Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 48 of 195
Found at i:10056665 original size:51 final size:50
Alignment explanation
Indices: 10056055--10056684 Score: 298
Period size: 49 Copynumber: 12.8 Consensus size: 50
10056045 AATGATGAGA
* * * *
10056055 TTTT-AAGTTGTTGAACCTCTGCTGAGAGGAGCCCTTTTTTCAATG-TGAGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAAATGAG--CTTTTTTCAA-GATAAAAT
* * * * ** *
10056106 TTCTAAAGTCGTTGAACCTCTACT-AAGAGGAGCCCTTTTCTAA-A-AAAAA
1 TTTTAAAGTTGTTGAACCTCTGCTGAA-ATGAGCTTTTTTC-AAGATAAAAT
* * * * *
10056155 TTTTAAAGTTGTTGAGCCTTTACTGAAAGGAGC--TTTTCAAGAT-GAA-
1 TTTTAAAGTTGTTGAACCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
* * * * *
10056201 TTTTAAAGTTGTTGAGCCTCTAC-GAAGTGGAGCCTTTTTCAAGAT--GAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAAAT-GAGCTTTTTTCAAGATAAAAT
* * * ** *
10056249 TTTTAAAGTTGTTGAGCCTCTGTTGAAA-GAAACCCTTTTCAAGATTCAAGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAAATG-AGCTTTTTTCAAGA-T-AAAAT
* * *
10056301 GGATTTTAAAGTTGTT-AAGCCTCTGTTGAGAA-GAGC-TTTTTC-AGATGAGAT
1 ---TTTTAAAGTTGTTGAA-CCTCTGCTGA-AATGAGCTTTTTTCAAGATAAAAT
* * * * ** * *
10056352 TTTTAAAATTGTT-AAGCTTATGCTGAGATGAGCCATTTTCAAGATTAGA-
1 TTTTAAAGTTGTTGAA-CCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
* * * * *
10056401 TTTTAAAGTCGTTGAGCCTCTACTGAGATGAGCATTTTTCAAG-----A-
1 TTTTAAAGTTGTTGAACCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
* * * *
10056445 TTTTAAAGTTG-TGAAGCCTTTGCTGATATGAGC-TTTTTCAA-ATGAGAT
1 TTTTAAAGTTGTTGAA-CCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
* * * *
10056493 TTTTAAAGTTGTTGAACCTCTACTGAGATGAGCTTTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
* * *
10056543 TTTTAAAGTTGTTGAGCCTCTGCT-AAGAGGAG-TTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAA-ATGAGCTTTTTTCAAGAT-AAAAT
* * * *
10056593 TTTTAAAAATTGTT-AAGCCTCTGTTGAAATGAGTTTTTTTTTAAGATAAAAT
1 TTTT-AAAGTTGTTGAA-CCTCTGCTGAAATGAG-CTTTTTTCAAGATAAAAT
*
10056645 TTTTAAAGTTTTTGAACCTCTGCTGAGAA-GAGTCTTTTTT
1 TTTTAAAGTTGTTGAACCTCTGCTGA-AATGAG-CTTTTTT
10056685 AAATTTTAAA
Statistics
Matches: 467, Mismatches: 67, Indels: 90
0.75 0.11 0.14
Matches are distributed among these distances:
43 11 0.02
44 25 0.05
45 3 0.01
46 28 0.06
47 12 0.03
48 94 0.20
49 95 0.20
50 56 0.12
51 55 0.12
52 40 0.09
53 14 0.03
54 6 0.01
55 25 0.05
56 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAACCTCTGCTGAAATGAGCTTTTTTCAAGATAAAAT
Found at i:10056698 original size:51 final size:51
Alignment explanation
Indices: 10056445--10056687 Score: 207
Period size: 51 Copynumber: 4.8 Consensus size: 51
10056435 TTTTTCAAGA
* * * * *
10056445 TTTTAAAGTTG-TGAAGCCTTTGCTGATATGAG-C-TTTTTCAA-ATGAGAT
1 TTTTAAAGTTGTTGAA-CCTCTGCTGAGAAGAGTCTTTTTTAAAGATGAAAT
* * * *
10056493 TTTTAAAGTTGTTGAACCTCTACTGAGATGAG-CTTTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGTCTTTTTTAAAGATGAAAT
* * * *
10056543 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG--TTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGTCTTTTTTAAAGATGA-AAT
* * * * *
10056593 TTTTAAAAATTGTT-AAGCCTCTGTTGA-AATGAGTTTTTTTTTAAGATAAAAT
1 TTTT-AAAGTTGTTGAA-CCTCTGCTGAGAA-GAGTCTTTTTTAAAGATGAAAT
*
10056645 TTTTAAAGTTTTTGAACCTCTGCTGAGAAGAGTCTTTTTTAAA
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGTCTTTTTTAAA
10056688 TTTTAAATTT
Statistics
Matches: 164, Mismatches: 20, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
48 25 0.15
49 26 0.16
50 43 0.26
51 47 0.29
52 11 0.07
53 12 0.07
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (51 bp):
TTTTAAAGTTGTTGAACCTCTGCTGAGAAGAGTCTTTTTTAAAGATGAAAT
Found at i:10056866 original size:20 final size:20
Alignment explanation
Indices: 10056840--10056885 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10056830 AATTTGTCCA
*
10056840 GAAATACAAAATATGAAATAT
1 GAAATACAAAATA-CAAATAT
10056861 -AAATACAAAATACAAATAT
1 GAAATACAAAATACAAATAT
10056880 GAAATA
1 GAAATA
10056886 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (20 bp):
GAAATACAAAATACAAATAT
Found at i:10056916 original size:21 final size:21
Alignment explanation
Indices: 10056887--10056937 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10056877 TATGAAATAA
* *
10056887 AATAAAAAATATACCAAAAA-T
1 AATACAAAATATA-AAAAAATT
10056908 AATACAAAATATAAAAAAATT
1 AATACAAAATATAAAAAAATT
*
10056929 AAAACAAAA
1 AATACAAAA
10056938 AAAAAACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
AATACAAAATATAAAAAAATT
Found at i:10060829 original size:13 final size:13
Alignment explanation
Indices: 10060811--10060836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10060801 AAAAAATCTT
10060811 TGATAGCATCTAA
1 TGATAGCATCTAA
10060824 TGATAGCATCTAA
1 TGATAGCATCTAA
10060837 AGAGATTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGATAGCATCTAA
Found at i:10071965 original size:22 final size:22
Alignment explanation
Indices: 10071925--10071968 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10071915 TGTATATTTA
** *
10071925 TATTTGTATCTGTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
10071947 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
10071969 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:10072210 original size:67 final size:67
Alignment explanation
Indices: 10072092--10072226 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
10072082 CTTTATGAGT
10072092 AGTTGTTCAATATACATTCAATTTTACTCTTAGTTTTTCACACAGTGTTATTTCTTAGTTTTTCC
1 AGTTGTTCAATATACATTCAATTTTACTCTTAGTTTTTCACACAGTGTTATTTCTTAGTTTTTCC
10072157 AC
66 AC
* * * *
10072159 AGTTTTTCAATATACATTTAGTTTTACTCTTAGTTTTTCACACAGTTTTATTTCTTAGTTTTTCC
1 AGTTGTTCAATATACATTCAATTTTACTCTTAGTTTTTCACACAGTGTTATTTCTTAGTTTTTCC
10072224 AC
66 AC
10072226 A
1 A
10072227 CTAATGATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51
Consensus pattern (67 bp):
AGTTGTTCAATATACATTCAATTTTACTCTTAGTTTTTCACACAGTGTTATTTCTTAGTTTTTCC
AC
Found at i:10072217 original size:25 final size:25
Alignment explanation
Indices: 10072178--10072227 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
10072168 ATATACATTT
10072178 AGTTTTACTCTTAGTTTTT-CACAC
1 AGTTTTACTCTTAGTTTTTCCACAC
*
10072202 AGTTTTATTTCTTAGTTTTTCCACAC
1 AGTTTTA-CTCTTAGTTTTTCCACAC
10072228 TAATGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 11 0.48
26 5 0.22
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (25 bp):
AGTTTTACTCTTAGTTTTTCCACAC
Found at i:10072236 original size:25 final size:25
Alignment explanation
Indices: 10072186--10072236 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
10072176 TTAGTTTTAC
* * *
10072186 TCTTAGTTTTTCACACAGTTTTATT
1 TCTTAGTTTTTCACACACTATGATT
10072211 TCTTAGTTTTTC-CACACTAATGATT
1 TCTTAGTTTTTCACACACT-ATGATT
10072236 T
1 T
10072237 AAACCACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.53
Consensus pattern (25 bp):
TCTTAGTTTTTCACACACTATGATT
Found at i:10077112 original size:21 final size:23
Alignment explanation
Indices: 10077079--10077129 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
10077069 ACCCAAAAAG
10077079 AAAAAAATCAGAATT-AATGTGC
1 AAAAAAATCAGAATTAAATGTGC
* *
10077101 AAAAATAT-AGAATTCAAATGTGT
1 AAAAAAATCAGAATT-AAATGTGC
10077124 AAAAAA
1 AAAAAA
10077130 TGTGTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (23 bp):
AAAAAAATCAGAATTAAATGTGC
Found at i:10080446 original size:12 final size:12
Alignment explanation
Indices: 10080429--10080453 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10080419 AGAGATTGTG
10080429 CCCATTTCGATA
1 CCCATTTCGATA
10080441 CCCATTTCGATA
1 CCCATTTCGATA
10080453 C
1 C
10080454 TAACTATATC
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:0.08, T:0.32
Consensus pattern (12 bp):
CCCATTTCGATA
Found at i:10080996 original size:20 final size:20
Alignment explanation
Indices: 10080971--10081022 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
10080961 TCAGGGTTAT
*
10080971 AAAATTTTT-TTATTTCTAAA
1 AAAATTTTTGTGATTT-TAAA
*
10080991 AAAATTTGTTGTGGTTTTAAA
1 AAAATTT-TTGTGATTTTAAA
10081012 AAAATTTTTGT
1 AAAATTTTTGT
10081023 TTATTGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.39
21 13 0.46
22 4 0.14
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (20 bp):
AAAATTTTTGTGATTTTAAA
Found at i:10081812 original size:41 final size:41
Alignment explanation
Indices: 10081765--10081865 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
10081755 ATTTTTTTAT
**
10081765 AAAAATATGGTTTTTGTTTCAAAGATTATGTTTTAAAAGTA
1 AAAAATATGGTTTTTGTTTCAAAGATTACATTTTAAAAGTA
10081806 AAAAATATGGTTTTTGTTTCAAAGATTACATTTTAAAAGTA
1 AAAAATATGGTTTTTGTTTCAAAGATTACATTTTAAAAGTA
* *
10081847 AAAAATATAGTCTTTGTTT
1 AAAAATATGGTTTTTGTTT
10081866 AATTTTCAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.44
Consensus pattern (41 bp):
AAAAATATGGTTTTTGTTTCAAAGATTACATTTTAAAAGTA
Found at i:10083068 original size:29 final size:29
Alignment explanation
Indices: 10083026--10083085 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
10083016 ACCGTATAGA
10083026 CATTCTCAGTCCTCCCCACCCTTTTCATG
