Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 33 of 185
Found at i:9846981 original size:29 final size:28
Alignment explanation
Indices: 9846948--9847037 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
9846938 AAACACTAGT
9846948 AAAAGAACAGCCTTTATGGAAAAACTCTA
1 AAAAG-ACAGCCTTTATGGAAAAACTCTA
* ** * * *
9846977 AAAAGACAAGCCTTTGTGGCGAACCTGTT
1 AAAAGAC-AGCCTTTATGGAAAAACTCTA
* * *
9847006 ACAGGACAACCTTTATGGAAAAACTCTA
1 AAAAGACAGCCTTTATGGAAAAACTCTA
9847034 AAAA
1 AAAA
9847038 AGCAAGCTTT
Statistics
Matches: 43, Mismatches: 17, Indels: 3
0.68 0.27 0.05
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (28 bp):
AAAAGACAGCCTTTATGGAAAAACTCTA
Found at i:9847069 original size:57 final size:57
Alignment explanation
Indices: 9846949--9847077 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
9846939 AACACTAGTA
* * * * * *
9846949 AAAGAACAGCCTTTATGGAAAAACTCTAAAAAGACAAGCCTTTGTGGCGAACCTGTT
1 AAAGGACAACCTTTATGGAAAAACTCTAAAAAGACAAGCCTTTCTGGAGAACATATT
* *
9847006 ACAGGACAACCTTTATGGAAAAACTCTAAAAA-AGCAAGCTTTTCTGGAGAACATATT
1 AAAGGACAACCTTTATGGAAAAACTCTAAAAAGA-CAAGCCTTTCTGGAGAACATATT
*
9847063 AAAGGACAACTTTTA
1 AAAGGACAACCTTTA
9847078 AAGCAAAACT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
56 1 0.02
57 60 0.98
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (57 bp):
AAAGGACAACCTTTATGGAAAAACTCTAAAAAGACAAGCCTTTCTGGAGAACATATT
Found at i:9847086 original size:57 final size:58
Alignment explanation
Indices: 9846966--9847090 Score: 146
Period size: 57 Copynumber: 2.2 Consensus size: 58
9846956 AGCCTTTATG
* * * * * **
9846966 GAAAAACTCT-AAAAAGACAAGCCTTTGTGGCGAACCTGTTACAGGACAACCTTTATG
1 GAAAAACTCTAAAAAAGACAAGCCTTTCTGGAGAACATATTAAAGGACAACCTTTAAA
* *
9847023 GAAAAACTCTAAAAAAG-CAAGCTTTTCTGGAGAACATATTAAAGGACAACTTTTAAA
1 GAAAAACTCTAAAAAAGACAAGCCTTTCTGGAGAACATATTAAAGGACAACCTTTAAA
*
9847080 GCAAAACTCTA
1 GAAAAACTCTA
9847091 GAAGGGTAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 51 0.89
58 6 0.11
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.23
Consensus pattern (58 bp):
GAAAAACTCTAAAAAAGACAAGCCTTTCTGGAGAACATATTAAAGGACAACCTTTAAA
Found at i:9849195 original size:42 final size:42
Alignment explanation
Indices: 9849148--9849371 Score: 269
Period size: 42 Copynumber: 5.4 Consensus size: 42
9849138 TGCCTATCAA
9849148 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
1 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
* * * *
9849190 GCTTAATGCCGGTGAAATAATTTCAGAATTTACGTCTAGCAG
1 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
*
9849232 GCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGCAG
1 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
* * * *
9849274 GCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAGCAG
1 GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
* * * *
9849315 GC-TAAGTGCCAGTG-TACTGA-ATCAGGCTTTAAGTCTAGCAG
1 GCTTAA-TGCCAGTGAAAC-AATATCAGACTTTACGTCTAGCAG
9849356 GC-TAAGTGCCAGTGAA
1 GCTTAA-TGCCAGTGAA
9849372 TCTGTTTAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 5 0.03
41 60 0.37
42 96 0.60
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
GCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAGCAG
Found at i:9853787 original size:16 final size:16
Alignment explanation
Indices: 9853766--9853796 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9853756 ATTGTGAGGT
*
9853766 TGCATGATGTACCTAG
1 TGCATGAGGTACCTAG
9853782 TGCATGAGGTACCTA
1 TGCATGAGGTACCTA
9853797 TTTCTATAGT
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:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (16 bp):
TGCATGAGGTACCTAG
Found at i:9857907 original size:33 final size:32
Alignment explanation
Indices: 9857791--9857900 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 32
9857781 TATTATCTGT
*
9857791 TGGTGTGCTGGTTGGACTAGCTCTTATGAGCA
1 TGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
* *
9857823 CTGGTGTGATAGTTGGATTAGCTCTTATGAGCA
1 -TGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
* *
9857856 TTGGTGTGTTGGTTGGATTAGCTCTTCTGAGCA
1 -TGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
9857889 TAGGTGTGCTGG
1 T-GGTGTGCTGG
9857901 AGGGATTGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 1 0.01
33 67 0.99
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.37
Consensus pattern (32 bp):
TGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
Found at i:9861600 original size:51 final size:49
Alignment explanation
Indices: 9861467--9861652 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
9861457 GTGAAAGTGA
* *
9861467 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * *
9861517 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-T
* * * * *
9861567 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
*
9861617 GATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
9861653 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
50 44 0.39
51 69 0.61
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:9861730 original size:46 final size:44
Alignment explanation
Indices: 9861657--9861756 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 44
9861647 CTACTATGTG
*
9861657 AACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCC
1 AACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
* * *
9861700 AACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 AACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
9861747 -ACCGTGTATC
1 AACCG-GTATC
9861757 TGTTACTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.12
44 11 0.23
45 2 0.04
46 24 0.50
47 5 0.10
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
AACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:9861926 original size:37 final size:38
Alignment explanation
Indices: 9861857--9861929 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
9861847 ATGTATGGAA
* **
9861857 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
9861895 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
9861930 ATTATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:9873174 original size:17 final size:17
Alignment explanation
Indices: 9873144--9873177 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9873134 TATTAATATT
**
9873144 AATATTAATTAAAAATA
1 AATATTAAAAAAAAATA
9873161 AATATTAAAAAAAAATA
1 AATATTAAAAAAAAATA
9873178 TTTTCCCTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATTAAAAAAAAATA
Found at i:9883018 original size:16 final size:16
Alignment explanation
Indices: 9882978--9883019 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9882968 TTTGAATAAG
9882978 AGTTGTTCTATGGTAA
1 AGTTGTTCTATGGTAA
* *
9882994 TGTTTTTCT-TGGTAA
1 AGTTGTTCTATGGTAA
9883009 AGCTTGTTCTA
1 AG-TTGTTCTA
9883020 AATAATGACT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (16 bp):
AGTTGTTCTATGGTAA
Found at i:9884303 original size:31 final size:30
Alignment explanation
Indices: 9884268--9884327 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9884258 GGTGGAGGGA
*
9884268 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
9884299 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
9884328 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:9884550 original size:9 final size:9
Alignment explanation
Indices: 9884536--9884572 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9884526 TATAGTTTGA
9884536 TATTCGAAT
1 TATTCGAAT
9884545 TATTCGAAT
1 TATTCGAAT
*
9884554 TATTCGAGT
1 TATTCGAAT
9884563 TATTCGAAT
1 TATTCGAAT
9884572 T
1 T
9884573 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9884643 original size:9 final size:9
Alignment explanation
Indices: 9884626--9884656 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9884616 TCGAGTTGAT
9884626 TCGAATAAC
1 TCGAATAAC
*
9884635 TCGATTAAC
1 TCGAATAAC
9884644 TCGAATAAC
1 TCGAATAAC
9884653 TCGA
1 TCGA
9884657 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9884901 original size:28 final size:29
Alignment explanation
Indices: 9884852--9884906 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9884842 TTTTTTCAAA
*
9884852 ATTTATCGAAATGGGCCAATTTTTTGATT
1 ATTTACCGAAATGGGCCAATTTTTTGATT
* *
9884881 ATTTACCGGAATGGTCC-ATTTTTTGA
1 ATTTACCGAAATGGGCCAATTTTTTGA
9884907 GAAATTGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (29 bp):
ATTTACCGAAATGGGCCAATTTTTTGATT
Found at i:9885797 original size:31 final size:32
Alignment explanation
Indices: 9885762--9885829 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
9885752 GCCATTGATG
