GCAGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGC-AAAAAAATTCATTTTGATC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
13157217 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTTTAAAGTAAAATTATTTTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGC--TTTTTTTAAAGTAAAATTATTTTG
13157282 TGGCGTTTTTTTATAAAAAC
129 TGGCG-TTTTTTATAAAAAC
*
13157302 GCAGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
*
13157367 AAAACTACGCCGTTTTGCTATGCCATGCT-AAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13157431 GCATTTTTTATAAAAAC
131 GCGTTTTTTATAAAAAC
* *
13157448 GCCGCTATTGCTTACCTTTAGCGGTGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGATC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
13157513 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTTTAAAGTAAAATTATTTTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGC--TTTTTTTAAAGTAAAATTATTTTG
13157578 TGGCG-TTTTTATAAAAAC
129 TGGCGTTTTTTATAAAAAC
*
13157596 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGATC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
13157661 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13157726 GCGTTTTTTATATAAAC
131 GCGTTTTTTATAAAAAC
*
13157743 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGATC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
13157808 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13157873 TCGTTTTTTATAAAAAC
131 GCGTTTTTTATAAAAAC
13157890 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATT-ATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
* *
13157954 AAAACTATGTCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13158019 TCGTTTTTTATAAAAAC
131 GCGTTTTTTATAAAAAC
13158036 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATT-ATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
* *
13158100 AAAACTATGTCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13158165 TCGTTTTTTATAAAAAC
131 GCGTTTTTTATAAAAAC
13158182 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATT-ATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
* *
13158246 AAAACTATGTCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
*
13158311 TCGTTTTTTATAAAAAC
131 GCGTTTTTTATAAAAAC
13158328 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATT-ATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
* * *
13158392 AAAACTATGTCGTTTTGCTATGCTATGCTAAAAGGGGGATTTTTTTTAAAGTAAAATTATTTTGT
66 AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGG-CTTTTTTTAAAGTAAAATTATTTTGT
*
13158457 GGCGTTTTTTATATAAAC
130 GGCGTTTTTTATAAAAAC
*
13158475 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCACCGCAAAAAAAATTCATTTTGAAC
1 GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
*
13158540 AAAACTATGCCGTTTTGCTATGCTAT
66 AAAACTACGCCGTTTTGCTATGCTAT
13158566 CCCCGAAAGC
Statistics
Matches: 1376, Mismatches: 28, Indels: 17
0.97 0.02 0.01
Matches are distributed among these distances:
146 615 0.45
147 433 0.31
148 155 0.11
149 127 0.09
150 46 0.03
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (147 bp):
GCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAAATTCATTTTGAAC
AAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTTTTTTTAAAGTAAAATTATTTTGTG
GCGTTTTTTATAAAAAC
Found at i:13160611 original size:15 final size:15
Alignment explanation
Indices: 13160591--13160620 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13160581 TCAAGGCCTG
13160591 ACCCATATATAAAAT
1 ACCCATATATAAAAT
13160606 ACCCATATATAAAAT
1 ACCCATATATAAAAT
13160621 GGGTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
ACCCATATATAAAAT
Found at i:13163476 original size:17 final size:16
Alignment explanation
Indices: 13163439--13163474 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13163429 TCGAGGAAAG
13163439 AAAATTGAAAAGATAA
1 AAAATTGAAAAGATAA
**
13163455 AAAATTGAAGGGATAA
1 AAAATTGAAAAGATAA
13163471 AAAA
1 AAAA
13163475 ATATATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAAGATAA
Found at i:13164098 original size:12 final size:11
Alignment explanation
Indices: 13164070--13164099 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
13164060 TTTATTTTTT
13164070 TATTTTTAAAA
1 TATTTTTAAAA
13164081 TATTTTTAAAA
1 TATTTTTAAAA
13164092 TACTTTTT
1 TA-TTTTT
13164100 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:13164120 original size:22 final size:21
Alignment explanation
Indices: 13164081--13164121 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13164071 ATTTTTAAAA
*
13164081 TATTTTTAAAATACTTTTTTT
1 TATTTTTAAAATAATTTTTTT
*
13164102 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAATTTTTT
13164122 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTTT
Found at i:13179937 original size:23 final size:23
Alignment explanation
Indices: 13179911--13179957 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13179901 GTAATTATAA
13179911 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
13179934 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
13179957 A
1 A
13179958 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:13180449 original size:23 final size:23
Alignment explanation
Indices: 13180423--13180469 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13180413 GTAATTATAA
13180423 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
13180446 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
13180469 A
1 A
13180470 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:13181192 original size:25 final size:24
Alignment explanation
Indices: 13181164--13181273 Score: 102
Period size: 25 Copynumber: 4.6 Consensus size: 24
13181154 ACTTTAGCGC
13181164 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTG-TTATTAGCACGTCAGT
* *
13181189 GCTCTCTGATTACTAGCACGCCAGT
1 GCTCTCTG-TTATTAGCACGTCAGT
* * *
13181214 GCTCTCTG-T-TTAACACATCTGT
1 GCTCTCTGTTATTAGCACGTCAGT
* *
13181236 GCTCTCTG-TA-TAGCACTTTAGT
1 GCTCTCTGTTATTAGCACGTCAGT
13181258 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
13181274 TGCATAATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
22 33 0.47
23 2 0.03
24 1 0.01
25 34 0.49
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACGTCAGT
Found at i:13181240 original size:22 final size:22
Alignment explanation
Indices: 13181211--13181267 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
13181201 CTAGCACGCC
13181211 AGTGCTCTCTGTTTAACACATCT
1 AGTGCTCTCTGTTTAACAC-TCT
* * *
13181234 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAACACTCT
13181255 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
13181268 CATTAGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAACACTCT
Found at i:13186684 original size:5 final size:6
Alignment explanation
Indices: 13186675--13186733 Score: 64
Period size: 6 Copynumber: 9.0 Consensus size: 6
13186665 AAATATATAT
13186675 TTTTTA TTTTTA TTTTTAAA TTTTTA TTTTTAA TTTTTAA TTTTTAA TTTTTA
1 TTTTTA TTTTTA TTTTT--A TTTTTA TTTTT-A TTTTT-A TTTTT-A TTTTTA
*
13186728 ATTTTA
1 TTTTTA
13186734 AAATACTTGG
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
6 23 0.47
7 20 0.41
8 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:13186684 original size:7 final size:7
Alignment explanation
Indices: 13186673--13186732 Score: 88
Period size: 7 Copynumber: 8.7 Consensus size: 7
13186663 ATAAATATAT
*
13186673 ATTTTTT
1 ATTTTTA
13186680 ATTTTT-
1 ATTTTTA
13186686 ATTTTTAA
1 ATTTTT-A
13186694 ATTTTT-
1 ATTTTTA
13186700 ATTTTTA
1 ATTTTTA
13186707 ATTTTTA
1 ATTTTTA
13186714 ATTTTTA
1 ATTTTTA
13186721 ATTTTTA
1 ATTTTTA
13186728 ATTTT
1 ATTTT
13186733 AAAATACTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.24
7 32 0.64
8 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:13186700 original size:20 final size:20
Alignment explanation
Indices: 13186675--13186735 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
13186665 AAATATATAT
13186675 TTTTTATTTTTATTTTTAAA
1 TTTTTATTTTTATTTTTAAA
13186695 TTTTTATTTTTAATTTTT-AA
1 TTTTTATTTTT-ATTTTTAAA
*
13186715 TTTTTAATTTTTAATTTTAAA
1 TTTTT-ATTTTTATTTTTAAA
13186736 ATACTTGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTAAA
Found at i:13188819 original size:39 final size:39
Alignment explanation
Indices: 13188776--13188853 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
13188766 GAGCTATCTT
*
13188776 AGCAAACAAAGGAAACAGCGTGCTATATTATATTACATG
1 AGCAAACAAAGGAAACAACGTGCTATATTATATTACATG
*
13188815 AGCAAACAGAGGAAACAACGTGCTATATTATATTACATG
1 AGCAAACAAAGGAAACAACGTGCTATATTATATTACATG
13188854 TAAAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (39 bp):
AGCAAACAAAGGAAACAACGTGCTATATTATATTACATG
Found at i:13190140 original size:1 final size:1
Alignment explanation
Indices: 13190136--13190160 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13190126 TTTTTTTTTT
13190136 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
13190161 TGGGCTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:13196198 original size:16 final size:16
Alignment explanation
Indices: 13196140--13196198 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
13196130 TACTTTTTTC
* *
13196140 TCCAAAACCCTAAAAA
1 TCCAAAAACCTTAAAA
*
13196156 TCCTAAAAACCATAAAA
1 TCC-AAAAACCTTAAAA
**
13196173 -CCCTAAACCTTAAAA
1 TCCAAAAACCTTAAAA
13196188 TCCAAAAACCT
1 TCCAAAAACCT
13196199 ACATGTCAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 10 0.30
16 13 0.39
17 10 0.30
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.17
Consensus pattern (16 bp):
TCCAAAAACCTTAAAA
Found at i:13196801 original size:24 final size:24
Alignment explanation
Indices: 13196769--13196816 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13196759 GTTTTCCATG
13196769 TATTGAGAGGGAGACAAGAGAATA
1 TATTGAGAGGGAGACAAGAGAATA
**
13196793 TATTGAGAGGGAGAGGAGAGAATA
1 TATTGAGAGGGAGACAAGAGAATA
13196817 AAAAAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.38, T:0.17
Consensus pattern (24 bp):
TATTGAGAGGGAGACAAGAGAATA
Found at i:13201862 original size:26 final size:25
Alignment explanation
Indices: 13201811--13201862 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
13201801 ATAATTACTT
*
13201811 TTAAATATATAATTATAATTCTAAA
1 TTAAATATATAATTATAATTCCAAA
**
13201836 TTAAATATTATAATTATTTTTCCAAA
1 TTAAATA-TATAATTATAATTCCAAA