1 CATTCTCAGTCCTCCCCACCCTTTTCATG
*
10083055 CATTCTCAGTCCTCCCCACCTTTTTCATG
1 CATTCTCAGTCCTCCCCACCCTTTTCATG
10083084 CA
1 CA
10083086 AACTGGAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.15, C:0.43, G:0.07, T:0.35
Consensus pattern (29 bp):
CATTCTCAGTCCTCCCCACCCTTTTCATG
Found at i:10090828 original size:13 final size:13
Alignment explanation
Indices: 10090810--10090836 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10090800 TTTCCTATGG
10090810 TTTCTTTTTGTGT
1 TTTCTTTTTGTGT
10090823 TTTCTTTTTGTGT
1 TTTCTTTTTGTGT
10090836 T
1 T
10090837 CTAGTTGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (13 bp):
TTTCTTTTTGTGT
Found at i:10093394 original size:154 final size:155
Alignment explanation
Indices: 10092995--10093459 Score: 896
Period size: 155 Copynumber: 3.0 Consensus size: 155
10092985 CCCGGGTCTT
10092995 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
1 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
10093060 AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
66 AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
10093125 GGGGAGAATGTCACGAATCTAAGGA
131 GGGGAGAATGTCACGAATCTAAGGA
10093150 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
1 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
* *
10093215 AAGCGCCTCGAGGGAGGTAGATAGGGTGGCCAACCTCCTTGACGAGGGTGTCACGAGGTTGGGTG
66 AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
10093280 GGGGAGAATGTCACGAA-CTAAGGA
131 GGGGAGAATGTCACGAATCTAAGGA
*
10093304 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGTCAGCCTTAAATCGTTCGATCCACACC
1 GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
10093369 AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
66 AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
10093434 GGGGAGAATGTCACGAATCTAAGGA
131 GGGGAGAATGTCACGAATCTAAGGA
10093459 G
1 G
10093460 GAGTCCTGAA
Statistics
Matches: 304, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
154 151 0.50
155 153 0.50
ACGTcount: A:0.25, C:0.23, G:0.34, T:0.19
Consensus pattern (155 bp):
GAAGCTTGAGTCTCGACCCGTGACAAGTGGTATCAGAGCCAGCCTTAAATCGTTCGATCCACACC
AAGCGCCTCGAGGGAGGTAGGTAGGGTGGCCAACCTCCTTGACGAGGGCGTCACGAGGTTGGGTG
GGGGAGAATGTCACGAATCTAAGGA
Found at i:10095612 original size:14 final size:14
Alignment explanation
Indices: 10095593--10095620 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10095583 TGGATCCACA
10095593 CGAGTCTGGAGCTT
1 CGAGTCTGGAGCTT
10095607 CGAGTCTGGAGCTT
1 CGAGTCTGGAGCTT
10095621 AAGTCTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.36, T:0.29
Consensus pattern (14 bp):
CGAGTCTGGAGCTT
Found at i:10098561 original size:17 final size:17
Alignment explanation
Indices: 10098539--10098582 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
10098529 TTCTCAAAAA
10098539 TAAATATTCT-TAAATTT
1 TAAATATT-TATAAATTT
*
10098556 TAAATATTTAATGAATTT
1 TAAATATTT-ATAAATTT
10098574 TAAATATTT
1 TAAATATTT
10098583 GATGTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 15 0.62
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TAAATATTTATAAATTT
Found at i:10105697 original size:9 final size:9
Alignment explanation
Indices: 10105683--10105716 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
10105673 TTGCTTCTGT
10105683 ATTATTGTG
1 ATTATTGTG
10105692 ATTATTGTG
1 ATTATTGTG
10105701 ATTATTGTG
1 ATTATTGTG
10105710 ATTATTG
1 ATTATTG
10105717 CTTCAGGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (9 bp):
ATTATTGTG
Found at i:10108658 original size:16 final size:16
Alignment explanation
Indices: 10108637--10108667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10108627 TTTGAAAAAT
10108637 AATTATTTATAAATAA
1 AATTATTTATAAATAA
*
10108653 AATTATTTATCAATA
1 AATTATTTATAAATA
10108668 TGTTTGAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATTTATAAATAA
Found at i:10108850 original size:23 final size:25
Alignment explanation
Indices: 10108797--10108852 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
10108787 AAATAATTAA
*
10108797 AATA-TTTAATATTAAATGTCTTTT
1 AATATTTTAATATTAAATATCTTTT
10108821 AATATTTTAAT-TTAAATAT-TTTT
1 AATATTTTAATATTAAATATCTTTT
10108844 -ATAATTTTA
1 AAT-ATTTTA
10108853 CTCAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.07
23 10 0.34
24 11 0.38
25 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
AATATTTTAATATTAAATATCTTTT
Found at i:10109468 original size:19 final size:17
Alignment explanation
Indices: 10109454--10109498 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
10109444 TTAATATCAA
10109454 AATTATTATTAAATA-C
1 AATTATTATTAAATATC
*
10109470 AATTATTATTAAATATT
1 AATTATTATTAAATATC
*
10109487 AATAATT-TTAAA
1 AATTATTATTAAA
10109499 ATACTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTATTATTAAATATC
Found at i:10109475 original size:16 final size:16
Alignment explanation
Indices: 10109454--10109484 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10109444 TTAATATCAA
10109454 AATTATTATTAAATAC
1 AATTATTATTAAATAC
10109470 AATTATTATTAAATA
1 AATTATTATTAAATA
10109485 TTAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATTATTAAATAC
Found at i:10109530 original size:24 final size:25
Alignment explanation
Indices: 10109487--10109533 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10109477 ATTAAATATT
10109487 AATAATTTTAAAATACTTTAATAAA
1 AATAATTTTAAAATACTTTAATAAA
* *
10109512 AATAATTTT-TAATATTTTAATA
1 AATAATTTTAAAATACTTTAATA
10109534 CTTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATTTTAAAATACTTTAATAAA
Found at i:10118176 original size:6 final size:6
Alignment explanation
Indices: 10118091--10118163 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
10118081 ATATGTATGT
* * *
10118091 AAATAAA AAATAA ACAATGAA AAATAA AACTAA AAAGAA GAAA-AC AAAT-A
1 AAAT-AA AAATAA A-AAT-AA AAATAA AAATAA AAATAA -AAATAA AAATAA
*
10118141 AAATGA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATA
10118164 CCAAAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
5 7 0.13
6 32 0.58
7 13 0.24
8 3 0.05
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:10119010 original size:22 final size:21
Alignment explanation
Indices: 10118973--10119014 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10118963 ATTTTCTAGA
10118973 TTTTTTAAAATATTAAATTTAC
1 TTTTTTAAAATATT-AATTTAC
* *
10118995 TTTTTTAATATTTTAATTTA
1 TTTTTTAAAATATTAATTTA
10119015 AAAAAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAAAATATTAATTTAC
Found at i:10119341 original size:2 final size:2
Alignment explanation
Indices: 10119329--10119358 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10119319 TCACTAAATA
10119329 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10119359 AATTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10119632 original size:21 final size:22
Alignment explanation
Indices: 10119606--10119682 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 22
10119596 AAATATTGAA
* *
10119606 ATTTTAAAAAAGTAAAATTA-G
1 ATTTTAAAAAATTAAAAATATG
*
10119627 ATTTTATAAAATTCAAAAATATG
1 ATTTTAAAAAATT-AAAAATATG
* *
10119650 ATTTTAAAGAATT-AAAACAT-
1 ATTTTAAAAAATTAAAAATATG
10119670 -TTTTAAAAAATTA
1 ATTTTAAAAAATTA
10119683 TATTTAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
19 11 0.24
21 17 0.37
22 6 0.13
23 12 0.26
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTTAAAAAATTAAAAATATG
Found at i:10121238 original size:20 final size:19
Alignment explanation
Indices: 10121213--10121266 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 19
10121203 TTTTGCATGA
10121213 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAATATTAT
10121233 ATTTGCATGATTAATATTAT
1 ATTTGCATGA-TAATATTAT
10121253 ATTTGCATGATAAT
1 ATTTGCATGATAAT
10121267 TTGTTTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (19 bp):
ATTTGCATGATAATATTAT
Found at i:10121289 original size:16 final size:16
Alignment explanation
Indices: 10121243--10121290 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
10121233 ATTTGCATGA
*
10121243 TTAATATTATATTTGC
1 TTAATATTTTATTTGC
* * * *
10121259 ATGATAATTTGTTTGC
1 TTAATATTTTATTTGC
10121275 TTAATATTTTATTTGC
1 TTAATATTTTATTTGC
10121291 ATGATTAGTA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.56
Consensus pattern (16 bp):
TTAATATTTTATTTGC
Found at i:10121377 original size:32 final size:32
Alignment explanation
Indices: 10121341--10121406 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
10121331 GACTATTAAT
*
10121341 ATGTTTATTTTCATGT-TTATATATTTAATTGC
1 ATGTTTATTTGCAT-TATTATATATTTAATTGC
10121373 ATGTTTATTTGCATTATTATATATTTAATTGC
1 ATGTTTATTTGCATTATTATATATTTAATTGC
10121405 AT
1 AT
10121407 ATTTTGCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (32 bp):
ATGTTTATTTGCATTATTATATATTTAATTGC
Found at i:10121453 original size:31 final size:31
Alignment explanation
Indices: 10121410--10121473 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
10121400 ATTGCATATT
*
10121410 TTGCATGCTTTATATATTATTATTTACATGA
1 TTGCATGATTTATATATTATTATTTACATGA
* *
10121441 TTGCATGATTTATGTATTATTATTTGCATGA