9885762 AAAATAT-AAAAAATTTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTTAAAATTATTTTAAA
*
9885793 AAAATATAAAAAAATTTTGAAATTATTTTAAA
1 AAAATATAAAAAAATTTTAAAATTATTTTAAA
9885825 AAAAT
1 AAAAT
9885830 GAAATTGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 7 0.20
32 28 0.80
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (32 bp):
AAAATATAAAAAAATTTTAAAATTATTTTAAA
Found at i:9885888 original size:22 final size:21
Alignment explanation
Indices: 9885863--9885913 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
9885853 TAATATGGAT
*
9885863 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
9885885 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
9885907 TTGAGAG
1 TTGAGAG
9885914 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:9885930 original size:52 final size:52
Alignment explanation
Indices: 9885866--9885964 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
9885856 TATGGATTTG
* *
9885866 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
9885918 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
9885965 TAGGATTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
Found at i:9885948 original size:22 final size:22
Alignment explanation
Indices: 9885918--9885964 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9885908 TGAGAGTTTA
9885918 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
9885940 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
9885962 AGA
1 AGA
9885965 TAGGATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:9891254 original size:30 final size:30
Alignment explanation
Indices: 9891220--9891292 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
9891210 ACAGGCTGCC
* * *
9891220 ACACGGCCATGTGTCCCACACTGTCCAATG
1 ACACGGCCATGTGCCCCACACGGTCAAATG
***
9891250 ACACGGTTGTGTGCCCCACACGGTCAAATG
1 ACACGGCCATGTGCCCCACACGGTCAAATG
*
9891280 ACACAGCCATGTG
1 ACACGGCCATGTG
9891293 ATCCTTTAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.19
Consensus pattern (30 bp):
ACACGGCCATGTGCCCCACACGGTCAAATG
Found at i:9891960 original size:24 final size:24
Alignment explanation
Indices: 9891933--9892010 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 24
9891923 GCCAATATGA
*
9891933 AAAGTGATAGAGGCACTATGGTGC
1 AAAGTGATAGTGGCACTATGGTGC
* **
9891957 AAAGTGATGGTGGCACTACAGTGC
1 AAAGTGATAGTGGCACTATGGTGC
* *
9891981 -AAGTGA-A-TGGTACTTTGGTGC
1 AAAGTGATAGTGGCACTATGGTGC
9892002 AAAGTGATA
1 AAAGTGATA
9892011 TCCACATGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 10 0.23
22 6 0.14
23 7 0.16
24 20 0.47
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (24 bp):
AAAGTGATAGTGGCACTATGGTGC
Found at i:9893331 original size:25 final size:25
Alignment explanation
Indices: 9893302--9893351 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9893292 TGAGAAAAGA
*
9893302 AAAGTTTGAACTTGAGATAGTGAGT
1 AAAGTTTGAACTTGAGATAGCGAGT
*
9893327 AAAGTTTGAATTTGAGATAGCGAGT
1 AAAGTTTGAACTTGAGATAGCGAGT
9893352 GTTCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (25 bp):
AAAGTTTGAACTTGAGATAGCGAGT
Found at i:9893680 original size:26 final size:26
Alignment explanation
Indices: 9893651--9893700 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
9893641 CTGTAGAGTT
9893651 AGTATAACCTAGAGGGAAGAACCAGA
1 AGTATAACCTAGAGGGAAGAACCAGA
9893677 AGTATAACCTAGAGGGAAGAACCA
1 AGTATAACCTAGAGGGAAGAACCA
9893701 TGAGACGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (26 bp):
AGTATAACCTAGAGGGAAGAACCAGA
Found at i:9917584 original size:16 final size:16
Alignment explanation
Indices: 9917563--9917609 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9917553 TTTGTGTTTT
9917563 CTTATTTTTAACTTTA
1 CTTATTTTTAACTTTA
*
9917579 CTTATTTTATTACTTTA
1 CTTATTTT-TAACTTTA
9917596 -TTATTATTTAACTT
1 CTTATT-TTTAACTT
9917610 ATAATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTATTTTTAACTTTA
Found at i:9919773 original size:20 final size:18
Alignment explanation
Indices: 9919738--9919826 Score: 55
Period size: 18 Copynumber: 5.0 Consensus size: 18
9919728 GCAAGCCTAT
*
9919738 TAAATATGACTTATTAAA
1 TAAAAATGACTTATTAAA
9919756 TAAAAATGATCTTAATTAAAA
1 TAAAAATGA-CTT-ATT-AAA
** *
9919777 TAGCAA-G-CCTATTAAA
1 TAAAAATGACTTATTAAA
9919793 T----ATGACTTATTAAA
1 TAAAAATGACTTATTAAA
9919807 TAAAAATGATCTTAATTAAA
1 TAAAAATGA-CTT-ATTAAA
9919827 ATATTATTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
12 1 0.02
13 1 0.02
14 9 0.16
16 4 0.07
17 3 0.05
18 14 0.25
19 6 0.11
20 10 0.18
21 7 0.13
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.35
Consensus pattern (18 bp):
TAAAAATGACTTATTAAA
Found at i:9919782 original size:51 final size:51
Alignment explanation
Indices: 9919727--9919829 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
9919717 GTTTCATATA
9919727 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
1 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
9919778 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
1 AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
9919829 A
1 A
9919830 TTATTTCAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (51 bp):
AGCAAGCCTATTAAATATGACTTATTAAATAAAAATGATCTTAATTAAAAT
Found at i:9924010 original size:2 final size:2
Alignment explanation
Indices: 9924003--9924039 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9923993 GCATCAAACG
9924003 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9924040 GGACTGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9924817 original size:3 final size:3
Alignment explanation
Indices: 9924809--9924856 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
9924799 TAGAACTAAA
*
9924809 AAT AAT AAT -AT AATT AAA AACCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT
9924856 A
1 A
9924857 TGTTCATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 3 0.08
5 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9925332 original size:12 final size:11
Alignment explanation
Indices: 9925302--9925353 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
9925292 AAATTATATT
9925302 ATATTTATTTA
1 ATATTTATTTA
9925313 ATATTTATTTA
1 ATATTTATTTA
9925324 ATGATTTATTTA
1 AT-ATTTATTTA
9925336 ATATTCT-TTTA
1 ATATT-TATTTA
*
9925347 ACATTTA
1 ATATTTA
9925354 CATAATCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 1 0.03
11 24 0.65
12 12 0.32
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
ATATTTATTTA
Found at i:9925470 original size:21 final size:21
Alignment explanation
Indices: 9925420--9925484 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
9925410 TATTTATAAT
*
9925420 ATATTAAAATAATTTTAATTAAA
1 ATATTAAAAT--TTTTAATAAAA
9925443 ATAATTAAAATTTTTAA-AAATA
1 AT-ATTAAAATTTTTAATAAA-A
* * *
9925465 ATATTATATTTTTTATTAAA
1 ATATTAAAATTTTTAATAAA
9925485 CAAATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 13 0.37
22 12 0.34
23 2 0.06
24 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTAAAATTTTTAATAAAA
Found at i:9925772 original size:43 final size:43
Alignment explanation
Indices: 9925705--9925815 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
9925695 CTTTTAGCGG
* * * * *
9925705 CGCTTTTCCCATAAACGCCACTAAAGATCAAGACCTTTAACGA
1 CGCTTTTCCCACAAGCGCCGCTAAAGACCAAAACCTTTAACGA
* * *
9925748 CGCTTTTCCCACAAGCACCGCTAAAGACCAAAACCTTTAGCGG
1 CGCTTTTCCCACAAGCGCCGCTAAAGACCAAAACCTTTAACGA
*
9925791 CGCTTTTCACACAAGCGCCGCTAAA
1 CGCTTTTCCCACAAGCGCCGCTAAA
9925816 AATATATCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.32, C:0.33, G:0.14, T:0.21
Consensus pattern (43 bp):
CGCTTTTCCCACAAGCGCCGCTAAAGACCAAAACCTTTAACGA
Found at i:9926130 original size:43 final size:43
Alignment explanation
Indices: 9926082--9926172 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
9926072 ACATATGCAA
* * *
9926082 GGTAATAAAACATAGAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
* **
9926125 GGTAATAAAAGATATCATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
9926168 -GTAAT
1 GGTAAT
9926173 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATAGAATACATTTACTTAATCAAGGAAATCTT
Found at i:9929814 original size:33 final size:33
Alignment explanation
Indices: 9929775--9929840 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
9929765 CTGATTCAGA
9929775 GAGAAACAAAACCCCAAATCAATGAATCATTTG
1 GAGAAACAAAACCCCAAATCAATGAATCATTTG
*
9929808 GAGAAACAAAACCCCAAATCAATGGATCATTTG
1 GAGAAACAAAACCCCAAATCAATGAATCATTTG
9929841 TTATATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (33 bp):
GAGAAACAAAACCCCAAATCAATGAATCATTTG
Found at i:9930390 original size:13 final size:13
Alignment explanation