13201862 T
1 T
13201863 GTCAATTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAAATATATAATTATAATTCCAAA
Found at i:13206176 original size:23 final size:23
Alignment explanation
Indices: 13206145--13206216 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
13206135 AAAGAGAAAT
13206145 AAATCCCTAAAATTGTGGAAGAC
1 AAATCCCTAAAATTGTGGAAGAC
* * *
13206168 AAATGCCTACAATT-TAGCCAA-AC
1 AAATCCCTAAAATTGT-G-GAAGAC
*
13206191 AAGTCCCTAAAAATTGTGGAAGAC
1 AAATCCCT-AAAATTGTGGAAGAC
13206215 AA
1 AA
13206217 CTTGACTTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.03
23 23 0.62
24 12 0.32
25 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.21
Consensus pattern (23 bp):
AAATCCCTAAAATTGTGGAAGAC
Found at i:13211788 original size:19 final size:21
Alignment explanation
Indices: 13211764--13211811 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
13211754 ACAATAATTC
13211764 TAAAAATTAAACA-AAA-TAT
1 TAAAAATTAAACATAAATTAT
* *
13211783 TTAAAA-TAAATATAAATTAT
1 TAAAAATTAAACATAAATTAT
13211803 TAAAAATTA
1 TAAAAATTA
13211812 TGTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.22
19 8 0.35
20 8 0.35
21 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAATTAAACATAAATTAT
Found at i:13215506 original size:31 final size:30
Alignment explanation
Indices: 13215471--13215566 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
13215461 TTCTCTGTAA
13215471 AATTTTTAGATATTTTTACATATATATTTT
1 AATTTTTAGATATTTTTACATATATATTTT
* *
13215501 GAATTTTTAGA-ATTTTT-TATTTATAATTTT
1 -AATTTTTAGATATTTTTACATATAT-ATTTT
* * *
13215531 AATTTTAAAATATTTTAACATA-AT-TTTT
1 AATTTTTAGATATTTTTACATATATATTTT
13215559 AATATTTT
1 AAT-TTTT
13215567 TATTTATTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 7 0.13
29 16 0.30
30 18 0.34
31 12 0.23
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
AATTTTTAGATATTTTTACATATATATTTT
Found at i:13226989 original size:99 final size:93
Alignment explanation
Indices: 13226811--13226995 Score: 221
Period size: 99 Copynumber: 1.9 Consensus size: 93
13226801 AAAATAAGGT
* * *
13226811 AATATGTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGAGTTTCCATTTCTCGTTCCA
1 AATATGTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGAGTGTCCATTTCTCGTTCAA
13226876 CCAAATGACTTAATATCCTTTTCAAAAA
66 CCAAATGACTTAATATCCTTTTCAAAAA
* * *
13226904 NNNAATAT-TTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 ---AATATGTT-GCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTACTGAGTGTCCA--TTTCT
*
13226968 CGCTT-AACCAAATGGCTTAATATCCTTT
59 CG-TTCAACCAAATGACTTAATATCCTTT
13226996 AAAATCCTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
95 2 0.03
96 22 0.29
97 23 0.30
99 28 0.36
100 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (93 bp):
AATATGTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGAGTGTCCATTTCTCGTTCAA
CCAAATGACTTAATATCCTTTTCAAAAA
Found at i:13227292 original size:110 final size:109
Alignment explanation
Indices: 13226995--13227329 Score: 455
Period size: 108 Copynumber: 3.1 Consensus size: 109
13226985 TAATATCCTT
* * *
13226995 TAAA-ATCCTTTT-AAAACTTTTAAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAGCG
1 TAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACG
* ** *
13227058 TGCCCTAAGGTACTGAGTTTTTATTTCTCGTTCCACCAAATGGC
66 TGCCCTAAGGTACTGGGTTTCAATTTCTCGTTCCACCAAATAGC
*
13227102 TTAATATCCTTTTCAAAAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAC
1 TAAATATCCTTTT-AAAAACTTTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAC
* *
13227165 GTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATAGC
65 GTGCCCTAAGGTACTGGGTTTCAATTTCTCGTTCCACCAAATAGC
* * *
13227210 TAAATATCCTTTTAAAAAACTTTTCAAAAATAAGGTAATATTTTGAGTTTGGAAATTCGAGAAAC
1 TAAATATCCTTTT-AAAAACTTTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAC
* * * *
13227275 GTGCCCTAAGGTGCTGGGTTTCAATTTCACGTT-TAGCCAAATTGC
65 GTGCCCTAAGGTACTGGGTTTCAATTTCTCGTTCCA-CCAAATAGC
13227320 TAAATATCCT
1 TAAATATCCT
13227330 CTTGAATTTT
Statistics
Matches: 203, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.01
108 102 0.50
109 10 0.05
110 88 0.43
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
TAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACG
TGCCCTAAGGTACTGGGTTTCAATTTCTCGTTCCACCAAATAGC
Found at i:13231920 original size:31 final size:29
Alignment explanation
Indices: 13231847--13231923 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
13231837 TTTATTATAG
*
13231847 GTTACATTTTAGTCACGTATGCTTGAAAT
1 GTTACATTTTAGTCACTTATGCTTGAAAT
*
13231876 GTTACGTTTTAGTCACTTATG-TT-AACAT
1 GTTACATTTTAGTCACTTATGCTTGAA-AT
13231904 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
13231924 GAGCCGTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 20 0.49
30 1 0.02
31 13 0.32
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATGCTTGAAAT
Found at i:13234445 original size:12 final size:12
Alignment explanation
Indices: 13234428--13234452 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13234418 GGTGTTCATT
13234428 CGGTTAACCGAC
1 CGGTTAACCGAC
13234440 CGGTTAACCGAC
1 CGGTTAACCGAC
13234452 C
1 C
13234453 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:13234626 original size:9 final size:9
Alignment explanation
Indices: 13234612--13234688 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
13234602 TTTGGTTAAA
13234612 AATTACCCG
1 AATTACCCG
13234621 AATTACCCG
1 AATTACCCG
13234630 AATTACCCG
1 AATTACCCG
* *
13234639 AATTAACCT
1 AATTACCCG
*
13234648 AATTAACCG
1 AATTACCCG
13234657 AATTA-CCG
1 AATTACCCG
*
13234665 AAAAATACCCG
1 --AATTACCCG
*
13234676 AATTACTCG
1 AATTACCCG
13234685 AATT
1 AATT
13234689 TTTTTATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:13241746 original size:11 final size:11
Alignment explanation
Indices: 13241719--13241749 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
13241709 AAGTATTTAT
13241719 TAGAAGTTTTC
1 TAGAAGTTTTC
13241730 -AGAAGTTTTC
1 TAGAAGTTTTC
13241740 TAGAAGTTTT
1 TAGAAGTTTT
13241750 AATCTCTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (11 bp):
TAGAAGTTTTC
Found at i:13244385 original size:12 final size:12
Alignment explanation
Indices: 13244368--13244392 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13244358 TTATACTCTT
13244368 TTATTATTTTAC
1 TTATTATTTTAC
13244380 TTATTATTTTAC
1 TTATTATTTTAC
13244392 T
1 T
13244393 ACTATTACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTTAC
Found at i:13246908 original size:51 final size:51
Alignment explanation
Indices: 13246814--13246914 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
13246804 CGGGCTTATT
** * *
13246814 ATTTTTTTGTCGGGCCGGGCCTGGGCAAAATTTCAGGATCATATTCCGGGG
1 ATTTTTTTCCCGGGCCGGGCCTAGGCAAAATTTCAGGACCATATTCCGGGG
* *
13246865 ATTTTTTTCCCGGGCCGGGCCTAGGCAAAATCTT-AGGCCCATATTTCGGG
1 ATTTTTTTCCCGGGCCGGGCCTAGGCAAAAT-TTCAGGACCATATTCCGGG
13246915 CCGGGCCCGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.31
Consensus pattern (51 bp):
ATTTTTTTCCCGGGCCGGGCCTAGGCAAAATTTCAGGACCATATTCCGGGG
Found at i:13249553 original size:11 final size:11
Alignment explanation
Indices: 13249539--13249564 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13249529 TTTTTTTTAA
13249539 TTTTAAAATAT
1 TTTTAAAATAT
13249550 TTTTAAAATAT
1 TTTTAAAATAT
13249561 TTTT
1 TTTT
13249565 TTATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:13249575 original size:40 final size:39
Alignment explanation
Indices: 13249517--13249613 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 39
13249507 TAATAAATAT
* *
13249517 ATATATTTTTAATTTTTTTTAATTTTAAAATATTTTTAAA
1 ATAT-TTTTTTATTTTTTTTAATTTTAAAATACTTTTAAA
13249557 ATATTTTTTTATTATTTTTTAATTTTAAAATACTTTTAAA
1 ATATTTTTTTATT-TTTTTTAATTTTAAAATACTTTTAAA
* *
13249597 ATACTTTTTTAATTTTT
1 ATATTTTTTTATTTTTT
13249614 ANNNNNNNNN
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 12 0.23
40 40 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (39 bp):
ATATTTTTTTATTTTTTTTAATTTTAAAATACTTTTAAA
Found at i:13249582 original size:30 final size:31
Alignment explanation
Indices: 13249548--13249614 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
13249538 ATTTTAAAAT
* ** *
13249548 ATTTTTAAAATATTTTTTTATTA-TTTTTTA
1 ATTTTTAAAATACTTTTAAAATACTTTTTTA
13249578 A-TTTTAAAATACTTTTAAAATACTTTTTTA
1 ATTTTTAAAATACTTTTAAAATACTTTTTTA
13249608 ATTTTTA
1 ATTTTTA
13249615 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.55
30 9 0.29
31 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTAAAATACTTTTAAAATACTTTTTTA
Found at i:13249593 original size:11 final size:11
Alignment explanation
Indices: 13249579--13249604 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13249569 TATTTTTTAA
13249579 TTTTAAAATAC
1 TTTTAAAATAC
13249590 TTTTAAAATAC
1 TTTTAAAATAC
13249601 TTTT
1 TTTT
13249605 TTAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:13252304 original size:98 final size:98
Alignment explanation
Indices: 13252135--13252979 Score: 1645
Period size: 98 Copynumber: 8.6 Consensus size: 98
13252125 ATACAATAAA
*
13252135 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
*
13252200 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252233 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
*
13252298 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252331 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
13252396 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252429 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
13252494 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252527 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
13252592 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252625 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
13252690 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252723 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
*
13252788 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252821 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
*
13252886 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
13252919 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCAC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCAC
13252980 NNNNNNNNNN
Statistics
