Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 87 of 129
Found at i:15545559 original size:20 final size:20
Alignment explanation
Indices: 15545516--15545560 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15545506 TCATATTTGA
*
15545516 TCAAACTAAGTCAAAATTAG
1 TCAAACTAAGTCAAAATTAC
* *
15545536 TCAAACTTAGTCAAAATTCC
1 TCAAACTAAGTCAAAATTAC
15545556 TCAAA
1 TCAAA
15545561 ATTCACAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (20 bp):
TCAAACTAAGTCAAAATTAC
Found at i:15547678 original size:7 final size:7
Alignment explanation
Indices: 15547636--15547837 Score: 91
Period size: 6 Copynumber: 31.0 Consensus size: 7
15547626 AAATGCAAAC
15547636 CCCTAAA
1 CCCTAAA
*
15547643 CCTTAAA
1 CCCTAAA
*
15547650 ACCTCAAA
1 CCCT-AAA
*
15547658 TCC-AAA
1 CCCTAAA
*
15547664 CCC-CAA
1 CCCTAAA
15547670 CCCTAAA
1 CCCTAAA
15547677 CCCTAAA
1 CCCTAAA
*
15547684 -ACTAAA
1 CCCTAAA
*
15547690 CCATTAAA
1 CC-CTAAA
15547698 CCC-AAA
1 CCCTAAA
*
15547704 ACCTAAAA
1 CCCT-AAA
15547712 CCCTAAAA
1 CCCT-AAA
15547720 CCCTAAA
1 CCCTAAA
*
15547727 -CCTAAG
1 CCCTAAA
15547733 CCCT-AA
1 CCCTAAA
15547739 CCCTAAA
1 CCCTAAA
15547746 -CCTAAA
1 CCCTAAA
*
15547752 -CCTTAA
1 CCCTAAA
*
15547758 -CCTTAA
1 CCCTAAA
*
15547764 CCTTAAA
1 CCCTAAA
15547771 -CCT-AA
1 CCCTAAA
*
15547776 TCCT-AA
1 CCCTAAA
*
15547782 TCCTAAA
1 CCCTAAA
*
15547789 ACCTAAA
1 CCCTAAA
*
15547796 -CTTAAA
1 CCCTAAA
15547802 CCCT-AA
1 CCCTAAA
*
15547808 -CCTAGA
1 CCCTAAA
15547814 CCCTAAA
1 CCCTAAA
15547821 -CC--AA
1 CCCTAAA
15547825 CCC-AAA
1 CCCTAAA
15547831 CCCTAAA
1 CCCTAAA
15547838 ACCAATCATG
Statistics
Matches: 154, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
4 2 0.01
5 7 0.05
6 73 0.47
7 47 0.31
8 25 0.16
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:15547684 original size:34 final size:34
Alignment explanation
Indices: 15547631--15547837 Score: 111
Period size: 31 Copynumber: 6.3 Consensus size: 34
15547621 ACCCTAAATG
*
15547631 CAAACCCCTAAACCTTAAAACCTCAAATCC-AAACC
1 CAAA-CCCTAAACCCTAAAACCTCAAA-CCTAAACC
*
15547666 CCAACCCTAAACCCTAAAA-CT-AAACCATTAAACC
1 CAAACCCTAAACCCTAAAACCTCAAACC--TAAACC
* *
15547700 CAAAACCTAAAACCCTAAAACC-CTAAACCTAAGCC
1 CAAACCCT-AAACCCTAAAACCTC-AAACCTAAACC
* * *
15547735 CTAACCCTAAA-CCT-AAACCT-TAACCTTAACC
1 CAAACCCTAAACCCTAAAACCTCAAACCTAAACC
* * * * *
15547766 TTAAA-CCT-AATCCT-AATCCTAAAACCTAAACT
1 -CAAACCCTAAACCCTAAAACCTCAAACCTAAACC
* * *
15547798 TAAACCCT-AA-CCTAGACCCT-AAACC--AACC
1 CAAACCCTAAACCCTAAAACCTCAAACCTAAACC
15547827 CAAACCCTAAA
1 CAAACCCTAAA
15547838 ACCAATCATG
Statistics
Matches: 138, Mismatches: 20, Indels: 33
0.72 0.10 0.17
Matches are distributed among these distances:
29 10 0.07
30 4 0.03
31 33 0.24
32 27 0.20
33 5 0.04
34 28 0.20
35 25 0.18
36 1 0.01
37 5 0.04
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (34 bp):
CAAACCCTAAACCCTAAAACCTCAAACCTAAACC
Found at i:15547688 original size:13 final size:13
Alignment explanation
Indices: 15547637--15547822 Score: 107
Period size: 13 Copynumber: 14.2 Consensus size: 13
15547627 AATGCAAACC
*
15547637 CCTAAACCTTAAAA
1 CCTAAACCCT-AAA
*
15547651 CCTCAAATCC-AAA
1 CCT-AAACCCTAAA
**
15547664 CCCCAACCCTAAA
1 CCTAAACCCTAAA
*
15547677 CCCTAAA-ACTAAA
1 -CCTAAACCCTAAA
*
15547690 CCATTAAACCCAAAA
1 CC--TAAACCCTAAA
15547705 CCTAAAACCCTAAAA
1 CCT-AAACCCT-AAA
*
15547720 CCCTAAA-CCTAAGC
1 -CCTAAACCCTAA-A
15547734 CCT-AACCCTAAA
1 CCTAAACCCTAAA
*
15547746 CCTAAA-CCTTAA
1 CCTAAACCCTAAA
* *
15547758 CCTTAACCTTAAA
1 CCTAAACCCTAAA
* *
15547771 CCT-AATCCTAAT
1 CCTAAACCCTAAA
*
15547783 CCTAAAACCTAAA
1 CCTAAACCCTAAA
*
15547796 CTTAAACCCT-AA
1 CCTAAACCCTAAA
*
15547808 CCTAGACCCTAAA
1 CCTAAACCCTAAA
15547821 CC
1 CC
15547823 AACCCAAACC
Statistics
Matches: 131, Mismatches: 26, Indels: 31
0.70 0.14 0.16
Matches are distributed among these distances:
12 40 0.31
13 52 0.40
14 20 0.15
15 16 0.12
16 3 0.02
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (13 bp):
CCTAAACCCTAAA
Found at i:15547716 original size:8 final size:8
Alignment explanation
Indices: 15547668--15547726 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 8
15547658 TCCAAACCCC
15547668 AACCCT-A
1 AACCCTAA
15547675 AACCCTAA
1 AACCCTAA
15547683 AA--CT-A
1 AACCCTAA
* *
15547688 AACCATTA
1 AACCCTAA
15547696 AACCC-AA
1 AACCCTAA
15547703 AA-CCTAA
1 AACCCTAA
15547710 AACCCTAA
1 AACCCTAA
15547718 AACCCTAA
1 AACCCTAA
15547726 A
1 A
15547727 CCTAAGCCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
5 3 0.07
6 4 0.09
7 14 0.33
8 22 0.51
ACGTcount: A:0.53, C:0.34, G:0.00, T:0.14
Consensus pattern (8 bp):
AACCCTAA
Found at i:15547742 original size:19 final size:18
Alignment explanation
Indices: 15547668--15547837 Score: 85
Period size: 19 Copynumber: 8.8 Consensus size: 18
15547658 TCCAAACCCC
*
15547668 AACCCTAAACCCTAAAACT
1 AACCCT-AACCCTAAACCT
* *
15547687 AAACCATTAAACCCAAAACCT
1 -AACC-CT-AACCCTAAACCT
15547708 AAAACCCTAAAACCCTAAACCT
1 --AACCCT--AACCCTAAACCT
15547730 AAGCCCTAACCCTAAACCT
1 AA-CCCTAACCCTAAACCT
* *
15547749 AAACCTTAA-CCTTAACCTT
1 -AACCCTAACCCTAAACC-T
* * *
15547768 AAACCTAATCCTAATCCT
1 AACCCTAACCCTAAACCT
* * *
15547786 AAAACCTAAACTTAAACCCT
1 -AACCCTAACCCTAAA-CCT
15547806 AA-CCTAGACCCTAAACC-
1 AACCCTA-ACCCTAAACCT
*
15547823 AACCCAAACCCTAAA
1 AACCCTAACCCTAAA
15547838 ACCAATCATG
Statistics
Matches: 122, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
17 10 0.08
18 23 0.19
19 44 0.36
20 11 0.09
21 17 0.14
22 17 0.14
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (18 bp):
AACCCTAACCCTAAACCT
Found at i:15547745 original size:35 final size:34
Alignment explanation
Indices: 15547661--15547745 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 34
15547651 CCTCAAATCC
*
15547661 AAACCCCAACCCT-AAACCCTAAAACTAAACCATT
1 AAACCCAAACCCTAAAACCCTAAAACTAAACCA-T
*
15547695 AAACCCAAAACCTAAAACCCTAAAACCCTAAACC-T
1 AAACCCAAACCCTAAAACCCTAAAA--CTAAACCAT
* *
15547730 AAGCCCTAACCCTAAA
1 AAACCCAAACCCTAAA
15547746 CCTAAACCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 11 0.26
35 25 0.58
37 7 0.16
ACGTcount: A:0.48, C:0.38, G:0.01, T:0.13
Consensus pattern (34 bp):
AAACCCAAACCCTAAAACCCTAAAACTAAACCAT
Found at i:15547754 original size:25 final size:24
Alignment explanation
Indices: 15547710--15547836 Score: 105
Period size: 25 Copynumber: 5.1 Consensus size: 24
15547700 CAAAACCTAA
15547710 AACCCTAAAACCCTAAACCTAAGCCCT
1 AACCCT-AAA-CCTAAACCTAA-CCCT
*
15547737 AACCCTAAACCTAAACCTTAACCTT
1 AACCCTAAACCTAAACC-TAACCCT
* * *
15547762 AACCTTAAACCTAATCCTAATCCT
1 AACCCTAAACCTAAACCTAACCCT
* *
15547786 AAAACCTAAACTTAAACCCTAA-CCT
1 -AACCCTAAACCTAAA-CCTAACCCT
* *
15547811 AGACCCTAAACC-AACCCAAACCCT
1 A-ACCCTAAACCTAAACCTAACCCT
15547835 AA
1 AA
15547837 AACCAATCAT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
23 5 0.06
24 12 0.15
25 48 0.59
26 11 0.13
27 6 0.07
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.19
Consensus pattern (24 bp):
AACCCTAAACCTAAACCTAACCCT
Found at i:15547775 original size:31 final size:32
Alignment explanation
Indices: 15547637--15547820 Score: 97
Period size: 34 Copynumber: 5.4 Consensus size: 32
15547627 AATGCAAACC
* * *
15547637 CCTAAACCTTAAAACCTCAAA-TCCAAACCCCAAC
1 CCTAAACC-TAAAACCT-AAACT-TAAACCCTAAA
*
15547671 CCTAAACCCTAAAA-CTAAACCATTAAACCCAAAA
1 CCTAAA-CCTAAAACCTAAA-C-TTAAACCCTAAA
* * *
15547705 CCTAAAACCCTAAAACCCTAAACCTAAGCCCTAAC
1 CCT-AAA-CCTAAAA-CCTAAACTTAAACCCTAAA
* *
15547740 CCTAAACCTAAACCTTAACCTTAACCTTAAA-CCTAAT
1 CCTAAACCT-AA----AACC-TAAACTTAAACCCTAAA
*
15547777 CCTAATCCTAAAACCTAAACTTAAACCCT-AA
1 CCTAAACCTAAAACCTAAACTTAAACCCTAAA
*
15547808 CCTAGACCCTAAA
1 CCTA-AACCTAAA
15547821 CCAACCCAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
31 14 0.12
32 17 0.14
33 5 0.04
34 27 0.22
35 25 0.21
36 3 0.03
37 20 0.17
38 9 0.08
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (32 bp):
CCTAAACCTAAAACCTAAACTTAAACCCTAAA
Found at i:15548311 original size:12 final size:13
Alignment explanation
Indices: 15548294--15548326 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
15548284 TTTTGTTTTT
15548294 AGAAAAAAA-AAA
1 AGAAAAAAAGAAA
15548306 AGAAAAAAAGAAA
1 AGAAAAAAAGAAA
15548319 AGAGAAAA
1 AGA-AAAA
15548327 GGAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 6 0.32
14 4 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAGAAA
Found at i:15549777 original size:18 final size:17
Alignment explanation
Indices: 15549756--15549803 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
15549746 CTAAAAAACT
15549756 AAAAAAAAAATCAAAAGA
1 AAAAAAAAAATCAAAA-A
* *
15549774 AAAAAAGAAATGAAAAA
1 AAAAAAAAAATCAAAAA
*
15549791 AGTAAAAAAAATC
1 A-AAAAAAAAATC
15549804 TTTGAATCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAATCAAAAA
Found at i:15552797 original size:14 final size:13
Alignment explanation
Indices: 15552763--15552812 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 13
15552753 GTGCCTTGGA
*
15552763 AAAAGAAAAA-AC
1 AAAAGAAAAATAT
15552775 AAAA-AAAAATAT
1 AAAAGAAAAATAT
*
15552787 AAAAGATAAAAGAT
1 AAAAGA-AAAATAT
*
15552801 AAAGGAAAAATA
1 AAAAGAAAAATA
15552813 AAAGAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 5 0.16
12 9 0.29
13 6 0.19
14 11 0.35
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAGAAAAATAT
Found at i:15553946 original size:16 final size:16
Alignment explanation
Indices: 15553925--15553964 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
15553915 ACTCAAAGGG
15553925 AAAAAAAATG-AAAAC
1 AAAAAAAATGAAAAAC
15553940 AAAAAAAATGAAAAAC
1 AAAAAAAATGAAAAAC
15553956 AAATAAAAA
1 AAA-AAAAA
15553965 AATAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (16 bp):
AAAAAAAATGAAAAAC
Found at i:15553984 original size:21 final size:20
Alignment explanation
Indices: 15553940--15553999 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
15553930 AAATGAAAAC
*
15553940 AAAAAAAATGAAAAAC--AA
1 AAAAAAAATAAAAAACTGAA
15553958 ATAAAAAAATAAAAAACTGAA
1 A-AAAAAAATAAAAAACTGAA
15553979 GAAAAAAAATGAAAAAA-TGAA
1 -AAAAAAAAT-AAAAAACTGAA
15554000 TGATTGAGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 1 0.03
19 14 0.39
21 14 0.39
22 7 0.19
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAAAAAATAAAAAACTGAA
Found at i:15555240 original size:25 final size:26
Alignment explanation
Indices: 15555206--15555256 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15555196 TTGTATGGAT
*
15555206 CATTTGCATC-AGGAAAAGACATTTA
1 CATTTGCATCAAGAAAAAGACATTTA
*
15555231 CATTTGCATCAAGAAAAAGATATTTA
1 CATTTGCATCAAGAAAAAGACATTTA
15555257 TATGTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (26 bp):
CATTTGCATCAAGAAAAAGACATTTA
Found at i:15555536 original size:24 final size:24
Alignment explanation
Indices: 15555502--15555547 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15555492 AAGATAAGAT
*
15555502 CTTTTGAAACAAATAGTGAAAAAA
1 CTTTTGAAACAAAAAGTGAAAAAA
*
15555526 CTTTTGGAACAAAAAGTGAAAA