Indices: 9930372--9930399 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9930362 ATTCTTTCTC
9930372 TATTTATGAAGTT
1 TATTTATGAAGTT
9930385 TATTTATGAAGTT
1 TATTTATGAAGTT
9930398 TA
1 TA
9930400 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:9931839 original size:18 final size:18
Alignment explanation
Indices: 9931816--9931873 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
9931806 ATTTGAAGGA
9931816 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
9931834 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
9931852 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
9931870 ATGA
1 ATGA
9931874 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:9932660 original size:14 final size:15
Alignment explanation
Indices: 9932637--9932694 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
9932627 AATCATAAAA
*
9932637 CATAAGCCCTAAACC
1 CATAACCCCTAAACC
*
9932652 CATAACCCTTAAACC
1 CATAACCCCTAAACC
*
9932667 C-TAACCTCT-AACC
1 CATAACCCCTAAACC
*
9932680 CTTAACCCCTAAACC
1 CATAACCCCTAAACC
9932695 TTAAACCCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 5 0.14
14 13 0.36
15 18 0.50
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.19
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:9932696 original size:14 final size:14
Alignment explanation
Indices: 9932643--9932722 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
9932633 AAAACATAAG
*
9932643 CCCTAAACCCATAAC
1 CCCTAAA-CCTTAAC
* *
9932658 CCTTAAACCCTAAC
1 CCCTAAACCTTAAC
* *
9932672 CTCTAACCCTTAAC
1 CCCTAAACCTTAAC
9932686 CCCTAAACCTTAAAC
1 CCCTAAACCTT-AAC
* *
9932701 CCC-AACCCTTAAA
1 CCCTAAACCTTAAC
*
9932714 CCATAAACC
1 CCCTAAACC
9932723 ATAATCCATA
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
13 4 0.08
14 35 0.69
15 12 0.24
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:9932707 original size:21 final size:21
Alignment explanation
Indices: 9932683--9932722 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9932673 TCTAACCCTT
*
9932683 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
*
9932704 AACCCTTAAACCATAAACC
1 AACCCCTAAACCATAAACC
9932723 ATAATCCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:9933581 original size:41 final size:41
Alignment explanation
Indices: 9933526--9933923 Score: 449
Period size: 41 Copynumber: 9.9 Consensus size: 41
9933516 CCTGAGCATT
* **
9933526 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGTCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
9933567 ATTAGCGGCGCTTTCCCAAAAACG-C-C---A----TGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* ** * *
9933599 ATTAGCGACGCTTTCCTGAAAACGCCCCTAAAGCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * *
9933640 ATTAGCGGCGCTTTACCAAAAACGTCGCTAAAGCCATGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * * *
9933681 ATTAGTGACGCTTT-CCAACAAACGCCGCTAAAGCCCTAGGA
1 ATTAGCGGCGCTTTCCCAA-AAACGCCGCTAAAGCCCTGGGC
*
9933722 ATTAGCGGCGCTTTCCCAAAAACGCCTCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* **
9933763 ATCAGCGGCGCTTTCCCAAAAATACCGCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
*
9933804 ATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGGGC
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
* * *
9933845 ATTAGTGGCGC-TTCCTCAAAAATGCCGCTAAAGCCCTGAGC
1 ATTAGCGGCGCTTTCC-CAAAAACGCCGCTAAAGCCCTGGGC
* ** * *
9933886 ATTAGTGGCGCTTTCTTAAAAATGCCGCTAAATCCCTG
1 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTG
9933924 AAAGCTCACA
Statistics
Matches: 308, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
32 26 0.08
33 1 0.00
34 1 0.00
36 1 0.00
37 1 0.00
39 1 0.00
40 8 0.03
41 262 0.85
42 7 0.02
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGGGC
Found at i:9933603 original size:32 final size:32
Alignment explanation
Indices: 9933562--9933624 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9933552 GCTAAAGGTC
*
9933562 TGGGCATTAGCGGCGCTTTCCCAAAAACGCCA
1 TGGGCATTAGCGACGCTTTCCCAAAAACGCCA
**
9933594 TGGGCATTAGCGACGCTTTCCTGAAAACGCC
1 TGGGCATTAGCGACGCTTTCCCAAAAACGCC
9933625 CCTAAAGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (32 bp):
TGGGCATTAGCGACGCTTTCCCAAAAACGCCA
Found at i:9934027 original size:39 final size:39
Alignment explanation
Indices: 9933976--9934091 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
9933966 CGCTTTCTTG
* * *
9933976 AAAA-CGCGGCTAATGCTTATTTTTAGCGGCGTTTTTCG
1 AAAAGCGCCGCTAATGCTTATCTTTAGCGGCGTTTTTCA
* * *
9934014 TAAAGCGCCGCTAAAT-CTCAATCTTTAGCGGCGTTTTCCA
1 AAAAGCGCCGCT-AATGCT-TATCTTTAGCGGCGTTTTTCA
* *
9934054 AAAAGCGCCACTAATGCTTGATCTTTAGTGGCGTTTTT
1 AAAAGCGCCGCTAATGCTT-ATCTTTAGCGGCGTTTTT
9934092 TATCCAAACG
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
38 3 0.05
39 11 0.18
40 48 0.77
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTTATCTTTAGCGGCGTTTTTCA
Found at i:9935414 original size:22 final size:22
Alignment explanation
Indices: 9935389--9935435 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9935379 TTGAGATACT
9935389 TTTATTCACGATTATGAACTGA
1 TTTATTCACGATTATGAACTGA
*
9935411 TTTATTCATGATTATGAACTGA
1 TTTATTCACGATTATGAACTGA
9935433 TTT
1 TTT
9935436 TCTAAATACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTATTCACGATTATGAACTGA
Found at i:9939696 original size:27 final size:27
Alignment explanation
Indices: 9939663--9939783 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
9939653 ATGAAAGAAA
*
9939663 AGCCTTTGTGGCGAACTATAAAAGAGT
1 AGCCTTTGTGGCGAAATATAAAAGAGT
*
9939690 AGTCTTTGTGGCGAAATATAAAAGAGT
1 AGCCTTTGTGGCGAAATATAAAAGAGT
* * *
9939717 AGTCTTTGTGGCAAAATATGAAAGAGT
1 AGCCTTTGTGGCGAAATATAAAAGAGT
* *
9939744 AGCCTTTGTGGCAAAATATGAAAGA-T
1 AGCCTTTGTGGCGAAATATAAAAGAGT
*
9939770 AGCCTTTATGGCGA
1 AGCCTTTGTGGCGA
9939784 GCCCTACAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 13 0.15
27 74 0.85
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
AGCCTTTGTGGCGAAATATAAAAGAGT
Found at i:9946711 original size:12 final size:12
Alignment explanation
Indices: 9946694--9946719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9946684 AAAGTTACAT
9946694 GGCCTAGCACAC
1 GGCCTAGCACAC
9946706 GGCCTAGCACAC
1 GGCCTAGCACAC
9946718 GG
1 GG
9946720 GCATGTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:9951654 original size:18 final size:18
Alignment explanation
Indices: 9951631--9951666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9951621 CTTACCGTAA
9951631 GAGTTAGAAAAGGTTCAC
1 GAGTTAGAAAAGGTTCAC
9951649 GAGTTAGAAAAGGTTCAC
1 GAGTTAGAAAAGGTTCAC
9951667 AATGTATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (18 bp):
GAGTTAGAAAAGGTTCAC
Found at i:9955345 original size:12 final size:13
Alignment explanation
Indices: 9955300--9955356 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
9955290 ACACTCAAAA
* *
9955300 TTTTCAAAAGCAA
1 TTTTCAAAAACAC
*
9955313 TTTTCTAAAACAC
1 TTTTCAAAAACAC
*
9955326 TTTTTTC-ACAACAC
1 --TTTTCAAAAACAC
9955340 TTTTCAAAAACAC
1 TTTTCAAAAACAC
9955353 TTTT
1 TTTT
9955357 TTAACTTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 5 0.14
13 20 0.56
14 6 0.17
15 5 0.14
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:9956893 original size:243 final size:243
Alignment explanation
Indices: 9956465--9956953 Score: 969
Period size: 243 Copynumber: 2.0 Consensus size: 243
9956455 CAATATGCCA
9956465 AAGCCTATATGCTTTGGATAGTAGGAAGAATGTCTTATCTAGAAAAGCTTAGCAATAAGGTTTAT
1 AAGCCTATATGCTTTGGATAGTAGGAAGAATGTCTTATCTAGAAAAGCTTAGCAATAAGGTTTAT
9956530 TACATGTATCTTCCTCTACTAGAGTCATTTCACACGATAGGTAAATTATTATGGTTCATTGACTT
66 TACATGTATCTTCCTCTACTAGAGTCATTTCACACGATAGGTAAATTATTATGGTTCATTGACTT
9956595 TGGCATATCTGTATAGGACTCAACATCTGATCAATGAAATACATGGTTATTTTCTAGTTTTGAAA
131 TGGCATATCTGTATAGGACTCAACATCTGATCAATGAAATACATGGTTATTTTCTAGTTTTGAAA
9956660 ACTTAAGTATGGATATGGATGCCAAGGTTAGTGCCTATACCTTTGAGG
196 ACTTAAGTATGGATATGGATGCCAAGGTTAGTGCCTATACCTTTGAGG
*
9956708 AAGCCTATATGCTTTGGATAGTAGGAAGAATGTTTTATCTAGAAAAGCTTAGCAATAAGGTTTAT
1 AAGCCTATATGCTTTGGATAGTAGGAAGAATGTCTTATCTAGAAAAGCTTAGCAATAAGGTTTAT
9956773 TACATGTATCTTCCTCTACTAGAGTCATTTCACACGATAGGTAAATTATTATGGTTCATTGACTT
66 TACATGTATCTTCCTCTACTAGAGTCATTTCACACGATAGGTAAATTATTATGGTTCATTGACTT
9956838 TGGCATATCTGTATAGGACTCAACATCTGATCAATGAAATACATGGTTATTTTCTAGTTTTGAAA
131 TGGCATATCTGTATAGGACTCAACATCTGATCAATGAAATACATGGTTATTTTCTAGTTTTGAAA
9956903 ACTTAAGTATGGATATGGATGCCAAGGTTAGTGCCTATACCTTTGAGG
196 ACTTAAGTATGGATATGGATGCCAAGGTTAGTGCCTATACCTTTGAGG
9956951 AAG
1 AAG
9956954 GAGTTCTATT
Statistics
Matches: 245, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 245 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (243 bp):