Matches: 744, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 744 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
Found at i:13265282 original size:19 final size:19
Alignment explanation
Indices: 13265256--13265365 Score: 166
Period size: 19 Copynumber: 5.8 Consensus size: 19
13265246 ATCATATCTC
13265256 CTAAGATTGCATATCATAT
1 CTAAGATTGCATATCATAT
* ** *
13265275 CAAAGATTATACATCATAT
1 CTAAGATTGCATATCATAT
13265294 CTAAGATTGCATATCATAT
1 CTAAGATTGCATATCATAT
13265313 CTAAGATTGCATATCATAT
1 CTAAGATTGCATATCATAT
*
13265332 CTAGGATTGCATATCATAT
1 CTAAGATTGCATATCATAT
*
13265351 ATAAGATTGCATATC
1 CTAAGATTGCATATC
13265366 CTCAAAGATT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
CTAAGATTGCATATCATAT
Found at i:13277381 original size:29 final size:30
Alignment explanation
Indices: 13277339--13277396 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
13277329 CTATTATGTC
*
13277339 ATCTATAAATTCAATTGGGAAGA-TAACTT
1 ATCTATAAATTCAATTGAGAAGATTAACTT
13277368 ATCTATAAATTCAATTGAGAAGATTAACT
1 ATCTATAAATTCAATTGAGAAGATTAACT
13277397 CCTAGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (30 bp):
ATCTATAAATTCAATTGAGAAGATTAACTT
Found at i:13285216 original size:73 final size:72
Alignment explanation
Indices: 13285095--13285272 Score: 198
Period size: 73 Copynumber: 2.5 Consensus size: 72
13285085 TTGAGCATTA
* *
13285095 GCGGCGCTTTTCTAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACGAC-GACGTTGGGCTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACG-CTGACGTTGGACTTA
*
13285159 GTTTTTTTT
65 G-GTTTTTT
* * ** * *
13285168 GCGGCGCTATTCCAAAAACGCCGCTAAATTCCTGAAACGGTCAG-AAACGCTGTCGTTGTACTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAAA-GCACAGAAAACGCTGACGTTGGACTTA
13285232 GGTTTTTT
65 GGTTTTTT
* * * *
13285240 GTGGCGCTTTTTCGAAAACGCCGCTAAAGCCCT
1 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCT
13285273 AAGAATTAGC
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
72 34 0.39
73 50 0.57
74 4 0.05
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (72 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAACGCTGACGTTGGACTTAG
GTTTTTT
Found at i:13285477 original size:113 final size:114
Alignment explanation
Indices: 13285229--13285493 Score: 311
Period size: 114 Copynumber: 2.3 Consensus size: 114
13285219 GTCGTTGTAC
* * * * *
13285229 TTAGGTTTTTTGTGGCGCTTTTTCGAAAACGCCGCTAAAGCCCTAAGAATTAGCGGCGCTTTATT
1 TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGAATTAACGACGCTTTATT
* * *
13285294 AAAAACGCCACTAATCACTCGAAAGCTCAGAAAAACGGCATCGTTGGGA
66 AAAAACGCCACTAATCACCCGAAAGCTCAGAAAAACGACATCGTTCGGA
* * * *
13285343 TTAGGCTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAACGACGCTTTATT
1 TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGAATTAACGACGCTTTATT
* * ** ** *
13285408 AGAAATGCCGTTAAATC-CCCGAAAGCTC-GGCAAACGACGTCGTTCGGA
66 AAAAACGCCACT-AATCACCCGAAAGCTCAGAAAAACGACATCGTTCGGA
*
13285456 TTAGGTTTTTTACGGCGCTTTCT-ATAAAACGCCGCTAA
1 TTAGGTTTTTTGCGGCGCTTTCTCA-AAAACGCCGCTAA
13285494 TTCTTATTCT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
112 1 0.01
113 49 0.38
114 74 0.58
115 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (114 bp):
TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGAATTAACGACGCTTTATT
AAAAACGCCACTAATCACCCGAAAGCTCAGAAAAACGACATCGTTCGGA
Found at i:13286851 original size:15 final size:14
Alignment explanation
Indices: 13286818--13286844 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13286808 TATCATAGAA
13286818 ATAAAAATTATTTG
1 ATAAAAATTATTTG
13286832 ATAAAAATTATTT
1 ATAAAAATTATTT
13286845 TTTTAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
ATAAAAATTATTTG
Found at i:13286914 original size:43 final size:43
Alignment explanation
Indices: 13286862--13287167 Score: 350
Period size: 43 Copynumber: 7.2 Consensus size: 43
13286852 GATATGTTTT
* *
13286862 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTTTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
13286905 TAGTGGCGTTTGTGGGAAATGCGCCGCTAAAGGTCTTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
** * *
13286948 TAGCGGCGTTTGTGGG-AAATTGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* **
13286990 TAGCGGCGTTTTTGTAAAAAGCGCCGCTAAAGGT-TCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGATCTA
* * *
13287033 TAGCGGCGCTTGT--GAAAAACTGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGC-GCCGCTAAAGGTCTTGATCTA
* * **
13287075 CAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
13287118 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
13287161 TAGCGGC
1 TAGCGGC
13287168 ATTTTTAGCA
Statistics
Matches: 219, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
41 5 0.02
42 63 0.29
43 146 0.67
44 5 0.02
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:13287014 original size:85 final size:84
Alignment explanation
Indices: 13286862--13287167 Score: 344
Period size: 85 Copynumber: 3.6 Consensus size: 84
13286852 GATATGTTTT
* * * * *
13286862 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTTTTGATCTATAGTGGCGTTTGTGGGAAATGC
1 TAGCGGCGTTTGTGGGAAATGC--CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGC
*
13286927 GCCGCTAAAGGTCTTGATTTA
64 GCCGCTAAAGGTCTTGATCTA
* * * *
13286948 TAGCGGCGTTTGTGGGAAATTGCCGCTAAAGATCTTGAGCTATAGCGGCGTTTTTGTAAAAAGCG
1 TAGCGGCGTTTGTGGGAAA-TGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCG
13287013 CCGCTAAAGGT-TCTGATCTA
65 CCGCTAAAGGTCT-TGATCTA
* ** * *
13287033 TAGCGGCGCTTGTGAAAAACTGTCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGGAAAAAGCG
1 TAGCGGCGTTTGTGGGAAA-TGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCG
**
13287098 CCGCTAAAGGTCCCGATCTA
65 CCGCTAAAGGTCTTGATCTA
* * * * *
13287118 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGGTCATGACCTATAGCGGC
1 TAGCGGCGTTTGTGGGA-AA-TGCCGCTAAAGGTCTTGATCTATAGCGGC
13287168 ATTTTTAGCA
Statistics
Matches: 184, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 136 0.74
86 45 0.24
87 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (84 bp):
TAGCGGCGTTTGTGGGAAATGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGCGC
CGCTAAAGGTCTTGATCTA
Found at i:13287101 original size:128 final size:126
Alignment explanation
Indices: 13286862--13287167 Score: 355
Period size: 128 Copynumber: 2.4 Consensus size: 126
13286852 GATATGTTTT
* * * * * * **
13286862 TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTTTTGATCTATAGTGGCGTTTGTGGGAAATGC
1 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCGCTTGTGAAAAAT-C
* * * ** **
13286927 GCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGTGGGAAATTGCCGCTAAAGATCTTGAGCTA
64 GCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
13286990 TAGCGGCGTTTTTGTAAAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCGCTTGTGAAAAA-CT
1 TAGCGGCGTTTTTGT-AAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCGCTTGTGAAAAATC-
* * *
13287054 GTCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
64 GCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCCCGAGCTA
* *
13287118 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGG-TCATGACCTATAGCGGC
1 TAGCGGCGTTT-TTGTAAAAGCGCCGCTAAAGGTTC-TGATCTATAGCGGC
13287168 ATTTTTAGCA
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
126 1 0.01
127 37 0.24
128 111 0.73
129 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (126 bp):
TAGCGGCGTTTTTGTAAAAGCGCCGCTAAAGGTTCTGATCTATAGCGGCGCTTGTGAAAAATCGC
CGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
Found at i:13287827 original size:78 final size:78
Alignment explanation
Indices: 13287698--13287849 Score: 279
Period size: 78 Copynumber: 1.9 Consensus size: 78
13287688 TGTAGAGGGT
*
13287698 TGCCGATTTGGGGAAATTAGGGGGGAAAATAAAGTGAATCGGGGTAGGGGAGAAATGGTTTGGGA
1 TGCCGATTTGGGGAAATTAGGGGGGAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
13287763 AAAATAAAAGAGC
66 AAAATAAAAGAGC
13287776 TGCCGATTTGGGGAAATT-GGGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGG
1 TGCCGATTTGGGGAAATTAGGGGGG-AAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGG
13287840 AAAAATAAAA
65 AAAAATAAAA
13287850 TGGGGAAAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 6 0.08
78 66 0.92
ACGTcount: A:0.38, C:0.05, G:0.39, T:0.19
Consensus pattern (78 bp):
TGCCGATTTGGGGAAATTAGGGGGGAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
AAAATAAAAGAGC
Found at i:13287846 original size:40 final size:40
Alignment explanation
Indices: 13287723--13287848 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
13287713 ATTAGGGGGG
*
13287723 AAAATAAAGTGAATCGGGGTAGGGGAGAAATGGTTTGGGA
1 AAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTTGGGA
* * ** * * *
13287763 AAAATAAA-AGAGCTGCCGATTTGGGGA-AATTGG--GGGGA
1 AAAATAAAGAGA-AT-CGGGGTAGGGGAGAAATGGTTTGGGA
*
13287801 AAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGA
1 AAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTTGGGA
13287841 AAAATAAA
1 AAAATAAA
13287849 ATGGGGAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
37 8 0.12
38 18 0.28
39 4 0.06
40 26 0.41
41 8 0.12
ACGTcount: A:0.40, C:0.04, G:0.37, T:0.18
Consensus pattern (40 bp):
AAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTTGGGA
Found at i:13288223 original size:14 final size:15
Alignment explanation
Indices: 13288202--13288232 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13288192 TAAAATTATA
13288202 ATTTTTTTGTATTTC
1 ATTTTTTTGTATTTC
13288217 ATTTTTTTGTATTTC
1 ATTTTTTTGTATTTC
13288232 A
1 A
13288233 AGTAAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (15 bp):
ATTTTTTTGTATTTC
Found at i:13288409 original size:7 final size:7
Alignment explanation
Indices: 13288397--13288519 Score: 61
Period size: 7 Copynumber: 16.9 Consensus size: 7
13288387 ACTAATTAAT
13288397 CTAAACC
1 CTAAACC
13288404 CTAAACC
1 CTAAACC
*
13288411 ACTAACCC
1 -CTAAACC
**
13288419 CTATCCC
1 CTAAACC
13288426 CTAAACC
1 CTAAACC
* *
13288433 TTAAATC
1 CTAAACC
*
13288440 ATAAACCC
1 CTAAA-CC
13288448 CT-AACC
1 CTAAACC
13288454 CTTAAGTACCC
1 C-TAA--A-CC
*
13288465 CTAACCC
1 CTAAACC
13288472 CTAAACC
1 CTAAACC
*
13288479 TTAAACC
1 CTAAACC
*
13288486 C-CAACC
1 CTAAACC
13288492 CTTAAACC
1 C-TAAACC
*
13288500 ATAAACC
1 CTAAACC
* *
13288507 ATAATCC
1 CTAAACC
13288514 CTAAAC
1 CTAAAC
