Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 79 of 109
Found at i:15885575 original size:15 final size:15
Alignment explanation
Indices: 15885552--15885596 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
15885542 TTAATTAGAA
* *
15885552 TTAATATATTTTTAT
1 TTAAAATATATTTAT
15885567 TTAAAATATATTTAT
1 TTAAAATATATTTAT
*
15885582 ATAAAATATATTTAT
1 TTAAAATATATTTAT
15885597 AAAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAAATATATTTAT
Found at i:15885597 original size:15 final size:15
Alignment explanation
Indices: 15885557--15885601 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
15885547 TAGAATTAAT
* *
15885557 ATATTTTTATTTAAA
1 ATATATTTATATAAA
15885572 ATATATTTATATAAA
1 ATATATTTATATAAA
15885587 ATATATTTATA-AAA
1 ATATATTTATATAAA
15885601 A
1 A
15885602 AATTACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATTTATATAAA
Found at i:15885814 original size:22 final size:22
Alignment explanation
Indices: 15885741--15885860 Score: 70
Period size: 22 Copynumber: 5.4 Consensus size: 22
15885731 ATGTCAATCA
* *
15885741 ATTTTTTA-TTTTGGTATTTTT
1 ATTTTTTATTTTTGTTATATTT
* * *
15885762 ATTTTATTTTGTTTTGTTTTCTTT
1 ATTTT-TTAT-TTTTGTTATATTT
*
15885786 -TGATTTTATTTTTGTTATATTT
1 AT-TTTTTATTTTTGTTATATTT
* *
15885808 ATTTTTTATTTTT-TATGTATTG
1 ATTTTTTATTTTTGT-TATATTT
15885830 ATTTTCTTATTTATTTGTT-TATTT
1 ATTTT-TTA-TT-TTTGTTATATTT
15885854 -TTTTTTA
1 ATTTTTTA
15885861 CATACATATT
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
21 6 0.08
22 36 0.47
23 12 0.16
24 18 0.23
25 4 0.05
26 1 0.01
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (22 bp):
ATTTTTTATTTTTGTTATATTT
Found at i:15886204 original size:5 final size:6
Alignment explanation
Indices: 15886190--15886214 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15886180 AAAGGTTGGT
15886190 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
15886215 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:15886827 original size:20 final size:19
Alignment explanation
Indices: 15886774--15886840 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
15886764 TATTATCTAT
* *
15886774 AATAAAATAAAATAATAAA
1 AATATAATAAAATGATAAA
15886793 AATATAATAACAATGATAAA
1 AATATAATAA-AATGATAAA
* *
15886813 TATAATTATAAAATGATATAA
1 AAT-ATAATAAAATGATA-AA
*
15886834 AAAATAA
1 AATATAA
15886841 AAATCAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.24
20 20 0.53
21 9 0.24
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (19 bp):
AATATAATAAAATGATAAA
Found at i:15887050 original size:15 final size:14
Alignment explanation
Indices: 15887030--15887088 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
15887020 AATACTAAAT
15887030 ATATTTTTAATTTAA
1 ATATTTTT-ATTTAA
*
15887045 ATATTTTTATTTAT
1 ATATTTTTATTTAA
*
15887059 TTA-TTTTATTT-A
1 ATATTTTTATTTAA
* *
15887071 TTATTTTATATTAAA
1 ATATTTT-TATTTAA
15887086 ATA
1 ATA
15887089 ATTAATCTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 3 0.08
13 11 0.31
14 11 0.31
15 11 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTTTTATTTAA
Found at i:15887076 original size:12 final size:13
Alignment explanation
Indices: 15887049--15887079 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
15887039 ATTTAAATAT
15887049 TTTTATTTATTTA
1 TTTTATTTATTTA
15887062 TTTTATTTA-TTA
1 TTTTATTTATTTA
15887074 TTTTAT
1 TTTTAT
15887080 ATTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:15890896 original size:11 final size:11
Alignment explanation
Indices: 15890880--15890910 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
15890870 TGGCATCATT
15890880 TTTGTAACACA
1 TTTGTAACACA
15890891 TTTGTAACACA
1 TTTGTAACACA
15890902 TTTGTAACA
1 TTTGTAACA
15890911 ACGTTTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (11 bp):
TTTGTAACACA
Found at i:15892902 original size:18 final size:18
Alignment explanation
Indices: 15892881--15892915 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15892871 AAATGTGTTA
15892881 ATTATGGTAAAAAGAGTC
1 ATTATGGTAAAAAGAGTC
*
15892899 ATTATGGTAAATAGAGT
1 ATTATGGTAAAAAGAGT
15892916 TACTTTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (18 bp):
ATTATGGTAAAAAGAGTC
Found at i:15897814 original size:13 final size:13
Alignment explanation
Indices: 15897796--15897842 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
15897786 AAATAATATA
*
15897796 AAATATCAATTAT
1 AAATATAAATTAT
15897809 AAATATAAATTAT
1 AAATATAAATTAT
* *
15897822 ATATA-AAATTTT
1 AAATATAAATTAT
15897834 AAATTATAA
1 AAA-TATAA
15897843 TTAATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.29
13 18 0.64
14 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATAAATTAT
Found at i:15897854 original size:14 final size:15
Alignment explanation
Indices: 15897765--15897862 Score: 50
Period size: 14 Copynumber: 6.8 Consensus size: 15
15897755 TAGTATAATT
*
15897765 TTATAAT-TATTTAA
1 TTATAATATAATTAA
*
15897779 TTAT-AT-TAAATAA
1 TTATAATATAATTAA
* *
15897792 -TATAAAAT-ATCAA
1 TTATAATATAATTAA
15897805 TTATAAATATAAATT-A
1 TTAT-AATAT-AATTAA
* *
15897821 TATATAAAAT-TTTAAA
1 T-TATAATATAATT-AA
15897837 TTATAAT-TAATTAA
1 TTATAATATAATTAA
15897851 TTATAATATAAT
1 TTATAATATAAT
15897863 ATTATAAGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
12 3 0.05
13 11 0.18
14 20 0.32
15 15 0.24
16 8 0.13
17 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
TTATAATATAATTAA
Found at i:15897855 original size:29 final size:28
Alignment explanation
Indices: 15897777--15897869 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 28
15897767 ATAATTATTT
* *
15897777 AATTAT-ATTAAATAA-TATAAAATATC
1 AATTATAATTAATTAATTATAAAATATA
*
15897803 AATTATAAATATAAATT-ATATATAAAATTTTA
1 AATTAT-AAT-T-AATTAAT-TATAAAA-TATA
15897835 AATTATAATTAATTAATTAT--AATATA
1 AATTATAATTAATTAATTATAAAATATA
15897861 ATATTATAA
1 A-ATTATAA
15897870 GTATTATATG
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
26 10 0.19
27 9 0.17
28 2 0.04
29 9 0.17
30 6 0.11
31 10 0.19
32 8 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (28 bp):
AATTATAATTAATTAATTATAAAATATA
Found at i:15898501 original size:18 final size:19
Alignment explanation
Indices: 15898450--15898502 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
15898440 TAAACATTTT
*
15898450 AAATTATTTAA-TATTTATA
1 AAATTATTAAATTA-TTATA
* *
15898469 AAATTAATAATTTATTA-A
1 AAATTATTAAATTATTATA
15898487 AAATTATTAAATTATT
1 AAATTATTAAATTATT
15898503 TTTATATTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 15 0.54
19 11 0.39
20 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTATTAAATTATTATA
Found at i:15899599 original size:18 final size:18
Alignment explanation
Indices: 15899578--15899636 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
15899568 AAATATTATT
15899578 TTAAATATAAATATAAAA
1 TTAAATATAAATATAAAA
15899596 TTAAATATATAA-A-AAAA
1 TTAAATATA-AATATAAAA
* * *
15899613 ATATA-ATAATTATAAAA
1 TTAAATATAAATATAAAA
15899630 TTAAATA
1 TTAAATA
15899637 AATAATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 14 0.44
18 11 0.34
19 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:15899607 original size:20 final size:20
Alignment explanation
Indices: 15899582--15899652 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 20
15899572 ATTATTTTAA
15899582 ATATAAATATAAAATTAAAT
1 ATATAAATATAAAATTAAAT
15899602 ATATAAA-A-AAAA-T--AT
1 ATATAAATATAAAATTAAAT
*
15899617 A-ATAATTATAAAATTAAAT
1 ATATAAATATAAAATTAAAT
* * *
15899636 AAATAATTAAAAAATTA
1 ATATAAATATAAAATTA
15899653 TTTTTATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 4 0.09
15 4 0.09
16 4 0.09
17 2 0.05
18 4 0.09
19 4 0.09
20 21 0.49
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAATATAAAATTAAAT
Found at i:15899627 original size:34 final size:35
Alignment explanation
Indices: 15899584--15899650 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15899574 TATTTTAAAT
*
15899584 ATAAATATAAAATTAAATATATAA-AAAAAATATA
1 ATAAATATAAAATTAAATAAATAATAAAAAATATA
*
15899618 ATAATTATAAAATTAAATAAATAATTAAAAAAT
1 ATAAATATAAAATTAAATAAATAA-TAAAAAAT
15899651 TATTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.76
36 7 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (35 bp):
ATAAATATAAAATTAAATAAATAATAAAAAATATA
Found at i:15899646 original size:18 final size:17
Alignment explanation
Indices: 15899584--15899647 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
15899574 TATTTTAAAT
15899584 ATAAAT-ATAAAATTAA
1 ATAAATAATAAAATTAA
* * *
15899600 ATATATAAAAAAAATATA
1 ATAAATAATAAAATTA-A
*
15899618 AT-AATTATAAAATTAA
1 ATAAATAATAAAATTAA
15899634 ATAAATAATTAAAA
1 ATAAATAA-TAAAA
15899648 AATTATTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
16 8 0.22
17 20 0.56
18 8 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATAATAAAATTAA
Found at i:15904150 original size:21 final size:21