1 TTGCATGATTTATATATTATTATTTACATGA
10121472 TT
1 TT
10121474 ATATATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTACATGA
Found at i:10121489 original size:20 final size:23
Alignment explanation
Indices: 10121440--10121493 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
10121430 TATTTACATG
*
10121440 ATTGCATGATTTATGTATTATTA
1 ATTGCATGATTTATATATTATTA
*
10121463 TTTGCATGA-TTATATA-T-TTA
1 ATTGCATGATTTATATATTATTA
10121483 ATTGCAT-ATTT
1 ATTGCATGATTT
10121494 TGTGTGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 1 0.04
22 6 0.22
23 8 0.30
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.54
Consensus pattern (23 bp):
ATTGCATGATTTATATATTATTA
Found at i:10121514 original size:55 final size:54
Alignment explanation
Indices: 10121449--10121649 Score: 223
Period size: 55 Copynumber: 3.8 Consensus size: 54
10121439 GATTGCATGA
* *
10121449 TTTATGTATTATTATTTGCATGATTATATATTTAATTGCATATTT-TGT-GTGG
1 TTTATATATTATTATTTGCATGATTATATATTTAATTGCATATTTATGTAATGG
* *
10121501 TTTATATATTATTATTTGCATGATTATATATTTAATTGTATATTTATTTACATGG
1 TTTATATATTATTATTTGCATGATTATATATTTAATTGCATATTTATGTA-ATGG
* * * * *
10121556 TTTATATATTTTTATTTGCATGATTATATATTTAATTACATGTTTATTTGCAT-G
1 TTTATATATTATTATTTGCATGATTATATATTTAATTGCATATTTATGT-AATGG
* * * *
10121610 ATT-TAGATTGTTAATTGCATTG-TTATATATTTAATTGCAT
1 TTTATATATTATTATTTGCA-TGATTATATATTTAATTGCAT
10121650 GATTATTAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 43 0.33
53 32 0.25
54 5 0.04
55 50 0.38
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.56
Consensus pattern (54 bp):
TTTATATATTATTATTTGCATGATTATATATTTAATTGCATATTTATGTAATGG
Found at i:10121548 original size:32 final size:30
Alignment explanation
Indices: 10121507--10121612 Score: 91
Period size: 32 Copynumber: 3.6 Consensus size: 30
10121497 GTGGTTTATA
10121507 TATTATTATTTGCATGATTATATATTTAATT
1 TATT-TTATTTGCATGATTATATATTTAATT
* *
10121538 GTATATTTATTTACATGGTT-TATA--T-A--
1 -TAT-TTTATTTGCATGATTATATATTTAATT
10121564 T-TTTTATTTGCATGATTATATATTTAATT
1 TATTTTATTTGCATGATTATATATTTAATT
*
10121593 ACATGTTTATTTGCATGATT
1 -TAT-TTTATTTGCATGATT
10121613 TAGATTGTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
23 13 0.22
24 5 0.08
25 1 0.02
26 1 0.02
27 1 0.02
28 1 0.02
29 1 0.02
31 5 0.08
32 30 0.51
33 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (30 bp):
TATTTTATTTGCATGATTATATATTTAATT
Found at i:10121562 original size:83 final size:83
Alignment explanation
Indices: 10121319--10121566 Score: 279
Period size: 83 Copynumber: 2.9 Consensus size: 83
10121309 TAATTTATTA
* * *
10121319 ATATATTTGCATGACTATTA-ATATGT-TTATTTTCATGTTTATATATTTAATTGCATGTTTATT
1 ATAT-TTTGCATG-CT-TTATATAT-TATTATTTACATGATTATATATTTAATTGTAT-TTTATT
*
10121382 TGCATTATTATATATTTAATTGC
61 TGCATGATTATATATTTAATTGC
**
10121405 ATATTTTGCATGCTTTATATATTATTATTTACATGATTGCATGATTT-A-TGTATTATTATTTGC
1 ATATTTTGCATGCTTTATATATTATTATTTACATGATTATAT-ATTTAATTGTATT-TTATTTGC
10121468 ATGATTATATATTTAATTGC
64 ATGATTATATATTTAATTGC
** * * *
10121488 ATATTTTGTGTGGTTTATATATTATTATTTGCATGATTATATATTTAATTGTATATTTATTTACA
1 ATATTTTGCATGCTTTATATATTATTATTTACATGATTATATATTTAATTGTAT-TTTATTTGCA
*
10121553 TGGTTTATATATTT
65 T-GATTATATATTT
10121567 TTATTTGCAT
Statistics
Matches: 140, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
82 5 0.04
83 72 0.51
84 35 0.25
85 24 0.17
86 4 0.03
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (83 bp):
ATATTTTGCATGCTTTATATATTATTATTTACATGATTATATATTTAATTGTATTTTATTTGCAT
GATTATATATTTAATTGC
Found at i:10121585 original size:22 final size:23
Alignment explanation
Indices: 10121543--10121588 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
10121533 TAATTGTATA
*
10121543 TTTATTTACATGGTTTATATATT
1 TTTATTTACATGGATTATATATT
*
10121566 TTTATTTGCAT-GATTATATATT
1 TTTATTTACATGGATTATATATT
10121588 T
1 T
10121589 AATTACATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTATTTACATGGATTATATATT
Found at i:10121597 original size:20 final size:20
Alignment explanation
Indices: 10121539--10121602 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
10121529 TATTTAATTG
10121539 TATATTTATTTACATGGTTTA
1 TATATTTATTTACAT-GTTTA
* *
10121560 TATATTTTTATTTGCATGATTA
1 TATA--TTTATTTACATGTTTA
*
10121582 TATATTTAATTACATGTTTA
1 TATATTTATTTACATGTTTA
10121602 T
1 T
10121603 TTGCATGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.39
21 4 0.11
22 8 0.22
23 10 0.28
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.58
Consensus pattern (20 bp):
TATATTTATTTACATGTTTA
Found at i:10121655 original size:20 final size:20
Alignment explanation
Indices: 10121502--10121655 Score: 61
Period size: 20 Copynumber: 8.2 Consensus size: 20
10121492 TTTGTGTGGT
*
10121502 TTATATATTATTATTTGCATGA
1 TTATATA-T-TTAATTGCATGA
10121524 TTATATATTTAATTG--T-A
1 TTATATATTTAATTGCATGA
* ** *
10121541 -TATTTATTTACA-TGGTTTA
1 TTATATATTTA-ATTGCATGA
* *
10121560 -TATATTTTTATTTGCATGA
1 TTATATATTTAATTGCATGA
*
10121579 TTATATATTTAATTACATG-
1 TTATATATTTAATTGCATGA
10121598 -T-T-TA--T--TTGCATGA
1 TTATATATTTAATTGCATGA
*
10121611 TT-TAGATTGTTAATTGCATTG-
1 TTATATA-T-TTAATTGCA-TGA
10121632 TTATATATTTAATTGCATGA
1 TTATATATTTAATTGCATGA
10121652 TTAT
1 TTAT
10121656 TAATTTGTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
12 6 0.06
14 3 0.03
15 1 0.01
16 13 0.13
17 3 0.03
18 3 0.03
19 16 0.16
20 34 0.34
21 9 0.09
22 12 0.12
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
TTATATATTTAATTGCATGA
Found at i:10121699 original size:32 final size:32
Alignment explanation
Indices: 10121643--10121846 Score: 88
Period size: 32 Copynumber: 6.9 Consensus size: 32
10121633 TATATATTTA
* * * *
10121643 ATTGCATGATTATTAATTTGTTTATTTGTATG
1 ATTGTATGATTATTGATATATTTATTTGTATG
* *
10121675 ATTGTATGATTATTGATATATTTATTTATTATT
1 ATTGTATGATTATTGATATATTTATTT-GTATG
* *
10121708 ATTGCATGA-T-TT--TATATTTA-TTGCATG
1 ATTGTATGATTATTGATATATTTATTTGTATG
* *
10121735 A---TATGA-TATT-ATAT-GTTA-TTGCATG
1 ATTGTATGATTATTGATATATTTATTTGTATG
*
10121760 ATTAGTATTA-TATTTGA-ATGA--TA-TT-TA--
1 ATT-GTATGATTA-TTGATAT-ATTTATTTGTATG
* * * *
10121787 ATTATATGATTATTGATTTGTTTATTTGTGTG
1 ATTGTATGATTATTGATATATTTATTTGTATG
*
10121819 ATTGTATGATTATTAATATATTTATTTG
1 ATTGTATGATTATTGATATATTTATTTG
10121847 CATAGTTATT
Statistics
Matches: 130, Mismatches: 23, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
24 5 0.04
25 13 0.10
26 11 0.08
27 9 0.07
28 4 0.03
29 17 0.13
30 9 0.07
31 3 0.02
32 48 0.37
33 11 0.08
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (32 bp):
ATTGTATGATTATTGATATATTTATTTGTATG
Found at i:10121710 original size:22 final size:25
Alignment explanation
Indices: 10121683--10121729 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10121673 TGATTGTATG
10121683 ATTATTG-AT-ATATT-TATTTATT
1 ATTATTGCATGATATTATATTTATT
*
10121705 ATTATTGCATGATTTTATATTTATT
1 ATTATTGCATGATATTATATTTATT
10121730 GCATGATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 4 0.19
25 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (25 bp):
ATTATTGCATGATATTATATTTATT
Found at i:10121743 original size:19 final size:19
Alignment explanation
Indices: 10121706--10121744 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10121696 TTATTTATTA
* *
10121706 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
10121725 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
10121744 T
1 T
10121745 ATATGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:10121753 original size:25 final size:24
Alignment explanation
Indices: 10121713--10121774 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
10121703 TTATTATTGC
*
10121713 ATGATTTTATATTTATTGCATGAT
1 ATGATATTATATTTATTGCATGAT
10121737 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
10121762 -T-AGTATTATATTT
1 ATGA-TATTATATTT
10121775 GAATGATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 3 0.09
24 20 0.57
25 12 0.34
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:10121904 original size:19 final size:19
Alignment explanation
Indices: 10121867--10121905 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10121857 TATTTATTTA
* * *
10121867 TTATTGCATGATTTTATAT
1 TTATTGCATCATATGATAT
10121886 TTATTGCATCATATGATAT
1 TTATTGCATCATATGATAT
10121905 T
1 T
10121906 ATATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTGCATCATATGATAT
Found at i:10122103 original size:18 final size:20
Alignment explanation
Indices: 10122066--10122144 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 20
10122056 TTTCATATTA
10122066 TTGCATGATTATTAATATAT
1 TTGCATGATTATTAATATAT
10122086 TTGCATGA-TATT-ATATAT
1 TTGCATGATTATTAATATAT
** *
10122104 TTATATGATTGTT-AT-TA-
1 TTGCATGATTATTAATATAT
* * *
10122121 TTGTATTATAATTAATATAT
1 TTGCATGATTATTAATATAT
10122141 TTGC
1 TTGC
10122145 TTGACATTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
17 9 0.19
18 16 0.34
19 11 0.23
20 11 0.23
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGCATGATTATTAATATAT
Found at i:10123184 original size:3 final size:3
Alignment explanation