AAGCCTATATGCTTTGGATAGTAGGAAGAATGTCTTATCTAGAAAAGCTTAGCAATAAGGTTTAT
TACATGTATCTTCCTCTACTAGAGTCATTTCACACGATAGGTAAATTATTATGGTTCATTGACTT
TGGCATATCTGTATAGGACTCAACATCTGATCAATGAAATACATGGTTATTTTCTAGTTTTGAAA
ACTTAAGTATGGATATGGATGCCAAGGTTAGTGCCTATACCTTTGAGG
Found at i:9974554 original size:32 final size:31
Alignment explanation
Indices: 9974504--9974599 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
9974494 CTTAGATAAT
9974504 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9974535 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
9974567 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
9974598 TT
1 TT
9974600 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:9980248 original size:27 final size:27
Alignment explanation
Indices: 9980216--9980279 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
9980206 AAGAACATAC
9980216 TAAAAACATGTAATAGAATAAGACAAAT
1 TAAAAACATGTAATAG-ATAAGACAAAT
* * * *
9980244 TAAAAACATGTACTAGCTATGACATAT
1 TAAAAACATGTAATAGATAAGACAAAT
9980271 T-AAAACATG
1 TAAAAACATG
9980280 CATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.25
27 9 0.28
28 15 0.47
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (27 bp):
TAAAAACATGTAATAGATAAGACAAAT
Found at i:9982236 original size:18 final size:17
Alignment explanation
Indices: 9982215--9982272 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
9982205 GCTCTCAATC
9982215 TCTTTTTCTTTTTTGATT
1 TCTTTTTCTTTTTT-ATT
* *
9982233 TCTTTTTCTTTCATT-TC
1 TCTTTTTCTTT-TTTATT
9982250 TCTTTTTC-TTTTTATT
1 TCTTTTTCTTTTTTATT
9982266 TCTTTTT
1 TCTTTTT
9982273 GACTCATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 9 0.26
18 11 0.32
19 2 0.06
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTTTTTATT
Found at i:9982280 original size:33 final size:35
Alignment explanation
Indices: 9982213--9982280 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 35
9982203 TCGCTCTCAA
**
9982213 TCTCTTTTTCTTTTTTGATTTCTTTTTCTTTCATT
1 TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
*
9982248 TCTCTTTTTC-TTTTT-ATTTCTTTTTGACTCATT
1 TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
9982281 CTTTCATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 15 0.50
34 5 0.17
35 10 0.33
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (35 bp):
TCTCTTTTTCTTTTTTGATTTCTTTTTCACTCATT
Found at i:9984659 original size:28 final size:27
Alignment explanation
Indices: 9984627--9984686 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
9984617 AAGAACATAC
9984627 TAAAAACATGTAATATACTAAGACAAAT
1 TAAAAACATGTAATAT-CTAAGACAAAT
* * *
9984655 TAAAAACATGTACTATCTATGACATAT
1 TAAAAACATGTAATATCTAAGACAAAT
9984682 TAAAA
1 TAAAA
9984687 CACGCATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAAACATGTAATATCTAAGACAAAT
Found at i:9985828 original size:137 final size:138
Alignment explanation
Indices: 9985578--9985834 Score: 317
Period size: 137 Copynumber: 1.9 Consensus size: 138
9985568 GCTATAAGAT
* *
9985578 GGTCTGCTCACACAAGCTAATGGTCGGAATGTAAACTACACAATGCTGCTCGCACAAGATGATGA
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAAACTACACAATGCTGCTCACACAAGATGATGA
* * * **
9985643 GTATCTATAACTAATGTCGAACCTCAGCCATCAGTAGGACATTTAGGACCAGCACCCAAAACATG
66 GTATCCATAACAAATGTCGAAACTCAGCCATCAGTAGGACATCCAGGACCAGCACCCAAAACATG
9985708 GCAACCTG
131 GCAACCTG
* * * * *
9985716 GGTCTGCTCACACGAGCTGACGGTCGGAATGT-AGCTACACGATG-TCGCTCACACAAGCTGATG
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAAACTACACAATGCT-GCTCACACAAGATGATG
* *
9985779 AGTATTCGCA-AA-AAATG-CTGAAACTTAGCCATCTGTAGGACATCCAGGACCAGCAC
65 AGTA-TC-CATAACAAATGTC-GAAACTCAGCCATCAGTAGGACATCCAGGACCAGCAC
9985835 TTGAAATAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
136 2 0.02
137 65 0.64
138 33 0.33
139 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (138 bp):
GGTCTGCTCACACAAGCTAACGGTCGGAATGTAAACTACACAATGCTGCTCACACAAGATGATGA
GTATCCATAACAAATGTCGAAACTCAGCCATCAGTAGGACATCCAGGACCAGCACCCAAAACATG
GCAACCTG
Found at i:9991097 original size:27 final size:27
Alignment explanation
Indices: 9990920--9991120 Score: 217
Period size: 27 Copynumber: 7.5 Consensus size: 27
9990910 TTTACCCCCA
*
9990920 TAGGGTAAAATGACCGTAATA-TCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
9990946 TAGGGTTAAATGACAGTAATACCCTTA
1 TAGGGTAAAATGACCGTAATACCCCTG
*
9990973 TAGGGTAAAATGGCCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* *
9991000 TAGGGTAAAATGACTGTAATAACCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
9991027 TAAGGTAAAATGACTGTAATGCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
* * *
9991054 TAGGGTAAAATGCCCATAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTG
* * * *
9991081 TAGGGTTAAATGACCATAATGCCCTTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
9991108 GAGGGT-AAATGAC
1 TAGGGTAAAATGAC
9991121 TATTTTGCCC
Statistics
Matches: 146, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 26 0.18
27 120 0.82
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:9991115 original size:81 final size:79
Alignment explanation
Indices: 9990912--9991121 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 79
9990902 TTGATCGATT
* * * *
9990912 TACCCCCATAGGGTAAAATGACCGTAATATCCTGTAGGGTTAAATGACAGTAATACCCTTATAGG
1 TACCCCTATAGGGTAAAATGACCGTAATACCCTGTAGGG-TAAATGACTGTAATACCCCTATAGG
* *
9990977 GTAAAATGGCCGTAA
65 GTAAAATGCCCATAA
* * * * *
9990992 TACCCCTGTAGGGTAAAATGACTGTAATAACCCTGTAAGGTAAAATGACTGTAATGCCCCTGTAG
1 TACCCCTATAGGGTAAAATGACCGTAAT-ACCCTGTAGGGT-AAATGACTGTAATACCCCTATAG
9991057 GGTAAAATGCCCATAA
64 GGTAAAATGCCCATAA
* * * *
9991073 TACCCCTATAGGGTTAAATGACCATAATGCCCTTGGAGGGTAAATGACT
1 TACCCCTATAGGGTAAAATGACCGTAATACCC-TGTAGGGTAAATGACT
9991122 ATTTTGCCCC
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
80 37 0.34
81 72 0.66
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (79 bp):
TACCCCTATAGGGTAAAATGACCGTAATACCCTGTAGGGTAAATGACTGTAATACCCCTATAGGG
TAAAATGCCCATAA
Found at i:9991116 original size:26 final size:26
Alignment explanation
Indices: 9990920--9991146 Score: 127
Period size: 27 Copynumber: 8.5 Consensus size: 26
9990910 TTTACCCCCA
* **
9990920 TAGGGTAAAATGACCGTAAT-ATCCTG
1 TAGGGT-AAATGACCATAATGCCCCTG
* * *
9990946 TAGGGTTAAATGA-CAGTAATACCCTTA
1 TAGGG-TAAATGACCA-TAATGCCCCTG
* * *
9990973 TAGGGTAAAATGGCCGTAATACCCCTG
1 TAGGGT-AAATGACCATAATGCCCCTG
** **
9991000 TAGGGTAAAATGACTGTAATAACCCTG
1 TAGGGT-AAATGACCATAATGCCCCTG
* **
9991027 TAAGGTAAAATGACTGTAATGCCCCTG
1 TAGGGT-AAATGACCATAATGCCCCTG
* * *
9991054 TAGGGTAAAATGCCCATAATACCCCTA
1 TAGGGT-AAATGACCATAATGCCCCTG
*
9991081 TAGGGTTAAATGACCATAATGCCCTTG
1 TAGGG-TAAATGACCATAATGCCCCTG
* * **
9991108 GAGGGTAAATGACTATTTTGCCCCTCG
1 TAGGGTAAATGACCATAATGCCCCT-G
*
9991135 -AGTGTAAATGAC
1 TAGGGTAAATGAC
9991147 TGAATTTTCT
Statistics
Matches: 163, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.01
26 43 0.26
27 117 0.72
28 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (26 bp):
TAGGGTAAATGACCATAATGCCCCTG
Found at i:9991300 original size:27 final size:27
Alignment explanation
Indices: 9991244--9991301 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
9991234 GGAAGTATTG
* * *
9991244 TACTGGTGGCTTTGCCACAATCACTGT
1 TACTAGTGGCTTGGCCACAATCACTAT
*
9991271 TACTAGTGGCTTGGCCACGTAT-ACTAT
1 TACTAGTGGCTTGGCCAC-AATCACTAT
9991298 TACT
1 TACT
9991302 GCCAGCTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTAGTGGCTTGGCCACAATCACTAT
Found at i:9991362 original size:32 final size:31
Alignment explanation
Indices: 9991319--9991508 Score: 218
Period size: 32 Copynumber: 6.0 Consensus size: 31
9991309 TTGTTGCGAT
9991319 GTTACTGATGGCTTTGTGCCGATCATATTATC
1 GTTACTGATGGCTTTGTGCCGATCATATTA-C
* *
9991351 GTTACTCATGGCTTTGTGTCGATCATATTAC
1 GTTACTGATGGCTTTGTGCCGATCATATTAC
9991382 TGTTACTGATGGCTTTGTGCCGATCATATTAAC
1 -GTTACTGATGGCTTTGTGCCGATCATATT-AC
* **
9991415 GTTATTGATGATTTTGTGCCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTA-C
* * * * * *
9991447 GCTACGGATGGCTATGTTCTGATCATATCAC
1 GTTACTGATGGCTTTGTGCCGATCATATTAC
* *
9991478 TGTTACTGATGGCTTTGTTCCAATCATATTA
1 -GTTACTGATGGCTTTGTGCCGATCATATTA
9991509 TTGTACTTAT
Statistics
Matches: 132, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
31 3 0.02
32 127 0.96
33 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (31 bp):
GTTACTGATGGCTTTGTGCCGATCATATTAC
Found at i:9991488 original size:96 final size:96
Alignment explanation
Indices: 9991331--9991508 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