Alignment explanation
Indices: 15904125--15904167 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15904115 TGTCAAATAA
*
15904125 AAAATAATCATATGAATCAAG
1 AAAATAATCATATGAATAAAG
15904146 AAAATAATCATATGAATAAAG
1 AAAATAATCATATGAATAAAG
15904167 A
1 A
15904168 GACATACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAATCATATGAATAAAG
Found at i:15917759 original size:2 final size:2
Alignment explanation
Indices: 15917752--15917797 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15917742 TTACACGATT
15917752 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15917794 TC TC
1 TC TC
15917798 GTTCTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15951472 original size:19 final size:19
Alignment explanation
Indices: 15951448--15951484 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15951438 ATTTATAATG
15951448 ATTATAATATAATTAATTA
1 ATTATAATATAATTAATTA
* *
15951467 ATTATAATTTTATTAATT
1 ATTATAATATAATTAATT
15951485 TAAAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATAATATAATTAATTA
Found at i:15954777 original size:16 final size:15
Alignment explanation
Indices: 15954754--15954800 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15954744 GCATACTTTT
15954754 TTTTATAAAATAAAA
1 TTTTATAAAATAAAA
*
15954769 TTTTA-ATAATTAAATA
1 TTTTATA-AAATAAA-A
*
15954785 TATTATAAAATAAAA
1 TTTTATAAAATAAAA
15954800 T
1 T
15954801 AGTCTCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
16 11 0.42
17 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTATAAAATAAAA
Found at i:15957522 original size:19 final size:19
Alignment explanation
Indices: 15957500--15957552 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
15957490 GTTTAAACAC
15957500 GAATA-ATATAAATATATAT
1 GAATAGATATAAATA-ATAT
* *
15957519 GAATAGACATAATTAATAT
1 GAATAGATATAAATAATAT
*
15957538 GAATATATATAAATA
1 GAATAGATATAAATA
15957553 GACACAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (19 bp):
GAATAGATATAAATAATAT
Found at i:15957545 original size:29 final size:29
Alignment explanation
Indices: 15957503--15957575 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
15957493 TAAACACGAA
* * * *
15957503 TAATATAAATATATATGAATAGACATAAT
1 TAATATGAATATATATAAATAGACACAAC
15957532 TAATATGAATATATATAAATAGACACAAC
1 TAATATGAATATATATAAATAGACACAAC
* *
15957561 TAACACGAATATATA
1 TAATATGAATATATA
15957576 AAAAAAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (29 bp):
TAATATGAATATATATAAATAGACACAAC
Found at i:15958956 original size:25 final size:23
Alignment explanation
Indices: 15958913--15958967 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
15958903 AAAATAATGT
15958913 ATTTTTTACAAAAAATT-AATAA
1 ATTTTTTACAAAAAATTAAATAA
15958935 ATTTTTTACAAAAATATTTTAAATAA
1 ATTTTTTACAAAAA-A--TTAAATAA
*
15958961 TTTTTTT
1 ATTTTTT
15958968 CATTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 14 0.50
23 1 0.04
25 2 0.07
26 11 0.39
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTTTTACAAAAAATTAAATAA
Found at i:15958958 original size:22 final size:22
Alignment explanation
Indices: 15958900--15958948 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
15958890 TAATACCTTT
**
15958900 CAAAAAA-TAATGTATTTTTTA
1 CAAAAAATTAATAAATTTTTTA
15958921 CAAAAAATTAATAAATTTTTTA
1 CAAAAAATTAATAAATTTTTTA
15958943 CAAAAA
1 CAAAAA
15958949 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (22 bp):
CAAAAAATTAATAAATTTTTTA
Found at i:15959911 original size:23 final size:23
Alignment explanation
Indices: 15959884--15959939 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
15959874 ATATATAAAT
15959884 TATTATGAAAGAATCTAAATAAG
1 TATTATGAAAGAATCTAAATAAG
*
15959907 TATTATGAATGAATCTAAATAAG
1 TATTATGAAAGAATCTAAATAAG
15959930 TATTATGAAA
1 TATTATGAAA
15959940 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (23 bp):
TATTATGAAAGAATCTAAATAAG
Found at i:15971348 original size:29 final size:30
Alignment explanation
Indices: 15971316--15971379 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
15971306 AGCAAGTCTA
*
15971316 TATTTTTTTA-TTGTAT-CTAAATAAATTTT
1 TATTTTTTAATTTGTATAC-AAATAAATTTT
15971345 TATTTTTTAATTTGTATACAAATAAATTTT
1 TATTTTTTAATTTGTATACAAATAAATTTT
15971375 TATTT
1 TATTT
15971380 AAAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 9 0.28
30 22 0.69
31 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
TATTTTTTAATTTGTATACAAATAAATTTT
Found at i:15971392 original size:20 final size:19
Alignment explanation
Indices: 15971364--15971402 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15971354 ATTTGTATAC
*
15971364 AAATAAATTTTTATTTAAAA
1 AAATAAATTTATA-TTAAAA
*
15971384 AAATTAATTTATATTAAAA
1 AAATAAATTTATATTAAAA
15971403 TTTTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATAAATTTATATTAAAA
Found at i:15988974 original size:42 final size:41
Alignment explanation
Indices: 15988911--15988992 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
15988901 TGAGAAGTAG
* *
15988911 AAAATAAAAATAATTTGAAAATTTTAATATAAATAATATTA
1 AAAATAAAAATAATTTGAAAATTTGAATAAAAATAATATTA
*
15988952 AAAATAATAAATTATTTGAAAATTTGAATAAAAATAATATT
1 AAAATAA-AAATAATTTGAAAATTTGAATAAAAATAATATT
15988993 TAATTCTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 7 0.19
42 30 0.81
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (41 bp):
AAAATAAAAATAATTTGAAAATTTGAATAAAAATAATATTA
Found at i:15989983 original size:34 final size:33
Alignment explanation
Indices: 15989911--15989986 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
15989901 CTGTTTGCCA
*
15989911 TTTGC-TT-TTTGTTAAATGCACTTTTTTTGCT
1 TTTGCTTTCTTTGTTAAAGGCACTTTTTTTGCT
**
15989942 ACT-CTTTCTTTGTTAAAGGCACATTTTTTTGCT
1 TTTGCTTTCTTTGTTAAAGGCAC-TTTTTTTGCT
15989975 TTTGCTTTCTTT
1 TTTGCTTTCTTT
15989987 TCCCCTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.03
31 3 0.08
32 13 0.36
33 11 0.31
34 8 0.22
ACGTcount: A:0.13, C:0.16, G:0.12, T:0.59
Consensus pattern (33 bp):
TTTGCTTTCTTTGTTAAAGGCACTTTTTTTGCT
Found at i:16011400 original size:25 final size:26
Alignment explanation
Indices: 16011372--16011426 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
16011362 TATCTAAAAC
16011372 TTTTACTTTT-T-ATTTTTTGAAATT
1 TTTTACTTTTATGATTTTTTGAAATT
*
16011396 ATTTT--TTTTATGATTTTTTTAAATT
1 -TTTTACTTTTATGATTTTTTGAAATT
16011421 TTTTAC
1 TTTTAC
16011427 ATTAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
23 4 0.16
24 5 0.20
25 16 0.64
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTACTTTTATGATTTTTTGAAATT
Found at i:16016149 original size:11 final size:11
Alignment explanation
Indices: 16016135--16016167 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
16016125 TAATTTTGAT
*
16016135 ATAAAGTAGAC
1 ATAAAGTAAAC
16016146 ATAAAGTAAAC
1 ATAAAGTAAAC
16016157 ATAAAGTAAAC
1 ATAAAGTAAAC
16016168 TTGCCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (11 bp):
ATAAAGTAAAC
Found at i:16016314 original size:112 final size:112
Alignment explanation
Indices: 16016143--16016421 Score: 326
Period size: 113 Copynumber: 2.5 Consensus size: 112
16016133 ATATAAAGTA
** * *
16016143 GACATAAAGTAAACATAAAGTAAACTTGCCATTAACTTGACATAAAGTTAATGTGAGAGAA-ATA
1 GACATAAAGTAAACATAAAGTAAACTTAACATAAACTTGACATAAAGTTAATGTAAGAGAATATA
* * *
16016207 TTCATTTCTTTTTATCAAAGTCCCTTTAATAAAGTTGAAATGATTTT
66 TTCATTTCTATTTATCAAAGTCCCTTTAATAAAGTTGAAATAACTTT
* * *
16016254 GACATAAAGTAGATATAAAGTAAACTTAACATAAAACTTGATATAAAGTTAATGTAAGAGAATAT
1 GACATAAAGTAAACATAAAGTAAACTTAACAT-AAACTTGACATAAAGTTAATGTAAGAGAATAT
* * * * *
16016319 ATTCCTTTCTATTTATTAAAGTTCTTTTAATAAAGTTGATATAACTTT
65 ATTCATTTCTATTTATCAAAGTCCCTTTAATAAAGTTGAAATAACTTT
* * * * * * * *
16016367 AACATAAAGTAAACGTAAAATATATTTGACATAATGCTTGACATAAAGTTGATGT
1 GACATAAAGTAAACATAAAGTAAACTTAACATAA-ACTTGACATAAAGTTAATGT
16016422 TGACAAAAGT
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
111 28 0.20
112 28 0.20
113 83 0.60
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (112 bp):
GACATAAAGTAAACATAAAGTAAACTTAACATAAACTTGACATAAAGTTAATGTAAGAGAATATA
TTCATTTCTATTTATCAAAGTCCCTTTAATAAAGTTGAAATAACTTT
Found at i:16016432 original size:16 final size:17
Alignment explanation
Indices: 16016404--16016440 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
16016394 GACATAATGC
16016404 TTGACATAAAGTTGATG
1 TTGACATAAAGTTGATG
16016421 TTGACA-AAAGTTGATG
1 TTGACATAAAGTTGATG
16016437 TTGA
1 TTGA
16016441 TTTGTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (17 bp):
TTGACATAAAGTTGATG
Found at i:16024911 original size:30 final size:30
Alignment explanation
Indices: 16024877--16024948 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
16024867 TTCAACGAAA
*
16024877 AATTAAAGCCCAGATACAATTTCAATCAAC
1 AATTAAAACCCAGATACAATTTCAATCAAC
* * *
16024907 AATTAAAATCAAGATACATTTTCAATCAAC
1 AATTAAAACCCAGATACAATTTCAATCAAC
16024937 AATTAAAACCCA
1 AATTAAAACCCA