Indices: 10123176--10123213 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10123166 GCACTACTTA
10123176 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10123214 ATAGGCAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10124075 original size:29 final size:29
Alignment explanation
Indices: 10124033--10124111 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
10124023 TATAATTTAT
*
10124033 TAATTATTTAAGTTTTTAATATTGTATTA
1 TAATTAATTAAGTTTTTAATATTGTATTA
* * * * *
10124062 TAATTAATTGAGTTATTAATTTTTTATTT
1 TAATTAATTAAGTTTTTAATATTGTATTA
*
10124091 TAATTCAATTAAATTTTTAAT
1 TAATT-AATTAAGTTTTTAAT
10124112 TAGACAATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 28 0.70
30 12 0.30
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (29 bp):
TAATTAATTAAGTTTTTAATATTGTATTA
Found at i:10126985 original size:22 final size:22
Alignment explanation
Indices: 10126959--10127018 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
10126949 ATCAAATTTT
10126959 AAAAAAATGAAAAGAAA-AAAA
1 AAAAAAATGAAAAGAAAGAAAA
*
10126980 CCAAAAAAA-GAAAACAAAGAAAA
1 --AAAAAAATGAAAAGAAAGAAAA
10127003 AATAAAAAT-AAAAGAA
1 AA-AAAAATGAAAAGAA
10127019 GAACTCATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 19 0.59
23 11 0.34
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (22 bp):
AAAAAAATGAAAAGAAAGAAAA
Found at i:10127764 original size:24 final size:22
Alignment explanation
Indices: 10127732--10127776 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
10127722 AACTTTTATT
*
10127732 AATATAATACATATATAAATATAA
1 AATAAAATACATA-A-AAATATAA
*
10127756 AATAAAATAGATAAAAATATA
1 AATAAAATACATAAAAATATA
10127777 TACTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATAAAATACATAAAAATATAA
Found at i:10128409 original size:44 final size:45
Alignment explanation
Indices: 10128332--10128421 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
10128322 TTAAGTGACA
10128332 ATAAAATAAAAAATAAAAAAACAAAATGAGTAAAATTTATATAAT
1 ATAAAATAAAAAATAAAAAAACAAAATGAGTAAAATTTATATAAT
** *
10128377 ATAAAATTTAAAATAAAAATA-AAAATGAGTAAAATTTATATAAT
1 ATAAAATAAAAAATAAAAAAACAAAATGAGTAAAATTTATATAAT
10128421 A
1 A
10128422 GATGGAGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 24 0.57
45 18 0.43
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (45 bp):
ATAAAATAAAAAATAAAAAAACAAAATGAGTAAAATTTATATAAT
Found at i:10128540 original size:12 final size:12
Alignment explanation
Indices: 10128523--10128547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10128513 ATAAGTATAA
10128523 AATTAAATAAAT
1 AATTAAATAAAT
10128535 AATTAAATAAAT
1 AATTAAATAAAT
10128547 A
1 A
10128548 TAATCATATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAATAAAT
Found at i:10129243 original size:14 final size:14
Alignment explanation
Indices: 10129226--10129262 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
10129216 AAATCTCATT
10129226 AAAAAATAAA-GAA
1 AAAAAATAAATGAA
*
10129239 AAAAAATAAATGAC
1 AAAAAATAAATGAA
10129253 AAAAAATAAA
1 AAAAAATAAA
10129263 AAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (14 bp):
AAAAAATAAATGAA
Found at i:10129286 original size:23 final size:22
Alignment explanation
Indices: 10129228--10129286 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
10129218 ATCTCATTAA
10129228 AAAATAAAGAAAAAAAATAAATG
1 AAAA-AAAGAAAAAAAATAAATG
* * *
10129251 ACAAAAAATAAAAAATATAAATT
1 A-AAAAAAGAAAAAAAATAAATG
10129274 AAAAGAAAGAAAA
1 AAAA-AAAGAAAA
10129287 TTGAGTTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 3 0.10
23 24 0.80
24 3 0.10
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAATAAATG
Found at i:10129386 original size:17 final size:16
Alignment explanation
Indices: 10129348--10129387 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10129338 GTCATGGATT
10129348 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
* *
10129364 GCAAAAAAACTAAAAAA
1 -TAAAAAAAATAAAAAA
10129381 TAAAAAA
1 TAAAAAA
10129388 GAAATGACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:10129400 original size:22 final size:23
Alignment explanation
Indices: 10129351--10129409 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
10129341 ATGGATTTAA
*
10129351 AAAAAATAAAAAAGCAAAAAAACT
1 AAAAAATAAAAAAG-AAAAAAACC
**
10129375 AAAAAATAAAAAAG-AAATGACC
1 AAAAAATAAAAAAGAAAAAAACC
10129397 AAAAAATAAAAAA
1 AAAAAATAAAAAA
10129410 CATATGGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.08
Consensus pattern (23 bp):
AAAAAATAAAAAAGAAAAAAACC
Found at i:10134899 original size:22 final size:22
Alignment explanation
Indices: 10134806--10134954 Score: 111
Period size: 22 Copynumber: 6.8 Consensus size: 22
10134796 AATTATCAAC
* *
10134806 AATTTAGTAGAAAATCATTCAT
1 AATTTAGTAGTAAATCATTGAT
* * *
10134828 AACTTATTAGTAAATTACTT-AT
1 AATTTAGTAGTAAATCA-TTGAT
* * * *
10134850 AAATTAGTAGTAAATTAATGCT
1 AATTTAGTAGTAAATCATTGAT
*
10134872 AATTTAGTAGTAAATCATTGGT
1 AATTTAGTAGTAAATCATTGAT
* * *
10134894 ATTTTAGCAGTATATCATTGAT
1 AATTTAGTAGTAAATCATTGAT
* * *
10134916 AGTTTAGTAATAAATCACTGAT
1 AATTTAGTAGTAAATCATTGAT
* * *
10134938 AATATAATAATAAATCA
1 AATTTAGTAGTAAATCA
10134955 ATTATAACTT
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
21 1 0.01
22 98 0.97
23 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
AATTTAGTAGTAAATCATTGAT
Found at i:10138188 original size:113 final size:112
Alignment explanation
Indices: 10137971--10138197 Score: 337
Period size: 113 Copynumber: 2.0 Consensus size: 112
10137961 ATCTATATGC
*
10137971 ATAAAATTGAAAATAAAACGTACAAGTCTCTATGGTACACAAGTTTTTATAATTTCACAATAAGG
1 ATAAAATTGAAAATAAAACGTACAAGTCTCTATGGTACACAAGGTTTTATAATTTCACAATAAGG
*
10138036 GTACCAATGAGAGCTTATATATGCACTATTAATATATGGACTTAATA
66 GTACCAATGAGAGCTTATATATGCACCATTAATATATGGACTTAATA
* * ** **
10138083 ATAACATTGAAAATAAAAGTGTACAAGTCTCTATGGTACATGAGGTTTTATAATTTCATGATAAG
1 ATAAAATTGAAAATAAAA-CGTACAAGTCTCTATGGTACACAAGGTTTTATAATTTCACAATAAG
* * * *
10138148 GGTATCAATGAGAGTTTATATATGCACCATTAATTTATGGACTTGATA
65 GGTACCAATGAGAGCTTATATATGCACCATTAATATATGGACTTAATA
10138196 AT
1 AT
10138198 GATGATGGCT
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 17 0.17
113 85 0.83
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (112 bp):
ATAAAATTGAAAATAAAACGTACAAGTCTCTATGGTACACAAGGTTTTATAATTTCACAATAAGG
GTACCAATGAGAGCTTATATATGCACCATTAATATATGGACTTAATA
Found at i:10144668 original size:19 final size:20
Alignment explanation
Indices: 10144634--10144683 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10144624 AATGATTTTA
*
10144634 AATTATATTATATTAACTAAT
1 AATTAT-TTATATTAAATAAT
*
10144655 AATTATTTAT-TTAAATAGT
1 AATTATTTATATTAAATAAT
*
10144674 ATTTATTTAT
1 AATTATTTAT
10144684 GTATGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 4 0.15
21 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTATTTATATTAAATAAT
Found at i:10147156 original size:118 final size:121
Alignment explanation
Indices: 10147004--10147248 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 121
10146994 AACTTAACTT
*
10147004 AAAATTGACATGATATTTTTAAAACCTATAATAAT-TCGAATTAATTAATTAACTTGATTCAAAT
1 AAAATTGACATGATATTTTTAAAACCTATAATAATCT-GAATTAATTAATTAAATTGATTCAAAT
**
10147068 CCAAATCAATTGATCGGATATACAT-AA-A-TATGTATCAATGAATATATTTGGACA
65 CCAAATCAATCAATCGGATATACATAAATAGTATGTATCAATGAATATATTTGGACA
10147122 AAAATTGACATGATATTTTTAAAACCTATAATAATCTGAATTAATTAATTAAATTGATTCAAATC
1 AAAATTGACATGATATTTTTAAAACCTATAATAATCTGAATTAATTAATTAAATTGATTCAAATC
* *
10147187 CAATTCAATCAATCGGGTATACATAAATTATGTATGTATCAATGAATATATTTGGACA
66 CAAATCAATCAATCGGATATACATAAA-TA-GTATGTATCAATGAATATATTTGGACA
10147245 AAAA
1 AAAA
10147249 CTTTAATGAG
Statistics
Matches: 116, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
118 82 0.71
119 3 0.03
121 1 0.01
123 30 0.26
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (121 bp):
AAAATTGACATGATATTTTTAAAACCTATAATAATCTGAATTAATTAATTAAATTGATTCAAATC
CAAATCAATCAATCGGATATACATAAATAGTATGTATCAATGAATATATTTGGACA
Found at i:10149305 original size:2 final size:2
Alignment explanation
Indices: 10149300--10149328 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10149290 ATAAACACAC
10149300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10149329 AACACATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10154263 original size:27 final size:26
Alignment explanation
Indices: 10154233--10154318 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
10154223 AAGACTAAAA
10154233 AAATTTTTAAATTTTTTTATTTTTAAT
1 AAATTTTT-AATTTTTTTATTTTTAAT
*
10154260 AAATTTTT-ATATTTTTATTTTATAAAT
1 AAATTTTTAATTTTTTTATTTT-T-AAT
* *
10154287 AAATTTTTATTTTTATTTATATTTAAAT
1 AAATTTTTAATTTT-TTTAT-TTTTAAT
10154315 AAAT
1 AAAT
10154319 CCTTACTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
25 12 0.24
26 1 0.02
27 19 0.38
28 10 0.20
29 5 0.10
30 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
AAATTTTTAATTTTTTTATTTTTAAT
Found at i:10154264 original size:19 final size:19
Alignment explanation
Indices: 10154240--10154276 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10154230 AAAAAATTTT