9991321 TACTGATGGC
* * * * *
9991331 TTTGTGCCGATCATATTATCGTTACTCATGGCTTTGTGTCGATCATATTACTGTTACTGATGGCT
1 TTTGTGCCGATCATATTACCGCTACGCATGGCTATGTGTCGATCATATCACTGTTACTGATGGCT
*
9991396 TTGTGCCGATCATATTAACGTTATTGATGAT
66 TTGTGCCAATCATATTAACGTTATTGATGAT
*
9991427 TTTGTGCCGATCATATTACCGCTACGGATGGCTATGT-TCTGATCATATCACTGTTACTGATGGC
1 TTTGTGCCGATCATATTACCGCTACGCATGGCTATGTGTC-GATCATATCACTGTTACTGATGGC
*
9991491 TTTGTTCCAATCATATTA
65 TTTGTGCCAATCATATTA
9991509 TTGTACTTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 2 0.03
96 71 0.97
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (96 bp):
TTTGTGCCGATCATATTACCGCTACGCATGGCTATGTGTCGATCATATCACTGTTACTGATGGCT
TTGTGCCAATCATATTAACGTTATTGATGAT
Found at i:9991651 original size:29 final size:26
Alignment explanation
Indices: 9991582--9991644 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
9991572 CCATTCTGGC
*
9991582 TACTGGCAGCTCTGTTGTATTATTAA
1 TACTGGCAGCTCTGCTGTATTATTAA
*
9991608 TACTGGCAGCTCTGCTGTATTATTAC
1 TACTGGCAGCTCTGCTGTATTATTAA
*
9991634 TACTGGTAGCT
1 TACTGGCAGCT
9991645 ATCCTGCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
TACTGGCAGCTCTGCTGTATTATTAA
Found at i:9991800 original size:28 final size:28
Alignment explanation
Indices: 9991767--9991820 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9991757 CATACTGACA
*
9991767 CTGTA-TAGGGCTTAGGCCCACACTGTTT
1 CTGTATTAGGG-TAAGGCCCACACTGTTT
*
9991795 CTGTATTAGGGTAAGGCTCACACTGT
1 CTGTATTAGGGTAAGGCCCACACTGT
9991821 ACTGTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
CTGTATTAGGGTAAGGCCCACACTGTTT
Found at i:9995409 original size:48 final size:48
Alignment explanation
Indices: 9995354--9995459 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
9995344 TTGTCTTTTC
*
9995354 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
9995402 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
9995450 TTTCTTTTTC
1 TTTCTTTTTC
9995460 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:9997652 original size:20 final size:19
Alignment explanation
Indices: 9997629--9997693 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
9997619 AAGCTCAAAC
9997629 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
9997649 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
9997669 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
9997689 GAGCT
1 GAGCT
9997694 GGGAAAGACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:10010125 original size:20 final size:20
Alignment explanation
Indices: 10010100--10010137 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10010090 CGTAATATGA
*
10010100 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
10010120 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
10010138 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:10010134 original size:34 final size:35
Alignment explanation
Indices: 10010085--10010151 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
10010075 CAGTAAAATG
* *
10010085 TTTTCCGTAATATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
10010119 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
10010152 CTGGTGCTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:10011499 original size:27 final size:28
Alignment explanation
Indices: 10011469--10011535 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
10011459 TAATCAATTT
*
10011469 AATATCCAACAAGGTT-AAAACATA-ATC
1 AATATCCAACAA-ATTCAAAACATATATC
* *
10011496 AATATCAAACAAATTCAAGACATATATC
1 AATATCCAACAAATTCAAAACATATATC
*
10011524 AAAATCCAACAA
1 AATATCCAACAA
10011536 TCTAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 18 0.55
28 13 0.39
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.21
Consensus pattern (28 bp):
AATATCCAACAAATTCAAAACATATATC
Found at i:10013134 original size:37 final size:37
Alignment explanation
Indices: 10013084--10013155 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
10013074 CTTATTTTTT
10013084 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
1 CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
10013121 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
1 CCATTAGATTAGAATTCACTAACTATTTAATTAAT
10013156 TATGACTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (37 bp):
CCATTAGATTAGAATTCACTAACTATTTAATTAATCA
Found at i:10015180 original size:14 final size:14
Alignment explanation
Indices: 10015163--10015195 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10015153 GTGGAGGACC
10015163 GGAGGTGGACCGGT
1 GGAGGTGGACCGGT
*
10015177 GGAGGTGGATCGGT
1 GGAGGTGGACCGGT
10015191 GGAGG
1 GGAGG
10015196 ACGGAGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.61, T:0.15
Consensus pattern (14 bp):
GGAGGTGGACCGGT
Found at i:10016152 original size:21 final size:22
Alignment explanation
Indices: 10016128--10016168 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10016118 AACTCCTGAA
*
10016128 AATAAATAACAAA-AATTAAAG
1 AATAAAAAACAAAGAATTAAAG
*
10016149 AATAAAAAATAAAGAATTAA
1 AATAAAAAACAAAGAATTAA
10016169 TTAGTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (22 bp):
AATAAAAAACAAAGAATTAAAG
Found at i:10016165 original size:14 final size:14
Alignment explanation
Indices: 10016126--10016165 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10016116 TAAACTCCTG
* *
10016126 AAAATAAATAACAA
1 AAAATAAAGAATAA
*
10016140 AAATTAAAGAATAA
1 AAAATAAAGAATAA
10016154 AAAATAAAGAAT
1 AAAATAAAGAAT
10016166 TAATTAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (14 bp):
AAAATAAAGAATAA
Found at i:10016523 original size:32 final size:32
Alignment explanation
Indices: 10016487--10016551 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
10016477 ATCTAAGTAT
10016487 GATAATTAATTAAAATGTATGAGATGAATTTA
1 GATAATTAATTAAAATGTATGAGATGAATTTA
10016519 GATAATTAATTAAAATGTATGAGATGAATTTA
1 GATAATTAATTAAAATGTATGAGATGAATTTA
10016551 G
1 G
10016552 CAGCAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (32 bp):
GATAATTAATTAAAATGTATGAGATGAATTTA
Found at i:10016851 original size:21 final size:21
Alignment explanation
Indices: 10016825--10016865 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10016815 ATAATAGAGC
10016825 TCGTTAAAGTTATTATGAACT
1 TCGTTAAAGTTATTATGAACT
10016846 TCGTTAAAGTTATTATGAAC
1 TCGTTAAAGTTATTATGAAC
10016866 CTTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TCGTTAAAGTTATTATGAACT
Found at i:10019974 original size:97 final size:97
Alignment explanation
Indices: 10019808--10019993 Score: 372
Period size: 97 Copynumber: 1.9 Consensus size: 97
10019798 AGCCCGTTGA
10019808 GCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTGATAATAACATGCCAAAGCCATGTCC
1 GCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTGATAATAACATGCCAAAGCCATGTCC
10019873 CAGACATGGTCTTACATGGGATGTCTCATTGT
66 CAGACATGGTCTTACATGGGATGTCTCATTGT
10019905 GCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTGATAATAACATGCCAAAGCCATGTCC
1 GCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTGATAATAACATGCCAAAGCCATGTCC
10019970 CAGACATGGTCTTACATGGGATGT
66 CAGACATGGTCTTACATGGGATGT
10019994 TTCTTGTACT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (97 bp):
GCCACATTGGAATAATAAGGATACTTGGGTCTCTTTTCTGATAATAACATGCCAAAGCCATGTCC
CAGACATGGTCTTACATGGGATGTCTCATTGT
Found at i:10020096 original size:50 final size:50
Alignment explanation
Indices: 10020042--10020148 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
10020032 ACATGAGAGT
* ** *
10020042 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACC
* * *
10020092 TCTCATCTCGGTGCCAACACCATGTCCTAGACATGGTCTTACATGGGACC
1 TCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACC
10020142 TCTCATA
1 TCTCATA
10020149 ATCTCAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACC
Found at i:10027475 original size:50 final size:50
Alignment explanation
Indices: 10027358--10027599 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 50
10027348 GATAATAACA
* * *
10027358 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * * *
10027407 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** * *
10027457 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGAACTCTAATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * ** *
10027507 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTGAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-ATC-G----G
*
10027563 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
10027600 TCTCTTTACC
Statistics
Matches: 154, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.03
49 36 0.23
50 77 0.50
51 2 0.01
52 1 0.01
56 34 0.22