1 CTTTTGAAACAAAAAGTGAAAA
15555548 TTTTCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (24 bp):
CTTTTGAAACAAAAAGTGAAAAAA
Found at i:15555779 original size:39 final size:39
Alignment explanation
Indices: 15555731--15555882 Score: 130
Period size: 39 Copynumber: 3.9 Consensus size: 39
15555721 ACCTCTAGGA
* * *
15555731 AAAATTTTAAATTTTCGAATGATTTTCAAGA-TTATAAAC
1 AAAACTTTAAATTTTTGAATGATTTTCAAGACTT-CAAAC
* *
15555770 ATAACTTTAAATTTTTGAATGA-TTTCAAGACCTTCAAGC
1 AAAACTTTAAATTTTTGAATGATTTTCAAGA-CTTCAAAC
* * * *
15555809 AAAACTTTAAATTTTTTAATGATTTCCAAGACCTCTAGGA-
1 AAAACTTTAAATTTTTGAATGATTTTCAAGACTTC-A-AAC
* * * *
15555849 AAAATTTTAAATTTTTAAAAGATTTTTAAGACTT
1 AAAACTTTAAATTTTTGAATGATTTTCAAGACTT
15555883 GTAGGCAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
38 8 0.09
39 45 0.49
40 38 0.42
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (39 bp):
AAAACTTTAAATTTTTGAATGATTTTCAAGACTTCAAAC
Found at i:15555839 original size:40 final size:41
Alignment explanation
Indices: 15555648--15555917 Score: 182
Period size: 40 Copynumber: 6.8 Consensus size: 41
15555638 TAAGATCCCG
* * *
15555648 AGCAAAA-TCTTAAATTTTTGAATGATTTCCAACACCTACGA
1 AGCAAAACT-TTAAATTTTTGAATGATTTCCAAGACCTTCTA
* * * * **
15555689 A-CAAAACCTTAGATTTTTTACT-AAATCCTAAGACC-TCTA
1 AGCAAAACTTTAAATTTTTGAATGATTTCC-AAGACCTTCTA
* * * * * *
15555728 GGAAAAATTTTAAATTTTCGAATGATTTTCAAGA--TTATA
1 AGCAAAACTTTAAATTTTTGAATGATTTCCAAGACCTTCTA
* *
15555767 AACATAACTTTAAATTTTTGAATGATTT-CAAGACCTTC-A
1 AGCAAAACTTTAAATTTTTGAATGATTTCCAAGACCTTCTA
*
15555806 AGCAAAACTTTAAATTTTTTAATGATTTCCAAGACC-TCTA
1 AGCAAAACTTTAAATTTTTGAATGATTTCCAAGACCTTCTA
* * * * * ** *
15555846 GGAAAAATTTTAAATTTTTAAAAGATTTTTAAGA-CTTGTA
1 AGCAAAACTTTAAATTTTTGAATGATTTCCAAGACCTTCTA
* * * *
15555886 GGCAAAATTTTAAATTTTTAAAAGATTTCCAA
1 AGCAAAACTTTAAATTTTTGAATGATTTCCAA
15555918 AAGCCTCCAG
Statistics
Matches: 177, Mismatches: 42, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
38 5 0.03
39 60 0.34
40 108 0.61
41 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (41 bp):
AGCAAAACTTTAAATTTTTGAATGATTTCCAAGACCTTCTA
Found at i:15555873 original size:118 final size:119
Alignment explanation
Indices: 15555657--15555917 Score: 312
Period size: 118 Copynumber: 2.2 Consensus size: 119
15555647 GAGCAAAATC
* *
15555657 TTAAATTTTTGAATGATTTCCAACACCTACGAACAAAACCTTAGATTTTTTACTAAATCCTAAGA
1 TTAAATTTTTGAATGATTTCCAACACCTACGAACAAAACCTTAAATTTTTTAATAAATCCTAAGA
* *
15555722 CCTCTAGGAAAAATTTTAAATTTTCGAATGATTTTCAAGATTATAAACATAACT
66 CCTCTAGGAAAAATTTTAAATTTTCAAAAGATTTTCAAGATTATAAACATAACT
* * * **
15555776 TTAAATTTTTGAATGATTT-CAAGACCTTC-AAGCAAAACTTTAAATTTTTTAATGATTTCC-AA
1 TTAAATTTTTGAATGATTTCCAACACCTACGAA-CAAAACCTTAAATTTTTTAAT-AAATCCTAA
* * * ** * *
15555838 GACCTCTAGGAAAAATTTTAAATTTTTAAAAGATTTTTAAGACTTGTAGGCAAAATT
64 GACCTCTAGGAAAAATTTTAAATTTTCAAAAGATTTTCAAGA-TTATAAACATAACT
* *
15555895 TTAAATTTTTAAAAGATTTCCAA
1 TTAAATTTTTGAATGATTTCCAA
15555918 AAGCCTCCAG
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
117 2 0.02
118 66 0.55
119 49 0.41
120 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (119 bp):
TTAAATTTTTGAATGATTTCCAACACCTACGAACAAAACCTTAAATTTTTTAATAAATCCTAAGA
CCTCTAGGAAAAATTTTAAATTTTCAAAAGATTTTCAAGATTATAAACATAACT
Found at i:15556235 original size:22 final size:22
Alignment explanation
Indices: 15556203--15556251 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15556193 AATTTCAAAC
*
15556203 CTTAAAATCCTTCGAGCACAAT
1 CTTAAAATCCTCCGAGCACAAT
* * *
15556225 TTTAAAGTCCTCCGAGCATAAT
1 CTTAAAATCCTCCGAGCACAAT
15556247 CTTAA
1 CTTAA
15556252 GGTCTTATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (22 bp):
CTTAAAATCCTCCGAGCACAAT
Found at i:15556308 original size:22 final size:22
Alignment explanation
Indices: 15556264--15556440 Score: 119
Period size: 22 Copynumber: 8.0 Consensus size: 22
15556254 TCTTATGGGT
** *
15556264 ACAATTTCAAAGTTTTCTCGGC
1 ACAATTTCAAAGTCCTCTAGGC
15556286 ACAATTTCAAAGTCCTCTAGGC
1 ACAATTTCAAAGTCCTCTAGGC
* * *
15556308 A-TATTCTCAAAATCCTAT-GGAC
1 ACAATT-TCAAAGTCCTCTAGG-C
* * *
15556330 ACAATTTTAAAATCCTCTAAGC
1 ACAATTTCAAAGTCCTCTAGGC
* *
15556352 AAAATCTCAAAGTCCTCTAGGC
1 ACAATTTCAAAGTCCTCTAGGC
* **
15556374 ATAATTTCAAAGTCCTCT-GAAT
1 ACAATTTCAAAGTCCTCTAG-GC
* *
15556396 ACATTTTCAAAGTCCTCTGGGC
1 ACAATTTCAAAGTCCTCTAGGC
* * *
15556418 A-TATCTCAAAAGTCCTCTGGGC
1 ACAATTTC-AAAGTCCTCTAGGC
15556440 A
1 A
15556441 AAATCCTTAT
Statistics
Matches: 122, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
21 9 0.07
22 108 0.89
23 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (22 bp):
ACAATTTCAAAGTCCTCTAGGC
Found at i:15556327 original size:66 final size:66
Alignment explanation
Indices: 15556257--15556440 Score: 174
Period size: 66 Copynumber: 2.8 Consensus size: 66
15556247 CTTAAGGTCT
* ** ** * *
15556257 TATGGGTACAATTTCAAAGTTTTCTCGGCACAATTTCAAAGTCCTCTAGGCAT-ATTCTCAAAAT
1 TATGGATACAATTTCAAAGTCCTCTAAGCAAAATCTCAAAGTCCTCTAGGCATAATT-TCAAAAT
15556321 CC
65 CC
* * * *
15556323 TATGGACACAATTTTAAAATCCTCTAAGCAAAATCTCAAAGTCCTCTAGGCATAATTTCAAAGTC
1 TATGGATACAATTTCAAAGTCCTCTAAGCAAAATCTCAAAGTCCTCTAGGCATAATTTCAAAATC
15556388 C
66 C
* * * ** * *
15556389 TCTGAATACATTTTCAAAGTCCTCTGGGC-ATATCTCAAAAGTCCTCTGGGCA
1 TATGGATACAATTTCAAAGTCCTCTAAGCAAAATCTC-AAAGTCCTCTAGGCA
15556441 AAATCCTTAT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
65 6 0.06
66 86 0.91
67 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (66 bp):
TATGGATACAATTTCAAAGTCCTCTAAGCAAAATCTCAAAGTCCTCTAGGCATAATTTCAAAATC
C
Found at i:15556907 original size:10 final size:10
Alignment explanation
Indices: 15556894--15556930 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
15556884 GATAAAAAAA
15556894 AGTCAAAATT
1 AGTCAAAATT
*
15556904 AGTCAAACTT
1 AGTCAAAATT
*
15556914 AATCAAAATT
1 AGTCAAAATT
15556924 AGTCAAA
1 AGTCAAA
15556931 CTTAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (10 bp):
AGTCAAAATT
Found at i:15556921 original size:20 final size:20
Alignment explanation
Indices: 15556896--15556940 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
15556886 TAAAAAAAAG
15556896 TCAAAATTAGTCAAACTTAA
1 TCAAAATTAGTCAAACTTAA
15556916 TCAAAATTAGTCAAACTTAA
1 TCAAAATTAGTCAAACTTAA
15556936 T-AAAA
1 TCAAAA
15556941 ACATATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (20 bp):
TCAAAATTAGTCAAACTTAA
Found at i:15559058 original size:27 final size:28
Alignment explanation
Indices: 15559011--15559152 Score: 118
Period size: 27 Copynumber: 5.1 Consensus size: 28
15559001 CCCAAATGCC
*
15559011 AAAACCCTAATACCCT-AACTCTAAACCTT
1 AAAACCCT-A-ACCCTAAACTCTAAACCCT
*
15559040 AAAACCCTAACCCT-AACTCTAAACCTT
1 AAAACCCTAACCCTAAACTCTAAACCCT
* *
15559067 ATAACCCTAAACCTAAAC-C-ATAACCCT
1 AAAACCCTAACCCTAAACTCTA-AACCCT
*
15559094 -AAACCCTAAACCCTAAACCCTAAACCCT
1 AAAACCCT-AACCCTAAACTCTAAACCCT
*
15559122 -AAACCCTAAACACTAAAAC-CTAAAACCCT
1 AAAACCCT-AACCCT-AAACTCT-AAACCCT
15559151 AA
1 AA
15559153 CATAGACCCA
Statistics
Matches: 99, Mismatches: 6, Indels: 15
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.07
27 45 0.45
28 26 0.26
29 20 0.20
30 1 0.01
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (28 bp):
AAAACCCTAACCCTAAACTCTAAACCCT
Found at i:15559098 original size:7 final size:7
Alignment explanation
Indices: 15559012--15559152 Score: 148
Period size: 7 Copynumber: 20.3 Consensus size: 7
15559002 CCAAATGCCA
15559012 AAACCCT
1 AAACCCT
15559019 AATACCCT
1 AA-ACCCT
*
15559027 -AACTCT
1 AAACCCT
*
15559033 AAACCTT
1 AAACCCT
15559040 AAAACCCT
1 -AAACCCT
15559048 -AACCCT
1 AAACCCT
*
15559054 -AACTCT
1 AAACCCT
*
15559060 AAACCTT
1 AAACCCT
15559067 ATAACCCT
1 A-AACCCT
15559075 AAA-CCT
1 AAACCCT
*
15559081 AAACCAT
1 AAACCCT
15559088 -AACCCT
1 AAACCCT
15559094 AAACCCT
1 AAACCCT
15559101 AAACCCT
1 AAACCCT
15559108 AAACCCT
1 AAACCCT
15559115 AAACCCT
1 AAACCCT
15559122 AAACCCT
1 AAACCCT
*
15559129 AAACACT
1 AAACCCT
*
15559136 AAAACCT
1 AAACCCT
15559143 AAAACCCT
1 -AAACCCT
15559151 AA
1 AA
15559153 CATAGACCCA
Statistics
Matches: 112, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
6 26 0.23
7 63 0.56
8 23 0.21
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:15568109 original size:59 final size:59
Alignment explanation
Indices: 15568013--15568215 Score: 167
Period size: 59 Copynumber: 3.4 Consensus size: 59
15568003 ATTTTTGTAA
* * **
15568013 AAGATTATTTAAGGTATTTTCTAGC-AAAAAATGCCTTAAATAATCCTAAAAAAATAAAT
1 AAGATTATTTAAGGTGTTTTTTA-CTAAAAAACACCTTAAATAATCCTAAAAAAATAAAT
* * *** ** *
15568072 AAGATTATTTAAGGTGTTTTTTACTATAAAACACCTTAAATAATGCTAGTAAATTTTTTTAG
1 AAGATTATTTAAGGTGTTTTTTACTAAAAAACACCTTAAATAATCCTA--AAA-AAATAAAT
* * * ** *
15568134 AAAATTATTTAAGATGTTTTTTGCTAGAAAATGA-CTTAAATAATCCCTAAAAAAATTGAAT
1 AAGATTATTTAAGGTGTTTTTTACTA-AAAAACACCTTAAATAAT-CCTAAAAAAA-TAAAT
15568195 AAGATTATTTAAGGTGTTTTT
1 AAGATTATTTAAGGTGTTTTT
15568216 CATGCCAAAC
Statistics
Matches: 110, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
58 1 0.01
59 40 0.36
61 27 0.25
62 35 0.32
63 7 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (59 bp):
AAGATTATTTAAGGTGTTTTTTACTAAAAAACACCTTAAATAATCCTAAAAAAATAAAT
Found at i:15568172 original size:121 final size:124
Alignment explanation
Indices: 15567977--15568215 Score: 335
Period size: 121 Copynumber: 2.0 Consensus size: 124
15567967 TTTTGTCAGA
* * *
15567977 AAAACTCCTTAAATAATCCTATTTAAATTTTTGTAAAAGATTATTTAAGGTATTTTCTAGCAAAA
1 AAAACACCTTAAATAATCCTATGTAAATTTTTGTAAAAGATTATTTAAGATATTTTCTAGCAAAA
*
15568042 AATGCCTTAAATAAT-CCTAAAAAAA-TAAATAAGATTATTTAAGGTGTTTTTTACTAT
66 AATGACTTAAATAATCCCTAAAAAAATTAAATAAGATTATTTAAGGTGTTTTTTACTAT
* * * * *
15568099 AAAACACCTTAAATAATGCTA-GTAAATTTTTTTAGAAA-ATTATTTAAGATGTTTT-TTGCTAG
1 AAAACACCTTAAATAATCCTATGTAAATTTTTGTA-AAAGATTATTTAAGATATTTTCTAGC-AA
*
15568161 AAAATGACTTAAATAATCCCTAAAAAAATTGAATAAGATTATTTAAGGTGTTTTT
64 AAAATGACTTAAATAATCCCTAAAAAAATTAAATAAGATTATTTAAGGTGTTTTT
15568216 CATGCCAAAC
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
120 3 0.03
121 43 0.42
122 32 0.31
123 25 0.24
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (124 bp):
AAAACACCTTAAATAATCCTATGTAAATTTTTGTAAAAGATTATTTAAGATATTTTCTAGCAAAA
AATGACTTAAATAATCCCTAAAAAAATTAAATAAGATTATTTAAGGTGTTTTTTACTAT
Found at i:15568704 original size:22 final size:22
Alignment explanation
Indices: 15568679--15568729 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
15568669 ACAAATTATT
*
15568679 TTTTTTCTTTTT-TTTTTTGCAA
1 TTTTTTCTTTTTAATTTTT-CAA
15568701 TTTTTGT-TTTTTAATTTTTCAA
1 TTTTT-TCTTTTTAATTTTTCAA
15568723 TTTTTTC
1 TTTTTTC
15568730 AATTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTTAATTTTTCAA
Found at i:15573753 original size:2 final size:2
Alignment explanation
Indices: 15573746--15573772 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15573736 GTCATTAATA