*
10154240 TAAATTTTTTTATTTTTAA
1 TAAATTTTTATATTTTTAA
10154259 TAAATTTTTATATTTTTA
1 TAAATTTTTATATTTTTA
10154277 TTTTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TAAATTTTTATATTTTTAA
Found at i:10154280 original size:25 final size:25
Alignment explanation
Indices: 10154246--10154318 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 25
10154236 TTTTTAAATT
10154246 TTTTTATTTT-T-AATAAATTTTTATA
1 TTTTTATTTTATAAATAAA-TTTT-TA
10154271 TTTTTATTTTATAAATAAATTTTTA
1 TTTTTATTTTATAAATAAATTTTTA
10154296 TTTTTATTTATATTTAAATAAAT
1 TTTTTATTT-TA--TAAATAAAT
10154319 CCTTACTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
25 21 0.49
26 7 0.16
27 6 0.14
28 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATTTTATAAATAAATTTTTA
Found at i:10155664 original size:34 final size:34
Alignment explanation
Indices: 10155621--10155688 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10155611 TATTTCTACT
*
10155621 TAATTTATAGTAGGTAGTACATATTCAATTTAGA
1 TAATTTATAGTAGGTAGTACATATGCAATTTAGA
10155655 TAATTTATAGTAGGTAGTACATATGCAATTTAGA
1 TAATTTATAGTAGGTAGTACATATGCAATTTAGA
10155689 GATATACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (34 bp):
TAATTTATAGTAGGTAGTACATATGCAATTTAGA
Found at i:10160136 original size:2 final size:2
Alignment explanation
Indices: 10160129--10160164 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10160119 ACAAGTTTAA
*
10160129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10160165 CATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10162400 original size:2 final size:2
Alignment explanation
Indices: 10162393--10162427 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10162383 TTCTGAGCTC
10162393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10162428 CGTGATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10164609 original size:21 final size:21
Alignment explanation
Indices: 10164574--10164627 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
10164564 ATTAAATAAT
10164574 TAATT-AATAAA-TTAAAATA
1 TAATTAAATAAATTTAAAATA
*
10164593 TAATTAAATAAATTTAATATA
1 TAATTAAATAAATTTAAAATA
*
10164614 AAATTAAATAAATT
1 TAATTAAATAAATT
10164628 CACAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 20 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATTAAATAAATTTAAAATA
Found at i:10164635 original size:21 final size:19
Alignment explanation
Indices: 10164564--10164639 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 19
10164554 TATAAGTATT
10164564 ATTAAATAATTAATT-AATAA
1 ATTAAATAA--AATTAAATAA
*
10164584 ATTAAAATATAATTAAATAA
1 ATT-AAATAAAATTAAATAA
10164604 ATTTAATATAAAATTAAATAA
1 A-TTAA-ATAAAATTAAATAA
10164625 ATTCACAATAAAATT
1 ATT-A-AATAAAATT
10164640 TTTTTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.08
20 13 0.27
21 30 0.62
22 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAATAAAATTAAATAA
Found at i:10166762 original size:3 final size:3
Alignment explanation
Indices: 10166754--10166781 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10166744 TAAATGCCAG
10166754 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10166782 AGACGATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10184291 original size:48 final size:48
Alignment explanation
Indices: 10184238--10184334 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
10184228 ATGTTCATTA
10184238 AGGATGCATATTTTTATCATAACTAATAATTAAGTTCACTTGCATATT
1 AGGATGCATATTTTTATCATAACTAATAATTAAGTTCACTTGCATATT
* *
10184286 AGGATGCATATTTTTATTATACCTAATAATTAAGTTCACTTGCATATT
1 AGGATGCATATTTTTATCATAACTAATAATTAAGTTCACTTGCATATT
10184334 A
1 A
10184335 TTTTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (48 bp):
AGGATGCATATTTTTATCATAACTAATAATTAAGTTCACTTGCATATT
Found at i:10184447 original size:3 final size:3
Alignment explanation
Indices: 10184441--10184478 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10184431 TAATAATAAT
10184441 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
10184479 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:10184483 original size:3 final size:3
Alignment explanation
Indices: 10184477--10184510 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10184467 CAACAACAAC
10184477 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10184511 GTGTTAGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10191196 original size:14 final size:15
Alignment explanation
Indices: 10191174--10191213 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
10191164 GTTTTTGTAA
10191174 TATATTAATTACTAG
1 TATATTAATTACTAG
* *
10191189 TA-ATTAATTTCTAT
1 TATATTAATTACTAG
10191203 TATATTAATTA
1 TATATTAATTA
10191214 TCATGTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATTAATTACTAG
Found at i:10192161 original size:29 final size:27
Alignment explanation
Indices: 10192129--10192202 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 27
10192119 AATTATAATT
10192129 AAATATTTAATATAATATTTAAAATTAAA
1 AAATATTTAATATAATATTT-AAATT-AA
*
10192158 AAATATTTAATATAATATTTAAATTAT
1 AAATATTTAATATAATATTTAAATTAA
10192185 AAATATATTAAT-TAATAT
1 AAATAT-TTAATATAATAT
10192203 GATATTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 13 0.30
28 10 0.23
29 20 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATATTTAATATAATATTTAAATTAA
Found at i:10193093 original size:74 final size:75
Alignment explanation
Indices: 10192943--10193105 Score: 195
Period size: 75 Copynumber: 2.2 Consensus size: 75
10192933 TGGAACAGGA
* * **
10192943 GAAAGAAATAAATAAAAAGATTACAGAATAATTTAAACTTTAAAATGTTGTATTCCGGTGGACTG
1 GAAAGAAA-AAA-AAAAAGATTACAAAATAATTTAAACTTAAAAATGTTGTATTCCAATGGACTG
10193008 GAATGAAAGAAG
64 GAATGAAAGAAG
* * *
10193020 GAAATGAAAAAAAAAAA-ATTGCAAAATAGTTTAAACTTAAAAATGTTGTGTTCCAAT-GACTGG
1 GAAA-GAAAAAAAAAAAGATTACAAAATAATTTAAACTTAAAAATGTTGTATTCCAATGGACTGG
**
10193083 AATGGGAGAAG
65 AATGAAAGAAG
*
10193094 GAAACAAAAAAA
1 GAAAGAAAAAAA
10193106 TTTTAAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
73 7 0.09
74 19 0.25
75 33 0.44
76 5 0.07
77 7 0.09
78 4 0.05
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (75 bp):
GAAAGAAAAAAAAAAAGATTACAAAATAATTTAAACTTAAAAATGTTGTATTCCAATGGACTGGA
ATGAAAGAAG
Found at i:10195471 original size:2 final size:2
Alignment explanation
Indices: 10195466--10195492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10195456 ACACACACAC
10195466 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10195493 GATGATTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10198195 original size:2 final size:2
Alignment explanation
Indices: 10198188--10198236 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
10198178 TGTATCTATG
*
10198188 TA TA TA TA TA TA TA TA CA TA TA TA T- TA CTA TA T- TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
10198228 TA TA -A TA TA
1 TA TA TA TA TA
10198237 GTAAAGTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
1 4 0.10
2 34 0.85
3 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10203051 original size:60 final size:59
Alignment explanation
Indices: 10202924--10203327 Score: 572
Period size: 60 Copynumber: 6.8 Consensus size: 59
10202914 TCTTGTGTAA
* * * *
10202924 GAAAATTGATACTTTTAACTTTTCCCCAAAAGTATTTTTTTGGAAA-TTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAG
* *
10202982 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTGATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTT-ATTTTTAAG
*
10203042 GAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTTAAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTGAAATTTTATTTTTAAG
10203101 GAAAATTGATACTTTCAACTTTTTCCT-AAAAATA--TTTTTTGAAAATTTTGATTTTTAAG
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTG-AAATTTT-ATTTTTAAG
*
10203160 AAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TCTTTTTTTGAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTGAAATTTTATTTTTAAG
* *
10203219 GAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTGAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTTGAAATTTTATTTTTAAG
* *
10203279 GAAAATTGATACTTTCAACTTTTCC-CTAAAAT-TATTTTTTGAAAATTTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-AAATTTT
10203328 GCTTTTGAGA
Statistics
Matches: 316, Mismatches: 16, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
57 14 0.04
58 65 0.21
59 110 0.35
60 119 0.38
61 8 0.03
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAG
Found at i:10203081 original size:59 final size:58
Alignment explanation
Indices: 10202924--10203327 Score: 543
Period size: 59 Copynumber: 6.8 Consensus size: 58
10202914 TCTTGTGTAA
* *
10202924 GAAAATTGATACTTTTAACTTTTCCCCAAAAGTAT-TTTTTTGGAAA-TTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-TATATTTTTT-GAAATTTTATTTTTAAG
* * *
10202982 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTGATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTGAAATTTT-ATTTTTAAG
*
10203042 GAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTAAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATATA-TTTTTTGAAATTTTATTTTTAAG