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:10028600 original size:13 final size:13
Alignment explanation
Indices: 10028582--10028615 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
10028572 CCAAAATGTC
10028582 GAAATTTTTGAAT
1 GAAATTTTTGAAT
10028595 GAAATTTTTGAAT
1 GAAATTTTTGAAT
10028608 GAAATTTT
1 GAAATTTT
10028616 CATGTAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (13 bp):
GAAATTTTTGAAT
Found at i:10045240 original size:21 final size:20
Alignment explanation
Indices: 10045200--10045240 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10045190 ATTATTTGAT
*
10045200 CCTTTAAATTGAATTTTTAA
1 CCTTTAAATCGAATTTTTAA
*
10045220 CCTTTAAATCGCATATTTTAA
1 CCTTTAAATCGAAT-TTTTAA
10045241 ATAAAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
CCTTTAAATCGAATTTTTAA
Found at i:10048719 original size:50 final size:51
Alignment explanation
Indices: 10048644--10048834 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
10048634 GTGAAATTGC
*
10048644 TAGGTCACATGTGTAGTACTATGTGCAGGCTGCTATGTGTACTGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGAA
* * * **
10048694 TAGGTCACATGTGTAGTACTGTGTGCAGGCTACTATGCGTAC-CGAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAT-GAA
* * * * *
10048745 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTA-TCGG-ATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACT-GGAATGAA
* * *
10048795 AATGGTCACATGTATAGTACTATGTGCAGGCTACTTTGTG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
10048835 AGCCGGGTAT
Statistics
Matches: 113, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.04
50 41 0.36
51 67 0.59
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGAA
Found at i:10053976 original size:50 final size:51
Alignment explanation
Indices: 10053901--10054091 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
10053891 GTGAAATTGC
*
10053901 TAGGTCACATGTGTAGTACTATGTGCAGGCTGCTATGTGTACTGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGAA
* * * **
10053951 TAGGTCACATGTGTAGTACTGTGTGCAGGCTACTATGCGTAC-CGAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAT-GAA
* * * * *
10054002 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTA-TCGG-ATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACT-GGAATGAA
* * *
10054052 AATGGTCACATGTATAGTACTATGTGCAGGCTACTTTGTG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
10054092 AGCCGGGTAT
Statistics
Matches: 113, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.04
50 41 0.36
51 67 0.59
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAATGAA
Found at i:10060054 original size:43 final size:43
Alignment explanation
Indices: 10060006--10060092 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
10059996 GTGAAAAAAT
10060006 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
10060049 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
10060092 G
1 G
10060093 TCGCGTGCCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
Found at i:10062152 original size:21 final size:21
Alignment explanation
Indices: 10062128--10062171 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10062118 AAGTTATATA
10062128 TAAGTT-TATATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
10062149 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
10062170 TA
1 TA
10062172 TTGTGCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:10062159 original size:12 final size:12
Alignment explanation
Indices: 10062112--10062168 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
10062102 AACATGAAAG
10062112 TTATGTAAGTTA
1 TTATGTAAGTTA
*
10062124 -TATATAAGTT-
1 TTATGTAAGTTA
*
10062134 TATATATAAG---
1 T-TATGTAAGTTA
10062144 TTATGTAAGTTA
1 TTATGTAAGTTA
10062156 TTATGTAAGTTA
1 TTATGTAAGTTA
10062168 T
1 T
10062169 GTATTGTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 7 0.18
10 1 0.03
11 9 0.24
12 21 0.55
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:10062237 original size:12 final size:13
Alignment explanation
Indices: 10062124--10062237 Score: 52
Period size: 12 Copynumber: 9.4 Consensus size: 13
10062114 ATGTAAGTTA
*
10062124 TATATAAGTT-TA
1 TATATAAGTTATG
10062136 TATATAAGTTATG
1 TATATAAGTTATG
10062149 ----TAAGTTAT-
1 TATATAAGTTATG
*
10062157 TATGTAAGTTATG
1 TATATAAGTTATG
* *
10062170 TATTGTGCAAGTT-TA
1 TA-TAT--AAGTTATG
*
10062185 TATATAAATT-T-
1 TATATAAGTTATG
*
10062196 TATTTAAGTTATG
1 TATATAAGTTATG
* *
10062209 TATGTAGGTT-TG
1 TATATAAGTTATG
10062221 TATATAAGTTATG
1 TATATAAGTTATG
10062234 -ATAT
1 TATAT
10062238 GATTGATAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
9 8 0.10
11 8 0.10
12 38 0.47
13 13 0.16
14 5 0.06
15 3 0.04
16 5 0.06
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (13 bp):
TATATAAGTTATG
Found at i:10062311 original size:17 final size:19
Alignment explanation
Indices: 10062277--10062317 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10062267 GATATGGTTG
10062277 ATAAATTGTTTAAAAATAT
1 ATAAATTGTTTAAAAATAT
10062296 ATAAATT-TTTAAAATATAT
1 ATAAATTGTTTAAAA-ATAT
10062315 ATA
1 ATA
10062318 TTAAAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAAATTGTTTAAAAATAT
Found at i:10062372 original size:24 final size:22
Alignment explanation
Indices: 10062334--10062379 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
10062324 ATGTATATAA
*
10062334 ATATTAATAAGTTATGTAAGTTAT
1 ATATTAAAAAGTTA--TAAGTTAT
*
10062358 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
10062380 GTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:10062375 original size:22 final size:22
Alignment explanation
Indices: 10062312--10062379 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
10062302 TTTTAAAATA
*
10062312 TATATATTAAAAATGTAT-A--
1 TATATATTAAAAATTTATAAGT
* * *
10062331 TAAATATTAATAAGTTATGTAAGT
1 TATATATTAA-AAATT-TATAAGT
10062355 TATATATTAAAAATTTATAAGT
1 TATATATTAAAAATTTATAAGT
10062377 TAT
1 TAT
10062380 GTAAAATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
21 2 0.05
22 10 0.27
23 4 0.11
24 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TATATATTAAAAATTTATAAGT
Found at i:10067081 original size:17 final size:17
Alignment explanation
Indices: 10067059--10067108 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
10067049 TCCCAGATTT
10067059 TGATACCCATATCTTTA
1 TGATACCCATATCTTTA
* *
10067076 TGATACTCATATCTTTC
1 TGATACCCATATCTTTA
10067093 TGATACCCATATCTTT
1 TGATACCCATATCTTT
10067109 GACTTTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTA
Found at i:10073989 original size:7 final size:7
Alignment explanation
Indices: 10073979--10074031 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
10073969 CACTAACTCT
10073979 TAACCTC
1 TAACCTC
10073986 TAACCTC
1 TAACCTC
*
10073993 AAACC-C
1 TAACCTC
*
10073999 TAACCCC
1 TAACCTC
*
10074006 TAACCTT
1 TAACCTC
*
10074013 TAACCCC
1 TAACCTC
*
10074020 TAACCAC
1 TAACCTC
10074027 TAACC
1 TAACC
10074032 CTTAAACATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCTC
Found at i:10073997 original size:14 final size:14
Alignment explanation
Indices: 10073979--10074032 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
10073969 CACTAACTCT
*
10073979 TAACCTCTAACCTC
1 TAACCTCTAACCCC
*
10073993 AAACC-CTAACCCC
1 TAACCTCTAACCCC
*
10074006 TAACCTTTAACCCC
1 TAACCTCTAACCCC
*
10074020 TAACCACTAACCC
1 TAACCTCTAACCC
10074033 TTAAACATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:10074022 original size:21 final size:20
Alignment explanation
Indices: 10073979--10074038 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
10073969 CACTAACTCT
* *
10073979 TAACCTCTAACCTCAAACCC
1 TAACCACTAACCTTAAACCC
* *
10073999 TAACCCCTAACCTTTAACCCC
1 TAACCACTAACC-TTAAACCC
10074020 TAACCACTAACCCTTAAAC
1 TAACCACTAA-CCTTAAAC
10074039 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 11 0.33
21 20 0.61
22 2 0.06
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (20 bp):
TAACCACTAACCTTAAACCC
Found at i:10074141 original size:36 final size:35
Alignment explanation
Indices: 10074088--10074176 Score: 133
Period size: 35 Copynumber: 2.5 Consensus size: 35
10074078 ACCCTAACCC
*
10074088 AACCCCTGAATCCCTAAACCTTAAATCCCTAACTCTT
1 AACCCCT-AATCCCTAAACCTTAAATCCC-AACCCTT
*
10074125 AACCCCTAACCCCTAAACCTTAAATCCCAACCCTT
1 AACCCCTAATCCCTAAACCTTAAATCCCAACCCTT
*
10074160 AACCCATAATCCCTAAA
1 AACCCCTAATCCCTAAA
10074177 TCCATACTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.44
36 20 0.42
37 7 0.15
ACGTcount: A:0.36, C:0.40, G:0.01, T:0.22
Consensus pattern (35 bp):
AACCCCTAATCCCTAAACCTTAAATCCCAACCCTT