13288520 TCATAATTCA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
6 8 0.09
7 60 0.68
8 13 0.15
10 4 0.05
11 3 0.03
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:13288497 original size:21 final size:22
Alignment explanation
Indices: 13288397--13288519 Score: 92
Period size: 22 Copynumber: 5.6 Consensus size: 22
13288387 ACTAATTAAT
* *
13288397 CTAAACCCTAAACCACT-AACCC
1 CTAACCCCTAAACC-TTAAACCC
* *
13288419 CTATCCCCTAAACCTTAAA-TC
1 CTAACCCCTAAACCTTAAACCC
* *
13288440 ATAAACCCCTAACCCTTAAGTACCC
1 CT-AACCCCTAAACCTTAA--ACCC
13288465 CTAACCCCTAAACCTTAAACCC
1 CTAACCCCTAAACCTTAAACCC
* *
13288487 C-AACCCTTAAACCATAAA-CC
1 CTAACCCCTAAACCTTAAACCC
* *
13288507 ATAATCCCTAAAC
1 CTAACCCCTAAAC
13288520 TCATAATTCA
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.03
21 27 0.34
22 33 0.41
24 16 0.20
25 2 0.03
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.20
Consensus pattern (22 bp):
CTAACCCCTAAACCTTAAACCC
Found at i:13288533 original size:15 final size:15
Alignment explanation
Indices: 13288498--13288535 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13288488 AACCCTTAAA
13288498 CCATAAAC-CATAAT
1 CCATAAACTCATAAT
*
13288512 CCCTAAACTCATAAT
1 CCATAAACTCATAAT
*
13288527 TCATAAACT
1 CCATAAACT
13288536 TTAAGATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
CCATAAACTCATAAT
Found at i:13288662 original size:7 final size:7
Alignment explanation
Indices: 13288650--13288778 Score: 89
Period size: 7 Copynumber: 18.0 Consensus size: 7
13288640 ACTAATTAAT
13288650 CTAAACC
1 CTAAACC
13288657 CTAAACCC
1 CTAAA-CC
*
13288665 CTAACCC
1 CTAAACC
13288672 CTAAACC
1 CTAAACC
* *
13288679 ATAAATC
1 CTAAACC
*
13288686 ATAAACC
1 CTAAACC
*
13288693 CTTAACC
1 CTAAACC
*
13288700 CTTAACAC
1 CTAAAC-C
*
13288708 CTAACCC
1 CTAAACC
13288715 CTAAACC
1 CTAAACC
*
13288722 TTAAACC
1 CTAAACC
*
13288729 C-CAACC
1 CTAAACC
13288735 CTTAAACC
1 C-TAAACC
*
13288743 ATAAACC
1 CTAAACC
* *
13288750 GTAATCC
1 CTAAACC
13288757 CTAAACC
1 CTAAACC
*
13288764 CATAATCC
1 C-TAAACC
*
13288772 ATAAACC
1 CTAAACC
13288779 TTAAGATAGT
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
6 5 0.05
7 70 0.74
8 20 0.21
ACGTcount: A:0.41, C:0.40, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:13288700 original size:36 final size:35
Alignment explanation
Indices: 13288647--13288729 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
13288637 AACACTAATT
*
13288647 AATCTAAACCCTAAACCCCTAACCCCTAAACCATA
1 AATCTAAACCCTAAACCCCTAACACCTAAACCATA
* * * *
13288682 AATCATAAACCCTTAACCCTTAACACCTAACCCCTA
1 AATC-TAAACCCTAAACCCCTAACACCTAAACCATA
*
13288718 AACCTTAAACCC
1 AATC-TAAACCC
13288730 CAACCCTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 4 0.10
36 36 0.90
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (35 bp):
AATCTAAACCCTAAACCCCTAACACCTAAACCATA
Found at i:13288761 original size:21 final size:21
Alignment explanation
Indices: 13288650--13288768 Score: 103
Period size: 21 Copynumber: 5.5 Consensus size: 21
13288640 ACTAATTAAT
*
13288650 CTAAACCCTAAACCCCTAACCC
1 CTAAACCATAAACCC-TAACCC
* * *
13288672 CTAAACCATAAATCATAAACC
1 CTAAACCATAAACCCTAACCC
* * *
13288693 CTTAACCCTTAACACCTAACCC
1 CTAAACCATAAAC-CCTAACCC
* *
13288715 CTAAACCTTAAACCCCAACCC
1 CTAAACCATAAACCCTAACCC
* * *
13288736 TTAAACCATAAACCGTAATCC
1 CTAAACCATAAACCCTAACCC
13288757 CTAAACCCATAA
1 CTAAA-CCATAA
13288769 TCCATAAACC
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
21 41 0.55
22 34 0.45
ACGTcount: A:0.41, C:0.39, G:0.01, T:0.18
Consensus pattern (21 bp):
CTAAACCATAAACCCTAACCC
Found at i:13289179 original size:41 final size:41
Alignment explanation
Indices: 13289113--13289328 Score: 292
Period size: 41 Copynumber: 5.3 Consensus size: 41
13289103 ATAAAATGTT
** * * *
13289113 TAAAGCATAGAGCATTAGCGACGCTTTTTCAAAAACGCCAC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
13289154 TATAGCACTGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
*
13289195 TAAAGCACCGAGCTTTAGCGGCGCTTTTTCAAAAATGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
13289236 TAAAGC-CTCGAGCATTAGCGGCGGC-TTTTCAAAAATGCCGC
1 TAAAGCAC-CGAGCATTAGCGGC-GCTTTTTCAAAAATGCCGC
* * *
13289277 TAAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCAGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
*
13289318 TAAAGCCCCGA
1 TAAAGCACCGA
13289329 AATGTCAGAA
Statistics
Matches: 159, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 3 0.02
41 153 0.96
42 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
Found at i:13289411 original size:40 final size:40
Alignment explanation
Indices: 13289362--13289455 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 40
13289352 GGCTTAGGTC
13289362 TTTT-GCGGCGTTTTTTGGAAAAACGCCACT-AATGCTC-AT
1 TTTTAGCGGCGTTTTTT-GAAAAACGCC-CTAAATGCTCGAT
* * *
13289401 TTTTAGCGGCGTGTTTTGAAAAGCGCCGTAAATGCTCGAT
1 TTTTAGCGGCGTTTTTTGAAAAACGCCCTAAATGCTCGAT
*
13289441 CTTTAGCGGC-TTTTT
1 TTTTAGCGGCGTTTTT
13289456 CCATAAAGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.02
39 24 0.51
40 22 0.47
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTTGAAAAACGCCCTAAATGCTCGAT
Found at i:13289435 original size:39 final size:41
Alignment explanation
Indices: 13289362--13289450 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 41
13289352 GGCTTAGGTC
*
13289362 TTTT-GCGGCGTTTTTTGGAAAAACGCCACTAATGCTC-AT
1 TTTTAGCGGCGTGTTTTGGAAAAACGCCACTAATGCTCGAT
* *
13289401 TTTTAGCGGCGTGTTTT-GAAAAGCGCC-GTAAATGCTCGAT
1 TTTTAGCGGCGTGTTTTGGAAAAACGCCACT-AATGCTCGAT
*
13289441 CTTTAGCGGC
1 TTTTAGCGGC
13289451 TTTTTCCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 1 0.02
39 20 0.47
40 22 0.51
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTGTTTTGGAAAAACGCCACTAATGCTCGAT
Found at i:13289746 original size:33 final size:33
Alignment explanation
Indices: 13289700--13289773 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
13289690 TTACACTTTT
* *
13289700 TCTTAATAGCTAAATTACCCAGAAAATCAGCGG
1 TCTTATTAGCTAAATTACACAGAAAATCAGCGG
* *
13289733 TCTTATTATCTAAATTACACAGTAAATCAGCGG
1 TCTTATTAGCTAAATTACACAGAAAATCAGCGG
13289766 TCTTATTA
1 TCTTATTA
13289774 CTACAACTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
TCTTATTAGCTAAATTACACAGAAAATCAGCGG
Found at i:13290779 original size:1 final size:1
Alignment explanation
Indices: 13290773--13290799 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
13290763 CAAGTTTCTA
13290773 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
13290800 CTTAATTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13294316 original size:21 final size:22
Alignment explanation
Indices: 13294269--13294316 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
13294259 TTAAAAATAG
*
13294269 ATATATTTTAAATTAATTATAT
1 ATATATTTTAAAATAATTATAT
*
13294291 TTATA-TTTAAAATAATTGAT-T
1 ATATATTTTAAAATAATT-ATAT
13294312 ATATA
1 ATATA
13294317 AACTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATTTTAAAATAATTATAT
Found at i:13301581 original size:43 final size:43
Alignment explanation
Indices: 13301430--13301582 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
13301420 AAGGCTCGTA
*
13301430 CAACGTCCCAGACATGGTCTTACATGTA-ATCACATATT-GATGC
1 CAACGTCCCAGACATGGTCTTACACGTATA-CACA-ATTCGATGC
* ** *
13301473 C-ACGGTCCCAGACAGGGTCTTACACAAAT-CA-AATACGATGC
1 CAAC-GTCCCAGACATGGTCTTACACGTATACACAATTCGATGC
* * *
13301514 CAATGTCCAAGCCATGGTCTTACACGTATACACAATTCGATGC
1 CAACGTCCCAGACATGGTCTTACACGTATACACAATTCGATGC
*
13301557 CAACGTCCCAGACGTGGTCTTACACG
1 CAACGTCCCAGACATGGTCTTACACG
13301583 AAAATACATA
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.02
41 27 0.31
42 7 0.08
43 52 0.59
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
CAACGTCCCAGACATGGTCTTACACGTATACACAATTCGATGC
Found at i:13315598 original size:30 final size:32
Alignment explanation
Indices: 13315549--13315610 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
13315539 AGGCAAATTA
*
13315549 CAAGAGTAATTGAATCCTAAT-GAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
13315580 CAAGAGTAATTG-ATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
13315611 AAAATTATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:13317628 original size:39 final size:36
Alignment explanation
Indices: 13317564--13317730 Score: 124
Period size: 39 Copynumber: 4.4 Consensus size: 36
13317554 GTACGATAAG
*
13317564 TTTTATAATTTTTTTACGAAATTTATATATCTTTACAT
1 TTTTATAATTTTTTTAC-TAATTTATATAT-TTTACAT
* * *
13317602 TTTGTATAATTTTTCTTACTACTTTATAAAATTTTATAAT
1 TTT-TATAATTTTT-TTACTAATTTAT-ATATTTTA-CAT
* *
13317642 TTTTATAA-TTTTTTAATATTTCTATATATTTTACAGT
1 TTTTATAATTTTTTTACTAATT-TATATATTTTACA-T
** *
13317679 TTTTATAA-AATTTTAC-AATTTTTATTACTTTTTACGAT
1 TTTTATAATTTTTTTACTAATTTATA-TA--TTTTAC-AT
13317717 TTTTATAATTTTTT
1 TTTTATAATTTTTT
13317731 AATATTTTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
35 3 0.03
36 6 0.06
37 28 0.27
38 25 0.24
39 29 0.28
40 12 0.12
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (36 bp):
TTTTATAATTTTTTTACTAATTTATATATTTTACAT
Found at i:13317647 original size:9 final size:9
Alignment explanation
Indices: 13317633--13317738 Score: 74
Period size: 9 Copynumber: 11.4 Consensus size: 9
13317623 CTTTATAAAA
13317633 TTTTATAAT
1 TTTTATAAT
13317642 TTTTATAAT
1 TTTTATAAT
13317651 TTTT-TAAT
1 TTTTATAAT
13317659 ATTTCTAT-AT
1 -TTT-TATAAT
* *
13317669 ATTTTACAGT
1 -TTTTATAAT
*
13317679 TTTTATAAAA
1 TTTTAT-AAT
*
13317689 TTTTACAAT
1 TTTTATAAT
*
13317698 TTTTATTACT
1 TTTTA-TAAT
**
13317708 TTTTACGAT
1 TTTTATAAT
13317717 TTTTATAAT
1 TTTTATAAT
13317726 TTTT-TAAT
1 TTTTATAAT
13317734 ATTTT
1 -TTTT
13317739 TTTCTAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
8 8 0.11
9 46 0.61
10 21 0.28
11 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13317654 original size:10 final size:10
Alignment explanation
Indices: 13317633--13317750 Score: 52
Period size: 9 Copynumber: 12.3 Consensus size: 10
13317623 CTTTATAAAA
13317633 TTTTATAA-T
1 TTTTATAATT
13317642 TTTTATAA-T
1 TTTTATAATT
13317651 TTTT-TAATAT
1 TTTTATAAT-T
* *
13317661 TTCTAT-ATA
1 TTTTATAATT
* *
13317670 TTTTA-CAGT
1 TTTTATAATT
**
13317679 TTTTATAAAA
1 TTTTATAATT
*
13317689 TTTTACAA-T
1 TTTTATAATT
* *
13317698 TTTTATTACT
1 TTTTATAATT