10203101 GAAAATTGATACTTTCAACTTTTTCCT-AAAA-ATATTTTTTGAAAATTTTGATTTTTAAG
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAATATATTTTTTG-AAATTTT-ATTTTTAAG
* *
10203160 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTCTTTTTTTGAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATA-T-ATTTTTTGAAATTTTATTTTTAAG
* *
10203219 GAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTGAAATTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATA--TATTTTTTGAAATTTTATTTTTAAG
10203279 GAAAATTGATACTTTCAACTTTTCC-CTAAAAT-TATTTTTTGAAAATTTT
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTG-AAATTTT
10203328 GCTTTTGAGA
Statistics
Matches: 316, Mismatches: 15, Indels: 30
0.88 0.04 0.08
Matches are distributed among these distances:
57 14 0.04
58 56 0.18
59 120 0.38
60 117 0.37
61 9 0.03
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTTATTTTTAAG
Found at i:10204030 original size:11 final size:11
Alignment explanation
Indices: 10204014--10204039 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10204004 TTGGAATGCC
10204014 GAAGCCTCTAG
1 GAAGCCTCTAG
10204025 GAAGCCTCTAG
1 GAAGCCTCTAG
10204036 GAAG
1 GAAG
10204040 ACCGTTAAAC
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:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (11 bp):
GAAGCCTCTAG
Found at i:10204703 original size:19 final size:20
Alignment explanation
Indices: 10204668--10204706 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10204658 TTCATCGAAT
10204668 TCTGAGATTTGTCGTCGGAA
1 TCTGAGATTTGTCGTCGGAA
10204688 TCTGAGATTT-TCGTCGGAA
1 TCTGAGATTTGTCGTCGGAA
10204707 GTTGGCAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (20 bp):
TCTGAGATTTGTCGTCGGAA
Found at i:10205245 original size:11 final size:12
Alignment explanation
Indices: 10205231--10205381 Score: 53
Period size: 12 Copynumber: 11.9 Consensus size: 12
10205221 ATGTTACAAA
10205231 ATAATAAT-AAT
1 ATAATAATAAAT
10205242 ATAATAATAAATAT
1 ATAATAAT-AA-AT
10205256 ATAACTATATAAAT
1 ATAA-TA-ATAAAT
*
10205270 AAAATACCTATAAAT
1 ATAATA---ATAAAT
* *
10205285 ATTAACAA-AAAA
1 A-TAATAATAAAT
*
10205297 ATGAA-AATAAAA
1 AT-AATAATAAAT
10205309 ATAAATAAATAAAT
1 AT-AAT-AATAAAT
10205323 A-AATAGATAAAT
1 ATAATA-ATAAAT
* * *
10205335 A-AAGATATACAC
1 ATAATA-ATAAAT
* *
10205347 ATATTAATACAT
1 ATAATAATAAAT
10205359 AATAATAATAAAT
1 -ATAATAATAAAT
10205372 A-AATAATAAA
1 ATAATAATAAA
10205382 ATACATAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
11 21 0.19
12 38 0.35
13 16 0.15
14 18 0.16
15 12 0.11
16 5 0.05
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:10205316 original size:4 final size:4
Alignment explanation
Indices: 10205307--10205337 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
10205297 ATGAAAATAA
*
10205307 AAAT AAAT AAAT AAAT AAAT AGAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10205338 GATATACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10205378 original size:14 final size:14
Alignment explanation
Indices: 10205230--10205380 Score: 62
Period size: 14 Copynumber: 10.4 Consensus size: 14
10205220 AATGTTACAA
10205230 AATAAT-AATAATAT
1 AATAATAAATAA-AT
*
10205244 AATAATAAATATAT
1 AATAATAAATAAAT
10205258 AACTATATAAATAAAAT
1 AA-TA-ATAAAT-AAAT
* *
10205275 ACCT-ATAAATATTAAC
1 A-ATAATAAATA--AAT
10205291 AA-AA-AAATGAAAAT
1 AATAATAAAT--AAAT
*
10205305 AAAAATAAATAAAT
1 AATAATAAATAAAT
*
10205319 AAATAAATAGATAAAT
1 -AAT-AATAAATAAAT
* * *
10205335 AA-AGATATACACAT
1 AATA-ATAAATAAAT
* *
10205349 ATTAATACAT-AAT
1 AATAATAAATAAAT
10205362 AATAATAAATAAAT
1 AATAATAAATAAAT
10205376 AATAA
1 AATAA
10205381 AATACATAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
13 11 0.11
14 43 0.42
15 20 0.19
16 24 0.23
17 5 0.05
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATAAATAAAT
Found at i:10205393 original size:17 final size:17
Alignment explanation
Indices: 10205229--10205390 Score: 68
Period size: 20 Copynumber: 9.2 Consensus size: 17
10205219 AAATGTTACA
10205229 AAATAATAATAATATAAT
1 AAATAATAATAATA-AAT
*
10205247 -AATAAATATATAACTATAT
1 AAAT-AATA-ATAA-TAAAT
10205266 AAATAA-AATACCTATAAAT
1 AAATAATAATA---ATAAAT
* *
10205285 -ATTAACAA-AA-AAAT
1 AAATAATAATAATAAAT
* *
10205299 GAA-AATAAAAATAAAT
1 AAATAATAATAATAAAT
10205315 AAATAAATAAATAGATAAAT
1 AAAT-AAT-AATA-ATAAAT
* * *
10205335 AAAGATATACACATATTAAT
1 AAATA-ATA-ATA-ATAAAT
*
10205355 ACATAATAATAATAAAT
1 AAATAATAATAATAAAT
*
10205372 AAATAATAA-AATACAT
1 AAATAATAATAATAAAT
10205388 AAA
1 AAA
10205391 ATACAAAAGA
Statistics
Matches: 110, Mismatches: 17, Indels: 36
0.67 0.10 0.22
Matches are distributed among these distances:
14 8 0.07
15 4 0.04
16 15 0.14
17 19 0.17
18 15 0.14
19 22 0.20
20 27 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:10205596 original size:7 final size:7
Alignment explanation
Indices: 10205584--10205640 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
10205574 AACATTGTCA
10205584 TTTTTTG
1 TTTTTTG
10205591 TTTTTTG
1 TTTTTTG
* *
10205598 -TGTTTA
1 TTTTTTG
10205604 TTTTTTG
1 TTTTTTG
10205611 TTTTTTG
1 TTTTTTG
10205618 TTTTTTG
1 TTTTTTG
10205625 --TTTTG
1 TTTTTTG
10205630 TTTTTT-
1 TTTTTTG
10205636 TTTTT
1 TTTTT
10205641 GACCAAAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
5 5 0.12
6 9 0.21
7 29 0.67
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:10205608 original size:20 final size:19
Alignment explanation
Indices: 10205583--10205639 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 19
10205573 CAACATTGTC
10205583 ATTTTTTGTTTTTTGTGTTT
1 ATTTTTTGTTTTTTGT-TTT
10205603 ATTTTTTGTTTTTTGTTTT
1 ATTTTTTGTTTTTTGTTTT
10205622 -TTGTTTTGTTTTTT-TTTT
1 ATT-TTTTGTTTTTTGTTTT
10205640 TGACCAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.17
19 14 0.39
20 16 0.44
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (19 bp):
ATTTTTTGTTTTTTGTTTT
Found at i:10205609 original size:13 final size:12
Alignment explanation
Indices: 10205586--10205641 Score: 67
Period size: 12 Copynumber: 4.4 Consensus size: 12
10205576 CATTGTCATT
10205586 TTTTGTTTTTTG
1 TTTTGTTTTTTG
*
10205598 TGTTTATTTTTTG
1 T-TTTGTTTTTTG
10205611 TTTTTTGTTTTTTG
1 --TTTTGTTTTTTG
*
10205625 TTTTGTTTTTTT
1 TTTTGTTTTTTG
10205637 TTTTG
1 TTTTG
10205642 ACCAAAGCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 17 0.45
13 10 0.26
14 10 0.26
15 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTGTTTTTTG
Found at i:10205622 original size:27 final size:25
Alignment explanation
Indices: 10205584--10205640 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 25
10205574 AACATTGTCA
10205584 TTTTTTGTTTTTTGTGTTTATTTTTT
1 TTTTTTGTTTTTTGT-TTTATTTTTT
*
10205610 GTTTTTTGTTTTTTGTTTTGTTTTTT
1 -TTTTTTGTTTTTTGTTTTATTTTTT
10205636 TTTTT
1 TTTTT
10205641 GACCAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 9 0.31
27 15 0.52
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (25 bp):
TTTTTTGTTTTTTGTTTTATTTTTT
Found at i:10205821 original size:42 final size:42
Alignment explanation
Indices: 10205648--10205950 Score: 375
Period size: 41 Copynumber: 7.1 Consensus size: 42
10205638 TTTGACCAAA
* * * * *
10205648 GCTCCTCTAAATAGAGGCTCAATGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATT
10205691 GCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAGAAAGTAAATT
*
10205732 GCTTCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
10205773 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* *
10205815 GCTCCTCTAAACAGAGGTA--ACGAAACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAGAAAGTAAATT
* *
10205857 ACTCCTCTAAACAAAGGCACCACGACTTTGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
**
10205898 GCTTTTCTAAACAGAGGCACCACGACTTTGGAATTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-G-A---GAAAGTAAATT
10205945 GCTCCT
1 GCTCCT
10205951 TGGAAAGTAA
Statistics
Matches: 228, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
40 10 0.04
41 101 0.44
42 69 0.30
43 26 0.11
44 8 0.04
47 14 0.06
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
Found at i:10205875 original size:125 final size:123
Alignment explanation
Indices: 10205648--10205950 Score: 383
Period size: 125 Copynumber: 2.4 Consensus size: 123
10205638 TTTGACCAAA
* * * * *
10205648 GCTCCTCTAAATAGAGGCTCAATGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATTGCTCCTCTAAACAGAGGCA-CA
* * * * *
10205713 CGACTTTTGAAAATAAATTGCTTCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
64 CGACTTTGGAAAATAAATTACTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
*
10205773 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGTA-ACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACACG
*
10205837 AAACTTTGGGAAAGTAAATTACTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
66 --ACTTT-GGAAAATAAATTACTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
**
10205898 GCTTTTCTAAACAGAGGCACCACGACTTTGGAATTGGAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-G-A---GAAAGTAAATTGCTCCT
10205951 TGGAAAGTAA
Statistics
Matches: 156, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