16024949 AAATTAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (30 bp):
AATTAAAACCCAGATACAATTTCAATCAAC
Found at i:16027504 original size:19 final size:19
Alignment explanation
Indices: 16027480--16027583 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
16027470 TAAGAAGCTA
16027480 GATTTAGGGTTTAAGGTTT
1 GATTTAGGGTTTAAGGTTT
** *
16027499 GATTTAGAATTTAAGGTTA
1 GATTTAGGGTTTAAGGTTT
* * * *
16027518 GGTGTATGGTTTAGGGTTT
1 GATTTAGGGTTTAAGGTTT
*
16027537 -AGTTTAGGGTTTAAGGTTA
1 GA-TTTAGGGTTTAAGGTTT
* * *
16027556 GGTTTAGGGTTTAGGGCTT
1 GATTTAGGGTTTAAGGTTT
*
16027575 GGTTTAGGG
1 GATTTAGGG
16027584 GTTTCATGAT
Statistics
Matches: 64, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (19 bp):
GATTTAGGGTTTAAGGTTT
Found at i:16027537 original size:7 final size:7
Alignment explanation
Indices: 16027525--16027583 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
16027515 TTAGGTGTAT
16027525 GGTTTAG
1 GGTTTAG
16027532 GGTTTA-
1 GGTTTAG
16027538 -GTTTAG
1 GGTTTAG
*
16027544 GGTTTAA
1 GGTTTAG
16027551 GG-TTA-
1 GGTTTAG
16027556 GGTTTAG
1 GGTTTAG
16027563 GGTTTAG
1 GGTTTAG
*
16027570 GGCTT--
1 GGTTTAG
16027575 GGTTTAG
1 GGTTTAG
16027582 GG
1 GG
16027584 GTTTCATGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
5 11 0.26
6 6 0.14
7 26 0.60
ACGTcount: A:0.15, C:0.02, G:0.41, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:16027541 original size:12 final size:12
Alignment explanation
Indices: 16027526--16027583 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
16027516 TAGGTGTATG
16027526 GTTTAGGGTTTA
1 GTTTAGGGTTTA
16027538 GTTTAGGGTTTAA
1 GTTTAGGGTTT-A
*
16027551 GGTTA-GGTTTA
1 GTTTAGGGTTTA
* *
16027562 GGGTTTAGGGCTTG
1 --GTTTAGGGTTTA
16027576 GTTTAGGG
1 GTTTAGGG
16027584 GTTTCATGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 24 0.63
13 9 0.24
14 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.43
Consensus pattern (12 bp):
GTTTAGGGTTTA
Found at i:16027569 original size:38 final size:37
Alignment explanation
Indices: 16027482--16027583 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 37
16027472 AGAAGCTAGA
* **
16027482 TTTAGGGTTTAAGGTTTGATTTAGAATTTAAGGTTAGG
1 TTTAGGGTTTAGGGTTTG-TTTAGGGTTTAAGGTTAGG
* *
16027520 TGTATGGTTTAGGGTTTAGTTTAGGGTTTAAGGTTAGG
1 TTTAGGGTTTAGGGTTT-GTTTAGGGTTTAAGGTTAGG
*
16027558 TTTAGGGTTTAGGGCTTGGTTTAGGG
1 TTTAGGGTTTAGGG-TTTGTTTAGGG
16027584 GTTTCATGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 51 0.94
39 3 0.06
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (37 bp):
TTTAGGGTTTAGGGTTTGTTTAGGGTTTAAGGTTAGG
Found at i:16038318 original size:3 final size:3
Alignment explanation
Indices: 16038310--16038355 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
16038300 TCTTTTCATT
*
16038310 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16038356 GGTTTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16044428 original size:2 final size:2
Alignment explanation
Indices: 16044421--16044445 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16044411 TCCGTTTATC
16044421 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16044446 TATGCAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16044691 original size:4 final size:4
Alignment explanation
Indices: 16044680--16044736 Score: 71
Period size: 4 Copynumber: 14.5 Consensus size: 4
16044670 TATAAATAAT
* *
16044680 CATA -ATA CATA CATA CATA CGTA CATA CATA CATA CATA CATA GATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
16044727 TATA TATA CA
1 CATA CATA CA
16044737 CCCTCTTCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:16050718 original size:17 final size:16
Alignment explanation
Indices: 16050687--16050720 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16050677 AAGAAGCATG
*
16050687 GCTTGTTTTCTTTTTT
1 GCTTGTTTTCATTTTT
16050703 GCTTGCTTTTCATTTTT
1 GCTTG-TTTTCATTTTT
16050720 G
1 G
16050721 TCAACAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.03, C:0.15, G:0.15, T:0.68
Consensus pattern (16 bp):
GCTTGTTTTCATTTTT
Found at i:16052968 original size:26 final size:26
Alignment explanation
Indices: 16052939--16052989 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16052929 AAAAGAGACA
16052939 AAAAGATTCAAGAAAAATTATAAATG
1 AAAAGATTCAAGAAAAATTATAAATG
*
16052965 AAAAGATTCCAGAAAAATTATAAAT
1 AAAAGATTCAAGAAAAATTATAAAT
16052990 AATCCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.24
Consensus pattern (26 bp):
AAAAGATTCAAGAAAAATTATAAATG
Found at i:16058932 original size:2 final size:2
Alignment explanation
Indices: 16058920--16058951 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16058910 CAATTGTAAA
16058920 AT AT A- 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 A
16058952 CACTAAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16064193 original size:18 final size:18
Alignment explanation
Indices: 16064170--16064227 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
16064160 GATTCTTATA
*
16064170 TTATATTTATTTTTATTT
1 TTATATTTATTTTAATTT
* *
16064188 TTATATTTA-ATAAATATT
1 TTATATTTATTTTAAT-TT
* *
16064206 TTAAATTTATTTTCATTT
1 TTATATTTATTTTAATTT
16064224 TTAT
1 TTAT
16064228 TTTCATGAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 3 0.10
18 24 0.80
19 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATTTATTTTAATTT
Found at i:16064369 original size:25 final size:26
Alignment explanation
Indices: 16064335--16064388 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
16064325 CTTACATTTT
16064335 ATATATATTTT-ATAA-ATATATATTA
1 ATATATATTTTAATAAGA-ATATATTA
16064360 ATATATATTTTAAATAAGAATATATTA
1 ATATATATTTT-AATAAGAATATATTA
16064387 AT
1 AT
16064389 TTTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 11 0.42
27 14 0.54
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
ATATATATTTTAATAAGAATATATTA
Found at i:16064668 original size:5 final size:5
Alignment explanation
Indices: 16064658--16064685 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16064648 ATGAATTTCA
16064658 CTCTT CTCTT CTCTT CTCTT CTCTT CTC
1 CTCTT CTCTT CTCTT CTCTT CTCTT CTC
16064686 GCGAATCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (5 bp):
CTCTT
Found at i:16068478 original size:22 final size:23
Alignment explanation
Indices: 16068450--16068498 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
16068440 CTTTTCGACG
* *
16068450 AGGTATGGG-CTTAGGGAAATAA
1 AGGTATGGGCCATAGGGAAAAAA
16068472 AGGTATGGGCCATAGGGAAAAAA
1 AGGTATGGGCCATAGGGAAAAAA
16068495 AGGT
1 AGGT
16068499 TATCTCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.39, C:0.06, G:0.37, T:0.18
Consensus pattern (23 bp):
AGGTATGGGCCATAGGGAAAAAA
Found at i:16068604 original size:6 final size:6
Alignment explanation
Indices: 16068593--16068620 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16068583 TTAACTCATG
16068593 TTTATT TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTA
16068621 ATTAATTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:16076814 original size:2 final size:2
Alignment explanation
Indices: 16076809--16076837 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16076799 ATGATATCAG
16076809 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16076838 GAAAAAAGAT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16078568 original size:7 final size:7
Alignment explanation
Indices: 16078556--16078586 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
16078546 ACAATAAAGT
16078556 TTTGGTC
1 TTTGGTC
16078563 TTTGGTC
1 TTTGGTC
16078570 TTTGGTC
1 TTTGGTC
16078577 TTTGGTC
1 TTTGGTC
16078584 TTT
1 TTT
16078587 AGAAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.13, G:0.26, T:0.61
Consensus pattern (7 bp):
TTTGGTC
Found at i:16079268 original size:2 final size:2
Alignment explanation
Indices: 16079263--16079298 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
16079253 GCCTTTTTTA
*
16079263 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16079299 GAGGGTTTCT
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:16079934 original size:18 final size:17
Alignment explanation
Indices: 16079913--16079952 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16079903 TAAAAATGTT
*
16079913 AAAAAATATATAGAAAA
1 AAAAAATAAATAGAAAA
*
16079930 GAAAAAATAAATTGAAAA
1 -AAAAAATAAATAGAAAA
16079948 AAAAA
1 AAAAA
16079953 TTATTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAAAATAAATAGAAAA
Found at i:16083856 original size:11 final size:10
Alignment explanation
Indices: 16083827--16083858 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
16083817 ATAAAAATAA
16083827 TTTTAAATTT
1 TTTTAAATTT
16083837 TTTTAAATTT
1 TTTTAAATTT
16083847 TTTTATAATTT
1 TTTTA-AATTT
16083858 T
1 T
16083859 AAATTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:16086484 original size:118 final size:115
Alignment explanation