Found at i:10074157 original size:28 final size:28
Alignment explanation
Indices: 10074125--10074179 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
10074115 CCTAACTCTT
* *
10074125 AACCCCTAACCCCTAAACCTTAAATCCC
1 AACCCCTAACCCATAAACCCTAAATCCC
* *
10074153 AACCCTTAACCCATAATCCCTAAATCC
1 AACCCCTAACCCATAAACCCTAAATCC
10074180 ATACTCCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (28 bp):
AACCCCTAACCCATAAACCCTAAATCCC
Found at i:10074599 original size:40 final size:39
Alignment explanation
Indices: 10074540--10074773 Score: 193
Period size: 40 Copynumber: 5.8 Consensus size: 39
10074530 TAAAATGTTT
* * *
10074540 TTAGCGGCGCTTTTCAAAAATGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTT-AAAAACGCCGCTAAAACCCACAGCA
* *
10074580 TTAGCGACGCGTTTTAAAAACGCCGCTAAAACCCAGAGCA
1 TTAGCGGCGC-TTTTAAAAACGCCGCTAAAACCCACAGCA
* * ** *
10074620 TTAGCGGTGCTTTTTAAAAAACACCGCTAAAACAAAGAGCA
1 TTAGCGGCGC-TTTT-AAAAACGCCGCTAAAACCCACAGCA
*
10074661 -TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCA-AGCA
1 TTAGCGGCGC-TTTT-AAAAACGCCGCTAAA-ACCCACAGCA
* * * *
10074701 TTAGCAGCACTTTTTAAAAAGCGTCGCTAAAACCCAGAGCA
1 TTAGCGGCGC-TTTTAAAAA-CGCCGCTAAAACCCACAGCA
* * *
10074742 CTAGCGGCACTTTTTAAAAAACGCTGCTAAAA
1 TTAGCGGCGC-TTTT-AAAAACGCCGCTAAAA
10074774 AATGGCCGCT
Statistics
Matches: 162, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
40 82 0.51
41 75 0.46
42 5 0.03
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGCTTTTAAAAACGCCGCTAAAACCCACAGCA
Found at i:10074652 original size:41 final size:41
Alignment explanation
Indices: 10074540--10074773 Score: 251
Period size: 41 Copynumber: 5.8 Consensus size: 41
10074530 TAAAATGTTT
* * * **
10074540 TTAGCGGCGC-TTTTCAAAAATGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAGCA
* *
10074580 TTAGCGACGCGTTTT-AAAAACGCCGCTAAAACCCAGAGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAGCA
* * **
10074620 TTAGCGGTGCTTTTTAAAAAACACCGCTAAAACAAAGAGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAGCA
* *
10074661 -TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCA-AGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAA-ACCCAGAGCA
* * * *
10074701 TTAGCAGCACTTTTTAAAAAGCGTCGCTAAAACCCAGAGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAGCA
* * *
10074742 CTAGCGGCACTTTTTAAAAAACGCTGCTAAAA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAA
10074774 AATGGCCGCT
Statistics
Matches: 161, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
40 77 0.48
41 84 0.52
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAGCA
Found at i:10074680 original size:81 final size:80
Alignment explanation
Indices: 10074576--10074773 Score: 227
Period size: 81 Copynumber: 2.4 Consensus size: 80
10074566 TAAAGCCCCC
* * * * **
10074576 AGCATTAGCGACGCGTTTTAAAAACGCCGCTAAAACCCAGAGCATTAGCGGTGCTTTTTAAAAAA
1 AGCACTAGCGGCGCTTTTTAAAAACGCCGCTAAAACCCA-AGCATTAGCAGCACTTTTTAAAAAA
10074641 CACCGCTAAAACAAAG
65 CACCGCTAAAACAAAG
*
10074657 AGCA-TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGCATTAGCAGCACTTTTTAAAAA
1 AGCACTAGCGGCGCTTTTT-AAAAACGCCGCTAAA-ACCCAAGCATTAGCAGCACTTTTTAAAAA
* ** **
10074721 GCGTCGCTAAAACCCAG
64 ACACCGCTAAAACAAAG
* *
10074738 AGCACTAGCGGCACTTTTTAAAAAACGCTGCTAAAA
1 AGCACTAGCGGCGCTTTTT-AAAAACGCCGCTAAAA
10074774 AATGGCCGCT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
80 12 0.12
81 56 0.57
82 31 0.31
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (80 bp):
AGCACTAGCGGCGCTTTTTAAAAACGCCGCTAAAACCCAAGCATTAGCAGCACTTTTTAAAAAAC
ACCGCTAAAACAAAG
Found at i:10074837 original size:38 final size:37
Alignment explanation
Indices: 10074789--10074862 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 37
10074779 CCGCTAAATT
* * *
10074789 CCCCAGCATTAGCGGCGCTTTTTCAAAAATGCCGCTG
1 CCCCAGCATTAGCGACGCTTCTTAAAAAATGCCGCTG
10074826 CCCCGAGCATTAGCGACGCTTCTTAAAAAATGCCGCT
1 CCCC-AGCATTAGCGACGCTTCTTAAAAAATGCCGCT
10074863 AAAGCCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 4 0.12
38 29 0.88
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCCCAGCATTAGCGACGCTTCTTAAAAAATGCCGCTG
Found at i:10075020 original size:39 final size:41
Alignment explanation
Indices: 10074946--10075040 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 41
10074936 GGAATTTGGT
* *
10074946 TTTTTA-CGGCGTTTTTCCAAAAAACGCCGCGAATGCTC-A
1 TTTTTAGCGGCATTTTTCCAAAAAACGCCACGAATGCTCGA
*
10074985 TTTTTAGCGGCATTTTT-CAAAAAA-GACCACTAATGCTCGA
1 TTTTTAGCGGCATTTTTCCAAAAAACG-CCACGAATGCTCGA
* *
10075025 TCTTTAGTGGCGATTT
1 TTTTTAGCGGC-ATTT
10075041 CCATATACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.02
39 23 0.49
40 19 0.40
41 4 0.09
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCATTTTTCCAAAAAACGCCACGAATGCTCGA
Found at i:10083416 original size:45 final size:45
Alignment explanation
Indices: 10083352--10083438 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
10083342 TAGATACTCG
* *
10083352 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
* *
10083397 GTGGAATCAGCACATAGCAACCACTTTACTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
10083439 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:10083505 original size:51 final size:51
Alignment explanation
Indices: 10083447--10083631 Score: 250
Period size: 51 Copynumber: 3.6 Consensus size: 51
10083437 GTTCGGTTCA
*
10083447 CATAGTAGCCTGCACATAGTACTACACACATGATTGAAACTATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATTGAAACTATCCGGTACG
* *
10083498 CATAGTAGCCTGCACATAGTACTCCACACGTGATCGAAACTATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGATTGAAACTATCCGGTACG
* * * * *
10083549 CATAGTAGCCTGCACATAGTACTACACATGCGACCT--ATC-ATTCCGGTACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-TTGAAACTA-TCCGGTACG
*
10083599 CGTAGTAGCCTGCACATAGTACTACACACGTGA
1 CATAGTAGCCTGCACATAGTACTACACACGTGA
10083632 CCATCACTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.01
50 40 0.34
51 78 0.66
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGATTGAAACTATCCGGTACG
Found at i:10083655 original size:101 final size:100
Alignment explanation
Indices: 10083446--10083631 Score: 234
Period size: 101 Copynumber: 1.9 Consensus size: 100
10083436 TGTTCGGTTC
* * *
10083446 ACATAGTAGCCTGCACATAGTACTACACACATGATTGAAACTATCCGGTACGCATAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACACACGACTGAAACTATCCGGTACACATAGTAGCCTGC
* *
10083511 ACATAGTACTCCACACGTGATCGAAACTATCCGGT
66 ACATAGTACTACACACGTGATCCAAACTATCCGGT
** * *
10083546 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACCT--ATC-ATTCCGGTACACGTAGTAGC
1 A--CATAGTAGCCTGCACATAGTACTACACACACGA-CTGAAACTA-TCCGGTACACATAGTAGC
10083608 CTGCACATAGTACTACACACGTGA
62 CTGCACATAGTACTACACACGTGA
10083632 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
100 2 0.03
101 41 0.55
102 30 0.41
103 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (100 bp):
ACATAGTAGCCTGCACATAGTACTACACACACGACTGAAACTATCCGGTACACATAGTAGCCTGC
ACATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:10085079 original size:15 final size:15
Alignment explanation
Indices: 10085056--10085097 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
10085046 CATACAAATT
*
10085056 AAAGAATTATTAGAA
1 AAAGAATTAATAGAA
*
10085071 AAAGTATTAATAGAA
1 AAAGAATTAATAGAA
*
10085086 AAA-AACTAATAG
1 AAAGAATTAATAG
10085098 TCCACATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAGAATTAATAGAA
Found at i:10087863 original size:42 final size:41
Alignment explanation
Indices: 10087800--10087932 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 41
10087790 AAATATCAAG
* * *
10087800 GAAGCAACATGAGAAAGCAACATCCATG-TCTAAACAAAAAAA
1 GAAGCAACTTGGGAAAGCAACATCCAAGTTC-AAAC-AAAAAA
*
10087842 GAAGCAACTTGGGAAAACAACATCCAAGTTCAAACAAAAAA
1 GAAGCAACTTGGGAAAGCAACATCCAAGTTCAAACAAAAAA
* *
10087883 GAAAGCAACTTGGGAAAGCAACATCCAAGTTCAGATAAAAAA
1 G-AAGCAACTTGGGAAAGCAACATCCAAGTTCAAACAAAAAA
10087925 GGAAGCAA
1 -GAAGCAA
10087933 TGTGGAAACA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
41 7 0.09
42 71 0.88
43 3 0.04
ACGTcount: A:0.53, C:0.18, G:0.17, T:0.12
Consensus pattern (41 bp):
GAAGCAACTTGGGAAAGCAACATCCAAGTTCAAACAAAAAA
Found at i:10089712 original size:12 final size:12
Alignment explanation
Indices: 10089695--10089722 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10089685 AGTTTATAGA
10089695 ATTATCAGAATT
1 ATTATCAGAATT
10089707 ATTATCAGAATT
1 ATTATCAGAATT
10089719 ATTA
1 ATTA
10089723 GAACTACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
ATTATCAGAATT
Found at i:10095927 original size:40 final size:40