**
13317708 TTTTACGA-T
1 TTTTATAATT
13317717 TTTTATAATT
1 TTTTATAATT
*
13317727 TTTTAATATTT
1 TTTT-ATAATT
*
13317738 TTTTCTAATT
1 TTTTATAATT
13317748 TTT
1 TTT
13317751 AATATTTCAA
Statistics
Matches: 82, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
8 3 0.04
9 36 0.44
10 33 0.40
11 10 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:13317729 original size:19 final size:18
Alignment explanation
Indices: 13317564--13317731 Score: 92
Period size: 19 Copynumber: 8.8 Consensus size: 18
13317554 GTACGATAAG
*
13317564 TTTTATAATTTTTTTACGAA
1 TTTTATAA-TTTTTTAC-AT
* *
13317584 ATTTAT-ATATCTTTACAT
1 TTTTATAAT-TTTTTACAT
13317602 TTTGTATAATTTTTCTTACTACT
1 TTT-TATAA-TTTT-TTAC-A-T
* * *
13317625 TTATAAAATTTTATA-AT
1 TTTTATAATTTTTTACAT
13317642 TTTTATAATTTTTTA-AT
1 TTTTATAATTTTTTACAT
*
13317659 ATTTCTAT-ATATTTTACAGT
1 -TTT-TATAATTTTTTACA-T
**
13317679 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTAC-AT
* *
13317698 TTTTATTACTTTTTACGAT
1 TTTTATAATTTTTTAC-AT
13317717 TTTTATAATTTTTTA
1 TTTTATAATTTTTTA
13317732 ATATTTTTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 27
0.72 0.12 0.17
Matches are distributed among these distances:
17 15 0.13
18 18 0.16
19 54 0.47
20 12 0.10
21 9 0.08
22 5 0.04
23 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTATAATTTTTTACAT
Found at i:13317731 original size:38 final size:36
Alignment explanation
Indices: 13317585--13317739 Score: 127
Period size: 38 Copynumber: 4.1 Consensus size: 36
13317575 TTTTACGAAA
* *
13317585 TTTATATATCTTTACATTTTGTATAATTTTTCTTACTA-C
1 TTTATATAT-TTTACATTTT-TATAA-TTTT-TTAATATT
* *
13317624 TTTATAAAATTTTATAATTTTTATAATTTTTTAATATT
1 TTTAT-ATATTTTA-CATTTTTATAATTTTTTAATATT
* **
13317662 TCTATATATTTTACAGTTTTTATAAAATTTTACA-ATT
1 TTTATATATTTTACA-TTTTTATAATTTTTTA-ATATT
13317699 TTTAT-TACTTTTTACGATTTTTATAATTTTTTAATATT
1 TTTATATA--TTTTAC-ATTTTTATAATTTTTTAATATT
13317737 TTT
1 TTT
13317740 TTCTAATTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
36 3 0.03
37 34 0.36
38 35 0.37
39 15 0.16
40 8 0.08
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (36 bp):
TTTATATATTTTACATTTTTATAATTTTTTAATATT
Found at i:13317737 original size:19 final size:19
Alignment explanation
Indices: 13317640--13317757 Score: 82
Period size: 19 Copynumber: 6.2 Consensus size: 19
13317630 AAATTTTATA
13317640 ATTTTTATAATTTTTTAAT
1 ATTTTTATAATTTTTTAAT
* *
13317659 ATTTCTAT-ATATTTTACA-
1 ATTTTTATAATTTTTTA-AT
* **
13317677 GTTTTTATAAAATTTTACA-
1 ATTTTTATAATTTTTTA-AT
* * **
13317696 ATTTTTATTACTTTTTACG
1 ATTTTTATAATTTTTTAAT
13317715 ATTTTTATAATTTTTTAAT
1 ATTTTTATAATTTTTTAAT
*
13317734 ATTTTTTTCTAA-TTTTTAAT
1 A--TTTTTATAATTTTTTAAT
13317754 ATTT
1 ATTT
13317758 CAATTTTTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
18 16 0.20
19 46 0.58
20 9 0.11
21 8 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTTTAAT
Found at i:13325906 original size:12 final size:12
Alignment explanation
Indices: 13325889--13325939 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
13325879 ATGAGTTATT
13325889 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
13325901 TAAGTAAACAAG
1 TAAGTAAGCAAG
13325913 TAAGTGAA-CAAG
1 TAAGT-AAGCAAG
* *
13325925 TAAGTGAGTAAG
1 TAAGTAAGCAAG
13325937 TAA
1 TAA
13325940 AGAAGCGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.91
13 2 0.06
ACGTcount: A:0.51, C:0.06, G:0.24, T:0.20
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:13352929 original size:81 final size:81
Alignment explanation
Indices: 13352802--13353036 Score: 348
Period size: 81 Copynumber: 2.9 Consensus size: 81
13352792 CAGGTGAACG
* * *
13352802 TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATCAACTACGTCCTTCT
1 TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAACATCTACTAACAAAATCAGCTACGTCCTTCT
13352867 TCAATCC-AGGC-GCACA
66 TCAA-CCTAGGCAG-ACA
* * * *
13352883 TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAAAATTTACTAACAAAATTAGCTACATCCTTCT
1 TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAACATCTACTAACAAAATCAGCTACGTCCTTCT
*
13352948 TTAACCTAGGCAGACA
66 TCAACCTAGGCAGACA
* *
13352964 TTGATGCTTAGCTTTAACCCTTTGGTAAACTAAACATCTACTAATAAAATCAGCTACGTCCTTCT
1 TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAACATCTACTAACAAAATCAGCTACGTCCTTCT
13353029 TCAACCTA
66 TCAACCTA
13353037 AGCCACCAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 134 0.98
82 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (81 bp):
TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAACATCTACTAACAAAATCAGCTACGTCCTTCT
TCAACCTAGGCAGACA
Found at i:13357237 original size:22 final size:22
Alignment explanation
Indices: 13357206--13357249 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13357196 TACACCAAAA
* *
13357206 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
13357228 TAGGCCTTTAGCGGCACTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
13357250 AGCACCGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCACTTTTT
Found at i:13357400 original size:31 final size:31
Alignment explanation
Indices: 13357365--13357436 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
13357355 GTCAGGGTCT
*
13357365 TTAGCGGCGCTTCTTAGCGCTGCTATAAGCA
1 TTAGCGGCGCTTCTTAGCGCCGCTATAAGCA
*
13357396 TTAGCGGCGCTTTTTAGCGCCGCTATAAGCA
1 TTAGCGGCGCTTCTTAGCGCCGCTATAAGCA
13357427 TTAGCGGCGC
1 TTAGCGGCGC
13357437 CGTTAATGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (31 bp):
TTAGCGGCGCTTCTTAGCGCCGCTATAAGCA
Found at i:13357496 original size:43 final size:43
Alignment explanation
Indices: 13357449--13357562 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
13357439 TTAATGACAG
*
13357449 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
13357492 CGCCGCTAAAGATCACGACCTTTAGCGACGCTTTTTCCACAAA
1 CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTCCCACAAA
*
13357535 CGCCGCTAAAGAACA-AACCTTTAGCGGC
1 CGCCGCTAAAGAACACGACCTTTAGCGGC
13357563 ACTTCTAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 11 0.17
43 54 0.83
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.19
Consensus pattern (43 bp):
CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:13357578 original size:42 final size:43
Alignment explanation
Indices: 13357449--13357586 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
13357439 TTAATGACAG
* *
13357449 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCACAAA
* * *
13357492 CGCCGCTAAAGATCACGACCTTTAGCGACGCTTTTTCCACAAA
1 CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCACAAA
* * * * *
13357535 CGCCGCTAAAGAACA-AACCTTTAGCGGCACTTCTAGCAAAAA
1 CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCACAAA
*
13357577 CGCCACTAAA
1 CGCCGCTAAA
13357587 AATATAATCT
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 29 0.35
43 54 0.65
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
CGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:13363645 original size:40 final size:41
Alignment explanation
Indices: 13363511--13363661 Score: 268
Period size: 41 Copynumber: 3.7 Consensus size: 41
13363501 TGTTTTTGCA
13363511 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
*
13363552 GCGCTTTTTCAAAAACGCTGCTAAAAGCCTGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
*
13363593 GTGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCA-TAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
*
13363633 GCGCTTTCTCAAAAACGCCGCTAAAAGCC
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCC
13363662 CCAAAAGGTC
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
40 32 0.30
41 73 0.70
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
Found at i:13368424 original size:23 final size:22
Alignment explanation
Indices: 13368364--13368483 Score: 127
Period size: 23 Copynumber: 5.4 Consensus size: 22
13368354 CCTAATCAGT
13368364 ATACGACACAT-AAGTGCCTG-
1 ATACGACACATAAAGTGCCTGA
* ** *
13368384 ATACGACAAAGGAGGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
13368406 ATTACGACACATAAAGTGCCTGAA
1 A-TACGACACATAAAGTGCCTG-A
** * *
13368430 ATACGACACACGAGGTGCCTAA
1 ATACGACACATAAAGTGCCTGA
13368452 ATTACGACACATAAAGTGCCTGA
1 A-TACGACACATAAAGTGCCTGA
13368475 ATACGACAC
1 ATACGACAC
13368484 GAAGTGCCTG
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
20 9 0.11
21 8 0.10
22 11 0.14
23 50 0.62
24 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:13368445 original size:46 final size:45
Alignment explanation
Indices: 13368365--13368483 Score: 188
Period size: 46 Copynumber: 2.7 Consensus size: 45
13368355 CTAATCAGTA
* * *
13368365 TACGACACAT-AAGTGCCTG-ATACGACAAAGGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAATACGACACACGAGGTGCCTAAAT
13368408 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTG-AATACGACACACGAGGTGCCTAAAT
13368454 TACGACACATAAAGTGCCTGAATACGACAC
1 TACGACACATAAAGTGCCTGAATACGACAC
13368484 GAAGTGCCTG
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
43 10 0.14
44 9 0.13
45 10 0.14
46 41 0.59
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (45 bp):
TACGACACATAAAGTGCCTGAATACGACACACGAGGTGCCTAAAT
Found at i:13371612 original size:46 final size:46
Alignment explanation
Indices: 13371536--13373342 Score: 3485
Period size: 46 Copynumber: 39.3 Consensus size: 46
13371526 CTAATCAGTA