Indices: 16086257--16086493 Score: 287
Period size: 118 Copynumber: 2.0 Consensus size: 115
16086247 TTTGTGCAGA
* * * ** *
16086257 AAAAATTGATACTTTTAACTTTTCCCCAAAATATTTTTTAAAAATTTTAATTTCGAGAAAAATTG
1 AAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTCTAAAAAGCTTAATTTCAAGAAAAATTG
*
16086322 ATACTTTCAACTTTTCCTCAAAAAATTCATTTTTGAAAACTTATTTTTAAG
66 ATACTTTCAACTTTTCCTCAAAAAATTCATTTTTGAAAACTTA-TTTAAAG
* * * *
16086373 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATCTTTCTAGAAAGCTTATTTTTAAGGAAAAT
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATAT-TTTCTAAAAAGCTTAATTTCAAGAAAAAT
* ** **
16086438 TGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTG-AATTTTATTTAAAG
64 TGATACTTTCAACTTTTCCTCAAAA-AATTCATTTTTGAAAACTTATTTAAAG
16086490 AAAA
1 AAAA
16086494 TAAAATAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
116 18 0.18
117 24 0.24
118 51 0.50
119 9 0.09
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (115 bp):
AAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTCTAAAAAGCTTAATTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAAATTCATTTTTGAAAACTTATTTAAAG
Found at i:16086485 original size:59 final size:59
Alignment explanation
Indices: 16086257--16086473 Score: 244
Period size: 59 Copynumber: 3.7 Consensus size: 59
16086247 TTTGTGCAGA
* * * * * * **
16086257 AAAAATTGATACTTTTAACTTTTCC-CCAAAATAT-TTTTTAAAAATTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTCTTTTTAGAAATCTTATTTTTAAG
* *
16086314 AAAAATTGATACTTTCAACTTTTCCTCAAAAAATTCATTTTT-GAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTC-TTTTTAGAAATCTTATTTTTAAG
* * *
16086373 AAAAATTGATACTTTCAACTTTTTCC-CAAAAATATCTTTCTAGAAAGCTTATTTTTAAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTCTTTTTAGAAATCTTATTTTTAAG
* *
16086432 GAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTCTTTTT
16086474 TGAATTTTAT
Statistics
Matches: 135, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
57 24 0.18
58 16 0.12
59 77 0.57
60 18 0.13
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTCTTTTTAGAAATCTTATTTTTAAG
Found at i:16086555 original size:6 final size:6
Alignment explanation
Indices: 16086490--16086573 Score: 66
Period size: 6 Copynumber: 13.7 Consensus size: 6
16086480 TTATTTAAAG
* *
16086490 AAAAT- AAAATA ATAAA-A TAAATA AAAA-A TAAAATG AAAATA AAAATA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA -AAAATA AAAATA AAAATA
* *
16086537 AAGGAAAA TAAAATA AAAACA AAAATA AAAATA AAAA
1 AA--AATA -AAAATA AAAATA AAAATA AAAATA AAAA
16086574 GTATTAAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
5 9 0.14
6 43 0.68
7 6 0.10
8 3 0.05
9 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:16086572 original size:5 final size:5
Alignment explanation
Indices: 16086490--16086554 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
16086480 TTATTTAAAG
*
16086490 AAAAT AAAAT --AAT AAAAT AAATAA AAAAT AAAAT GAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT -AAAAT -AAAAT
**
16086536 AAAGG AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
16086555 ACAAAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
3 3 0.06
5 32 0.65
6 14 0.29
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16086572 original size:17 final size:16
Alignment explanation
Indices: 16086490--16086573 Score: 73
Period size: 17 Copynumber: 5.0 Consensus size: 16
16086480 TTATTTAAAG
16086490 AAAAT-AAAATAATAAA
1 AAAATAAAAATAA-AAA
*
16086506 ATAAATAAAAAATAAAATG
1 A-AAAT-AAAAATAAAA-A
**
16086525 AAAATAAAAATAAAGG
1 AAAATAAAAATAAAAA
16086541 AAAAT-AAAATAAAAACA
1 AAAATAAAAAT-AAAA-A
16086558 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
16086574 GTATTAAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.09
16 11 0.19
17 22 0.39
18 11 0.19
19 8 0.14
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:16086907 original size:14 final size:15
Alignment explanation
Indices: 16086878--16086920 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
16086868 AGCAGAACCC
16086878 TCTTTCCCTCTCTCTT
1 TCTTTCCCT-TCTCTT
*
16086894 TC-TTCCTTTCTC-T
1 TCTTTCCCTTCTCTT
16086907 TCTTTCCCTTCTCT
1 TCTTTCCCTTCTCT
16086921 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 3 0.13
14 13 0.57
15 5 0.22
16 2 0.09
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTCCCTTCTCTT
Found at i:16087538 original size:4 final size:4
Alignment explanation
Indices: 16087529--16087675 Score: 79
Period size: 4 Copynumber: 35.5 Consensus size: 4
16087519 AGATAAATGA
* * *
16087529 AAAT AAAT -AAT AGAT AAATT ATAAT ATAT AAAT AGAT AAAT ACTAAT
1 AAAT AAAT AAAT AAAT AAA-T A-AAT AAAT AAAT AAAT AAAT A--AAT
* * * *
16087576 AAAT ACAT ATAT ATAAT -AAT ATAT AAAT AGAT AAAT AAAT -AA- AAAT
1 AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
16087622 AATAT TAAT AAAT ATATAT TAAT AAAT AGTAAT AAA- AAAT AAAT ATAT
1 AA-AT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
16087670 AAAT AA
1 AAAT AA
16087676 TACATAAGAT
Statistics
Matches: 109, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
3 13 0.12
4 73 0.67
5 11 0.10
6 12 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:16087579 original size:10 final size:10
Alignment explanation
Indices: 16087521--16087682 Score: 93
Period size: 10 Copynumber: 15.4 Consensus size: 10
16087511 CAGATAACAG
16087521 ATAAATGAA-A
1 ATAAAT-AATA
16087531 ATAAATAATA
1 ATAAATAATA
*
16087541 GATAAATTATA
1 -ATAAATAATA
*
16087552 ATATATAAATA
1 ATAAAT-AATA
*
16087563 GATAAATACTA
1 -ATAAATAATA
16087574 ATAAATACATA
1 ATAAATA-ATA
16087585 TATATAATAATA
1 -ATA-AATAATA
16087597 TATAAATAGATAA
1 -ATAAATA-AT-A
*
16087610 ATAAATAAAA
1 ATAAATAATA
16087620 ATAATATTAATAA
1 ATAA-A-TAAT-A
* *
16087633 ATATATATTA
1 ATAAATAATA
*
16087643 ATAAATAGTA
1 ATAAATAATA
16087653 AT-AA-AA-A
1 ATAAATAATA
16087660 ATAAAT-AT-
1 ATAAATAATA
16087668 ATAAATAATA
1 ATAAATAATA
16087678 CATAA
1 -ATAA
16087683 GATATACAGA
Statistics
Matches: 121, Mismatches: 13, Indels: 35
0.72 0.08 0.21
Matches are distributed among these distances:
7 3 0.02
8 10 0.08
9 6 0.05
10 35 0.29
11 30 0.25
12 28 0.23
13 9 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
ATAAATAATA
Found at i:16087606 original size:42 final size:39
Alignment explanation
Indices: 16087521--16087682 Score: 135
Period size: 42 Copynumber: 4.1 Consensus size: 39
16087511 CAGATAACAG
*
16087521 ATAAAT-GA-AAATA-AATAATAGATAA-ATT-ATAATAT
1 ATAAATAGATAAATATAATAA-AAATAATATTAATAATAT
16087556 ATAAATAGATAAATACTAATAAATACAT-ATATATAATAATAT
1 ATAAATAGATAAATA-TAATAAA-A-ATAATAT-TAATAATAT
16087598 ATAAATAGATAAATA-AATAAAAATAATATTAATAA-AT
1 ATAAATAGATAAATATAATAAAAATAATATTAATAATAT
* *
16087635 ATATATTA-ATAAATAGTAATAAAAAATAAATATATAAATAATAC
1 ATA-AATAGATAAATA-TAAT-AAAAAT-AATAT-T-AATAATAT
16087679 ATAA
1 ATAA
16087683 GATATACAGA
Statistics
Matches: 106, Mismatches: 3, Indels: 28
0.77 0.02 0.20
Matches are distributed among these distances:
35 6 0.06
36 2 0.02
37 17 0.16
38 12 0.11
39 14 0.13
40 16 0.15
41 6 0.06
42 23 0.22
43 6 0.06
44 4 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (39 bp):
ATAAATAGATAAATATAATAAAAATAATATTAATAATAT
Found at i:16087640 original size:14 final size:14
Alignment explanation
Indices: 16087552--16087649 Score: 64
Period size: 14 Copynumber: 7.1 Consensus size: 14
16087542 ATAAATTATA
* *
16087552 ATATATAAATAGAT
1 ATATATTAATAAAT
* *
16087566 AAATACTAATAAAT
1 ATATATTAATAAAT
16087580 ACATATATATAAT-AAT
1 --ATATAT-TAATAAAT
*
16087596 ATATAAATAGATAAAT
1 ATAT-ATTA-ATAAAT
16087612 A-A-A-TAA-AAAT
1 ATATATTAATAAAT
16087622 A-ATATTAATAAAT
1 ATATATTAATAAAT
16087635 ATATATTAATAAAT
1 ATATATTAATAAAT
16087649 A
1 A
16087650 GTAATAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
10 6 0.09
11 2 0.03
12 5 0.07
13 6 0.09
14 29 0.43
15 4 0.06
16 11 0.16
17 4 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATATTAATAAAT
Found at i:16087674 original size:29 final size:29
Alignment explanation
Indices: 16087553--16087675 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 29
16087543 TAAATTATAA
* * * *
16087553 TATATAAATAGATAAATACTAATAAATACA
1 TATATAAATAAAT-AATAATAAAAAATAAA
*
16087583 TATAT--AT-AATAATATATAAATAGATAAA
1 TATATAAATAAATAATA-ATAAA-AAATAAA
* * *
16087611 TAAAT-AA-AAATAATATTAATAAAT--A
1 TATATAAATAAATAATAATAAAAAATAAA
* *
16087636 TATATTAATAAATAGTAATAAAAAATAAA
1 TATATAAATAAATAATAATAAAAAATAAA
16087665 TATATAAATAA
1 TATATAAATAA
16087676 TACATAAGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
25 5 0.07
26 6 0.08
27 22 0.31
28 14 0.20
29 19 0.27
30 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
TATATAAATAAATAATAATAAAAAATAAA
Found at i:16087733 original size:23 final size:23
Alignment explanation
Indices: 16087707--16087770 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
16087697 AAAGAAGAGA
*
16087707 AAAAATATATATAAAATAAAAAT
1 AAAAATATAAATAAAATAAAAAT