15573746 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15573773 CACCTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15578082 original size:24 final size:21
Alignment explanation
Indices: 15578038--15578085 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
15578028 AAATATTAAT
*
15578038 AATAAATTTTAAAATAACAAA
1 AATAAATTTTAAAAAAACAAA
15578059 AATAATATTTTAAAAAAATTCAAA
1 AATAA-ATTTTAAAAAAA--CAAA
15578083 AAT
1 AAT
15578086 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
24 7 0.30
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAATTTTAAAAAAACAAA
Found at i:15578308 original size:28 final size:28
Alignment explanation
Indices: 15578274--15578345 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
15578264 CTTGGGGTTA
*
15578274 AAATGACATCCTTTTAGCCCTTTTAATG
1 AAATGACATCGTTTTAGCCCTTTTAATG
15578302 AAATGACATCGTTTTAGCCCTTTTAATG
1 AAATGACATCGTTTTAGCCCTTTTAATG
*
15578330 AAATGGCATCGTTTTA
1 AAATGACATCGTTTTA
15578346 AGTTATCAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (28 bp):
AAATGACATCGTTTTAGCCCTTTTAATG
Found at i:15579291 original size:44 final size:44
Alignment explanation
Indices: 15579233--15579384 Score: 137
Period size: 44 Copynumber: 3.3 Consensus size: 44
15579223 CTCTCAATAG
* * * * *
15579233 AGGCTCAA-AGACTTTTGAAAATTTAAAAGGGTTTCTCTAAGTAA
1 AGGCTCAACA-ACTTTTGAAAATATAAAAAGGCTCCTCTAAGCAA
15579277 AGGCTCAACAACTTTTGAAAATATAAAAAGGCTCCTCTAAGCAA
1 AGGCTCAACAACTTTTGAAAATATAAAAAGGCTCCTCTAAGCAA
* ** * *
15579321 AGGCTAAACAACTTTAAAAAATTATCTTGGAAAAA-GCTTCTCTAAGCAT
1 AGGCTCAACAACTTTTGAAAA-TA---T--AAAAAGGCTCCTCTAAGCAA
15579370 AGGCTCAACAACTTT
1 AGGCTCAACAACTTT
15579385 AAAAATTCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
44 55 0.61
45 3 0.03
48 1 0.01
49 26 0.29
50 5 0.06
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (44 bp):
AGGCTCAACAACTTTTGAAAATATAAAAAGGCTCCTCTAAGCAA
Found at i:15579462 original size:51 final size:51
Alignment explanation
Indices: 15579301--15579683 Score: 251
Period size: 49 Copynumber: 7.8 Consensus size: 51
15579291 TTGAAAATAT
* * * * *
15579301 AAAAAGGCTCCTCTAAGCAAAGGCTAAACAACTTTAAAAAATT-ATCTTG-
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * *
15579350 GAAAAAGCTTC-TCTAAGCATAGGCTCAACAAC-TTTAAAAATTCATCTTGA
1 AAAAAAGC-TCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * * * *
15579400 GAAAAAGCTCATTTAAACAAAGGCTTAACAACTTTTAAAAATTCATTTTTA
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * * *
15579451 AAAAAATCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATT-ATATTG-
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * * * * * * *
15579500 AGAAAAGTTCCTCTAAGCAGAGGCTCAATAAC-TTTAAAAA-TAATTTTG-
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * ** * * *
15579548 -AAAAAGCTCTTTTAAGTAGAGACTCAATAAC-TTTAAAAA-TCATCTTGA
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * * * * *
15579596 AAAAAAGCTCTTCTAAATAGAGGCTTAACAA-TTTT-AAAACTCATATTG-
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
* * * * *
15579644 -AAAAGGCTCCTCTAAGCAGAGGCTCAATAAC-TTTAAAAAT
1 AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAAT
15579684 AATATTAAAA
Statistics
Matches: 272, Mismatches: 50, Indels: 25
0.78 0.14 0.07
Matches are distributed among these distances:
47 67 0.25
48 29 0.11
49 92 0.34
50 31 0.11
51 53 0.19
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (51 bp):
AAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTTAAAAATTCATCTTGA
Found at i:15579576 original size:47 final size:47
Alignment explanation
Indices: 15579267--15579730 Score: 306
Period size: 47 Copynumber: 9.7 Consensus size: 47
15579257 AAAAGGGTTT
* * * *
15579267 CTCTAAGTAAAGGCTCAACAACTTTTGAAAAT-ATA---AAAAGGCTC
1 CTCTAAGTAGAGGCTCAATAAC-TTTAAAAATAATATTGAAAAAGCTC
* * * * * * *
15579311 CTCTAAGCAAAGGCTAAACAACTTTAAAAAATTATCTTGGAAAAAGCTT
1 CTCTAAGTAGAGGCTCAATAACTTT-AAAAATAATATT-GAAAAAGCTC
* * * * *
15579360 CTCTAAGCATAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAGCTC
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAA-TAATATT--GAAAAAGCTC
* * ** * * * * * * *
15579410 ATTTAAACAAAGGCTTAACAACTTTTAAAAATTCATTTTTAAAAAAATCTC
1 CTCTAAGTAGAGGCTCAATAAC-TTTAAAAA-T-AATATT-GAAAAAGCTC
* * * * * *
15579461 ATCTAAATAAAGGCTCAACAACTTTAAAAAATTATATTGAGAAAAGTTC
1 CTCTAAGTAGAGGCTCAATAACTTT-AAAAATAATATTGA-AAAAGCTC
* *
15579510 CTCTAAGCAGAGGCTCAATAACTTTAAAAATAATTTTGAAAAAGCTC
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAATAATATTGAAAAAGCTC
* * * * *
15579557 TTTTAAGTAGAGACTCAATAACTTTAAAAATCATCTTGAAAAAAAGCTC
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAATAATATTG--AAAAAGCTC
* * * * * * * *
15579606 TTCTAAATAGAGGCTTAACAATTTTAAAACTCATATTGAAAAGGCTC
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAATAATATTGAAAAAGCTC
* *
15579653 CTCTAAGCAGAGGCTCAATAACTTTAAAAATAATATTAAAAAAGCTC
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAATAATATTGAAAAAGCTC
* *
15579700 CTTTAAGTAGAGACTCAATAACTTTAAAAAT
1 CTCTAAGTAGAGGCTCAATAACTTTAAAAAT
15579731 CTCATTTGTT
Statistics
Matches: 340, Mismatches: 66, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.01
44 25 0.07
45 2 0.01
47 112 0.33
48 18 0.05
49 104 0.31
50 30 0.09
51 43 0.13
52 3 0.01
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (47 bp):
CTCTAAGTAGAGGCTCAATAACTTTAAAAATAATATTGAAAAAGCTC
Found at i:15579602 original size:96 final size:95
Alignment explanation
Indices: 15579268--15579730 Score: 353
Period size: 96 Copynumber: 4.8 Consensus size: 95
15579258 AAAGGGTTTC
* * ** * * *
15579268 TCTAAGTAAAGGCTCAACAACTTTTGAAA--ATA-T-AAAAAGGCTCCTCTAAGCAAAGGCTAAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATCATATTGAAAAAAGCTCCTCTAAGCAGAGGCTCAA
* *
15579329 CAACTTTAAAAAATTATCTTGGAAAAAGCT-T
66 CAACTTT-AAAAATAAT-TTTGAAAAAGCTCT
* * * * * *
15579360 CTCTAAGCATAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAGCTCATTTAAACAAAGGCT
1 -TCTAAGCAGAGGCTCAACAACTTTAAAAA-TCATATTGA-AAAAAGCTCCTCTAAGCAGAGGCT
* * * * *
15579425 TAACAACTTTTAAAAATTCATTTTTAAAAAAATCTCA
63 CAACAAC-TTTAAAAA-T-AATTTT-GAAAAAGCTCT
** * * * *
15579462 TCTAAATAAAGGCTCAACAACTTTAAAAAATTATATTGAGAAAAGTTCCTCTAAGCAGAGGCTCA
1 TCTAAGCAGAGGCTCAACAACTTT-AAAAATCATATTGAAAAAAGCTCCTCTAAGCAGAGGCTCA
*
15579527 ATAACTTTAAAAATAATTTTGAAAAAGCTCT
65 ACAACTTTAAAAATAATTTTGAAAAAGCTCT
* * * * * * ** *
15579558 TTTAAGTAGAGACTCAATAACTTTAAAAATCATCTTGAAAAAAAGCTCTTCTAAATAGAGGCTTA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATCATATTG-AAAAAAGCTCCTCTAAGCAGAGGCTCA
* * * * * *
15579623 ACAATTTTAAAACTCATATTGAAAAGGCTCC
65 ACAACTTTAAAAATAATTTTGAAAAAGCTCT
* * * * *
15579654 TCTAAGCAGAGGCTCAATAACTTTAAAAATAATATT-AAAAAAGCTCCTTTAAGTAGAGACTCAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATCATATTGAAAAAAGCTCCTCTAAGCAGAGGCTCAA
*
15579718 TAACTTTAAAAAT
66 CAACTTTAAAAAT
15579731 CTCATTTGTT
Statistics
Matches: 291, Mismatches: 66, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
93 25 0.09
94 33 0.11
95 11 0.04
96 105 0.36
97 6 0.02
98 2 0.01
99 39 0.13
100 29 0.10
101 36 0.12
102 5 0.02
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (95 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAAATCATATTGAAAAAAGCTCCTCTAAGCAGAGGCTCAA
CAACTTTAAAAATAATTTTGAAAAAGCTCT
Found at i:15579677 original size:143 final size:144
Alignment explanation
Indices: 15579301--15579731 Score: 495
Period size: 143 Copynumber: 3.0 Consensus size: 144
15579291 TTGAAAATAT
* * ** * * * *
15579301 AAAAAGGCTCCTCTAAGCAAAGGCTAAACAACTTTAAAAAATTATCTTGGAAAAAGCTTCTCTAA
1 AAAAAAGCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATCATATT-GAAAAAGCTCCTCTAA
* * * * ** * * * *
15579366 GCATAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAGCTCATTTAAACAAAGGCTTAACAA
65 GCAGAGGCTCAATAACTTTAAAAA-TAAT-TT-TGAAAAAGCTCATTTAAGTAGAGACTCAATAA
* *
15579431 CTTTTAAAAATTCATTTTTA
127 C-TTTAAAAA-TCATCTTGA
* * *
15579451 AAAAAATCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATTATATTGAGAAAAGTTCCTCTAA
1 AAAAAAGCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATCATATTGA-AAAAGCTCCTCTAA
*
15579516 GCAGAGGCTCAATAACTTTAAAAATAATTTTGAAAAAGCTCTTTTAAGTAGAGACTCAATAACTT
65 GCAGAGGCTCAATAACTTTAAAAATAATTTTGAAAAAGCTCATTTAAGTAGAGACTCAATAACTT
15579581 TAAAAATCATCTTGA
130 TAAAAATCATCTTGA
* * * * * *
15579596 AAAAAAGCTCTTCTAAATAGAGGCTTAACAA-TTTTAAAACTCATATTGAAAAGGCTCCTCTAAG
1 AAAAAAGCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATCATATTGAAAAAGCTCCTCTAAG
* * *
15579660 CAGAGGCTCAATAACTTTAAAAATAATATTAAAAAAGCTCCTTTAAGTAGAGACTCAATAACTTT
66 CAGAGGCTCAATAACTTTAAAAATAATTTTGAAAAAGCTCATTTAAGTAGAGACTCAATAACTTT
15579725 AAAAATC
131 AAAAATC
15579732 TCATTTGTTC
Statistics
Matches: 246, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
143 82 0.33
144 15 0.06
145 34 0.14
146 8 0.03
147 25 0.10
148 2 0.01
149 5 0.02
150 75 0.30
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (144 bp):
AAAAAAGCTCATCTAAATAAAGGCTCAACAACTTTAAAAAATCATATTGAAAAAGCTCCTCTAAG
CAGAGGCTCAATAACTTTAAAAATAATTTTGAAAAAGCTCATTTAAGTAGAGACTCAATAACTTT
AAAAATCATCTTGA
Found at i:15591987 original size:21 final size:21
Alignment explanation
Indices: 15591963--15592026 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
15591953 GAACATGTAT
*
15591963 AAATATTAAAAATAAAATTTA
1 AAATAATAAAAATAAAATTTA
* * *
15591984 AAATAACAAAATTAATATTTA
1 AAATAATAAAAATAAAATTTA
*
15592005 AAA-AATAAAAA-AAAATTCA
1 AAATAATAAAAATAAAATTTA
15592024 AAA
1 AAA
15592027 AATTTCTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 20 0.57
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATAATAAAAATAAAATTTA
Found at i:15596578 original size:25 final size:25
Alignment explanation
Indices: 15596544--15596593 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15596534 CCTATGTATA
15596544 AAAAATTGTAAAGAATCTAGTTAAG
1 AAAAATTGTAAAGAATCTAGTTAAG
15596569 AAAAATTGTAAAGAATCTAGTTAAG
1 AAAAATTGTAAAGAATCTAGTTAAG
15596594 TGATTAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.28
Consensus pattern (25 bp):
AAAAATTGTAAAGAATCTAGTTAAG
Found at i:15606159 original size:21 final size:21
Alignment explanation
Indices: 15606135--15606190 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
15606125 GATTTATAAG
15606135 GAAGAAATTAAGAAACAACAT
1 GAAGAAATTAAGAAACAACAT
*
15606156 GAAGAAGAAGTTAAGAAACCACAT
1 GAAG-A-AA-TTAAGAAACAACAT
*
15606180 GAAGAGATTAA
1 GAAGAAATTAA
15606191 TCCATGCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 3 0.10
24 17 0.57
ACGTcount: A:0.57, C:0.09, G:0.20, T:0.14
Consensus pattern (21 bp):
GAAGAAATTAAGAAACAACAT
Found at i:15606169 original size:24 final size:24
Alignment explanation
Indices: 15606135--15606184 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
15606125 GATTTATAAG
15606135 GAAGAAATTAAGAAACAACATGAA
1 GAAGAAATTAAGAAACAACATGAA
* *
15606159 GAAGAAGTTAAGAAACCACATGAA
1 GAAGAAATTAAGAAACAACATGAA
15606183 GA
1 GA
15606185 GATTAATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.20, T:0.12
Consensus pattern (24 bp):