13371536 TACGACACAT-AAGTGCCTG--ATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371579 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13371625 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13371671 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13371717 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371763 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371809 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371855 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371901 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13371947 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13371993 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13372039 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13372085 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372131 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372177 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372223 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372269 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372315 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13372361 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372407 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372453 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372499 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372545 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372591 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13372637 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372683 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372729 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372775 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372821 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372867 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13372913 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13372959 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373005 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373051 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373097 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373143 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
*
13373189 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTAAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373235 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373281 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
1 TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
13373327 TACGACACATAAAGTG
1 TACGACACATAAAGTG
13373343 TTATTTTTGT
Statistics
Matches: 1747, Mismatches: 14, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
43 10 0.01
44 9 0.01
46 1728 0.99
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (46 bp):
TACGACACATAAAGTGCCTGAAATACGACACACGAGGTGCCTGAAT
Found at i:13377728 original size:43 final size:43
Alignment explanation
Indices: 13377662--13377972 Score: 374
Period size: 43 Copynumber: 7.3 Consensus size: 43
13377652 TTTTAGAAAT
*
13377662 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * * * *
13377705 AAACGTCGCTATATATCAGGACCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
13377748 AAACGCCGCTATAGATCAAGACTTTTAGCGACGCTTTT-ACAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * * *
13377790 AAATGCCGCTATAGCTCAAGACCTTTAGCGGCTCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
13377833 AAACGCCGCTATAGATCATGACTTTTAGCAGCACTTTTTGCC-C
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGC-TTTTCCCAC
* * *
13377876 AAACACCGCTATAAATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * **
13377919 AAACGCCACTATAGATCATGACTTTTAGTGGCGCTTTTTTCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
13377962 AAACGCCGCTA
1 AAACGCCGCTA
13377973 AAAGTGCCAT
Statistics
Matches: 226, Mismatches: 39, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
42 41 0.18
43 179 0.79
44 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:13377899 original size:128 final size:129
Alignment explanation
Indices: 13377662--13377972 Score: 401
Period size: 128 Copynumber: 2.4 Consensus size: 129
13377652 TTTTAGAAAT
* *
13377662 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTATATATCAGGAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* ** * * *
13377727 CTTTAGCGGTGCTTTTTCCACAAACGCCGCTATAGATCAAGACTTTTAGCGACGCTT-TTACAC
66 CTTTAGCAGCACTTTTTCCACAAACACCGCTATAAATCAAGACTTTTAGCGACGCTTCTCACAC
* * * * *
13377790 AAATGCCGCTATAGCTCAAGACCTTTAGCGGCTCTTTTCCCACAAACGCCGCTATAGATCATGAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * * *
13377855 TTTTAGCAGCACTTTTTGCC-CAAACACCGCTATAAATCATGACTTTTAGCGGCGCTTCTCCCAC
66 CTTTAGCAGCACTTTTT-CCACAAACACCGCTATAAATCAAGACTTTTAGCGACGCTTCTCACAC
* * * **
13377919 AAACGCCACTATAGATCATGACTTTTAGTGGCGCTTTTTTCACAAACGCCGCTA
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
13377973 AAAGTGCCAT
Statistics
Matches: 155, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
128 104 0.67
129 51 0.33
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (129 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
CTTTAGCAGCACTTTTTCCACAAACACCGCTATAAATCAAGACTTTTAGCGACGCTTCTCACAC
Found at i:13380042 original size:23 final size:21
Alignment explanation
Indices: 13380008--13380049 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
13379998 GGGAGGGGCA
*
13380008 TTTTTTGATTTATATAATAGAG
1 TTTTTAGATTTATA-AATAGAG
13380030 TTTTTAGATTTTATAAATAG
1 TTTTTAGA-TTTATAAATAG
13380050 GGTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTTAGATTTATAAATAGAG
Found at i:13382322 original size:7 final size:7
Alignment explanation
Indices: 13382303--13382340 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
13382293 TCTTAACTCT
13382303 TAACCCC
1 TAACCCC
13382310 -AGACCCC
1 TA-ACCCC
13382317 TAACCCC
1 TAACCCC
*
13382324 TAACTCC
1 TAACCCC
13382331 TAACCCC
1 TAACCCC
13382338 TAA
1 TAA
13382341 ACTTTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.04
7 25 0.93
8 1 0.04
ACGTcount: A:0.32, C:0.50, G:0.03, T:0.16
Consensus pattern (7 bp):
TAACCCC
Found at i:13382471 original size:48 final size:48
Alignment explanation
Indices: 13382411--13382507 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
13382401 AAATAGTAAC
*
13382411 TCCTAAACTGGCCTTATATCTTAAATTAACCATATACCGTAAACCATA
1 TCCTAAACTGGCCTTAAATCTTAAATTAACCATATACCGTAAACCATA
* *
13382459 TCCTAAATTGGCCTTAAATCTTAAATTAACCATATATCGTAAACCATA
1 TCCTAAACTGGCCTTAAATCTTAAATTAACCATATACCGTAAACCATA
13382507 T
1 T
13382508 AAACCTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (48 bp):
TCCTAAACTGGCCTTAAATCTTAAATTAACCATATACCGTAAACCATA
Found at i:13382614 original size:25 final size:25
Alignment explanation
Indices: 13382585--13382632 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
13382575 TATATGAAAT
*
13382585 TATTTAATATATAAATTAAAAAACA
1 TATTTAAAATATAAATTAAAAAACA
13382610 TATTTAAAATATAAATTAAAAAA
1 TATTTAAAATATAAATTAAAAAA
13382633 TAATTAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATTAAAAAACA
Found at i:13382708 original size:7 final size:7
Alignment explanation
Indices: 13382702--13382777 Score: 75
Period size: 7 Copynumber: 10.9 Consensus size: 7
13382692 AACTATTAAC
*
13382702 CCCTAAC
1 CCCTAAT
13382709 CCCTAAT
1 CCCTAAT
*
13382716 CCCTAAC
1 CCCTAAT
*
13382723 CCCTAAA
1 CCCTAAT
*
13382730 CCTTAAAT
1 CCCT-AAT
13382738 CCC-AA-
1 CCCTAAT
13382743 CCCTTAAT
1 CCC-TAAT
13382751 CCCTAAT
1 CCCTAAT
13382758 CCCTAAT
1 CCCTAAT
*
13382765 CCATAAT
1 CCCTAAT
13382772 CCCTAA
1 CCCTAA
13382778 ATCCATACTC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 45 0.79
8 7 0.12
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCTAAT
Found at i:13382719 original size:14 final size:14
Alignment explanation
Indices: 13382670--13382777 Score: 67
Period size: 14 Copynumber: 7.6 Consensus size: 14
13382660 CTGACCCATG
* *
13382670 AATCCTTAAACCCT
1 AATCCCTAACCCCT
***
13382684 AAATCCCTAACTATT
1 -AATCCCTAACCCCT
*
13382699 AACCCCTAACCCCT
1 AATCCCTAACCCCT
13382713 AATCCCTAACCCCT
1 AATCCCTAACCCCT
* * *
13382727 AAACCTTAAATCCC-
1 AATCCCT-AACCCCT
*
13382741 AA-CCCTTAATCCCT
1 AATCCC-TAACCCCT
* *
13382755 AATCCCTAATCCAT
1 AATCCCTAACCCCT
13382769 AATCCCTAA
1 AATCCCTAA
13382778 ATCCATACTC
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
13 8 0.11
14 49 0.66
15 17 0.23
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (14 bp):
AATCCCTAACCCCT
Found at i:13382722 original size:21 final size:21
Alignment explanation
Indices: 13382698--13382777 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
13382688 CCCTAACTAT
*
13382698 TAACCCCTAACCCCTAATCCC
1 TAACCCCTAATCCCTAATCCC
* *
13382719 TAACCCCTAAACCTTAAATCCC
1 TAACCCCTAATCCCT-AATCCC
*
13382741 -AACCCTTAATCCCTAATCCC
1 TAACCCCTAATCCCTAATCCC
* *
13382761 TAATCCATAATCCCTAA
1 TAACCCCTAATCCCTAA
13382778 ATCCATACTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.12
21 38 0.76
22 6 0.12
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (21 bp):
TAACCCCTAATCCCTAATCCC
Found at i:13382780 original size:15 final size:15
Alignment explanation
Indices: 13382743--13382794 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
13382733 TAAATCCCAA
* *
13382743 CCCTTAATCCCTAAT
1 CCCTAAATCCATAAT
13382758 CCCT-AATCCATAAT
1 CCCTAAATCCATAAT
*
13382772 CCCTAAATCCATACT
1 CCCTAAATCCATAAT
*
13382787 CCTTAAAT
1 CCCTAAAT
13382795 TTTAAACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 13 0.39
15 20 0.61
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.31
Consensus pattern (15 bp):
CCCTAAATCCATAAT
Found at i:13383031 original size:23 final size:25
Alignment explanation
Indices: 13383004--13383058 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
13382994 TAAATAATAG
*
13383004 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
13383027 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
13383053 TATTTT
1 TATTTT
13383059 TTTCTGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:13383130 original size:18 final size:17
Alignment explanation
Indices: 13383107--13383140 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13383097 AATTTTATTT
*
13383107 AATTAATATAAATAAACC
1 AATTAAGATAAA-AAACC
13383125 AATTAAGATAAAAAAC
1 AATTAAGATAAAAAAC
13383141 TTTTAGCGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.24
Consensus pattern (17 bp):
AATTAAGATAAAAAACC
Found at i:13383322 original size:40 final size:40
Alignment explanation
Indices: 13383143--13383333 Score: 217
Period size: 41 Copynumber: 4.8 Consensus size: 40
13383133 TAAAAAACTT
* * * *
13383143 TTAGCGGCG-TTTTTGAAAAAGCGCTGCCAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAA-CGCCGCTAAAA-CCCGAGCA
* *
13383184 -T-GTGGCGCTTTCTCAAAAACGCCGCTAAAACTGCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAC-CCGAGCA
*
13383223 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAA-CCCGAGCA
* * *
13383264 TTAGAGGCGGTTTCTCAAAAACACCGCTAAAACCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCGAGCA
* *
13383304 TTAGCGGCACTTTTTCAAAAACGCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
13383334 TGCTCGATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 20 0.16
40 44 0.35