* *
16087730 AAAAATATAGA-AATAT-AAAAT
1 AAAAATATAAATAAAATAAAAAT
16087751 ACAAAA-ATAAATAAAA-AAAA
1 A-AAAATATAAATAAAATAAAA
16087771 TGGGCCTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 10 0.29
22 14 0.41
23 10 0.29
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAATATAAATAAAATAAAAAT
Found at i:16087745 original size:8 final size:7
Alignment explanation
Indices: 16087715--16087761 Score: 55
Period size: 6 Copynumber: 7.0 Consensus size: 7
16087705 GAAAAAATAT
16087715 ATATAAA
1 ATATAAA
16087722 ATA-AAA
1 ATATAAA
16087728 ATA-AAA
1 ATATAAA
16087734 ATATAGAA
1 ATATA-AA
16087742 ATATAAA
1 ATATAAA
*
16087749 ATACAAA
1 ATATAAA
16087756 A-ATAAA
1 ATATAAA
16087762 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 16 0.44
7 13 0.36
8 7 0.19
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
ATATAAA
Found at i:16087927 original size:10 final size:10
Alignment explanation
Indices: 16087912--16087939 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16087902 AACTCGACCT
16087912 TTTTTTTTCA
1 TTTTTTTTCA
16087922 TTTTTTTTCA
1 TTTTTTTTCA
16087932 TTTTTTTT
1 TTTTTTTT
16087940 TTGTGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:16088148 original size:41 final size:41
Alignment explanation
Indices: 16087961--16088502 Score: 497
Period size: 41 Copynumber: 13.0 Consensus size: 41
16087951 ATTTGATCAA
* * *
16087961 GGCTCTTCTAAGCAGAGACTCAACGACTTTGAAAAATATAAACAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAA-AT--A-AAT
* * * *
16088007 -GCTTCTTTAATCAGAGGCTTAACGAGTTT-AAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* *
16088046 AAAGCTCCTCTAATCAGAGGCTCAACGACTTT-AAAAATGAATAA
1 --GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAT-AA-AT
* * * *
16088090 AGCTCCTCTAATTAGAGGCTCAACAAC-TTGAGAAAATAAAC
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAAATAAAT
* *
16088131 GGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* *
16088172 AAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT
1 --GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* *
16088215 GGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* * * * *
16088256 AAATGCTCCTCTAAGCAAAGGCTCAACGACTTCGAAAAATAAAC
1 ---GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
16088300 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* *
16088341 GGCTCCCCTAATCAGAGGCTC-ACAACTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
* *
16088381 GGCTCCTCTAATCAGAGGCATC-ACAACTTTGAAAAGTAAAT
1 GGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAAT
* * * * * *
16088422 TGCTCCTCTAAAT-AGAGGCACCACAAATTTG-AAAGTAAAT
1 GGCTCCTCT-AATCAGAGGCTCAACGACTTTGAAAAATAAAT
* * * * * ** *
16088462 TGCTCTTCTAAACAAAGGCACCTCAACTTTGAAAAATAAAT
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
16088503 TACTCCTTAA
Statistics
Matches: 426, Mismatches: 52, Indels: 41
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.01
40 70 0.16
41 176 0.41
42 68 0.16
43 50 0.12
44 35 0.08
45 22 0.05
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (41 bp):
GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
Found at i:16088178 original size:126 final size:124
Alignment explanation
Indices: 16088018--16088421 Score: 514
Period size: 126 Copynumber: 3.2 Consensus size: 124
16088008 CTTCTTTAAT
* *
16088018 CAGAGGCTTAACGAGTTT-AAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-AAA
1 CAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
** * *
16088081 AATGAATAAAGCTCCTCTAATTAGAGGCTCAACAACTTGAGAAAATAAACGGCTCCTCTAAG
66 AAT-AA-ATGGCTCCTCTAATCAGAGGCTCAACAACTTGA-AAAATAAAAGGCTCCTCTAAG
* *
16088143 CAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAA
1 CAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
* *
16088208 AATAAATGGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAATAAATAAATGCTCCTCTAAG
66 AATAAATGGCTCCTCTAATCAGAGGCTCAACAAC-TTGAAAAAT--A-AAAGGCTCCTCTAAG
* * **
16088271 CAAAGGCTCAACGACTTCGAAAAAT-AA-ACGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
1 CAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
* * *
16088334 AATAAATGGCTCCCCTAATCAGAGGCTC-ACAACTTTGAAAAATAAATGGCTCCTCTAAT
66 AATAAATGGCTCCTCTAATCAGAGGCTCAACAAC-TTGAAAAATAAAAGGCTCCTCTAAG
* *
16088393 CAGAGGCATC-ACAACTTTGAAAAGTAAAT
1 CAGAGGC-TCAACGACTTTGAAAAATAAAT
16088422 TGCTCCTCTA
Statistics
Matches: 245, Mismatches: 25, Indels: 19
0.85 0.09 0.07
Matches are distributed among these distances:
122 30 0.12
123 5 0.02
125 60 0.24
126 106 0.43
127 9 0.04
128 35 0.14
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (124 bp):
CAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
AATAAATGGCTCCTCTAATCAGAGGCTCAACAACTTGAAAAATAAAAGGCTCCTCTAAG
Found at i:16088182 original size:84 final size:83
Alignment explanation
Indices: 16087961--16088421 Score: 538
Period size: 84 Copynumber: 5.5 Consensus size: 83
16087951 ATTTGATCAA
* * * * *
16087961 GGCTCTTCTAAGCAGAGACTCAACGACTTTGAAAAATATAA-ACAATGCTTCTTTAATCAGAGGC
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA-AATA-AA-GCTCCTCTAATCAGAGGC
* * * *
16088025 TTAACGAGTTTAAAAATAAATAA
63 TCAACGACTTGAAAAAT-AA-AC
* * *
16088048 AGCTCCTCTAATCAGAGGCTCAACGACTTT-AAAAATGAATAAAGCTCCTCTAATTAGAGGCTCA
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
*
16088112 ACAACTTGAGAAAATAAAC
66 ACGACTTGA-AAAATAAAC
* *
16088131 GGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
* *
16088196 ATGACTTTGAAAAATAAAT
66 ACGAC-TTGAAAAATAAAC
* * * *
16088215 GGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAATAAATAAATGCTCCTCTAAGCAAAGGCTC
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA-GCTCCTCTAATCAGAGGCTC
16088280 AACGACTTCGAAAAATAAAC
65 AACGACTT-GAAAAATAAAC
* *
16088300 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT--GGCTCCCCTAATCAGAGGCTC-
1 GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
* *
16088362 ACAACTTTGAAAAATAAAT
66 ACGAC-TTGAAAAATAAAC
* *
16088381 GGCTCCTCTAATCAGAGGCATC-ACAACTTTGAAAAGTAAAT
1 GGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAAT
16088422 TGCTCCTCTA
Statistics
Matches: 327, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
81 50 0.15
82 21 0.06
83 28 0.09
84 110 0.34
85 85 0.26
86 7 0.02
87 26 0.08
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (83 bp):
GGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
ACGACTTGAAAAATAAAC
Found at i:16088503 original size:81 final size:81
Alignment explanation
Indices: 16088091--16088509 Score: 315
Period size: 81 Copynumber: 5.1 Consensus size: 81
16088081 AATGAATAAA
* * * * * * * * *
16088091 GCTCCTCTAATTAGAGGCTCA-ACAACTTGAGAAAATAAACGGCTCCTCTAAGCAGAGGCTCAAT
1 GCTCCTCTAATCAGAGGCCCACA-AATTTGA-AAAATAAATGGCTCCTCTAAACAAAGGCACCAC
* *
16088155 GACTTTGAAAAATAAATAAA
64 AACTTTGAAAAATAAAT--T
* * * * * *
16088175 GCTCCTCTAATCAGAGGCTCA-ATGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCCCACA--AATTTGAAAAATAAATGGCTCCTCTAAACAAAGGCACCAC
*
16088239 AACTTTAAAAAATAAATAAAT
64 AACTTTGAAAAATAAAT---T
* * * * * * * * * * * *
16088260 GCTCCTCTAAGCAAAGGCTCAACGACTTCGAAAAATAAACGGCTCCTCTAATCAGAGGCTCAACG
1 GCTCCTCTAATCAGAGGC-CCACAAATTTGAAAAATAAATGGCTCCTCTAAACAAAGGCACCACA
*
16088325 ACTTTGAAAAATAAATG
65 ACTTTGAAAAATAAATT
* * * * * *
16088342 GCTCCCCTAATCAGAGGCTCACAACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCATCACAA
1 GCTCCTCTAATCAGAGGCCCACAAATTTGAAAAATAAATGGCTCCTCTAAACAAAGGCACCACAA
*
16088407 CTTTGAAAAGTAAATT
66 CTTTGAAAAATAAATT
* * * *
16088423 GCTCCTCTAAAT-AGAGGCACCACAAATTTG-AAAGTAAATTGCTCTTCTAAACAAAGGCACCTC
1 GCTCCTCT-AATCAGAGGC-CCACAAATTTGAAAAATAAATGGCTCCTCTAAACAAAGGCACCAC
16088486 AACTTTGAAAAATAAATT
64 AACTTTGAAAAATAAATT
*
16088504 ACTCCT
1 GCTCCT
16088510 TAACAATCAT
Statistics
Matches: 283, Mismatches: 46, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
81 113 0.40
82 27 0.10
84 66 0.23
85 76 0.27
86 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (81 bp):
GCTCCTCTAATCAGAGGCCCACAAATTTGAAAAATAAATGGCTCCTCTAAACAAAGGCACCACAA
CTTTGAAAAATAAATT
Found at i:16088868 original size:43 final size:42
Alignment explanation
Indices: 16088808--16088889 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
16088798 TTTGGCAAAC
* *
16088808 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCACTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTCTCACTTGAATT
*
16088850 TTGGAGATTCACATCCAAAAATTCAAAGCTTCTCATTTGA
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTCTCACTTGA
16088890 GTTCAAAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 5 0.14
43 28 0.80
44 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTCTCACTTGAATT
Found at i:16089094 original size:22 final size:23
Alignment explanation
Indices: 16089068--16089128 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
16089058 TTTAGGGTTT
16089068 TACTCAAAGATTCTCATTTTGAA
1 TACTCAAAGATTCTCATTTTGAA