GAAGAAATTAAGAAACAACATGAA
Found at i:15607058 original size:33 final size:33
Alignment explanation
Indices: 15607020--15607084 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
15607010 AAAATATGAT
15607020 AGTCCAAATAAACATATTTGAACAAGAAAATAA
1 AGTCCAAATAAACATATTTGAACAAGAAAATAA
*
15607053 AGTCCAAATAAACATATTTGAATAAGAAAATA
1 AGTCCAAATAAACATATTTGAACAAGAAAATA
15607085 TGACTATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (33 bp):
AGTCCAAATAAACATATTTGAACAAGAAAATAA
Found at i:15611743 original size:12 final size:12
Alignment explanation
Indices: 15611726--15611762 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
15611716 TTCTAAATAT
15611726 TTGGAATACTAG
1 TTGGAATACTAG
15611738 TTGGAATACTAG
1 TTGGAATACTAG
15611750 TTGGAATACTAG
1 TTGGAATACTAG
15611762 T
1 T
15611763 GCAAGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (12 bp):
TTGGAATACTAG
Found at i:15616620 original size:18 final size:20
Alignment explanation
Indices: 15616597--15616638 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15616587 AGTATTACAT
15616597 ATTATA-GAA-CATTAATGC
1 ATTATATGAAGCATTAATGC
*
15616615 ATTATATTAAGCATTAATGC
1 ATTATATGAAGCATTAATGC
15616635 ATTA
1 ATTA
15616639 AATATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 13 0.62
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTATATGAAGCATTAATGC
Found at i:15618753 original size:17 final size:16
Alignment explanation
Indices: 15618731--15618764 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15618721 TTTTCTTATT
*
15618731 TGCTTTGTTTGTGCTTC
1 TGCTTTGATTGT-CTTC
15618748 TGCTTTGATTGTCTTC
1 TGCTTTGATTGTCTTC
15618764 T
1 T
15618765 TCAATACAGA
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:0.18, G:0.21, T:0.59
Consensus pattern (16 bp):
TGCTTTGATTGTCTTC
Found at i:15623709 original size:12 final size:11
Alignment explanation
Indices: 15623693--15623766 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 11
15623683 AAAAATACAG
15623693 AATAAAAAAAA
1 AATAAAAAAAA
*
15623704 ATATAAAAAAAC
1 A-ATAAAAAAAA
15623716 AATACAAAATACCAA
1 AATA-AAAA-A--AA
*
15623731 AAAAAATAAAAA
1 AATAAA-AAAAA
15623743 AATAAAAAATAA
1 AATAAAAAA-AA
*
15623755 AACAAAAAAAA
1 AATAAAAAAAA
15623766 A
1 A
15623767 TCGAGGATGG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 10 0.20
12 31 0.61
13 1 0.02
14 3 0.06
15 6 0.12
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:15623726 original size:20 final size:18
Alignment explanation
Indices: 15623696--15623751 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
15623686 AATACAGAAT
15623696 AAAA-AAAAATATAAAAA
1 AAAATAAAAATATAAAAA
**
15623713 AACAATACAAAATACCAAAA
1 AA-AATA-AAAATATAAAAA
*
15623733 AAAATAAAAAAATAAAAA
1 AAAATAAAAATATAAAAA
15623751 A
1 A
15623752 TAAAACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 5 0.16
20 12 0.39
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAATAAAAATATAAAAA
Found at i:15623763 original size:30 final size:30
Alignment explanation
Indices: 15623697--15623767 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
15623687 ATACAGAATA
* *
15623697 AAAAAAAATATAAAAAAACAATACAAAATAC
1 AAAAAAAA-ATAAAAAAACAATAAAAAAAAC
* *
15623728 CAAAAAAAATAAAAAAATAA-AAAATAAAAC
1 AAAAAAAAATAAAAAAACAATAAAA-AAAAC
15623758 AAAAAAAAAT
1 AAAAAAAAAT
15623768 CGAGGATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 24 0.71
31 7 0.21
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (30 bp):
AAAAAAAAATAAAAAAACAATAAAAAAAAC
Found at i:15626066 original size:16 final size:15
Alignment explanation
Indices: 15626045--15626074 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15626035 AATTTAGATA
15626045 AAATTTTAATAATAAT
1 AAATTTTAA-AATAAT
15626061 AAATTTTAAAATAA
1 AAATTTTAAAATAA
15626075 AAGTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATTTTAAAATAAT
Found at i:15626123 original size:19 final size:19
Alignment explanation
Indices: 15626042--15626123 Score: 50
Period size: 19 Copynumber: 4.5 Consensus size: 19
15626032 AAGAATTTAG
*
15626042 ATAAAATTTT-AATA-ATA
1 ATAAAATTTTGAAAATATA
*
15626059 AT-AAATTTT-AAAATAAA
1 ATAAAATTTTGAAAATATA
** *
15626076 AGTAAAA-AATAAAAATATA
1 A-TAAAATTTTGAAAATATA
*
15626095 ATAAAGTTTTGAAAATA-A
1 ATAAAATTTTGAAAATATA
15626113 ATGAAAATTTT
1 AT-AAAATTTT
15626124 TTCAATGATA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
16 10 0.20
17 5 0.10
18 9 0.18
19 25 0.51
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAAAATTTTGAAAATATA
Found at i:15627484 original size:23 final size:21
Alignment explanation
Indices: 15627451--15627494 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
15627441 TGTTCCTTCG
*
15627451 CACACACTACATATGTATGCA
1 CACACACTACATATATATGCA
*
15627472 CACACACTATACATTTATATGCA
1 CACACAC--TACATATATATGCA
15627495 TATAGAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (21 bp):
CACACACTACATATATATGCA
Found at i:15636828 original size:2 final size:2
Alignment explanation
Indices: 15636816--15636845 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15636806 TACATTCATC
*
15636816 AT AT AT TT 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
15636846 CATCTTATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:15641446 original size:34 final size:34
Alignment explanation
Indices: 15641350--15641448 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 34
15641340 TGTGGCTCAT
* * * * * * *
15641350 TTTTCAACTTGGGGTTCAGTCCCATTTATTTTAT
1 TTTTCAACTTGGGATTCAATTCTAATCATTTTAC
* * *
15641384 TTTTCAACTTGGGATTCAGTTTTGATCATTTTAC
1 TTTTCAACTTGGGATTCAATTCTAATCATTTTAC
*
15641418 TTTTCAACTTATGG-TTCAATTCTAATCATTT
1 TTTTCAACTT-GGGATTCAATTCTAATCATTT
15641449 AATTTTCCAG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
34 50 0.96
35 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (34 bp):
TTTTCAACTTGGGATTCAATTCTAATCATTTTAC
Found at i:15641673 original size:34 final size:34
Alignment explanation
Indices: 15641586--15641692 Score: 119
Period size: 34 Copynumber: 3.1 Consensus size: 34
15641576 GGACATAACT
* *
15641586 TTTTTTGACTTGTGATTTAATCTTGATTATTTTA
1 TTTTTTGACTTGTGATTTAGTCTTGATTATTTCA
* *
15641620 TTTTTTGACTTGTGGTTTAGTCTCTG-TTATTTCG
1 TTTTTTGACTTGTGATTTAGTCT-TGATTATTTCA
* * *
15641654 TTTTTTGACTTATGATTTAGT-TTCGATCATCTCA
1 TTTTTTGACTTGTGATTTAGTCTT-GATTATTTCA
15641688 TTTTT
1 TTTTT
15641693 CTATTTATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 1 0.02
33 2 0.03
34 56 0.92
35 2 0.03
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.60
Consensus pattern (34 bp):
TTTTTTGACTTGTGATTTAGTCTTGATTATTTCA
Found at i:15641701 original size:34 final size:34
Alignment explanation
Indices: 15641663--15641735 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
15641653 GTTTTTTGAC
** * *
15641663 TTATGATTTAGTTTCGATCATCTCATTTTTCTAT
1 TTATGATTTAGTACCGATCATATCATTTTTCAAT
* *
15641697 TTATGATTTTGTACCGATCATATCTTTTTTCAAT
1 TTATGATTTAGTACCGATCATATCATTTTTCAAT
15641731 TTATG
1 TTATG
15641736 GTTAATTCCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (34 bp):
TTATGATTTAGTACCGATCATATCATTTTTCAAT
Found at i:15641819 original size:66 final size:67
Alignment explanation
Indices: 15641748--15641903 Score: 154
Period size: 66 Copynumber: 2.3 Consensus size: 67
15641738 TAATTCCCTA
* * * * ** *
15641748 TCATTTTTTTTTTAACTTGTGGTTCAGTCCAGATAATTTTATTTTTTGTTTTGTGATTCAATC-T
1 TCATTTTTTTTTTAACTTGTGATCCAATACAGATAATTTTATTTTTTGACTTGTAATTCAATCAT
15641812 CG
66 CG
* * ** *
15641814 TCATTTCATTTTTGAA-TTGTGATCCAATATTGATCATTTTATTTTTTGACTTGTAATTCAATCA
1 TCATTT-TTTTTTTAACTTGTGATCCAATACAGATAATTTTATTTTTTGACTTGTAATTCAATCA
*
15641878 TTG
65 TCG
* *
15641881 TCAATTTTTTTTTAACTTATGAT
1 TCATTTTTTTTTTAACTTGTGAT
15641904 TTAATTTTGA
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
66 50 0.71
67 20 0.29
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (67 bp):
TCATTTTTTTTTTAACTTGTGATCCAATACAGATAATTTTATTTTTTGACTTGTAATTCAATCAT
CG
Found at i:15641834 original size:32 final size:34
Alignment explanation
Indices: 15641783--15641876 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 34
15641773 AGTCCAGATA
* **
15641783 ATTTTATTTTTTGTTTTGTGATTCAATCTCG-TC
1 ATTTCATTTTTTGAATTGTGATTCAATCTCGATC
* * *
15641816 ATTTCA-TTTTTGAATTGTGATCCAATATTGATC
1 ATTTCATTTTTTGAATTGTGATTCAATCTCGATC
* * *
15641849 ATTTTATTTTTTGACTTGTAATTCAATC
1 ATTTCATTTTTTGAATTGTGATTCAATC
15641877 ATTGTCAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
32 19 0.40
33 12 0.25
34 17 0.35
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (34 bp):
ATTTCATTTTTTGAATTGTGATTCAATCTCGATC
Found at i:15641893 original size:34 final size:34
Alignment explanation
Indices: 15641783--15641926 Score: 120
Period size: 33 Copynumber: 4.3 Consensus size: 34
15641773 AGTCCAGATA
** *
15641783 ATTTTATTTTTTGTTTTGTGATTCAATC-TCGTC
1 ATTTTATTTTTTGAATTGTGATTCAATCATTGTC
* *
15641816 ATTTCA-TTTTTGAATTGTGATCCAAT-ATTGATC
1 ATTTTATTTTTTGAATTGTGATTCAATCATTG-TC
* *
15641849 ATTTTATTTTTTGACTTGTAATTCAATCATTGTC
1 ATTTTATTTTTTGAATTGTGATTCAATCATTGTC
* * * *
15641883 AATTT-TTTTTT-AACTTATGATTTAAT-TTTGATC
1 ATTTTATTTTTTGAA-TTGTGATTCAATCATTG-TC
15641916 ATTTTATTTTT
1 ATTTTATTTTT
15641927 AATTTTTAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
32 23 0.26
33 33 0.38
34 28 0.32
35 4 0.05
ACGTcount: A:0.23, C:0.10, G:0.09, T:0.58
Consensus pattern (34 bp):
ATTTTATTTTTTGAATTGTGATTCAATCATTGTC
Found at i:15641922 original size:67 final size:65
Alignment explanation
Indices: 15641783--15641926 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 65
15641773 AGTCCAGATA
** * *
15641783 ATTTTATTTTTTGTTTTGTGATTCAATCTCGTCATTTCATTTTTGAATTGTGATCCAATATTGAT
1 ATTTTATTTTTTGACTTGTAATTCAATCTCGTCATTT-ATTTTTGAATTATGATCCAATATTGAT
15641848 C
65 C
* * ** *
15641849 ATTTTATTTTTTGACTTGTAATTCAATCATTGTCAATTT-TTTTTTAACTTATGATTTAATTTTG
1 ATTTTATTTTTTGACTTGTAATTCAATC-TCGTC-ATTTATTTTTGAA-TTATGATCCAATATTG
15641913 ATC
63 ATC
15641916 ATTTTATTTTT
1 ATTTTATTTTT
15641927 AATTTTTAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
66 32 0.48
67 30 0.45
68 4 0.06
ACGTcount: A:0.23, C:0.10, G:0.09, T:0.58
Consensus pattern (65 bp):
ATTTTATTTTTTGACTTGTAATTCAATCTCGTCATTTATTTTTGAATTATGATCCAATATTGATC
Found at i:15641973 original size:34 final size:33
Alignment explanation
Indices: 15641838--15641975 Score: 102
Period size: 33 Copynumber: 4.1 Consensus size: 33
15641828 AATTGTGATC
* **
15641838 CAATATTGATCATTTTATTTTTT-GACTTGTAATT
1 CAATATTGATCATTTT-TTTTTTAAACTT-TGGTT
* *
15641872 CAATCATTG-TCAATTTTTTTTT-AACTTATGATT
1 CAAT-ATTGATCATTTTTTTTTTAAACTT-TGGTT
* * * ** *
15641905 TAATTTTGATCATTTTATTTTTAATTTTTAGTT
1 CAATATTGATCATTTTTTTTTTAAACTTTGGTT
*
15641938 CAATATTGATCTTTTTTTTTTTTAAACTTTGGTT
1 CAATATTGATC-ATTTTTTTTTTAAACTTTGGTT
15641972 CAAT
1 CAAT
15641976 CTAATAATTT
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
32 3 0.04
33 40 0.49
34 34 0.42
35 4 0.05
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (33 bp):