41 61 0.48
42 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCGAGCA
Found at i:13383329 original size:81 final size:79
Alignment explanation
Indices: 13383143--13383333 Score: 240
Period size: 81 Copynumber: 2.4 Consensus size: 79
13383133 TAAAAAACTT
* * * * * *
13383143 TTAGCGGCGTTTTTGAAAAAGCGCTGCCAAAACCCCGAGCATGTGGCGCTTTCTCAAAAACGCCG
1 TTAGCGGCCTTTTTCAAAAA-CGCCGCTAAAACCCCGAGCATGAGGCGCTTTCTCAAAAACACCG
*
13383208 CTAAAACTGCGAGCA
65 CTAAAACTCCGAGCA
* * *
13383223 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAACCCCGAGCATTAGAGGCGGTTTCTCAAAAACAC
1 TTAGCGGC-CTTTTTCAAAAACGCCGCTAAAACCCCGAGCA-T-GAGGCGCTTTCTCAAAAACAC
13383288 CGCTAAAAC-CCGAGCA
63 CGCTAAAACTCCGAGCA
13383304 TTAGCGGCACTTTTTCAAAAACGCCGCTAA
1 TTAGCGGC-CTTTTTCAAAAACGCCGCTAA
13383334 TGCTCGATTT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 26 0.27
81 42 0.44
82 27 0.28
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (79 bp):
TTAGCGGCCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATGAGGCGCTTTCTCAAAAACACCGC
TAAAACTCCGAGCA
Found at i:13384887 original size:118 final size:118
Alignment explanation
Indices: 13384669--13384893 Score: 364
Period size: 118 Copynumber: 1.9 Consensus size: 118
13384659 TATTCTGTAC
13384669 GAATCAAATTCATATATTAATTATATTCTTTCAAAAAGAATATTAATTTCCATGTCTATTATATT
1 GAATCAAATTCATATATTAATTATATTCTTTCAAAAAGAATATTAATTTCCATGTCTATTATATT
* *
13384734 TTGATCAAAATTAATTAATATAATTGTTTAGATTAATAAATTCGGTAAAGTAT
66 TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
* *
13384787 GAATCAAATTCATATATTAATTGTATTATTTTC-AAAAGAATATTAATTTCCATGTCT-TGTATA
1 GAATCAAATTCATATATTAATTATATT-CTTTCAAAAAGAATATTAATTTCCATGTCTAT-TATA
* *
13384850 TTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATT
64 TTTTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATT
13384894 TAGTAAAATA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
117 1 0.01
118 94 0.95
119 4 0.04
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (118 bp):
GAATCAAATTCATATATTAATTATATTCTTTCAAAAAGAATATTAATTTCCATGTCTATTATATT
TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
Found at i:13384937 original size:138 final size:138
Alignment explanation
Indices: 13384783--13385227 Score: 719
Period size: 138 Copynumber: 3.2 Consensus size: 138
13384773 ATTCGGTAAA
* * *
13384783 GTATGAATCAAATTCATATATTAATTGTATTATTTTCAAAAGAATATTAATTTCCATGTCTTGTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
* * * ** *
13384848 TATTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
*
13384913 AATATTTT
131 CATATTTT
* * * * *
13384921 GTATGGATCAAATTCATATATTAATTAAATTCTTTCCAAAATAACATTAATTTCCATGTCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
*
13384986 TATTTTGACCAAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
13385051 CATATTTT
131 CATATTTT
* *
13385059 GTATGAATCAAATTCATATAATAATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
13385124 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
13385189 CATATTTT
131 CATATTTT
*
13385197 GTATGAATCAAATTCATATATTAATTCTATT
1 GTATGAATCAAATTCATATATTAATTATATT
13385228 TATGTTCTTT
Statistics
Matches: 281, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 281 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
CATATTTT
Found at i:13385018 original size:256 final size:260
Alignment explanation
Indices: 13384549--13385222 Score: 926
Period size: 256 Copynumber: 2.5 Consensus size: 260
13384539 TAGGAAAATA
* * * *
13384549 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCAAAATTAGTTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
13384614 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTCTGTACGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * *
13384679 CATATATTAATTATATTCTTTCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGATCAAAA
130 CATATATTAATTAAATTCTTTCAAAAAGAACATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
13384744 TTAATTAATATAATTGTTTAGATTAATAAATTCGG-T-A-A-A-GTATGAATCAAATTCATATAT
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAA
13384804 T
260 T
* * * *
13384805 AATTGTATTATTTTCAAAAGAATATTAATTTCCATGTCTTGTATATTTTGATCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
13384870 TATAACTATTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGGATCAAATT
66 TATAACTGTTTATATTAATAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * *
13384935 CATATATTAATTAAATTCTTTCCAAAATAACATTAATTTCCATGTCTTTTATATTTTGACCAAAA
130 CATATATTAATTAAATTCTTTCAAAAAGAACATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
13385000 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGA
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGG------A--T--AA-T-ATA---TGTATGA
13385065 ATCAAATTCATATAAT
245 ATCAAATTCATATAAT
*
13385081 AATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
13385146 TATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATT-TGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
13385211 CATATATTAATT
130 CATATATTAATT
13385223 CTATTTATGT
Statistics
Matches: 365, Mismatches: 31, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
256 209 0.57
257 1 0.00
265 1 0.00
268 1 0.00
271 1 0.00
272 1 0.00
276 151 0.41
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (260 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTAAATTCTTTCAAAAAGAACATTAATTTCCATGTCTATTATATTTTGACCAAAAT
TAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAAT
Found at i:13385210 original size:71 final size:71
Alignment explanation
Indices: 13384997--13385210 Score: 184
Period size: 71 Copynumber: 3.1 Consensus size: 71
13384987 ATTTTGACCA
13384997 AAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTA
1 AAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTA
13385062 TGAATC
66 TGAATC
* *** * *
13385068 AAATTCA-T-ATAATAA----TTATATT-AT---TTCCAAAAGAATA-TTA-ATTTCCATGCCTT
1 AAATTAATTAAT-ATAATTGTTTATATTAATAAATTCGGTAA-AATATTTACAATT-CAT--ATT
* *
13385121 TTATATTTTG-ACC
61 TTGTA---TGAATC
13385134 GAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGT
1 -AAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGT
13385199 ATGAATC
65 ATGAATC
13385206 AAATT
1 AAATT
13385211 CATATATTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 44
0.64 0.10 0.27
Matches are distributed among these distances:
61 3 0.03
62 11 0.10
63 4 0.04
64 6 0.06
65 2 0.02
66 9 0.09
67 8 0.08
68 5 0.05
69 4 0.04
70 5 0.05
71 13 0.12
72 9 0.09
73 2 0.02
74 6 0.06
75 4 0.04
76 11 0.10
77 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (71 bp):
AAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTA
TGAATC
Found at i:13385216 original size:67 final size:67
Alignment explanation
Indices: 13385002--13385216 Score: 174
Period size: 67 Copynumber: 3.1 Consensus size: 67
13384992 GACCAAAATT
13385002 AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAAT
1 AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAAT
13385067 CA
66 CA
* ** * * * ** *
13385069 AATTCATATAA-TAATTATATTATTTCCAAA---AG-AATATTAATTTCCATGCCTTTTATATTT
1 AATTAATATAATTGTTTATATTA-AT--AAATTCGGTAA-AAT-ATTT--A--CAATTCATATTT
* *
13385129 TG-ACCGAAAT-T
57 TGTA-TG-AATCA
13385140 AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAAT
1 AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAAT
13385205 CA
66 CA
*
13385207 AATTCATATA
1 AATTAATATA
13385217 TTAATTCTAT
Statistics
Matches: 107, Mismatches: 23, Indels: 36
0.64 0.14 0.22
Matches are distributed among these distances:
65 2 0.02
66 15 0.14
67 36 0.34
68 1 0.01
69 8 0.07
70 1 0.01
71 27 0.25
72 15 0.14
73 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (67 bp):
AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGAAT
CA
Found at i:13393141 original size:29 final size:29
Alignment explanation
Indices: 13393107--13393166 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13393097 AATATTTTAT
13393107 ATACTTACTCGGGTTATTATGTTTTGTAG
1 ATACTTACTCGGGTTATTATGTTTTGTAG
13393136 ATACTTACTCGGGTTATTATGTTTTGTAG
1 ATACTTACTCGGGTTATTATGTTTTGTAG
13393165 AT
1 AT
13393167 TTTGGATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (29 bp):
ATACTTACTCGGGTTATTATGTTTTGTAG
Found at i:13403372 original size:45 final size:45
Alignment explanation
Indices: 13403303--13403461 Score: 171
Period size: 45 Copynumber: 3.6 Consensus size: 45
13403293 TACATGGTGG
* * * *
13403303 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGTGAA
* *
13403347 ATCAGCACATAACAACCACCTTTATACTCAATGGTAC-CAGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTC-GGTGAA
* * * * * *
13403392 ATCAGTACATAGCAACCACCTATATAACCATTGGTA-TCCTGCGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACT-CGGTGAA
13403437 ATCAGCACATAGCAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
13403462 TTTCATTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 12 0.12
45 83 0.86
46 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGTGAA
Found at i:13409913 original size:20 final size:20
Alignment explanation
Indices: 13409890--13409960 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
13409880 CGTAACCTGT
13409890 ACAGAGGCACCGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* * * **
13409910 ACAGAGACATCGAAGTGTGA
1 ACAGAGGCACCGTAGTGCAA
* *
13409930 ATAGAGGCACTGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* *
13409950 GCAGATGCACC
1 ACAGAGGCACC
13409961 AAAGTGCAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (20 bp):
ACAGAGGCACCGTAGTGCAA
Found at i:13415238 original size:26 final size:26
Alignment explanation
Indices: 13415182--13415256 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
13415172 TTTCTCACCC
*
13415182 CAATTTTACCCT-AGAAAATTTTTGA
1 CAATTTTACCCTGATAAAATTTTTGA
13415207 CAATTTTACCCTGAATAAAATTTTT-A
1 CAATTTTACCCTG-ATAAAATTTTTGA
* * *
13415233 CGATTTCACCATTGATAAAATTTT
1 CAATTTTACC-CTGATAAAATTTT
13415257 GAGAAAATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 12 0.28
26 19 0.44
27 12 0.28
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (26 bp):
CAATTTTACCCTGATAAAATTTTTGA
Found at i:13418120 original size:25 final size:25
Alignment explanation
Indices: 13418086--13418238 Score: 150
Period size: 25 Copynumber: 6.1 Consensus size: 25
13418076 TCATGTACAT
* * *