16089091 -ACTCAAAGATTCTCA-TTTGAA
1 TACTCAAAGATTCTCATTTTGAA
* *
16089112 TTCTCAAAAATTCTCAT
1 TACTCAAAGATTCTCAT
16089129 CAAAATATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (23 bp):
TACTCAAAGATTCTCATTTTGAA
Found at i:16090418 original size:30 final size:30
Alignment explanation
Indices: 16090388--16090443 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16090378 ATTTGAATCT
16090388 TTTTTTTCATTTTTT-T-ATTTTTCATCATC
1 TTTTTTTC-TTTTTTCTCATTTTTCATCATC
16090417 TTTTTTTCTTTTTTCTCATTTTTCATC
1 TTTTTTTCTTTTTTCTCATTTTTCATC
16090444 CATTGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 6 0.24
29 9 0.36
30 10 0.40
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTTTTCTTTTTTCTCATTTTTCATCATC
Found at i:16090423 original size:21 final size:19
Alignment explanation
Indices: 16090385--16090439 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
16090375 TCAATTTGAA
*
16090385 TCTTTTTTTTCA-TTTTTT
1 TCTTTTTTCTCATTTTTTT
*
16090403 T-ATTTTTCATCATCTTTTTT
1 TCTTTTTTC-TCAT-TTTTTT
16090423 TCTTTTTTCTCATTTTT
1 TCTTTTTTCTCATTTTT
16090440 CATCCATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 4 0.13
20 11 0.37
21 6 0.20
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTTTTCTCATTTTTTT
Found at i:16094721 original size:117 final size:117
Alignment explanation
Indices: 16094379--16094734 Score: 445
Period size: 117 Copynumber: 3.0 Consensus size: 117
16094369 TTTTGTGCAG
** *
16094379 GAAAAATTGATACTTTCAACTTTTTCTCAAAAAT-TCACTTTT-GAAAACTT-GTTTCTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTAGAAAACTTATTTTC-AAGGAA
* * * * * *
16094441 AGTTGATACTTTTAACTTTTTTTCAAAAATATTTTTCTAGAAAGCTTATTTTTAA
64 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGTTTA-TTTAAA
* * *
16094496 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGA-AAAATTTATTTTC-AGGAAAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG-AAA
* * *
16094559 ATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAATTTATTTCCAA
65 ATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGTTTATTT-AAA
*
16094613 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGGAAAA
* * *
16094678 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AATTTTATTTAAA
66 TTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTTAGAAAGTTTATTTAAA
16094730 GAAAA
1 GAAAA
16094735 TAAAAAATAA
Statistics
Matches: 208, Mismatches: 23, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
116 6 0.03
117 134 0.64
118 57 0.27
119 11 0.05
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGGAAAA
TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGTTTATTTAAA
Found at i:16094726 original size:59 final size:59
Alignment explanation
Indices: 16094381--16094713 Score: 451
Period size: 59 Copynumber: 5.7 Consensus size: 59
16094371 TTGTGCAGGA
** *
16094381 AAAATTGATACTTTCAACTTTTTCTCAAAAAT-TCACTTTT-GAAAACTT-GTTTCTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTAGAAAACTTATTTTC-AAGG
* * * * * *
16094439 AAAGTTGATACTTTTAACTTTTTTTCAAAAATATTTTTCTAGAAAGCTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
* *
16094498 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGA-AAAATTTATTTTC-AGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
* * * *
16094555 AAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAATTTATTTCCAAGA
1 -AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
*
16094615 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
*
16094674 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
16094714 TTGAATTTTA
Statistics
Matches: 243, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
57 3 0.01
58 81 0.33
59 154 0.63
60 5 0.02
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
Found at i:16094746 original size:6 final size:6
Alignment explanation
Indices: 16094731--16094817 Score: 84
Period size: 6 Copynumber: 13.7 Consensus size: 6
16094721 TTATTTAAAG
* *
16094731 AAAATAA AAAATA AAATAAA AAAATA AAAATG AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
16094781 AAGGAAAA TAAAATA AAAACA AAAATA AATATA AAAA
1 AA--AATA -AAAATA AAAATA AAAATA AAAATA AAAA
16094818 GTATTAAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
6 48 0.73
7 13 0.20
8 3 0.05
9 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:16094799 original size:39 final size:37
Alignment explanation
Indices: 16094731--16094817 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 37
16094721 TTATTTAAAG
**
16094731 AAAATAAAAAATAAAATAAAAAAATAAAAATGAAAATA
1 AAAAT-AAAAATAAAATAAAAAAATAAAAACAAAAATA
16094769 AAAATAAAAATAAAGGA-AAATAAAATAAAAACAAAAATA
1 AAAATAAAAATAAA--ATAAA-AAAATAAAAACAAAAATA
*
16094808 AATATAAAAA
1 AAAATAAAAA
16094818 GTATTAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 9 0.21
38 8 0.19
39 26 0.60
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.15
Consensus pattern (37 bp):
AAAATAAAAATAAAATAAAAAAATAAAAACAAAAATA
Found at i:16095746 original size:48 final size:50
Alignment explanation
Indices: 16095690--16095786 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 50
16095680 TCTCCAGCCG
*
16095690 AAAAAGAAAATAA-AAATAA-A-ATAAA-AAAATATATATTAATAGATAATT
1 AAAAAGAAAATAACAAATAACAGATAAATAAAA-ATA-AATAATAGATAATT
16095738 AAAAAGAAAATAACCAAATAACAGATAAATAAAAATAAATAATAGATAA
1 AAAAAGAAAATAA-CAAATAACAGATAAATAAAAATAAATAATAGATAA
16095787 ATTATAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
48 13 0.30
50 6 0.14
51 12 0.28
52 8 0.19
53 4 0.09
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (50 bp):
AAAAAGAAAATAACAAATAACAGATAAATAAAAATAAATAATAGATAATT
Found at i:16095777 original size:4 final size:4
Alignment explanation
Indices: 16095762--16095921 Score: 95
Period size: 4 Copynumber: 40.0 Consensus size: 4
16095752 CAAATAACAG
* * *
16095762 ATAA AT-A A-AA ATAA AT-A ATAG ATAA ATTATA ATAT ATAA ATAT ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA
* * * *
16095809 ATACTA ATAA ATAC ATAT ATATA AT-A ATAT ATAA ATAG ATAA ATAA ATAA
1 ATA--A ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
16095859 ATAA A-AA AT-A AT-A AT-A ATAA ATATA TATTA ATAA ATAGTA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA ATA--A ATAA
*
16095903 A-AA ATAA ATAT ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA
16095922 TACATAAGAT
Statistics
Matches: 123, Mismatches: 17, Indels: 32
0.72 0.10 0.19
Matches are distributed among these distances:
3 25 0.20
4 78 0.63
5 8 0.07
6 12 0.10
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (4 bp):
ATAA
Found at i:16095777 original size:10 final size:10
Alignment explanation
Indices: 16095762--16095912 Score: 58
Period size: 10 Copynumber: 14.7 Consensus size: 10
16095752 CAAATAACAG
16095762 ATAAATAAAA
1 ATAAATAAAA
*
16095772 ATAAATAATAG
1 ATAAATAA-AA
* *
16095783 ATAAATTATA
1 ATAAATAAAA
*
16095793 ATATATAAATA
1 ATAAATAAA-A
**
16095804 TATAAATACTA
1 -ATAAATAAAA
* *
16095815 ATAAATACAT
1 ATAAATAAAA
* *
16095825 ATATATAATA
1 ATAAATAAAA
*
16095835 ATATATAAATA
1 ATAAATAAA-A
16095846 GATAAAT--AA
1 -ATAAATAAAA
16095855 ATAAATAAAA
1 ATAAATAAAA
*
16095865 A-ATAATAATA
1 ATA-AATAAAA
* *
16095875 ATAAATATAT
1 ATAAATAAAA
*
16095885 ATTAATAAATA
1 ATAAATAAA-A
*
16095896 GT-AATAAAAA
1 ATAAAT-AAAA
16095906 ATAAATA
1 ATAAATA
16095913 TATAAATAAT
Statistics
Matches: 102, Mismatches: 27, Indels: 24
0.67 0.18 0.16
Matches are distributed among these distances:
8 6 0.06
9 2 0.02
10 64 0.63
11 19 0.19
12 11 0.11
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:16095793 original size:14 final size:15
Alignment explanation
Indices: 16095770--16095917 Score: 85
Period size: 14 Copynumber: 9.7 Consensus size: 15
16095760 AGATAAATAA
*
16095770 AAATAAATAATAGAT
1 AAATATATAATAGAT
*
16095785 AAAT-TATAATATAT
1 AAATATATAATAGAT
*
16095799 AAATATATAAATACTAAT
1 AAATATAT-AATA--GAT
16095817 AAATACATATATATA-AT
1 AAAT--ATATA-ATAGAT
16095834 -AATATATAAATAGAT
1 AAATATAT-AATAGAT
* *
16095849 AAATAAATAAATA-AA
1 AAATATAT-AATAGAT
16095864 AAATA-ATAATA-AT
1 AAATATATAATAGAT
*
16095877 AAATATATATTA-AT
1 AAATATATAATAGAT
* *
16095891 AAATAGTAATAAAAAAT
1 AAATA-T-ATAATAGAT
16095908 AAATATATAA
1 AAATATATAA
16095918 ATAATACATA
Statistics
Matches: 110, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.09
14 33 0.30
15 21 0.19
16 23 0.21
17 9 0.08
18 6 0.05
19 1 0.01
20 7 0.06
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (15 bp):
AAATATATAATAGAT
Found at i:16095886 original size:46 final size:48
Alignment explanation
Indices: 16095762--16095928 Score: 143
Period size: 46 Copynumber: 3.5 Consensus size: 48
16095752 CAAATAACAG
* * *
16095762 ATAAAT-AAAAATAAATAATAGATAAAT-TATAATATATAAATATATAA
1 ATAAATAAAAAATAAATAATACATAAATATAT-ATAAATAAATAAATAA
* * * * *
16095809 AT-ACTAATAAATACAT-ATATAT-AATAATATATAAATAGATAAATAA
1 ATAAATAAAAAATAAATAATACATAAAT-ATATATAAATAAATAAATAA
*
16095855 ATAAATAAAAAAT-AATAATA-ATAAATATATATTAATAAATAGTAATAA