CAATATTGATCATTTTTTTTTTAAACTTTGGTT
Found at i:15644123 original size:194 final size:191
Alignment explanation
Indices: 15643775--15644132 Score: 461
Period size: 194 Copynumber: 1.9 Consensus size: 191
15643765 AAAGTATCCT
* * * * *
15643775 AAATGGTGGAAATTTTAAGAAATTTCAACAAAACTAATTGACATTTATTTTCAAATAAATAATAA
1 AAATGGTAGAAACTTTAAAAAATTTCAACAAAACTAATTGACATTTATTTTAAAACAAATAATAA
* * *
15643840 AGAAAATGTAAGTTTTATAAAAATTTTAGAAATAAATAGAAAATTGTTCCTACGATGAAATTCTA
66 AGAAAATATAAGTTTTAAAAAAATTTGAGAAATAAATAGAAAATTGTTCCTACGATGAAATTCTA
* *
15643905 AGAAATTACAAATGGTTAATTTCTTAGAAACTTTTGGGTGAAAAATTTTTCTAAAATTATTTC
131 AG-AATTAAAAATGGTTAATTTCTTA-AAAATTTTGGGTGAAAAATTTTTCTAAAATTATTTC
* * *
15643968 AAATGGTAGAAACTTTAGAAAAATTTCAATAAAATTAATTGATATTTATTTTAAAACAAATAATA
1 AAATGGTAGAAACTTTA-AAAAATTTCAACAAAACTAATTGACATTTATTTTAAAACAAATAATA
* * * * *
15644033 AATAAAATATAATTTTTTAAAAAAATTTGA-AAATAAATTGGAAATTGTTCCTATGATGAAATTC
65 AAGAAAATATAA-GTTTTAAAAAAATTTGAGAAATAAATAGAAAATTGTTCCTACGATGAAATTC
*
15644097 TAATG-GTTAAAGAATGGCTT-ATTTCTTAAAAATTTT
129 TAA-GAATTAAA-AATGG-TTAATTTCTTAAAAATTTT
15644133 CAAGCAAGAA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
193 26 0.18
194 98 0.70
195 17 0.12
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (191 bp):
AAATGGTAGAAACTTTAAAAAATTTCAACAAAACTAATTGACATTTATTTTAAAACAAATAATAA
AGAAAATATAAGTTTTAAAAAAATTTGAGAAATAAATAGAAAATTGTTCCTACGATGAAATTCTA
AGAATTAAAAATGGTTAATTTCTTAAAAATTTTGGGTGAAAAATTTTTCTAAAATTATTTC
Found at i:15647703 original size:84 final size:84
Alignment explanation
Indices: 15647538--15647714 Score: 191
Period size: 84 Copynumber: 2.1 Consensus size: 84
15647528 TTGGTAATGG
** **
15647538 TTATTTTTTCAAAATATTTTAAAAAATAAAATATATAATTATGTTACTAAAGATATTTGTTGACG
1 TTATTTTTTCAAAATATTTTAAAAAATAAAATATATAATTATGTTACTAAAGATAACTAATGACG
*
15647603 AAAATTCCATCTCTAAACT
66 AAAATTCCATCACTAAACT
* **
15647622 TTATTATTTTC-AAATACTTTTAAAAAATAAAAT-TA-ACATTCTGTTACTAAATCTAACTAATG
1 TTATT-TTTTCAAAATA-TTTTAAAAAATAAAATATATA-ATTATGTTACTAAAGATAACTAATG
* *
15647684 AC-AAAATTTTCATCACTAAAAT
63 ACGAAAA-TTCCATCACTAAACT
*
15647706 TGATTTTTT
1 TTATTTTTT
15647715 GGGATTTTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
83 9 0.12
84 48 0.62
85 21 0.27
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (84 bp):
TTATTTTTTCAAAATATTTTAAAAAATAAAATATATAATTATGTTACTAAAGATAACTAATGACG
AAAATTCCATCACTAAACT
Found at i:15650786 original size:7 final size:7
Alignment explanation
Indices: 15650757--15650954 Score: 84
Period size: 7 Copynumber: 29.9 Consensus size: 7
15650747 TTTGTTCAAT
15650757 GTTTA-G
1 GTTTAGG
15650763 GTTTA-G
1 GTTTAGG
* *
15650769 GATTGGG
1 GTTTAGG
15650776 GTTTAGG
1 GTTTAGG
*
15650783 GTTT--C
1 GTTTAGG
15650788 GTTTAGTG
1 GTTTAG-G
*
15650796 TTTTAGG
1 GTTTAGG
*
15650803 GTTTA-T
1 GTTTAGG
15650809 GTTTAGG
1 GTTTAGG
*
15650816 CTTTAGG
1 GTTTAGG
*
15650823 CTTTA-G
1 GTTTAGG
*
15650829 GCTTAGG
1 GTTTAGG
15650836 G--TAGG
1 GTTTAGG
15650841 GTTTA-G
1 GTTTAGG
15650847 GTTTCA-G
1 GTTT-AGG
15650854 GTTTA-G
1 GTTTAGG
*
15650860 ATTTAGG
1 GTTTAGG
15650867 GTTT-GAG
1 GTTTAG-G
**
15650874 G-TTAAT
1 GTTTAGG
15650880 GTTTAGG
1 GTTTAGG
*
15650887 TTTTA-G
1 GTTTAGG
*
15650893 GTTTATG
1 GTTTAGG
15650900 GTTTAGG
1 GTTTAGG
* *
15650907 TTTTAAG
1 GTTTAGG
*
15650914 G-TTAAG
1 GTTTAGG
*
15650920 GTTTAGA
1 GTTTAGG
*
15650927 GTCTAGG
1 GTTTAGG
15650934 GTTTAAGG
1 GTTT-AGG
*
15650942 TTTTAGG
1 GTTTAGG
15650949 GTTTAG
1 GTTTAG
15650955 TTTAAGGTTT
Statistics
Matches: 144, Mismatches: 32, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
5 9 0.06
6 44 0.31
7 80 0.56
8 11 0.08
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:15650827 original size:14 final size:13
Alignment explanation
Indices: 15650797--15650958 Score: 77
Period size: 13 Copynumber: 12.3 Consensus size: 13
15650787 CGTTTAGTGT
* *
15650797 TTTAGGGTTTATG
1 TTTAGGCTTTAGG
15650810 TTTAGGCTTTAGG
1 TTTAGGCTTTAGG
15650823 CTTTAGGC-TTAGG
1 -TTTAGGCTTTAGG
* *
15650836 -GTAGGGTTTAGG
1 TTTAGGCTTTAGG
*
15650848 TTTCAGG-TTTAGA
1 TTT-AGGCTTTAGG
*
15650861 TTTAGGGTTTGAGG
1 TTTAGGCTTT-AGG
* *
15650875 TTAATG-TTTAGG
1 TTTAGGCTTTAGG
15650887 TTTTAGG-TTTATGG
1 -TTTAGGCTTTA-GG
*
15650901 TTTAGGTTTTAAGG
1 TTTAGGCTTT-AGG
*
15650915 TTAAGG-TTTAGAG
1 TTTAGGCTTTAG-G
* *
15650928 TCTAGGGTTTAAGG
1 TTTAGGCTTT-AGG
*
15650942 TTTTAGGGTTTA-G
1 -TTTAGGCTTTAGG
15650955 TTTA
1 TTTA
15650959 AGGTTTTTAG
Statistics
Matches: 120, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
11 4 0.03
12 17 0.14
13 54 0.45
14 33 0.28
15 12 0.10
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.46
Consensus pattern (13 bp):
TTTAGGCTTTAGG
Found at i:15650911 original size:27 final size:26
Alignment explanation
Indices: 15650788--15650965 Score: 75
Period size: 27 Copynumber: 6.7 Consensus size: 26
15650778 TTAGGGTTTC
* *
15650788 GTTTAGTGTTTTAGGGTTTATGTTTAG
1 GTTTAG-GTTTTAGGTTTTAGGTTTAG
* * *
15650815 GCTTTAGGCTTTAGG-CTTAGG-GTAGG
1 G-TTTAGGTTTTAGGTTTTAGGTTTA-G
* *
15650841 GTTTAGGTTTCAGG-TTTAGATTTAGG
1 GTTTAGGTTTTAGGTTTTAGGTTTA-G
* *
15650867 GTTTGAGG-TTAATG-TTTAGGTTTTAG
1 GTTT-AGGTTTTAGGTTTTAGG-TTTAG
*
15650893 GTTTATGG-TTTAGGTTTTAAGGTTAAG
1 GTTTA-GGTTTTAGGTTTT-AGGTTTAG
* *
15650920 GTTTAGAG-TCTAGGGTTTAAGGTTTTAGG
1 GTTTAG-GTTTTA-GGTTTTAGG-TTTA-G
*
15650949 GTTTA-GTTTAAGGTTTT
1 GTTTAGGTTTTAGGTTTT
15650966 TAGAATGCAT
Statistics
Matches: 117, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
25 18 0.15
26 35 0.30
27 40 0.34
28 18 0.15
29 6 0.05
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (26 bp):
GTTTAGGTTTTAGGTTTTAGGTTTAG
Found at i:15650922 original size:20 final size:18
Alignment explanation
Indices: 15650802--15650964 Score: 101
Period size: 20 Copynumber: 8.3 Consensus size: 18
15650792 AGTGTTTTAG
* *
15650802 GGTTTATGTTTAGGCTTTA
1 GGTTTAGGTTTAGG-TTAA
* * *
15650821 GGCTTTAGGCTTAGGGTAG
1 GG-TTTAGGTTTAGGTTAA
*
15650840 GGTTTAGGTTTCAGGTTTA
1 GGTTTAGGTTT-AGGTTAA
*
15650859 GATTTAGGGTTTGAGGTTAA
1 GGTTTA-GGTTT-AGGTTAA
* *
15650879 TGTTTAGGTTTTAGGTTTAT
1 GGTTTAGG-TTTAGG-TTAA
15650899 GGTTTAGGTTTTAAGGTTAA
1 GGTTTAGG-TTT-AGGTTAA
*
15650919 GGTTTAGAGTCTAGGGTTTAA
1 GGTTTAG-GTTTA-GG-TTAA
*
15650940 GGTTTTAGGGTTTAGTTTAA
1 GG-TTTA-GGTTTAGGTTAA
15650960 GGTTT
1 GGTTT
15650965 TTAGAATGCA
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
18 8 0.07
19 23 0.20
20 62 0.55
21 11 0.10
22 8 0.07
23 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (18 bp):
GGTTTAGGTTTAGGTTAA
Found at i:15650965 original size:20 final size:19
Alignment explanation
Indices: 15650707--15650964 Score: 87
Period size: 20 Copynumber: 12.8 Consensus size: 19
15650697 AGGTTAGGAT
*
15650707 TTTAGTTTTAGGTTTTAGGG
1 TTTAGTTTAAGG-TTTAGGG
** *
15650727 -TTAGTTTTTGGTTTAGGAC
1 TTTAGTTTAAGGTTTAGG-G
* * *
15650746 TTTTGTTCAATGTTTA-GG
1 TTTAGTTTAAGGTTTAGGG
* **
15650764 TTTAGGATTGGGGTTTAGGG
1 TTTA-GTTTAAGGTTTAGGG
*
15650784 TTTCGTTT-AGTGTTTTAGGG
1 TTTAGTTTAAG-G-TTTAGGG
*
15650804 TTTATGTTT-AGGCTTTAGGC
1 TTTA-GTTTAAGG-TTTAGGG
*
15650824 TTTAGGCTTAGGGTAGGGTTTA-GG
1 TTTA-G-TT----TAAGGTTTAGGG
*
15650848 TTTCAGGTTT-AGATTTAGGG
1 TTT-A-GTTTAAGGTTTAGGG
* * *
15650868 TTTGAGGTTAATGTTTAGGT
1 TTT-AGTTTAAGGTTTAGGG
* *
15650888 TTTAGGTTTATGGTTTAGGT
1 TTTA-GTTTAAGGTTTAGGG
* *
15650908 TTTAAGGTTAAGGTTTAGAG
1 TTT-AGTTTAAGGTTTAGGG
*
15650928 TCTAGGGTTTAAGGTTTTAGGG
1 TTTA--GTTTAAGG-TTTAGGG
15650950 TTTAGTTTAAGGTTT
1 TTTAGTTTAAGGTTT
15650965 TTAGAATGCA
Statistics
Matches: 176, Mismatches: 41, Indels: 43
0.68 0.16 0.17
Matches are distributed among these distances:
18 10 0.06
19 35 0.20
20 90 0.51
21 16 0.09
22 9 0.05
24 6 0.03
25 8 0.05
26 2 0.01
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.48
Consensus pattern (19 bp):
TTTAGTTTAAGGTTTAGGG
Found at i:15651057 original size:49 final size:49
Alignment explanation
Indices: 15650970--15651070 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 49
15650960 GGTTTTTAGA
* * * *
15650970 ATGCATGTAACAAAATTACCAAATGCTATTGATAAAAATGCAAGCTTTG
1 ATGCATGTAACAAAATTACAAAATACCATTGATAAAAATGCAAACTTTG
* * *
15651019 ATGCATGTAATAAAATTTCTAAAATACCATTGAT-AAAATGCAAATTTTG
1 ATGCATGTAACAAAATTAC-AAAATACCATTGATAAAAATGCAAACTTTG
15651068 ATG
1 ATG
15651071 TATAGGAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 33 0.75
50 11 0.25
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (49 bp):
ATGCATGTAACAAAATTACAAAATACCATTGATAAAAATGCAAACTTTG
Found at i:15651781 original size:21 final size:22
Alignment explanation
Indices: 15651755--15651796 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15651745 ATATATGAAC
*
15651755 AATATGAAA-ACTATGGAAAAT
1 AATATGAAATACAATGGAAAAT
15651776 AATATGAAATACAATGGAAAA
1 AATATGAAATACAATGGAAAA
15651797 AGTGGTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (22 bp):
AATATGAAATACAATGGAAAAT
Found at i:15653103 original size:33 final size:33
Alignment explanation
Indices: 15653054--15653129 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
15653044 TGGATACTTG
** *
15653054 GATATCACCATTGAGTAAATACAAATGACTTTA
1 GATATCACCACCGAGTAAATACAAATGACTGTA
* *
15653087 GATTTCACCACCGAGTAAATGCAAATGACTGTA
1 GATATCACCACCGAGTAAATACAAATGACTGTA
15653120 GATATCACCA
1 GATATCACCA
15653130 TTGAAAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (33 bp):
GATATCACCACCGAGTAAATACAAATGACTGTA
Found at i:15653251 original size:57 final size:57
Alignment explanation
Indices: 15653100--15653305 Score: 202
Period size: 57 Copynumber: 3.6 Consensus size: 57
15653090 TTCACCACCG
* ** **
15653100 AGTAAATGCAAATGACTGT-AGATATCACCATTGAA-AGATACTCAGATATTGCCATCC
1 AGTAAATGCAAATGACT-TCAGATATCACCACTGAAGA-ATACTCAGATATCACCATTA
* * * * **
15653157 TGTAAATACAAATGACTTCAAATATCAGCACAAAAGAATACTCAGATATCACCATTA
1 AGTAAATGCAAATGACTTCAGATATCACCACTGAAGAATACTCAGATATCACCATTA
* * * *
15653214 AGTAAATGCAAATGACTTCAGATAACACCACTGAAGAATACT-TGAATATCACCACTG
1 AGTAAATGCAAATGACTTCAGATATCACCACTGAAGAATACTCAG-ATATCACCATTA
* * *
15653271 AGTAAATGCAATTGACTTCGGATACCACCACTGAA
1 AGTAAATGCAAATGACTTCAGATATCACCACTGAA
15653306 AAGAACATGG
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
56 2 0.02
57 119 0.98
58 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (57 bp):
AGTAAATGCAAATGACTTCAGATATCACCACTGAAGAATACTCAGATATCACCATTA
Found at i:15653320 original size:57 final size:57
Alignment explanation
Indices: 15653201--15653330 Score: 172
Period size: 57 Copynumber: 2.3 Consensus size: 57
15653191 AGAATACTCA
* * * *
15653201 GATATCACCATTAAGTAAATGCAAATGACTTCAGATAACACCACTGAAGAATACTTG
1 GATATCACCACTGAGTAAATGCAAATGACTTCAGATAACACCACTGAAGAAAACATG
* * * *
15653258 AATATCACCACTGAGTAAATGCAATTGACTTCGGATACCACCACTGAA-AAGAACATG
1 GATATCACCACTGAGTAAATGCAAATGACTTCAGATAACACCACTGAAGAA-AACATG
15653315 GATATCACCACTGAGT
1 GATATCACCACTGAGT
15653331 GAATTCTACT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 2 0.03
57 61 0.97
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (57 bp):