13418086 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* *
13418111 GTATGCTCATT-TGAGCTGA-AGATCG
1 GTATGCTC-TTACGAGCT-ATAAATCG
* *
13418136 GTATGCTCTCACGAGCTATAAA-CTA
1 GTATGCTCTTACGAGCTATAAATC-G
13418161 GTATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* *
13418186 GTATGCTCTTACGATCTTTAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * *
13418211 TTATGCTCTTACGAGTTATAAATTG
1 GTATGCTCTTACGAGCTATAAATCG
13418236 GTA
1 GTA
13418239 ACCCTAATGA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
24 3 0.03
25 98 0.95
26 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:13418216 original size:75 final size:75
Alignment explanation
Indices: 13418086--13418232 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
13418076 TCATGTACAT
* * *
13418086 GTATGCTCATACGAGCTGTGAATCGGTATGCTCATTTGAGCTGAAGATCGGTATGCTCTCACGAG
1 GTATGCTCATACGAGCTATAAATCGGTATGCTCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
13418151 CTATAAACTA
66 CTATAAACTA
* * * * *
13418161 GTATGCTCTTACGAGCTATAAATCGGTATGCTC-TTACGATCTTTAA-ATCGTTATGCTCTTACG
1 GTATGCTCATACGAGCTATAAATCGGTATGCTCATT-CGAGC-TGAAGATCGGTATGCTCTCACG
*
13418224 AGTTATAAA
64 AGCTATAAA
13418233 TTGGTAACCC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
74 2 0.03
75 56 0.92
76 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (75 bp):
GTATGCTCATACGAGCTATAAATCGGTATGCTCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
CTATAAACTA
Found at i:13426587 original size:12 final size:12
Alignment explanation
Indices: 13426572--13426614 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
13426562 TTCACTCGTT
* *
13426572 TCTTTTACAAAC
1 TCTTTTTCAATC
*
13426584 TCTTTTTCAATT
1 TCTTTTTCAATC
13426596 TCTTTTTCAATC
1 TCTTTTTCAATC
13426608 TCTTTTT
1 TCTTTTT
13426615 GCTTTTCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTTTCAATC
Found at i:13426699 original size:12 final size:12
Alignment explanation
Indices: 13426657--13426698 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13426647 TTTTCATCTT
13426657 TTTCTTTTTC-A
1 TTTCTTTTTCAA
13426668 TTTC--TTTCAA
1 TTTCTTTTTCAA
13426678 TTTCTTTTTCAA
1 TTTCTTTTTCAA
13426690 TGTTCTTTT
1 T-TTCTTTT
13426699 CTCACTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:13427737 original size:13 final size:13
Alignment explanation
Indices: 13427719--13427763 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
13427709 GAACTCCCAC
13427719 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
13427732 -TTTTTTTTTGAA
1 TTTTTTTTTTGAA
13427744 TTTTTTTTCTTG-A
1 TTTTTTTT-TTGAA
13427757 TTTTTTT
1 TTTTTTT
13427764 AATGTTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.40
13 15 0.50
14 3 0.10
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:13427763 original size:12 final size:12
Alignment explanation
Indices: 13427720--13427751 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13427710 AACTCCCACT
13427720 TTTTTTTTTGAA
1 TTTTTTTTTGAA
13427732 TTTTTTTTTGAA
1 TTTTTTTTTGAA
13427744 TTTTTTTT
1 TTTTTTTT
13427752 CTTGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:13434273 original size:51 final size:51
Alignment explanation
Indices: 13434195--13434373 Score: 238
Period size: 52 Copynumber: 3.5 Consensus size: 51
13434185 ACGGATACCT
* *
13434195 AGTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTACCTTCTTCACAA
* * * * *
13434246 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGTTATCTTTCTTCAGAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTA-CCTTCTTCACAA
* *
13434298 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTCTTCACAA
13434347 AGTGGCCTTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
13434374 AGTCACTAGT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
49 34 0.30
51 37 0.33
52 41 0.37
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTCTTCACAA
Found at i:13434361 original size:49 final size:50
Alignment explanation
Indices: 13434195--13434373 Score: 229
Period size: 51 Copynumber: 3.5 Consensus size: 50
13434185 ACGGATACCT
* * * *
13434195 AGTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTATC-TCTTCTCAA
* * *
13434246 AGTGGCCTTCACATGGTACCACACTTGTGACCAAAGTTATCT-TTCTTCAGAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTCTTC-TC--AA
13434298 AGTGGCCTTCACATAGTACCACACTTGTGATC-AAGCTATCTCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTCTTCTCAA
13434347 AGTGGCCTTCACATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
13434374 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 43 0.38
52 36 0.32
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTCTTCTCAA
Found at i:13438483 original size:26 final size:26
Alignment explanation
Indices: 13438454--13438515 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
13438444 TACCTACAGT
13438454 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* * *
13438480 AGTTTCAGAATATCATAGCATGTATT
1 AGTTTCAGAATATCATAACATATATC
13438506 AGTTTCAGAA
1 AGTTTCAGAA
13438516 CATTTATAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:13440285 original size:16 final size:16
Alignment explanation
Indices: 13440264--13440296 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13440254 CATTCTGATG
*
13440264 AAACTAGAGTCAATAA
1 AAACTAGACTCAATAA
13440280 AAACTAGACTCAATAA
1 AAACTAGACTCAATAA
13440296 A
1 A
13440297 CCATTCTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.15, G:0.09, T:0.18
Consensus pattern (16 bp):
AAACTAGACTCAATAA
Found at i:13443573 original size:13 final size:13
Alignment explanation
Indices: 13443555--13443585 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13443545 ACCCACATAC
*
13443555 ATAAAATAATAAA
1 ATAAAATAAAAAA
13443568 ATAAAATAAAAAA
1 ATAAAATAAAAAA
13443581 ATAAA
1 ATAAA
13443586 TCTCCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:13444870 original size:25 final size:26
Alignment explanation
Indices: 13444832--13444885 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
13444822 TTATTTATAC
13444832 ATTTGTTTTAAAATCTATTATGTATT
1 ATTTGTTTTAAAATCTATTATGTATT
* *
13444858 ATTT-TTTTGAAATTTATTATGTATT
1 ATTTGTTTTAAAATCTATTATGTATT
13444883 ATT
1 ATT
13444886 CACTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (26 bp):
ATTTGTTTTAAAATCTATTATGTATT
Found at i:13444975 original size:16 final size:16
Alignment explanation
Indices: 13444956--13444987 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13444946 TCATATATAC
*
13444956 ATTCTTTAATATTTTT
1 ATTCTATAATATTTTT
13444972 ATTCTATAATATTTTT
1 ATTCTATAATATTTTT
13444988 CTTTAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTCTATAATATTTTT
Found at i:13451445 original size:55 final size:55
Alignment explanation
Indices: 13451361--13451469 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
13451351 TCGACTAGCT
*
13451361 TGAGAAAAGGATGAATATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
1 TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
* * *
13451416 TGAGAAAATGATGAAAATGCTTAGATTTCAATTTATGAGTTTCATGATTAAATT
1 TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATT
13451470 TTGAAAGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.38
Consensus pattern (55 bp):
TGAGAAAAGGATGAAAATGCTTAGATTTCAATTTATGAGTTTAAGGATTAAATTG
Found at i:13451784 original size:14 final size:14
Alignment explanation
Indices: 13451765--13451794 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13451755 GCTATGACGA
13451765 TTAATGAGTCCCGG
1 TTAATGAGTCCCGG
*
13451779 TTAATGAGTCCTGG
1 TTAATGAGTCCCGG
13451793 TT
1 TT
13451795 GCATTTGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (14 bp):
TTAATGAGTCCCGG
Found at i:13456390 original size:21 final size:21
Alignment explanation
Indices: 13456366--13456410 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
13456356 ATTAGACTAA
13456366 GATCTCATCTAATGAGTAGAT
1 GATCTCATCTAATGAGTAGAT
13456387 GATCTCATCTAATGAGTAGAT
1 GATCTCATCTAATGAGTAGAT
13456408 GAT
1 GAT
13456411 TCTTCCGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
GATCTCATCTAATGAGTAGAT
Found at i:13457512 original size:54 final size:54
Alignment explanation
Indices: 13457454--13457566 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
13457444 TGTCCCAACT
* * *
13457454 CGTGTCTTAAACCGTGTAACACACTGACTTAGAT-CACACGACCATGTCGTAGGC
1 CGTGTCTCAAACCGTGTAACACACTGACTT-GATACACACAACCATGTCGTAGAC
* ** * * *
13457508 CGTGTGTCAAGTCGTGTAACTCTCTGACTTGATACACACAACCGTGTCGTAGAC
1 CGTGTCTCAAACCGTGTAACACACTGACTTGATACACACAACCATGTCGTAGAC
13457562 CGTGT
1 CGTGT
13457567 GACTCACTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (54 bp):
CGTGTCTCAAACCGTGTAACACACTGACTTGATACACACAACCATGTCGTAGAC
Found at i:13457606 original size:42 final size:42
Alignment explanation
Indices: 13457520--13457608 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
13457510 TGTGTCAAGT
* * ** *
13457520 CGTGTAACTCTCTGACTTGATACACACAACCGTGTCGTAGAC
1 CGTGTAACTCACTAACTTGATACACACAACCGTGTCACAAAC
* *
13457562 CGTGTGACTCACTAACTTGATACACACGACCGTGTCACAAAC
1 CGTGTAACTCACTAACTTGATACACACAACCGTGTCACAAAC
13457604 CGTGT
1 CGTGT
13457609 CTCAGACGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
CGTGTAACTCACTAACTTGATACACACAACCGTGTCACAAAC
Found at i:13464651 original size:20 final size:20
Alignment explanation
Indices: 13464626--13464674 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
13464616 GAACCACTCA
*
13464626 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTTCCATTCC
13464646 ATTTACTTACTTTCCATTCC
1 ATTTACTTACTTTCCATTCC
13464666 ATTTACTTA
1 ATTTACTTA
13464675 GTATAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTTCCATTCC
Found at i:13466413 original size:5 final size:5
Alignment explanation
Indices: 13466403--13466435 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
13466393 AAGCTGTTGC
13466403 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTA
13466436 TCAAACTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:13466549 original size:23 final size:22
Alignment explanation
Indices: 13466523--13466565 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
13466513 AAATGGTTTA
13466523 TTTA-CCATTTAAGTCCATTTACC
1 TTTATCCA-TTAAG-CCATTTACC
*
13466546 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
13466566 ATCACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACC
Done.