1 ATAAATAAAAAATAAATAATACATAAATATATATAAATAAATA--AATAA
*
16095903 A-AAATAAATATATAAATAATACATAA
1 ATAAATAAA-AAATAAATAATACATAA
16095929 GATACACAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
45 3 0.03
46 39 0.41
47 34 0.35
48 9 0.09
49 7 0.07
50 4 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (48 bp):
ATAAATAAAAAATAAATAATACATAAATATATATAAATAAATAAATAA
Found at i:16095902 original size:40 final size:37
Alignment explanation
Indices: 16095762--16095928 Score: 141
Period size: 42 Copynumber: 4.4 Consensus size: 37
16095752 CAAATAACAG
* *
16095762 ATAAATA-A-AAATAAAT-AATAGATAAATTATAATAT
1 ATAAATAGATAAATAAATAAATA-AAAAATAATAATAT
* *
16095797 ATAAATATATAAATACTAATAAATACATATATATAATAATAT
1 ATAAATAGATAAATA--AATAAATA-A-A-AAATAATAATAT
16095839 ATAAATAGATAAATAAATAAATAAAAAATAATAATA-
1 ATAAATAGATAAATAAATAAATAAAAAATAATAATAT
*
16095875 ATAAATATATATTAATAAATAGTAATAAAAAAT-A-AATAT
1 ATAAATAGATA--AATAAATA--AATAAAAAATAATAATAT
*
16095914 ATAAATA-ATACATAA
1 ATAAATAGATAAATAA
16095929 GATACACAGA
Statistics
Matches: 112, Mismatches: 8, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
35 7 0.06
36 15 0.13
37 15 0.13
38 16 0.14
39 12 0.11
40 23 0.21
42 24 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (37 bp):
ATAAATAGATAAATAAATAAATAAAAAATAATAATAT
Found at i:16095973 original size:7 final size:7
Alignment explanation
Indices: 16095963--16096007 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
16095953 AAAAATATAA
16095963 AAAATAT
1 AAAATAT
16095970 AAAATA-
1 AAAATAT
16095976 AAAATA-
1 AAAATAT
16095982 AAAATAT
1 AAAATAT
16095989 AGAAATAT
1 A-AAATAT
16095997 AAAATAT
1 AAAATAT
16096004 AAAA
1 AAAA
16096008 AAAAATGGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.33
7 17 0.47
8 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (7 bp):
AAAATAT
Found at i:16095984 original size:27 final size:29
Alignment explanation
Indices: 16095957--16096013 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
16095947 AAGAGAAAAA
*
16095957 ATATAAAAAATATAAAATA-AAAATAAAA-
1 ATAT-AAAAATATAAAATATAAAAAAAAAT
*
16095985 ATATAGAAATATAAAATATAAAAAAAAAT
1 ATATAAAAATATAAAATATAAAAAAAAAT
16096014 GGGCCTACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (29 bp):
ATATAAAAATATAAAATATAAAAAAAAAT
Found at i:16098514 original size:29 final size:29
Alignment explanation
Indices: 16098451--16098526 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
16098441 AAGATTCGGA
* * *
16098451 TTTTAAGGGTTTGGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTGGATTTAAGTATGGAAGG
*
16098481 TTTTAGGGTTTGGTTTTAAGGTATGGAAGG
1 TTTTAGGGTTTGGATTTAA-GTATGGAAGG
*
16098511 -TTTAGGGTTTTGATTT
1 TTTTAGGGTTTGGATTT
16098527 TACAGTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 28 0.72
30 11 0.28
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (29 bp):
TTTTAGGGTTTGGATTTAAGTATGGAAGG
Found at i:16098538 original size:29 final size:28
Alignment explanation
Indices: 16098456--16098584 Score: 77
Period size: 30 Copynumber: 4.5 Consensus size: 28
16098446 TCGGATTTTA
* *
16098456 AGGGTTTGGA-TTTAAGTTTTGAGGGTTTT
1 AGGGTTTTGATTTTAAG-TTTGAAGG-TTT
* *
16098485 AGGG-TTTGGTTTTAAGGTATGGAAGGTTT
1 AGGGTTTTGATTTTAA-GT-TTGAAGGTTT
*
16098514 AGGGTTTTGATTTTACAGTTTGAAGATTTT
1 AGGGTTTTGATTTTA-AGTTTGAAG-GTTT
* * *
16098544 AAGGTTTCGATTTTAAAATTTG-AGGTTT
1 AGGGTTTTGATTTT-AAGTTTGAAGGTTT
*
16098572 -GAGGTTTTAATTT
1 AG-GGTTTTGATTT
16098585 AAGGGTTTGA
Statistics
Matches: 78, Mismatches: 14, Indels: 17
0.72 0.13 0.16
Matches are distributed among these distances:
28 15 0.19
29 24 0.31
30 37 0.47
31 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (28 bp):
AGGGTTTTGATTTTAAGTTTGAAGGTTT
Found at i:16098670 original size:16 final size:16
Alignment explanation
Indices: 16098651--16098734 Score: 100
Period size: 16 Copynumber: 5.2 Consensus size: 16
16098641 TTTTATGAGG
*
16098651 TTTTGGATTTAAGGGA
1 TTTTGGATTTTAGGGA
*
16098667 TTTTGAATTTTA-GGA
1 TTTTGGATTTTAGGGA
*
16098682 GTTTCGGATTTTA-GGA
1 -TTTTGGATTTTAGGGA
16098698 TTTTGGATTTTAGGAGA
1 TTTTGGATTTTAGG-GA
*
16098715 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGA
16098731 TTTT
1 TTTT
16098735 AGAAACCTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
15 14 0.24
16 29 0.49
17 16 0.27
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTTGGATTTTAGGGA
Found at i:16098723 original size:32 final size:31
Alignment explanation
Indices: 16098639--16098728 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 31
16098629 TGGGATTTCA
* *
16098639 GATTTTATGAGGTTTTGGATTTAAGGGATTTTG
1 GATTTTAGGA-GTTTTGGATTTTA-GGATTTTG
* *
16098672 AATTTTAGGAGTTTCGGATTTTAGGATTTTG
1 GATTTTAGGAGTTTTGGATTTTAGGATTTTG
16098703 GATTTTAGGAGATTTTGGATTTTAGG
1 GATTTTAGGAG-TTTTGGATTTTAGG
16098729 GGTTTTAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 18 0.36
32 24 0.48
33 8 0.16
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (31 bp):
GATTTTAGGAGTTTTGGATTTTAGGATTTTG
Found at i:16098960 original size:16 final size:16
Alignment explanation
Indices: 16098936--16098966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16098926 ACATCTAGGC
*
16098936 GAAATTATTTTTTTAG
1 GAAAATATTTTTTTAG
16098952 GAAAATATTTTTTTA
1 GAAAATATTTTTTTA
16098967 TTCCCTCAAA
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:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
GAAAATATTTTTTTAG
Found at i:16099951 original size:32 final size:32
Alignment explanation
Indices: 16099889--16099951 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
16099879 GTTTTATGGT
*
16099889 TTTTTTTGTGTTGATTTTTGTAGATCTGTTTG
1 TTTTTTTGTGTTGATTTTTGGAGATCTGTTTG
*
16099921 TTTTTTTGT-TTGGATATTTTGGGGAT-TGTTT
1 TTTTTTTGTGTT-GAT-TTTTGGAGATCTGTTT
16099952 AGGTTTGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 2 0.07
32 17 0.63
33 8 0.30
ACGTcount: A:0.10, C:0.02, G:0.24, T:0.65
Consensus pattern (32 bp):
TTTTTTTGTGTTGATTTTTGGAGATCTGTTTG
Found at i:16103838 original size:32 final size:32
Alignment explanation
Indices: 16103769--16103839 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
16103759 AATAAAAATG
* * * * * *
16103769 AAAAAATAATTTTTTTAAAAAATGATAATTAA
1 AAAAAAGAATTTTATGAAAAAAGGAAAACTAA
16103801 AAAAAAGAATTTTATGAAAAAAGGAAAACTAA
1 AAAAAAGAATTTTATGAAAAAAGGAAAACTAA
16103833 TAAAAAA
1 -AAAAAA
16103840 TGAAGATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (32 bp):
AAAAAAGAATTTTATGAAAAAAGGAAAACTAA
Found at i:16104069 original size:18 final size:18
Alignment explanation
Indices: 16104046--16104083 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16104036 TACATATCTC
16104046 AAAATTATATT-TTTTAAA
1 AAAATTA-ATTATTTTAAA
16104064 AAAATTAATTAATTTTAAA
1 AAAATTAATT-ATTTTAAA
16104083 A
1 A
16104084 TTTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 7 0.39
19 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTAATTATTTTAAA
Found at i:16107577 original size:20 final size:19
Alignment explanation
Indices: 16107550--16107593 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
16107540 TACTATACTA
*
16107550 AAATAATATATTTATATAT
1 AAATAATATATATATATAT
16107569 AAATGAATATATATATATAT
1 AAAT-AATATATATATATAT
*
16107589 TAATA
1 AAATA
16107594 CTATTATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATAATATATATATATAT
Found at i:16107691 original size:15 final size:18
Alignment explanation
Indices: 16107658--16107694 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
16107648 TTTTAAACGA
16107658 AATTTTCTTTTGATCCTC
1 AATTTTCTTTTGATCCTC
16107676 AATTTT-TTTT-AT-CTC
1 AATTTTCTTTTGATCCTC
16107691 AATT
1 AATT
16107695 CTAAACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 4 0.21
18 6 0.32
ACGTcount: A:0.22, C:0.16, G:0.03, T:0.59
Consensus pattern (18 bp):
AATTTTCTTTTGATCCTC
Found at i:16109687 original size:2 final size:2
Alignment explanation
Indices: 16109680--16109710 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16109670 ATTATTATTC
16109680 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 A
16109711 CACATACGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16110028 original size:40 final size:40
Alignment explanation
Indices: 16109978--16110054 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
16109968 TAATATCTTA
*
16109978 ATTTAAGATATTAA-TT-TATTAAAAATATTATATTTTATAT
1 ATTTAAGATA-TAATTTATATTAAAAA-ATAATATTTTATAT
16110018 ATTTAAGATATAATTTATATTAAAAAATAATATTTTA
1 ATTTAAGATATAATTTATATTAAAAAATAATATTTTA
16110055 ATAAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 3 0.09
40 22 0.65
41 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (40 bp):
ATTTAAGATATAATTTATATTAAAAAATAATATTTTATAT
Found at i:16110054 original size:20 final size:19
Alignment explanation
Indices: 16109994--16110054 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
16109984 GATATTAATT