GATATCACCACTGAGTAAATGCAAATGACTTCAGATAACACCACTGAAGAAAACATG
Found at i:15653760 original size:37 final size:37
Alignment explanation
Indices: 15653717--15653804 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
15653707 TTGCCTTTAA
*
15653717 GAGAGTTTTAATGAAAA-GTCAAATGTTGCTACCAAGG
1 GAGAGTTTTAATGAAAATGTCAAATGTTGCCACCAA-G
** *
15653754 GAGAGTTTTAA-GAAAATGTTGAATTTTGCCACCAAG
1 GAGAGTTTTAATGAAAATGTCAAATGTTGCCACCAAG
*
15653790 AAGA-TTTTAATGAAA
1 GAGAGTTTTAATGAAA
15653805 TTCAGACTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 6 0.14
36 13 0.30
37 25 0.57
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (37 bp):
GAGAGTTTTAATGAAAATGTCAAATGTTGCCACCAAG
Found at i:15658700 original size:21 final size:20
Alignment explanation
Indices: 15658675--15658717 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
15658665 TGAATTTTTA
15658675 GAAAAAGAAAATTT-TGATTT
1 GAAAAAG-AAATTTATGATTT
15658695 GAAAAAGAAATTTGATGATTT
1 GAAAAAGAAATTT-ATGATTT
15658716 GA
1 GA
15658718 TGAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
GAAAAAGAAATTTATGATTT
Found at i:15664994 original size:17 final size:17
Alignment explanation
Indices: 15664969--15665007 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15664959 TAATAAAAAA
*
15664969 TTTTCTTTCTTTATCTC
1 TTTTTTTTCTTTATCTC
* *
15664986 TTTTTTTTCTTTTTTTC
1 TTTTTTTTCTTTATCTC
15665003 TTTTT
1 TTTTT
15665008 CTTTGTATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCTTTATCTC
Found at i:15668205 original size:38 final size:38
Alignment explanation
Indices: 15668163--15668244 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
15668153 ATGGAATGCA
*
15668163 TTATTAAGATGTGCATGAGATGGAATGTATGCACTATC
1 TTATTAAGATGTGCATGAGATGGAATGCATGCACTATC
* * *
15668201 TTATTAAGATGTGGATGAGATGGAATGCATGTATTATC
1 TTATTAAGATGTGCATGAGATGGAATGCATGCACTATC
15668239 TTATTA
1 TTATTA
15668245 TCTTAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (38 bp):
TTATTAAGATGTGCATGAGATGGAATGCATGCACTATC
Found at i:15668225 original size:67 final size:67
Alignment explanation
Indices: 15668099--15668236 Score: 206
Period size: 66 Copynumber: 2.1 Consensus size: 67
15668089 TGACACTACC
*
15668099 ATTAAGATGTGCATGAAATGAAATGCATATACTATCTATTAAGATGTGCATGAGATGGAATGCAT
1 ATTAAGATGTGCATGAAATGAAATGCATACACTATCTATTAAGATGTGCATGAGATGGAATGCAT
15668164 -T
66 GT
* * * * *
15668165 ATTAAGATGTGCATGAGATGGAATGTATGCACTATCTTATTAAGATGTGGATGAGATGGAATGCA
1 ATTAAGATGTGCATGAAATGAAATGCATACACTATC-TATTAAGATGTGCATGAGATGGAATGCA
15668230 TGT
65 TGT
15668233 ATTA
1 ATTA
15668237 TCTTATTATC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 31 0.48
67 28 0.44
68 5 0.08
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.33
Consensus pattern (67 bp):
ATTAAGATGTGCATGAAATGAAATGCATACACTATCTATTAAGATGTGCATGAGATGGAATGCAT
GT
Found at i:15668438 original size:14 final size:16
Alignment explanation
Indices: 15668421--15668452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15668411 TTTTGAAAAA
15668421 TTTT-CTTTT-TTTTT
1 TTTTCCTTTTCTTTTT
15668435 TTTTCCTTTTCTTTTT
1 TTTTCCTTTTCTTTTT
15668451 TT
1 TT
15668453 GGTTTTGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 5 0.31
16 7 0.44
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTCCTTTTCTTTTT
Found at i:15668458 original size:20 final size:20
Alignment explanation
Indices: 15668421--15668458 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15668411 TTTTGAAAAA
**
15668421 TTTTCTTTTTTTTTTTTTCC
1 TTTTCTTTTTTTGGTTTTCC
15668441 TTTTCTTTTTTTGGTTTT
1 TTTTCTTTTTTTGGTTTT
15668459 GTCGAATAAT
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:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTTTTGGTTTTCC
Found at i:15669096 original size:19 final size:19
Alignment explanation
Indices: 15669062--15669102 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
15669052 TAAAAACAAG
15669062 ATAAATAACTATAATTTAAA
1 ATAAATAACTATAA-TTAAA
*
15669082 ATAAATGAC-ATAATTAAA
1 ATAAATAACTATAATTAAA
15669100 ATA
1 ATA
15669103 TGCATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAATAACTATAATTAAA
Found at i:15670298 original size:20 final size:20
Alignment explanation
Indices: 15670270--15670481 Score: 113
Period size: 20 Copynumber: 10.8 Consensus size: 20
15670260 TTGGGAGAGA
* *
15670270 GTTTTGGTTTAGGGTGTAGG
1 GTTTAGGTTTAGGGTTTAGG
* *
15670290 GTTTAGGTTTAGTGTTTA-T
1 GTTTAGGTTTAGGGTTTAGG
* * *
15670309 ATTTGGGGTTTAGGGTTTA-A
1 GTTT-AGGTTTAGGGTTTAGG
* **
15670329 GTTTGAAGTTTACAGTTTAGG
1 GTTT-AGGTTTAGGGTTTAGG
15670350 GTTTAGGATTT--GGTTTAGG
1 GTTTAGG-TTTAGGGTTTAGG
15670369 GTTTAGGATTT--GGTTTAGG
1 GTTTAGG-TTTAGGGTTTAGG
15670388 GTTTAGAGTTT-GGGTTTAGG
1 GTTTAG-GTTTAGGGTTTAGG
* *
15670408 GTTTACAG-TTAAGGTTTA-G
1 GTTTA-GGTTTAGGGTTTAGG
* *
15670427 GTTT-TG-TTAAGGTTTAGG
1 GTTTAGGTTTAGGGTTTAGG
* ** *
15670445 GTTTAGGATTAATGTTTGGG
1 GTTTAGGTTTAGGGTTTAGG
* *
15670465 GTCTAAGTTTAGGGTTT
1 GTTTAGGTTTAGGGTTT
15670482 TGGGATGCAT
Statistics
Matches: 155, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
17 11 0.07
18 5 0.03
19 46 0.30
20 86 0.55
21 7 0.05
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (20 bp):
GTTTAGGTTTAGGGTTTAGG
Found at i:15670306 original size:7 final size:7
Alignment explanation
Indices: 15670275--15670412 Score: 96
Period size: 7 Copynumber: 20.9 Consensus size: 7
15670265 AGAGAGTTTT
15670275 GGTTTAG
1 GGTTTAG
*
15670282 GGTGTAG
1 GGTTTAG
15670289 GGTTTA-
1 GGTTTAG
15670295 GGTTTAG
1 GGTTTAG
*
15670302 TGTTTA-
1 GGTTTAG
** *
15670308 TATTTGG
1 GGTTTAG
15670315 GGTTTAG
1 GGTTTAG
15670322 GGTTTA-
1 GGTTTAG
*
15670328 AGTTT-G
1 GGTTTAG
* *
15670334 AAGTTTAC
1 -GGTTTAG
*
15670342 AGTTTAG
1 GGTTTAG
15670349 GGTTTAG
1 GGTTTAG
*
15670356 GATTT--
1 GGTTTAG
15670361 GGTTTAG
1 GGTTTAG
15670368 GGTTTAG
1 GGTTTAG
*
15670375 GATTT--
1 GGTTTAG
15670380 GGTTTAG
1 GGTTTAG
15670387 GGTTTAG
1 GGTTTAG
*
15670394 AGTTT-G
1 GGTTTAG
15670400 GGTTTAG
1 GGTTTAG
15670407 GGTTTA
1 GGTTTA
15670413 CAGTTAAGGT
Statistics
Matches: 103, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
5 8 0.08
6 19 0.18
7 76 0.74
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:15670353 original size:14 final size:13
Alignment explanation
Indices: 15670316--15670405 Score: 55
Period size: 12 Copynumber: 6.9 Consensus size: 13
15670306 TATATTTGGG
15670316 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
*
15670329 GTTT-GAAGTTTACA
1 GTTTAG-GGTTTA-A
*
15670343 GTTTAGGGTTTAG
1 GTTTAGGGTTTAA
*
15670356 GATTT--GGTTTAGG
1 G-TTTAGGGTTTA-A
* *
15670369 GTTTAGGATTT-G
1 GTTTAGGGTTTAA
15670381 GTTTAGGGTTTAGA
1 GTTTAGGGTTTA-A
15670395 GTTT-GGGTTTA
1 GTTTAGGGTTTA
15670406 GGGTTTACAG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 21 0.34
13 19 0.31
14 21 0.34
15 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:15670367 original size:19 final size:19
Alignment explanation
Indices: 15670343--15670412 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
15670333 GAAGTTTACA
15670343 GTTTAGGGTTTAGGATTTG
1 GTTTAGGGTTTAGGATTTG
15670362 GTTTAGGGTTTAGGATTTG
1 GTTTAGGGTTTAGGATTTG
15670381 GTTTAGGGTTTA-GAGTTTGG
1 GTTTAGGGTTTAGGA-TTT-G
15670401 GTTTAGGGTTTA
1 GTTTAGGGTTTA
15670413 CAGTTAAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
18 2 0.04
19 34 0.69
20 13 0.27
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (19 bp):
GTTTAGGGTTTAGGATTTG
Found at i:15670372 original size:26 final size:25
Alignment explanation
Indices: 15670316--15670451 Score: 99
Period size: 26 Copynumber: 5.6 Consensus size: 25
15670306 TATATTTGGG
* *
15670316 GTTTAGGGTTTAAGTTTGAAGTTTACA
1 GTTTAGGGTTTAGGTTTG--GTTTAGA
*
15670343 GTTTAGGGTTTAGGATTTGGTTTAGG
1 GTTTAGGGTTTAGG-TTTGGTTTAGA
*
15670369 GTTTAGGATTT-GGTTTAGGGTTTAGA
1 GTTTAGGGTTTAGGTTT--GGTTTAGA
*
15670395 GTTT-GGGTTTA-G---GGTTTACA
1 GTTTAGGGTTTAGGTTTGGTTTAGA
* * *
15670415 G-TTAAGGTTTAGGTTTTGTTAAG-
1 GTTTAGGGTTTAGGTTTGGTTTAGA
15670438 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
15670452 ATTAATGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
19 2 0.02
20 14 0.16
21 1 0.01
23 1 0.01
24 18 0.21
25 8 0.09
26 26 0.30
27 13 0.15
28 4 0.05
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (25 bp):
GTTTAGGGTTTAGGTTTGGTTTAGA
Found at i:15670406 original size:13 final size:14
Alignment explanation
Indices: 15670276--15670412 Score: 78
Period size: 13 Copynumber: 10.4 Consensus size: 14
15670266 GAGAGTTTTG
* *
15670276 GTTTAGGGTGTAGG
1 GTTTAGGGTTTAGA
*
15670290 GTTTA-GGTTTAGT
1 GTTTAGGGTTTAGA
** * *
15670303 GTTTA-TATTTGGG
1 GTTTAGGGTTTAGA
15670316 GTTTAGGGTTTA-A
1 GTTTAGGGTTTAGA
* *
15670329 GTTT-GAAGTTTACA
1 GTTTAG-GGTTTAGA
15670343 GTTTAGGGTTTAG-
1 GTTTAGGGTTTAGA
*
15670356 GATTT--GGTTTAGG
1 G-TTTAGGGTTTAGA
*
15670369 GTTTAGGATTT-G-
1 GTTTAGGGTTTAGA
15670381 GTTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
*
15670395 GTTT-GGGTTTAGG
1 GTTTAGGGTTTAGA
15670408 GTTTA
1 GTTTA
15670413 CAGTTAAGGT
Statistics
Matches: 96, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
12 21 0.22
13 45 0.47
14 29 0.30
15 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:15672554 original size:33 final size:32
Alignment explanation
Indices: 15672483--15672556 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
15672473 GTCTTCCTTT
* * *
15672483 TCATTTTCATTTTCATCATCTTCTTCAACTTC
1 TCATTTTCATGTTCATCATCTTCATCAACATC
*
15672515 TCCATTTTCATGTTCATCATCATT-ATCATCATC
1 T-CATTTTCATGTTCATCATC-TTCATCAACATC
15672548 ATCATTTTC
1 -TCATTTTC
15672557 TTCTTCTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 1 0.03
33 31 0.89
34 3 0.09
ACGTcount: A:0.22, C:0.27, G:0.01, T:0.50
Consensus pattern (32 bp):
TCATTTTCATGTTCATCATCTTCATCAACATC
Found at i:15672560 original size:3 final size:3
Alignment explanation
Indices: 15672554--15672600 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
15672544 CATCATCATT
* * *
15672554 TTC TTC TTC TTC TTT TTT TTC -TC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
15672601 ACTATCTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:15672578 original size:14 final size:15
Alignment explanation
Indices: 15672552--15672596 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
15672542 ATCATCATCA
15672552 TTTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCT
*
15672567 TTTTTTTC-TCTTCT
1 TTTTCTTCTTCTTCT
15672581 TTTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCT
15672596 T
1 T
15672597 CTTCACTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTCTTCTTCT
Found at i:15672583 original size:12 final size:13
Alignment explanation
Indices: 15672552--15672593 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15672542 ATCATCATCA
15672552 TTTTCTTCTTCTTC
1 TTTT-TTCTTCTTC
*
15672566 TTTTTTTTCTCTTC
1 TTTTTTCT-TCTTC
15672580 -TTTTTCTTCTTC
1 TTTTTTCTTCTTC
15672592 TT
1 TT