Alignment explanation
Indices: 10095829--10096131 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
10095819 TCCTCGTTCA
* * * ** *
10095829 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
10095868 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
10095908 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
10095948 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
10095988 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
10096028 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
10096068 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
10096108 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10096132 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:10116237 original size:45 final size:45
Alignment explanation
Indices: 10116116--10116245 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 45
10116106 CAAATGGCCG
* *
10116116 TGGATACA-AAAAAATATCCTGTAGATGGAATCTACCTTTGGCTA
1 TGGATACACAAAAAATAACCTGTAGATGGAATCTACCTCTGGCTA
* ** *
10116160 TGGACTGCACAGGAAATAACCTGTAGAGGGAATCTACCTCTGGCTA
1 TGGA-TACACAAAAAATAACCTGTAGATGGAATCTACCTCTGGCTA
* * * *
10116206 TGGATACACAACAAATAACATGCAGATGGAATCTGCCTCT
1 TGGATACACAAAAAATAACCTGTAGATGGAATCTACCTCT
10116246 TGTTATGGGT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 4 0.06
45 32 0.45
46 35 0.49
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (45 bp):
TGGATACACAAAAAATAACCTGTAGATGGAATCTACCTCTGGCTA
Found at i:10116253 original size:45 final size:44
Alignment explanation
Indices: 10116116--10116266 Score: 142
Period size: 45 Copynumber: 3.3 Consensus size: 44
10116106 CAAATGGCCG
* *
10116116 TGGATACAAAAAAATATCCTGTAGATGGAATCTACCT-TTGGCTA
1 TGGATACAAACAAATAACCTGTAGATGGAATCTACCTCTT-GCTA
* ** * *
10116160 TGGACTGCACAGGAAATAACCTGTAGAGGGAATCTACCTCTGGCTA
1 TGGA-TACA-AACAAATAACCTGTAGATGGAATCTACCTCTTGCTA
* * * *
10116206 TGGATACACAACAAATAACATGCAGATGGAATCTGCCTCTTGTTA
1 TGGATACA-AACAAATAACCTGTAGATGGAATCTACCTCTTGCTA
*
10116251 TGGGTACAAAGCAAAT
1 TGGATACAAA-CAAAT
10116267 TTGCAGATAA
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 6 0.07
45 47 0.54
46 33 0.38
47 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (44 bp):
TGGATACAAACAAATAACCTGTAGATGGAATCTACCTCTTGCTA
Found at i:10129661 original size:22 final size:21
Alignment explanation
Indices: 10129636--10129679 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
10129626 TGATAAACTT
10129636 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
10129658 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
10129679 T
1 T
10129680 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:10131255 original size:20 final size:21
Alignment explanation
Indices: 10131211--10131258 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
10131201 CAAATTTGAA
10131211 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
10131233 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
10131253 ATTTTT
1 ATTTTT
10131259 GACAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:10133412 original size:10 final size:10
Alignment explanation
Indices: 10133399--10133459 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
10133389 AACCGAACAA
10133399 AACAGAATAG
1 AACAGAATAG
10133409 AACAGAATAG
1 AACAGAATAG
* *
10133419 AACAAAACA-
1 AACAGAATAG
10133428 AATCA-AATAG
1 AA-CAGAATAG
* *
10133438 AATAGAGTAG
1 AACAGAATAG
10133448 AACAGAATAG
1 AACAGAATAG
10133458 AA
1 AA
10133460 AATATATGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.15
10 35 0.85
ACGTcount: A:0.62, C:0.10, G:0.16, T:0.11
Consensus pattern (10 bp):
AACAGAATAG
Found at i:10133448 original size:29 final size:30
Alignment explanation
Indices: 10133394--10133451 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
10133384 AACAGAACCG
10133394 AACAAAACAGAATAGAACAGAATAGAACAA
1 AACAAAACAGAATAGAACAGAATAGAACAA
* * *
10133424 AACAAATCA-AATAGAATAGAGTAGAACA
1 AACAAAACAGAATAGAACAGAATAGAACA
10133452 GAATAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.64, C:0.12, G:0.14, T:0.10
Consensus pattern (30 bp):
AACAAAACAGAATAGAACAGAATAGAACAA
Found at i:10137305 original size:21 final size:21
Alignment explanation
Indices: 10137272--10137377 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 21
10137262 CATGATCTGT
**
10137272 CCACACGGCCGTGTATCTCAG
1 CCACACGATCGTGTATCTCAG
10137293 CCACACGATCGTG----TCAG
1 CCACACGATCGTGTATCTCAG
* * * *
10137310 CCACATGGTCGTGTCTCTCAA
1 CCACACGATCGTGTATCTCAG
* *
10137331 CCACACAATCGCGTATCTCAG
1 CCACACGATCGTGTATCTCAG
* * * *
10137352 TCACACCATTGTGTTTCTCAG
1 CCACACGATCGTGTATCTCAG
10137373 CCACA
1 CCACA
10137378 TGGCTGTTTA
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
17 15 0.23
21 49 0.77
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
CCACACGATCGTGTATCTCAG
Found at i:10137311 original size:17 final size:17
Alignment explanation
Indices: 10137289--10137324 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10137279 GCCGTGTATC
10137289 TCAGCCACACGATCGTG
1 TCAGCCACACGATCGTG
* *
10137306 TCAGCCACATGGTCGTG
1 TCAGCCACACGATCGTG
10137323 TC
1 TC
10137325 TCTCAACCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.22
Consensus pattern (17 bp):
TCAGCCACACGATCGTG
Found at i:10138830 original size:24 final size:21
Alignment explanation
Indices: 10138803--10138847 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
10138793 TGTTTTTGGG
10138803 AATGAATTGAAAATGTGTGTATTA
1 AATGAATT--AAATGTGT-TATTA
*
10138827 AATGAGTTAAATGTGTTATTA
1 AATGAATTAAATGTGTTATTA
10138848 TATATCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 8 0.40
24 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
AATGAATTAAATGTGTTATTA
Found at i:10141122 original size:15 final size:16
Alignment explanation
Indices: 10141090--10141123 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10141080 ATTTCATCTC
10141090 ATTTGCATATAGGTTA
1 ATTTGCATATAGGTTA
*
10141106 ATTTGCATCTA-GTTA
1 ATTTGCATATAGGTTA
10141121 ATT
1 ATT
10141124 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (16 bp):
ATTTGCATATAGGTTA
Found at i:10143686 original size:22 final size:21
Alignment explanation
Indices: 10143646--10143686 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10143636 AATCTTTTAA
* *
10143646 AAATAAATATTTATTTTTATC
1 AAATAAATAATTATATTTATC
10143667 AAATAACATAATTATATTTA
1 AAATAA-ATAATTATATTTA
10143687 GTACTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAAATAATTATATTTATC
Found at i:10146564 original size:18 final size:20
Alignment explanation
Indices: 10146543--10146592 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
10146533 AAAGGAAGAC
10146543 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
10146561 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
10146581 AGCAAAAAGAGA
1 AG-AAAAAGAGA
10146593 TTGAGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:10155507 original size:14 final size:14
Alignment explanation
Indices: 10155490--10155518 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10155480 ACCTCGACGA
10155490 GTAAACGTAGATAT
1 GTAAACGTAGATAT
10155504 GTAAACGTAGATAT
1 GTAAACGTAGATAT
10155518 G
1 G
10155519 GAGGCGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (14 bp):
GTAAACGTAGATAT
Found at i:10167148 original size:16 final size:16
Alignment explanation
Indices: 10167127--10167159 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10167117 TATTATCCCA
10167127 CTAACCTCTATCTCAC
1 CTAACCTCTATCTCAC
10167143 CTAACCTCTATCTCAC
1 CTAACCTCTATCTCAC
10167159 C
1 C
10167160 ATCGAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.30
Consensus pattern (16 bp):
CTAACCTCTATCTCAC
Found at i:10175626 original size:8 final size:8
Alignment explanation
Indices: 10175609--10175647 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
10175599 AATTCTCTTA
10175609 TTTC-TCT
1 TTTCTTCT
10175616 TTTCTTCT
1 TTTCTTCT
10175624 TTTCTTCT
1 TTTCTTCT
10175632 TTT-TT-T
1 TTTCTTCT
10175638 TTTCTT-T
1 TTTCTTCT
10175645 TTT
1 TTT
10175648 TTTCAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 4 0.13
7 12 0.40
8 14 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTCTTCT
Found at i:10175629 original size:22 final size:22
Alignment explanation
Indices: 10175604--10175648 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10175594 TCATCAATTC
10175604 TCTTATTTCTCTTTTCTTCTTT
1 TCTTATTTCTCTTTTCTTCTTT
* * * *
10175626 TCTTCTTTTTTTTTTCTTTTTT
1 TCTTATTTCTCTTTTCTTCTTT
10175648 T
1 T
10175649 TTCAAGAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TCTTATTTCTCTTTTCTTCTTT
Done.