16109994 TATTAAAAATATTATATTTTA
1 TATTAAAAA-A-TATATTTTA
** * *
16110015 TATATTTAAGATATAATTTA
1 TAT-TAAAAAATATATTTTA
16110035 TATTAAAAAATAATATTTTA
1 TATTAAAAAAT-ATATTTTA
16110055 ATAAATATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
19 5 0.17
20 18 0.60
21 4 0.13
22 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTAAAAAATATATTTTA
Found at i:16111980 original size:6 final size:6
Alignment explanation
Indices: 16111967--16112036 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
16111957 CCCATTTACA
** * *
16111967 TTTT-T TTTTATT TTTTATT TTTTAT TAATAT TATTAT TATTAT TTATT-T
1 TTTTAT TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT
*
16112016 ATTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
16112037 ATCATTTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
5 6 0.11
6 34 0.62
7 15 0.27
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16112003 original size:3 final size:3
Alignment explanation
Indices: 16111988--16112113 Score: 69
Period size: 3 Copynumber: 39.7 Consensus size: 3
16111978 TTTTTATTTT
* * *
16111988 TTA TTA ATA TTA TTA TTA TTA TTTA TTTA TTTA TTT TTA TTT TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA
* * * *
16112035 TTA TCA TTTA TCAA TTA ATA TT- TT- TTA TTTA TCTA TTA ATA TATA
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA
*
16112080 TTT TTA TTA TTTA TCTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TT
16112114 TTCTTTTTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
2 6 0.06
3 61 0.63
4 30 0.31
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16112089 original size:23 final size:24
Alignment explanation
Indices: 16112052--16112112 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
16112042 TTATCAATTA
16112052 ATAT-TTTTTATTTATCTAT-TAAT
1 ATATATTTTTA-TTATCTATCTAAT
* *
16112075 ATATATTTTTATTATTTATCTATT
1 ATATATTTTTATTATCTATCTAAT
*
16112099 AT-TATTATTATTAT
1 ATATATTTTTATTAT
16112113 TTTCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
ATATATTTTTATTATCTATCTAAT
Found at i:16112126 original size:31 final size:29
Alignment explanation
Indices: 16112055--16112126 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 29
16112045 TCAATTAATA
*
16112055 TTTTTTATTTATCTATTAATATATATTTT
1 TTTTTTATCTATCTATTAATATATATTTT
*
16112084 TATTATTTATCTAT-TATTATTATTATTATTTT
1 T-TT-TTTATCTATCTATTAATA-TA-TATTTT
16112116 CTTTTTTATCT
1 -TTTTTTATCT
16112127 TTTTCTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
29 1 0.03
30 9 0.25
31 17 0.47
32 8 0.22
33 1 0.03
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTTATCTATCTATTAATATATATTTT
Found at i:16112876 original size:13 final size:13
Alignment explanation
Indices: 16112854--16112897 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
16112844 TTTTTTTTGG
*
16112854 TATTTT-TTTATT
1 TATTTTATTTAAT
*
16112866 TATTTTATTTAAG
1 TATTTTATTTAAT
16112879 TATTTTATTTAAT
1 TATTTTATTTAAT
16112892 TATTTT
1 TATTTT
16112898 TTTTGTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:16112936 original size:10 final size:11
Alignment explanation
Indices: 16112914--16112949 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
16112904 TTTTAATTAT
*
16112914 TAAATTAAAAA
1 TAAAGTAAAAA
16112925 TAAAGT-AAAA
1 TAAAGTAAAAA
16112935 TAAAGTAAAAA
1 TAAAGTAAAAA
16112946 TAAA
1 TAAA
16112950 AATTTTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
TAAAGTAAAAA
Found at i:16117315 original size:40 final size:39
Alignment explanation
Indices: 16117249--16117345 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 39
16117239 CTTAGGTAAG
* * **
16117249 ACACAATTATGTTCATGTATGCAATTGAAGATGAATACTA
1 ACACAATTATATTCATGTAT-CAATTGAAGATAAATAAAA
16117289 ACACAATTATATTCATGTGCAT-AATTGAAGATAAATAAAA
1 ACACAATTATATTCATGT--ATCAATTGAAGATAAATAAAA
* *
16117329 ACATAATTCTATTCATG
1 ACACAATTATATTCATG
16117346 AAATGCAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 47 0.96
42 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (39 bp):
ACACAATTATATTCATGTATCAATTGAAGATAAATAAAA
Found at i:16122875 original size:2 final size:2
Alignment explanation
Indices: 16122868--16122892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16122858 GTGCATAATT
16122868 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16122893 TTCGTTCGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16123719 original size:2 final size:2
Alignment explanation
Indices: 16123712--16123737 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16123702 TATTGATGTA
16123712 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16123738 CTTTATGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16124382 original size:23 final size:22
Alignment explanation
Indices: 16124340--16124383 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16124330 TCAGTAATCA
*
16124340 TAATTTGATTATAACGTAAAAC
1 TAATTTGAATATAACGTAAAAC
*
16124362 TAATTATGAATATAACTTAAAA
1 TAATT-TGAATATAACGTAAAA
16124384 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (22 bp):
TAATTTGAATATAACGTAAAAC
Found at i:16125750 original size:15 final size:15
Alignment explanation
Indices: 16125730--16125776 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
16125720 AATGATATTA
16125730 TAAATAAGATTATAT
1 TAAATAAGATTATAT
16125745 TAAATAAGATTATAT
1 TAAATAAGATTATAT
* *
16125760 TAAATAATATCATAT
1 TAAATAAGATTATAT
16125775 TA
1 TA
16125777 TCTTATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (15 bp):
TAAATAAGATTATAT
Found at i:16128682 original size:15 final size:15
Alignment explanation
Indices: 16128645--16128696 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
16128635 TTTGATAAAT
* *
16128645 TAATTCAAAATATAT
1 TAATTTAAAATATAA
*
16128660 TAATTTTAAAATTTAA
1 TAA-TTTAAAATATAA
* *
16128676 TAATTTAAATTAAAA
1 TAATTTAAAATATAA
16128691 TAATTT
1 TAATTT
16128697 GACACGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTTAAAATATAA
Found at i:16136474 original size:1 final size:1
Alignment explanation
Indices: 16136468--16136492 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16136458 TAGCCAACAG
16136468 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
16136493 CCCTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16137288 original size:39 final size:39
Alignment explanation
Indices: 16137244--16137318 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
16137234 ACCACCCCAG
16137244 CCCTATCCTACACCTTCAGACTCTTGGCTACCACATCAA
1 CCCTATCCTACACCTTCAGACTCTTGGCTACCACATCAA
* * *
16137283 CCCTATGCTACACCTTCAGACTCTTGTCTGCCACAT
1 CCCTATCCTACACCTTCAGACTCTTGGCTACCACAT
16137319 TGGATTCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.23, C:0.40, G:0.09, T:0.28
Consensus pattern (39 bp):
CCCTATCCTACACCTTCAGACTCTTGGCTACCACATCAA
Found at i:16139692 original size:30 final size:30
Alignment explanation
Indices: 16139640--16139706 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
16139630 AATTGAAGTG
* *
16139640 AATATAAATATTTAACGGTTTAATTCATTCAA
1 AATA-AAAAATTTAACGATTTAATTCATT-AA
*
16139672 AATAAAAAATTTAA-GATTTAATTTATTAA
1 AATAAAAAATTTAACGATTTAATTCATTAA
16139701 AATAAA
1 AATAAA
16139707 TTTTAGAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.25
30 11 0.34
31 9 0.28
32 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (30 bp):
AATAAAAAATTTAACGATTTAATTCATTAA
Found at i:16146300 original size:22 final size:20
Alignment explanation
Indices: 16146259--16146304 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
16146249 TTAGTTTAGT
*
16146259 TTAAATAATTATTGATAAAA
1 TTAAATAATTATTGAGAAAA
*
16146279 TTAAATAAATTTATTTAGAAAA
1 TTAAAT-AA-TTATTGAGAAAA
16146301 TTAA
1 TTAA
16146305 TTCAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 2 0.09
22 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TTAAATAATTATTGAGAAAA
Found at i:16148253 original size:45 final size:45
Alignment explanation
Indices: 16148176--16148262 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
16148166 CATAGTCTTT
** * ** *
16148176 AAAAACAAAGACCATTTTTTTATGTAAAAAACATAATATTTGAAA
1 AAAAACAAAGACCAAATTTTAAAATAAAAAACACAATATTTGAAA
* *
16148221 AAAAACAAAGACCAAATTTTAAAATAAGAAACACAATTTTTG
1 AAAAACAAAGACCAAATTTTAAAATAAAAAACACAATATTTG
16148263 TTAAATAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (45 bp):
AAAAACAAAGACCAAATTTTAAAATAAAAAACACAATATTTGAAA
Found at i:16148267 original size:24 final size:22
Alignment explanation
Indices: 16148242--16148295 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
16148232 CCAAATTTTA
*
16148242 AAATAAGAAACACAATTTTTGTT
1 AAATAACAAA-ACAATTTTTGTT
16148265 AAATAACAAAACAA-TTTT-TT
1 AAATAACAAAACAATTTTTGTT
16148285 AAATAACAAAA
1 AAATAACAAAA
16148296 ACCACATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.43
21 4 0.13
22 4 0.13
23 9 0.30
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATAACAAAACAATTTTTGTT
Done.