15672594 CTTCTTCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 9 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:15680663 original size:19 final size:20
Alignment explanation
Indices: 15680619--15680663 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
15680609 AATGGGAACA
15680619 AGGGTTGGTTTTAGGTTTTG
1 AGGGTTGGTTTTAGGTTTTG
* *
15680639 AAGGTTGG-TTTAGGTTTTT
1 AGGGTTGGTTTTAGGTTTTG
15680658 AGGGTT
1 AGGGTT
15680664 TAGGGTAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (20 bp):
AGGGTTGGTTTTAGGTTTTG
Found at i:15680739 original size:12 final size:11
Alignment explanation
Indices: 15680708--15680741 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15680698 GTTTGATTTA
15680708 AGGTTAGGGTT
1 AGGTTAGGGTT
*
15680719 AGTTTAGGGTCT
1 AGGTTAGGGT-T
15680731 AGGTTAGGGTT
1 AGGTTAGGGTT
15680742 TAGGGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (11 bp):
AGGTTAGGGTT
Found at i:15680745 original size:12 final size:12
Alignment explanation
Indices: 15680708--15680745 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15680698 GTTTGATTTA
15680708 AGGTTAGGG-TT
1 AGGTTAGGGTTT
* *
15680719 AGTTTAGGGTCT
1 AGGTTAGGGTTT
15680731 AGGTTAGGGTTT
1 AGGTTAGGGTTT
15680743 AGG
1 AGG
15680746 GTTTGGGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.18, C:0.03, G:0.42, T:0.37
Consensus pattern (12 bp):
AGGTTAGGGTTT
Found at i:15680817 original size:18 final size:19
Alignment explanation
Indices: 15680783--15680824 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
15680773 AGGTTGGACT
15680783 TTAGGGTTTTATTTAGGGG
1 TTAGGGTTTTATTTAGGGG
* *
15680802 TTAGGG-TTTCTTTAGGGT
1 TTAGGGTTTTATTTAGGGG
15680820 TTAGG
1 TTAGG
15680825 TTAGGCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (19 bp):
TTAGGGTTTTATTTAGGGG
Found at i:15680829 original size:30 final size:31
Alignment explanation
Indices: 15680781--15680855 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
15680771 CTAGGTTGGA
* *
15680781 CTTTAGGGTTTTA-TTTAGGGGTTAGGGTTT-
1 CTTTAGGG-TTTAGGTTAGGCGTTAGGGTTTG
*
15680811 CTTTAGGGTTTAGGTTAGGCTTTAGGGTTTG
1 CTTTAGGGTTTAGGTTAGGCGTTAGGGTTTG
* *
15680842 GTTTAGTGTTTAGG
1 CTTTAGGGTTTAGG
15680856 GTTGGTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 4 0.11
30 22 0.58
31 12 0.32
ACGTcount: A:0.13, C:0.04, G:0.35, T:0.48
Consensus pattern (31 bp):
CTTTAGGGTTTAGGTTAGGCGTTAGGGTTTG
Found at i:15680872 original size:36 final size:37
Alignment explanation
Indices: 15680832--15680906 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 37
15680822 AGGTTAGGCT
* *
15680832 TTAGGGTTTGGTTTA-GTGTTTAGGG-TTGGTTTAAGG
1 TTAGGATTTGATTTAGGT-TTTAGGGTTTGGTTTAAGG
*
15680868 TTAGGATTTGATTTAGGTTTTAGGGTTTGGTTTAGGG
1 TTAGGATTTGATTTAGGTTTTAGGGTTTGGTTTAAGG
15680905 TT
1 TT
15680907 TAAGGTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 20 0.59
37 14 0.41
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (37 bp):
TTAGGATTTGATTTAGGTTTTAGGGTTTGGTTTAAGG
Found at i:15680903 original size:19 final size:19
Alignment explanation
Indices: 15680812--15680913 Score: 97
Period size: 19 Copynumber: 5.5 Consensus size: 19
15680802 TTAGGGTTTC
*
15680812 TTTAGGGTTTAGG-TTAGGC
1 TTTAGGGTTT-GGTTTAGGT
15680831 TTTAGGGTTTGGTTTA-GT
1 TTTAGGGTTTGGTTTAGGT
15680849 GTTTAGGG-TTGGTTTAAGG-
1 -TTTAGGGTTTGGTTT-AGGT
* *
15680868 -TTAGGATTTGATTTAGGT
1 TTTAGGGTTTGGTTTAGGT
*
15680886 TTTAGGGTTTGGTTTAGGG
1 TTTAGGGTTTGGTTTAGGT
*
15680905 TTTAAGGTT
1 TTTAGGGTT
15680914 AGTTTAGGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
17 8 0.12
18 16 0.23
19 44 0.64
20 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTGGTTTAGGT
Found at i:15680944 original size:7 final size:7
Alignment explanation
Indices: 15680812--15680913 Score: 57
Period size: 7 Copynumber: 16.3 Consensus size: 7
15680802 TTAGGGTTTC
15680812 TTTAGGG
1 TTTAGGG
15680819 TTTA-GG
1 TTTAGGG
*
15680825 -TTAGGC
1 TTTAGGG
15680831 TTTAGGG
1 TTTAGGG
15680838 TTT--GG
1 TTTAGGG
*
15680843 TTTAGTG
1 TTTAGGG
15680850 TTTAGGG
1 TTTAGGG
15680857 -TT--GG
1 TTTAGGG
*
15680861 TTTAAGG
1 TTTAGGG
*
15680868 -TTAGGA
1 TTTAGGG
*
15680874 TTT--GA
1 TTTAGGG
*
15680879 TTTAGGT
1 TTTAGGG
15680886 TTTAGGG
1 TTTAGGG
15680893 TTT--GG
1 TTTAGGG
15680898 TTTAGGG
1 TTTAGGG
*
15680905 TTTAAGG
1 TTTAGGG
15680912 TT
1 TT
15680914 AGTTTAGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
4 2 0.03
5 20 0.27
6 9 0.12
7 43 0.58
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:15680955 original size:19 final size:19
Alignment explanation
Indices: 15680895--15680987 Score: 86
Period size: 18 Copynumber: 5.0 Consensus size: 19
15680885 TTTTAGGGTT
*
15680895 TGGTTTAGGGTTT-AAGGT
1 TGGTTTAGGGTTTGAAGGG
* *
15680913 TAGTTTAGGGTCT-AAGTTGG
1 TGGTTTAGGGTTTGAAG--GG
*
15680933 -GGTTTAGGGTTTGGAGGG
1 TGGTTTAGGGTTTGAAGGG
* *
15680951 TGG-TTAAGGTTTGAAAGG
1 TGGTTTAGGGTTTGAAGGG
15680969 TGGTTTAGGGTTTGAAGGG
1 TGGTTTAGGGTTTGAAGGG
15680988 GTTAGGTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
18 31 0.53
19 25 0.42
20 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.43, T:0.38
Consensus pattern (19 bp):
TGGTTTAGGGTTTGAAGGG
Found at i:15685764 original size:25 final size:27
Alignment explanation
Indices: 15685730--15685780 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
15685720 AGAGTACTTA
*
15685730 TTCAAAAACATGCTTA-T-AAATTTCT
1 TTCAAAAACATACTTATTCAAATTTCT
15685755 TTCAAAAACATACTTATTCAAATTTC
1 TTCAAAAACATACTTATTCAAATTTC
15685781 ATGCAAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 1 0.04
27 7 0.30
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (27 bp):
TTCAAAAACATACTTATTCAAATTTCT
Found at i:15685787 original size:27 final size:25
Alignment explanation
Indices: 15685732--15685787 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15685722 AGTACTTATT
* * *
15685732 CAAAAACATGCTTATAAATTTCTTT
1 CAAAAACATACTTATAAATTTCATG
15685757 CAAAAACATACTTATTCAAATTTCATG
1 CAAAAACATACTTA-T-AAATTTCATG
15685784 CAAA
1 CAAA
15685788 TCCACGTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 13 0.50
26 1 0.04
27 12 0.46
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
CAAAAACATACTTATAAATTTCATG
Found at i:15689075 original size:145 final size:144
Alignment explanation
Indices: 15688718--15689127 Score: 447
Period size: 145 Copynumber: 2.8 Consensus size: 144
15688708 GGAAAGTACA
* * * * * *
15688718 AAATTACCAAAATATCTTTACAAGGGATATTTTCTTAATTTGGCCTTCTTGAG-TCTAGATTTTC
1 AAATTACCAAAATACCCTTATAAAGG-TATTTTCTTAATTTGACCTTCATGAGCT-TAGATTTTC
* * *
15688782 ATGAAACTTTTCAGATCTTAATTTCATAACATTTCATATTTTTTGTGTATTTGAAATCACAGCTG
64 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCATATTTTTGGTGTTTTTGAAATCACAGCTG
*
15688847 TACCCCAAAAAGTGTG
129 TACCCCAAAAAGTATG
** * * *
15688863 AAATTATTAAAATACCCATAT-AAGGTCATTTTCGTAATTTGACCATT-ATGAGCCTAGATTTTC
1 AAATTACCAAAATACCCTTATAAAGGT-ATTTTCTTAATTTGACC-TTCATGAGCTTAGATTTTC
* *
15688926 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGACTTTTGGTGTTTTTGAAATCATAG-T
64 ATGAAACTTTTCAGATCTTAATTTCATAATATTTCAT-ATTTTTGGTGTTTTTGAAATCACAGCT
*
15688990 AGTA-CCTAACAACA-TATG
128 -GTACCCCAA-AA-AGTATG
* * ** *
15689008 AAATTACCAAAATACCCTTATAAAGGTATTTGCTTAATTCGACCTTCCCGAGCTTAGATTTTTAT
1 AAATTACCAAAATACCCTTATAAAGGTATTTTCTTAATTTGACCTTCATGAGCTTAGATTTTCAT
* * * *
15689073 GAAAATTTTTAGATCTCAATTTTATAATATTTCATAATTTTTGGTG-TTTTGAAAT
66 GAAACTTTTCAGATCTTAATTTCATAATATTTCAT-ATTTTTGGTGTTTTTGAAAT
15689128 TCAAAAAATG
Statistics
Matches: 222, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
143 1 0.00
144 83 0.37
145 132 0.59
146 6 0.03
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (144 bp):
AAATTACCAAAATACCCTTATAAAGGTATTTTCTTAATTTGACCTTCATGAGCTTAGATTTTCAT
GAAACTTTTCAGATCTTAATTTCATAATATTTCATATTTTTGGTGTTTTTGAAATCACAGCTGTA
CCCCAAAAAGTATG
Found at i:15693482 original size:12 final size:12
Alignment explanation
Indices: 15693464--15693493 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15693454 ATTCTCGAAT
15693464 ATGAACTTACCG
1 ATGAACTTACCG
*
15693476 GTGAACTTACCG
1 ATGAACTTACCG
15693488 ATGAAC
1 ATGAAC
15693494 CAACAACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (12 bp):
ATGAACTTACCG
Found at i:15700577 original size:16 final size:16
Alignment explanation
Indices: 15700556--15700592 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15700546 TTCCCTAAAG
15700556 AAAAAAATAAAAACAA
1 AAAAAAATAAAAACAA
* *
15700572 AAAAAAATAAGAATAA
1 AAAAAAATAAAAACAA
15700588 AAAAA
1 AAAAA
15700593 TGAAGGAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAAATAAAAACAA
Found at i:15701904 original size:126 final size:125
Alignment explanation
Indices: 15701687--15702063 Score: 499
Period size: 126 Copynumber: 3.0 Consensus size: 125
15701677 TGTAAGAACA
* *
15701687 TTGGGCATAATTTTCAAGATCC-CTAAGTAAAACATTTGAAATTTTTAAAGTTTCAATGCCTCTG
1 TTGGGCATAATTTTCAAGA-CCTCTAGGTAAAACATTTTAAATTTTTAAAGTTTCAATGCC-CTG
* * *
15701751 ATTGGATGAGCATTCAAAGATTTTGAGATTTGTAAAACCTTCGAGCAAAATCTCTAAGACCT
64 ATTGGAAGAGCATTCAAAGATTTTGAGATTTGTAAGACCTTCGAGCATAATCTCTAAGACCT
* * *
15701813 TTGGGCATAATTTTCAAGACCTCCAGGTAAAACATTTTAAATTTTTAAGGTGTCAATGCCCATGA
1 TTGGGCATAATTTTCAAGACCTCTAGGTAAAACATTTTAAATTTTTAAAGTTTCAATGCCC-TGA
* * *
15701878 TTAGAAGAGCATTCAAAGATTTTGAGATTTATAAGACC-TCTAGGCATAATCTCTAAGACCT
65 TTGGAAGAGCATTCAAAGATTTTGAGATTTGTAAGACCTTCGA-GCATAATCTCTAAGACCT
* * * *
15701939 CTGGGCATAATTTTCAAGACCTTTAGGAAAAACATTTTTAAA-TTTTAAAGTTTCAATGCCTTTG
1 TTGGGCATAATTTTCAAGACCTCTAGGTAAAACA-TTTTAAATTTTTAAAGTTTCAATGCC-CTG
* * * *
15702003 ATTGGGAGGAGCATTCAAAGATTTTGAGATTTGTAAGACTTTCGGGCATAATCTTTAAGAC
64 ATT-GGAAGAGCATTCAAAGATTTTGAGATTTGTAAGACCTTCGAGCATAATCTCTAAGAC
15702064 TTTCGAGCAA
Statistics
Matches: 219, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
125 6 0.03
126 157 0.72
127 54 0.25
128 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (125 bp):
TTGGGCATAATTTTCAAGACCTCTAGGTAAAACATTTTAAATTTTTAAAGTTTCAATGCCCTGAT
TGGAAGAGCATTCAAAGATTTTGAGATTTGTAAGACCTTCGAGCATAATCTCTAAGACCT
Found at i:15702179 original size:37 final size:39
Alignment explanation
Indices: 15702132--15702207 Score: 120
Period size: 37 Copynumber: 2.0 Consensus size: 39
15702122 TTTTTTAAAA
*
15702132 AAAGTTTCAAAGCCTCTATTT-G-GGGGGAGCTATTTTC
1 AAAGTTTCAAAGCCTCTATTTAGTGGGGGAGCAATTTTC
15702169 AAAGTTTCAAAGCCTCTATTTAGGTGGGGGAGCAATTTT
1 AAAGTTTCAAAGCCTCTATTTA-GTGGGGGAGCAATTTT
15702208 TAAACAAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
37 21 0.60
39 1 0.03
40 13 0.37
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (39 bp):
AAAGTTTCAAAGCCTCTATTTAGTGGGGGAGCAATTTTC
Found at i:15702951 original size:143 final size:142
Alignment explanation
Indices: 15702715--15703123 Score: 441
Period size: 143 Copynumber: 2.8 Consensus size: 142
15702705 TGGATGTACA
* * * * *
15702715 AAATTACTAAAATACCCTTATAAGGGATATTTTTTTAATTTGGCCTTTCCAAGCTTAGATTTTCA
1 AAATTAGTAAAATACCCTTATAAGGG-TA-TTTTATAATTT-G-ATTTCCGAGCTTGGATTTTCA
* *