122 3 0.02
124 29 0.19
125 105 0.67
126 1 0.01
127 1 0.01
130 17 0.11
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAACAGAGGCACACG
ACTTTGGAAAATAAATTACTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATT
Found at i:10205955 original size:19 final size:19
Alignment explanation
Indices: 10205931--10205969 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10205921 GACTTTGGAA
10205931 TTGGAAAGTAAATTGCTCC
1 TTGGAAAGTAAATTGCTCC
10205950 TTGGAAAGTAAATTGCTCC
1 TTGGAAAGTAAATTGCTCC
10205969 T
1 T
10205970 CTAAACAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TTGGAAAGTAAATTGCTCC
Found at i:10206052 original size:42 final size:41
Alignment explanation
Indices: 10205950--10206052 Score: 149
Period size: 41 Copynumber: 2.5 Consensus size: 41
10205940 AAATTGCTCC
10205950 TTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACT
1 TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACT
*
10205991 TT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAAATT
1 TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG--ACT
10206032 TTGGAAAAGTAAATTGCTCCT
1 TTGGAAAAGTAAATTGCTCCT
10206053 TAACGATCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
39 3 0.05
40 1 0.02
41 35 0.61
42 18 0.32
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (41 bp):
TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACT
Found at i:10207282 original size:8 final size:8
Alignment explanation
Indices: 10207269--10207299 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
10207259 TTGAATCTCT
10207269 TTTTTTCA
1 TTTTTTCA
10207277 TTTTTTCA
1 TTTTTTCA
*
10207285 TTTTCTCA
1 TTTTTTCA
10207293 TTTTTTC
1 TTTTTTC
10207300 CCTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10207331 original size:14 final size:11
Alignment explanation
Indices: 10207293--10207341 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
10207283 CATTTTCTCA
*
10207293 TTTTTTCCCTT
1 TTTTTTCTCTT
10207304 TTTTTTCTCTT
1 TTTTTTCTCTT
*
10207315 TTTTTTCATCATC
1 TTTTTTC-TC-TT
10207328 TTTTTT-TCTT
1 TTTTTTCTCTT
10207338 TTTT
1 TTTT
10207342 CTCATTTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 5 0.15
11 19 0.58
12 2 0.06
13 7 0.21
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:10210065 original size:14 final size:15
Alignment explanation
Indices: 10210046--10210075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10210036 GTGTTATGTT
10210046 ATGGTTT-ATGTATG
1 ATGGTTTGATGTATG
10210060 ATGGTTTGATGTATG
1 ATGGTTTGATGTATG
10210075 A
1 A
10210076 ATGAAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
ATGGTTTGATGTATG
Found at i:10211299 original size:58 final size:59
Alignment explanation
Indices: 10211230--10211593 Score: 488
Period size: 59 Copynumber: 6.2 Consensus size: 59
10211220 TGTTCTTGTG
* *
10211230 TAAG-AAAATTGATACTTTCAACTTTTCCCCAAAAGTATTTTTTTGGAAA-TTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTATTTT
* *
10211287 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAAACTTTGATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTG-GAAA-TTTTATTTT
* * *
10211349 CAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTT-GAAATTTTATGTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGGAAATTTTATTTT
* *
10211407 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTTTGAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGGAAATTTTATTTT
* * *
10211466 TAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATCTTTTTTTTGAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTATTTT
* * **
10211525 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGCTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTATTTT
*
10211583 TGAGAAAAATT
1 TAAGAAAAATT
10211594 AATTCTTTGG
Statistics
Matches: 275, Mismatches: 23, Indels: 17
0.87 0.07 0.05
Matches are distributed among these distances:
57 4 0.01
58 106 0.39
59 108 0.39
60 9 0.03
61 12 0.04
62 36 0.13
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (59 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTTATTTT
Found at i:10211416 original size:120 final size:116
Alignment explanation
Indices: 10211233--10211576 Score: 496
Period size: 120 Copynumber: 2.9 Consensus size: 116
10211223 TCTTGTGTAA
* *
10211233 GAAAATTGATACTTTCAACTTTTCCCCAAAAGTATTTTTTTGGAAA-TTTATTTTTAAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-TATTTTTTT-GAAATTTTATTTTTAAGGAAAAT
10211297 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAAACTTTGATTTTCAAG
64 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG--AAA-TTTGATTTTCAAG
*
10211353 GAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTTATGTTTAAGGAAAATT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATAT-TTTTTTGAAATTTTATTTTTAAGGAAAATT
* *
10211418 GATACTTTCAACTTTTCCTC-AAAATATTTTTTTTTGAAATTTTATTTTTAAG
65 GATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAATTTGATTTTCAAG
* * *
10211470 AAAAATTGATACTTTCAACTTTTCTTCAAAAATCTTTTTTTTGAAATTTTATTTTTAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAT-ATTTTTTTGAAATTTTATTTTTAAGGAAAAT
* *
10211535 TGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTT
64 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTT
10211577 TGCTTTTGAG
Statistics
Matches: 207, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
117 49 0.24
118 56 0.27
119 20 0.10
120 82 0.40
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.47
Consensus pattern (116 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAATTTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTGATTTTCAAG
Found at i:10212912 original size:19 final size:19
Alignment explanation
Indices: 10212869--10212914 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10212859 AAAAAAAATC
*
10212869 ATAATAATCAGATAATCGA
1 ATAAAAATCAGATAATCGA
*
10212888 AAAAAAATCAGATAAAT-GA
1 ATAAAAATCAGAT-AATCGA
10212907 ATAAAAAT
1 ATAAAAAT
10212915 AAAATTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (19 bp):
ATAAAAATCAGATAATCGA
Found at i:10213003 original size:17 final size:17
Alignment explanation
Indices: 10212977--10213016 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10212967 TTACAAAATA
10212977 ATAAT-AATAT-TAA-T
1 ATAATAAATATATAACT
10212991 ATAATAAATATATAACT
1 ATAATAAATATATAACT
10213008 AT-ATAAATA
1 ATAATAAATA
10213017 AAATACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 10 0.43
17 3 0.13
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATAAATATATAACT
Found at i:10213141 original size:17 final size:17
Alignment explanation
Indices: 10213055--10213138 Score: 59
Period size: 16 Copynumber: 4.9 Consensus size: 17
10213045 TGAAAATGAA
10213055 AATAA-AATAAATAAAT
1 AATAATAATAAATAAAT
*
10213071 -A-AATAGATAAATAAAG
1 AATAATA-ATAAATAAAT
* * *
10213087 ATATACACATATTAATACAT
1 A-ATA-ATA-ATAAATAAAT
10213107 AATAATAATAAATAAAT
1 AATAATAATAAATAAAT
*
10213124 AATAA-AATACATAAA
1 AATAATAATAAATAAA
10213139 ATACAAAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 18 0.35
17 13 0.25
18 3 0.06
19 4 0.08
20 10 0.19
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
AATAATAATAAATAAAT
Found at i:10216285 original size:28 final size:28
Alignment explanation
Indices: 10216253--10216307 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10216243 TTGATTTATG
10216253 AATTTACAAGATA-TTTGACATAATGATA
1 AATTTACAA-ATACTTTGACATAATGATA
** *
10216281 AATTTTGAAATACTTTGACATTATGAT
1 AATTTACAAATACTTTGACATAATGAT
10216308 TTGATGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (28 bp):
AATTTACAAATACTTTGACATAATGATA
Found at i:10221470 original size:13 final size:13
Alignment explanation
Indices: 10221452--10221477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10221442 AATAAAAAAA
10221452 ATAAAGAGTTGAT
1 ATAAAGAGTTGAT
10221465 ATAAAGAGTTGAT
1 ATAAAGAGTTGAT
10221478 TTTGATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
ATAAAGAGTTGAT
Found at i:10226912 original size:21 final size:21
Alignment explanation
Indices: 10226888--10226930 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10226878 ATTTGAATAC
*
10226888 GAATATTTGAATTTTGGATGT
1 GAATATTTAAATTTTGGATGT
*
10226909 GAATCTTTAAATTTTGGATGT
1 GAATATTTAAATTTTGGATGT
10226930 G
1 G
10226931 GATCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (21 bp):
GAATATTTAAATTTTGGATGT
Found at i:10226935 original size:21 final size:21
Alignment explanation
Indices: 10226897--10226940 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10226887 CGAATATTTG
*
10226897 AATTTTGGATGTGAATCTTTA
1 AATTTTGGATGTGAATCTCTA
*
10226918 AATTTTGGATGTGGATCTCTA
1 AATTTTGGATGTGAATCTCTA
10226939 AA
1 AA
10226941 AGTTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (21 bp):
AATTTTGGATGTGAATCTCTA
Found at i:10227006 original size:21 final size:22
Alignment explanation
Indices: 10226971--10227011 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10226961 GAACTTATAA
*
10226971 ATATGAATAT-TTAAATTTTAG
1 ATATGAATATCTAAAATTTTAG
*
10226992 ATATGAATCTCTAAAATTTT
1 ATATGAATATCTAAAATTTT
10227012 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
ATATGAATATCTAAAATTTTAG
Found at i:10227032 original size:66 final size:66
Alignment explanation
Indices: 10226908--10227082 Score: 172
Period size: 66 Copynumber: 2.6 Consensus size: 66
10226898 ATTTTGGATG
* * * * ** *
10226908 TGAATCTTTAAATTTTGGATGTGGATCTCTAAAAGTTTCAAATAAAAATTTTTGAACTTATAAAT
1 TGAATATTTAAATTTTAGATATGAATCTCTAAAAGTTTCAAATAAAAAGCTTTAAACTTATAAAT
10226973 A
66 A
* * * * **
10226974 TGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTAAATAAGAAGCTTTAAACTTTTTGA-
1 TGAATATTTAAATTTTAGATATGAATCTCTAAAAGTTTCAAATAAAAAGCTTTAAACTTATAAAT
10227038 A
66 A
* * * *
10227039 TGTAGATATTTGAATTTTGGATGTGAATCTTTAAAAGTTTCAAA
1 TG-A-ATATTTAAATTTTAGATATGAATCTCTAAAAGTTTCAAA
10227083 GGAAAATCAT
Statistics
Matches: 88, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
65 3 0.03
66 52 0.59
67 33 0.38
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (66 bp):
TGAATATTTAAATTTTAGATATGAATCTCTAAAAGTTTCAAATAAAAAGCTTTAAACTTATAAAT
A
Found at i:10227074 original size:67 final size:66
Alignment explanation
Indices: 10226899--10227139 Score: 189
Period size: 67 Copynumber: 3.6 Consensus size: 66
10226889 AATATTTGAA
* * * * * ** *** *
10226899 TTTTGGATGTGAATCTTTAAATTTTGGATGTGGATCTCTAAAAGTTTCAAATAAAAATTTTTGAA
1 TTTTGAATGTG-ATATTTGAATTTTGGATATGAATCTCTAAAAGTTTCAAAGGAAAAGCATTAAA
10226964 C-
65 CT
* * * * * * * * *
10226965 TTATAAATATGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTAAA-TAAGAAGCTTTAA
1 TTTTGAATGTG-ATATTTGAATTTTGGATATGAATCTCTAAAAGTTTCAAAGGAA-AAGCATTAA
10227029 ACT
64 ACT
* * * *
10227032 TTTTGAATGTAGATATTTGAATTTTGGATGTGAATCTTTAAAAGTTTCAAAGGAAAATCATTGAA
1 TTTTGAATGT-GATATTTGAATTTTGGATATGAATCTCTAAAAGTTTCAAAGGAAAAGCATTAAA
10227097 CT
65 CT
* *
10227099 TTTTGAATGTGAGTTTTTGAATTTTGGATATGAATATCTAA
1 TTTTGAATGTGA-TATTTGAATTTTGGATATGAATCTCTAA
10227140 TTTAAGTGTG
Statistics
Matches: 139, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
65 2 0.01
66 51 0.37
67 83 0.60
68 3 0.02
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.43
Consensus pattern (66 bp):
TTTTGAATGTGATATTTGAATTTTGGATATGAATCTCTAAAAGTTTCAAAGGAAAAGCATTAAAC
T
Found at i:10227247 original size:44 final size:44
Alignment explanation
Indices: 10227151--10227235 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
10227141 TTAAGTGTGG
*
10227151 ACCTTTGAATTTTGGACGTCAATCTCTAAGATTTTCAAATGATA
1 ACCTTTGAATCTTGGACGTCAATCTCTAAGATTTTCAAATGATA
* * *
10227195 ACCTTTGAATCTTGGATGTGAATCTCTAAGATTTTCGAATG
1 ACCTTTGAATCTTGGACGTCAATCTCTAAGATTTTCAAATG
10227236 TGAATCTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (44 bp):
ACCTTTGAATCTTGGACGTCAATCTCTAAGATTTTCAAATGATA
Found at i:10227261 original size:44 final size:44
Alignment explanation
Indices: 10227171--10227261 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
10227161 TTTGGACGTC
* *
10227171 AATCTCTAAGATTTTCAAATGATAACCTTTGAATCTTGGATGTG
1 AATCTCTAAGATTTTCAAATGATAACCTTTGAATCTTGAATATG
* * *
10227215 AATCTCTAAGATTTTCGAATG-TGAATCTTTGAAGT-TTTAATATG
1 AATCTCTAAGATTTTCAAATGAT-AACCTTTGAA-TCTTGAATATG
10227259 AAT
1 AAT
10227262 ATCATTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.03
44 38 0.95
45 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (44 bp):
AATCTCTAAGATTTTCAAATGATAACCTTTGAATCTTGAATATG
Found at i:10227361 original size:27 final size:27
Alignment explanation
Indices: 10227302--10227374 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 27
10227292 TAAAAGCTTC
* *
10227302 ATTTGTGAATCTTCAAAATTATTTTTGA
1 ATTTTTGAATCTT-GAAATTATTTTTGA
10227330 ATTTTATGAATCTTGAAATT-TTTTTGA
1 ATTTT-TGAATCTTGAAATTATTTTTGA
10227357 ATTTTTGAATCTTTGAAA
1 ATTTTTGAATC-TTGAAA
10227375 ATCTTGAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 6 0.15
27 18 0.44
28 9 0.22
29 8 0.20
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (27 bp):
ATTTTTGAATCTTGAAATTATTTTTGA
Found at i:10227394 original size:36 final size:36
Alignment explanation
Indices: 10227322--10227473 Score: 114
Period size: 36 Copynumber: 4.2 Consensus size: 36
10227312 CTTCAAAATT
** **
10227322 ATTTTTGAAT-TTTATGAATCTTGAAAT-TTTTTTGA
1 ATTTTTGAATCTTTACAAATCTTG-AATCTTTTGCGA
*
10227357 ATTTTTGAATCTTTGA-AAATCTTGAATCTTTTGTGA
1 ATTTTTGAATCTTT-ACAAATCTTGAATCTTTTGCGA
* ** *
10227393 ATCTTTGAATTTCTTTGTGACAT-TTGAATCTTTTGCGA
1 ATTTTTGAA--TCTTT-ACAAATCTTGAATCTTTTGCGA
* * *
10227431 AATTTTGAATCTTTACGAATCTTAAATCTTTTGCGA
1 ATTTTTGAATCTTTACAAATCTTGAATCTTTTGCGA
10227467 ATCTTTT
1 AT-TTTT
10227474 AATTTCTTTC
Statistics
Matches: 95, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
35 15 0.16
36 45 0.47
37 5 0.05
38 27 0.28
39 3 0.03
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (36 bp):
ATTTTTGAATCTTTACAAATCTTGAATCTTTTGCGA
Found at i:10227395 original size:18 final size:18
Alignment explanation
Indices: 10227331--10227471 Score: 92
Period size: 18 Copynumber: 7.7 Consensus size: 18
10227321 TATTTTTGAA
*
10227331 TTTTATGAATCTTGAAAT-
1 TTTTGTGAATCTTG-AATC
* *
10227349 TTTTTTGAATTTTTGAATC
1 TTTTGTGAA-TCTTGAATC
**
10227368 -TTTGAAAATCTTGAATC
1 TTTTGTGAATCTTGAATC
*
10227385 TTTTGTGAATCTTTGAATT
1 TTTTGTGAATC-TTGAATC
10227404 TCTTTGTGACAT-TTGAATC
1 T-TTTGTGA-ATCTTGAATC
* *
10227423 TTTTGCGAAATTTTGAATC
1 TTTTGTG-AATCTTGAATC
** *
10227442 -TTTACGAATCTTAAATC
1 TTTTGTGAATCTTGAATC
*
10227459 TTTTGCGAATCTT
1 TTTTGTGAATCTT
10227472 TTAATTTCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
17 17 0.17
18 47 0.47
19 26 0.26
20 7 0.07
21 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTTTGTGAATCTTGAATC
Found at i:10227420 original size:38 final size:38
Alignment explanation
Indices: 10227374--10227482 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 38
10227364 AATCTTTGAA
* **
10227374 AATCTTGAATCTTTTGTGAATCTTTGAATTTCTTTGTG
1 AATCTTGAATCTTTTGCGAATCTTTGAATTTCTTTACG
10227412 ACAT-TTGAATCTTTTGCGAAAT-TTTGAA--TCTTTACG
1 A-ATCTTGAATCTTTTGCG-AATCTTTGAATTTCTTTACG
* *
10227448 AATCTTAAATCTTTTGCGAATCTTTTAATTTCTTT
1 AATCTTGAATCTTTTGCGAATCTTTGAATTTCTTT
10227483 CTTGTGAACC
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
35 5 0.08
36 25 0.42
38 25 0.42
39 5 0.08
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (38 bp):
AATCTTGAATCTTTTGCGAATCTTTGAATTTCTTTACG
Found at i:10227543 original size:22 final size:22
Alignment explanation
Indices: 10227484--10227547 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
10227474 AATTTCTTTC
*
10227484 TTGTGAACCTTTGAATTT--AA
1 TTGTGAGCCTTTGAATTTGAAA
** **
10227504 TTGCAAGTCCTTCAAATTTGAAA
1 TTGTGAG-CCTTTGAATTTGAAA
10227527 TTGTGAGCCTTTGAATTTGAA
1 TTGTGAGCCTTTGAATTTGAA
10227548 GTTGGAAACT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 4 0.12
21 9 0.28
22 12 0.38
23 7 0.22
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TTGTGAGCCTTTGAATTTGAAA
Found at i:10228312 original size:28 final size:27
Alignment explanation
Indices: 10228261--10228336 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 27
10228251 ATCACATTTT
* *
10228261 TTTTTTAATTTTATGATTTTATTTTATATA
1 TTTTTT-ATTTT-TCATTTCATTTTAT-TA
*
10228291 TTTTTTATTTTTCATTTCATTTTATTT
1 TTTTTTATTTTTCATTTCATTTTATTA
10228318 TTTCTTTATTTTTCTATTT
1 TTT-TTTATTTTTC-ATTT
10228337 TAGTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.10
28 22 0.54
29 9 0.22
30 6 0.15
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTTTCATTTCATTTTATTA
Found at i:10228443 original size:24 final size:25
Alignment explanation
Indices: 10228416--10228466 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
10228406 TAGGATTTTA
10228416 TTATTATACTTATTTGCATGAT-TT
1 TTATTATACTTATTTGCATGATATT
*
10228440 TTATTATATTTATTTGCATGATATT
1 TTATTATACTTATTTGCATGATATT
10228465 TT
1 TT
10228467 TGCATGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (25 bp):
TTATTATACTTATTTGCATGATATT
Found at i:10228467 original size:27 final size:25
Alignment explanation
Indices: 10228409--10228467 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 25
10228399 ACTTTGGTAG
10228409 GATTTTATTATTATACTTATTTGCAT
1 GATTTT-TTATTATACTTATTTGCAT
*
10228435 GA-TTTTTATTATATTTATTTGCAT
1 GATTTTTTATTATACTTATTTGCAT
10228459 GATATTTTT
1 GAT-TTTTT
10228468 GCATGATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 20 0.67
25 3 0.10
26 7 0.23
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.61
Consensus pattern (25 bp):
GATTTTTTATTATACTTATTTGCAT
Found at i:10228525 original size:3 final size:3
Alignment explanation
Indices: 10228517--10228557 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
10228507 TTTTGCAAGA
10228517 TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
10228558 TTACATGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10228539 original size:19 final size:19
Alignment explanation
Indices: 10228517--10228554 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10228507 TTTTGCAAGA
10228517 TATTATTATTATTATTATT
1 TATTATTATTATTATTATT
10228536 TATTATTATTATTATTATT
1 TATTATTATTATTATTATT
10228555 ATTTTACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTATTATTATTATT
Done.