15702780 TGAAACTTTTCAGATATTAATTTCATAATATATCATGATTTTTTGTGTATTTGAAATCACAGTC-
62 TGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCACAG-CA
* *
15702844 GTACCTCAG-AAAGTGTG
126 GTACC-CAGAAAAATATG
* * * **
15702861 AAATTAGTAAAATACCCCTATAAGGGTATTTTGTAATTTGATTTCTTGAGCTTGGATTTTTGTGA
1 AAATTAGTAAAATACCCTTATAAGGGTATTTTATAATTTGATTTC-CGAGCTTGGATTTTCATGA
* * * * * *
15702926 AAATTTTTAGATTTTAATTTCATAATATTTCATTATTTTTGGTGCATTTGAAATCATAGCAGTAC
65 AACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCACAGCAGTAC
*
15702991 CCCGAAAAATATG
130 CCAGAAAAATATG
* * *
15703004 AAATTACG-AAAATACTCTTATAAAGGTATTTTCATAATTTGACTTTCCCGAGTTTGGATTTTCA
1 AAATTA-GTAAAATACCCTTATAAGGGTATTTT-ATAATTTGA-TTT-CCGAGCTTGGATTTTCA
* * *
15703068 TGAAACTTTTCATATCTCAATTTCATAATATTTCATGATTTTTGGTGT-TTT-AAATC
62 TGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATC
15703124 TTAAAAATGA
Statistics
Matches: 221, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
142 7 0.03
143 109 0.49
144 22 0.10
145 58 0.26
146 25 0.11
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (142 bp):
AAATTAGTAAAATACCCTTATAAGGGTATTTTATAATTTGATTTCCGAGCTTGGATTTTCATGAA
ACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCACAGCAGTACC
CAGAAAAATATG
Found at i:15707942 original size:3 final size:3
Alignment explanation
Indices: 15707934--15707984 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
15707924 CTTTAAAATC
15707934 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15707982 ATT
1 ATT
15707985 GCTATTATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15708161 original size:16 final size:16
Alignment explanation
Indices: 15708140--15708170 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15708130 AAAGGTATAA
*
15708140 TGGAAATAAACTTTAT
1 TGGAAACAAACTTTAT
15708156 TGGAAACAAACTTTA
1 TGGAAACAAACTTTA
15708171 AGCCTTATAT
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:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (16 bp):
TGGAAACAAACTTTAT
Found at i:15710112 original size:36 final size:33
Alignment explanation
Indices: 15710072--15710180 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 33
15710062 ATAAAAAACA
15710072 ACTAGGACATCACTACAAGTTGAAAAAATAAAAATG
1 ACTAGGACA-CACTACAAG-T-AAAAAATAAAAATG
* *
15710108 ACTAGGACAACATTACAAGTAAAAAAAAAATATATG
1 ACTAGGAC-ACACTACAAGTAAAAAATAAA-A-ATG
* * *
15710144 ACCAGGACGACACCACAAATCAAAAAATAAAAATG
1 ACTAGGAC-ACACTACAAGT-AAAAAATAAAAATG
15710179 AC
1 AC
15710181 CGAGATAACA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
34 9 0.15
35 7 0.11
36 35 0.57
37 10 0.16
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.16
Consensus pattern (33 bp):
ACTAGGACACACTACAAGTAAAAAATAAAAATG
Found at i:15710242 original size:36 final size:36
Alignment explanation
Indices: 15710165--15710253 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 36
15710155 ACCACAAATC
* * * *
15710165 AAAAAATAAAAATGACCGAGATAACATTGCAGGTCA
1 AAAAAATAAAAATGACCGAGACAACACTGAAGATCA
* *
15710201 GAAAAATAAAGATGACCGAGACAACACT-AATGATCA
1 AAAAAATAAAAATGACCGAGACAACACTGAA-GATCA
* *
15710237 AAAAAATGAATATGACC
1 AAAAAATAAAAATGACC
15710254 AAGATGACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.54, C:0.15, G:0.16, T:0.16
Consensus pattern (36 bp):
AAAAAATAAAAATGACCGAGACAACACTGAAGATCA
Found at i:15710516 original size:36 final size:36
Alignment explanation
Indices: 15710476--15711004 Score: 181
Period size: 36 Copynumber: 14.8 Consensus size: 36
15710466 ACTATAGGTC
* *
15710476 AAAAAATAAAGATGATCGGGATAACACCATAAGTCA
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
* *
15710512 AAAAAATAAAGATGATCGAGACAACACCA-ATTGTTA
1 AAAAAATAAAGATGATCGAGACAACACCATA-AGTCA
** * * * * *
15710548 GGAAAACAAATATGA-CTAAGACAATACCGTAAGTC-
1 AAAAAATAAAGATGATC-GAGACAACACCATAAGTCA
* * * * *
15710583 AAAAAATAAAAATAATCGAGACAACACTACATGTCA
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
* * * * * * *
15710619 GAAAAATAAAAATGA-CTAGGATAATACCA-ACAATTA
1 AAAAAATAAAGATGATCGA-GACAACACCATA-AGTCA
* * * * *
15710655 GAAAAATGAATATGATCGGGATAACACCATAAGTCA
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
*
15710691 AAAAAATAAAGATGATCGAGACAACACC--AATTGCTA
1 AAAAAATAAAGATGATCGAGACAACACCATAAGT-C-A
** * * * * * *
15710727 GGAAAACAAATATGACCAAGACAATACCGTAAGTC-
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
* * * * *
15710762 AAAAAATAAAAATAATCGAGACAACACTACATGTCA
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
* * * * * * *
15710798 GAAAAATAAAAATGA-CTAAGATAATACCA-ACAATTA
1 AAAAAATAAAGATGATC-GAGACAACACCATA-AGTCA
* * * * * * * **
15710834 GAAAAATGAATATGATTGGGACAACATCATAGGTTG
1 AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
* * * *
15710870 AAAAAATAAAGTTGA-CCAGGATAACACCA-ATGGTC-
1 AAAAAATAAAGATGATCGA-GACAACACCATA-AGTCA
* * * * * *
15710905 AAAAAATGAATATGA-CTGGGACAACACCGTAGGT-T
1 AAAAAATAAAGATGATC-GAGACAACACCATAAGTCA
* * *
15710940 AAAAAATAAAAATGA-CTGAGACAACATCACAAGTCA
1 AAAAAATAAAGATGATC-GAGACAACACCATAAGTCA
* *
15710976 AAAAAATAAAGATGATAGAGGCAACACCA
1 AAAAAATAAAGATGATCGAGACAACACCA
15711005 ATGGTAGAGA
Statistics
Matches: 353, Mismatches: 115, Indels: 50
0.68 0.22 0.10
Matches are distributed among these distances:
34 3 0.01
35 105 0.30
36 237 0.67
37 5 0.01
38 3 0.01
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.18
Consensus pattern (36 bp):
AAAAAATAAAGATGATCGAGACAACACCATAAGTCA
Found at i:15710634 original size:71 final size:72
Alignment explanation
Indices: 15710505--15710646 Score: 180
Period size: 71 Copynumber: 2.0 Consensus size: 72
15710495 GATAACACCA
* * * * *
15710505 TAAGTCAAAAAAATAAAGATGATCGAGACAACACCAATTGTTAGGAAAACAAATATGACTAAGAC
1 TAAGTCAAAAAAATAAAAATAATCGAGACAACACCAATTGTCAGAAAAACAAAAATGACTAAGAC
15710570 AATACCG
66 AATACCG
* * *
15710577 TAAGTC-AAAAAATAAAAATAATCGAGACAACACTACA-TGTCAGAAAAATAAAAATGACTAGGA
1 TAAGTCAAAAAAATAAAAATAATCGAGACAACACCA-ATTGTCAGAAAAACAAAAATGACTAAGA
*
15710640 TAATACC
65 CAATACC
15710647 AACAATTAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
71 53 0.88
72 7 0.12
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (72 bp):
TAAGTCAAAAAAATAAAAATAATCGAGACAACACCAATTGTCAGAAAAACAAAAATGACTAAGAC
AATACCG
Found at i:15710678 original size:179 final size:179
Alignment explanation
Indices: 15710477--15710990 Score: 721
Period size: 179 Copynumber: 2.9 Consensus size: 179
15710467 CTATAGGTCA
* *
15710477 AAAAATAAAGATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGAGACAACACCAA
1 AAAAATGAATATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGAGACAACACCAA
15710542 TTGTTAGGAAAACAAATATGACTAAGACAATACCGTAAGTCAAAAAATAAAAATAATCGAGACAA
66 TTGTTAGGAAAACAAATATGACTAAGACAATACCGTAAGTCAAAAAATAAAAATAATCGAGACAA
*
15710607 CACTACATGTCAGAAAAATAAAAATGACTAGGATAATACCAACAATTAG
131 CACTACATGTCAGAAAAATAAAAATGACTAAGATAATACCAACAATTAG
15710656 AAAAATGAATATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGAGACAACACCAA
1 AAAAATGAATATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGAGACAACACCAA
* *
15710721 TTGCTAGGAAAACAAATATGACCAAGACAATACCGTAAGTCAAAAAATAAAAATAATCGAGACAA
66 TTGTTAGGAAAACAAATATGACTAAGACAATACCGTAAGTCAAAAAATAAAAATAATCGAGACAA
15710786 CACTACATGTCAGAAAAATAAAAATGACTAAGATAATACCAACAATTAG
131 CACTACATGTCAGAAAAATAAAAATGACTAAGATAATACCAACAATTAG
* * * * ** * * *
15710835 AAAAATGAATATGATTGGGACAACATCATAGGTTGAAAAAATAAAGTTGA-CCAGGATAACACCA
1 AAAAATGAATATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGA-GACAACACCA
* * * ** ** * * * *
15710899 ATGGTCA-AAAAATGAATATGACTGGGACAACACCGTAGGTTAAAAAATAAAAATGA-CTGAGAC
65 ATTGTTAGGAAAACAAATATGACTAAGACAATACCGTAAGTCAAAAAATAAAAATAATC-GAGAC
* * *
15710962 AACA-TCACAAGTCAAAAAAATAAAGATGA
129 AACACT-ACATGTCAGAAAAATAAAAATGA
15710991 TAGAGGCAAC
Statistics
Matches: 302, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
177 2 0.01
178 70 0.23
179 230 0.76
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.18
Consensus pattern (179 bp):
AAAAATGAATATGATCGGGATAACACCATAAGTCAAAAAAATAAAGATGATCGAGACAACACCAA
TTGTTAGGAAAACAAATATGACTAAGACAATACCGTAAGTCAAAAAATAAAAATAATCGAGACAA
CACTACATGTCAGAAAAATAAAAATGACTAAGATAATACCAACAATTAG
Found at i:15710813 original size:71 final size:72
Alignment explanation
Indices: 15710684--15710825 Score: 173
Period size: 71 Copynumber: 2.0 Consensus size: 72
15710674 GATAACACCA
* * * *
15710684 TAAGTCAAAAAAATAAAGATGATCGAGACAACACCAATTGCTAGGAAAACAAATATGACCAAGAC
1 TAAGTCAAAAAAATAAAAATAATCGAGACAACACCAATTGCTAGAAAAACAAAAATGACCAAGAC
15710749 AATACCG
66 AATACCG
* * *
15710756 TAAGTC-AAAAAATAAAAATAATCGAGACAACACTACA-TG-TCAGAAAAATAAAAATGACTAAG
1 TAAGTCAAAAAAATAAAAATAATCGAGACAACACCA-ATTGCT-AGAAAAACAAAAATGACCAAG
*
15710818 ATAATACC
64 ACAATACC
15710826 AACAATTAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
70 1 0.02
71 52 0.87
72 7 0.12
ACGTcount: A:0.54, C:0.16, G:0.13, T:0.17
Consensus pattern (72 bp):
TAAGTCAAAAAAATAAAAATAATCGAGACAACACCAATTGCTAGAAAAACAAAAATGACCAAGAC
AATACCG
Found at i:15710873 original size:71 final size:70
Alignment explanation
Indices: 15710798--15710980 Score: 188
Period size: 71 Copynumber: 2.6 Consensus size: 70
15710788 CTACATGTCA
* * * *
15710798 GAAAAATAAAAATGACTAAGATAATACCAACAATTAGAAAAATGAATATGATTGGGACAACATCA
1 GAAAAATAAAAATGACTAAGATAACACCAACAATCA-AAAAATGAATATGACTGGGACAACACCA
15710863 TAGGTT
65 TAGGTT
** * * *** *
15710869 GAAAAAATAAAGTTGACCAGGATAACACCAATGGTCAAAAAATGAATATGACTGGGACAACACCG
1 G-AAAAATAAAAATGACTAAGATAACACCAACAATCAAAAAATGAATATGACTGGGACAACACCA
15710934 TAGGTT
65 TAGGTT
* * * *
15710940 AAAAAATAAAAATGACTGAGACAACATC-ACAAGTCAAAAAA
1 GAAAAATAAAAATGACTAAGATAACACCAACAA-TCAAAAAA
15710981 ATAAAGATGA
Statistics
Matches: 87, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
69 1 0.01
70 28 0.32
71 32 0.37
72 26 0.30
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (70 bp):
GAAAAATAAAAATGACTAAGATAACACCAACAATCAAAAAATGAATATGACTGGGACAACACCAT
AGGTT
Found at i:15710931 original size:35 final size:35
Alignment explanation
Indices: 15710835--15710990 Score: 118
Period size: 35 Copynumber: 4.4 Consensus size: 35
15710825 CAACAATTAG
* * * *
15710835 AAAAATGAATATGATTGGGACAACATCATAGGTTGA
1 AAAAATAAATATGACTGGGACAACACCATAGG-TCA
** *
15710871 AAAAATAAAGT-TGACCAGGATAACACCA-ATGGTCA
1 AAAAATAAA-TATGACTGGGACAACACCATA-GGTCA
* * *
15710906 AAAAATGAATATGACTGGGACAACACCGTAGGTTA
1 AAAAATAAATATGACTGGGACAACACCATAGGTCA
* * * * *
15710941 AAAAATAAAAATGACTGAGACAACATCACAAGTCAA
1 AAAAATAAATATGACTGGGACAACACCATAGGTC-A
*
15710977 AAAAATAAAGATGA
1 AAAAATAAATATGA
15710991 TAGAGGCAAC
Statistics
Matches: 93, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
34 1 0.01
35 54 0.58
36 37 0.40
37 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.19
Consensus pattern (35 bp):
AAAAATAAATATGACTGGGACAACACCATAGGTCA
Found at i:15711170 original size:72 final size:71
Alignment explanation
Indices: 15711042--15711229 Score: 189
Period size: 72 Copynumber: 2.6 Consensus size: 71
15711032 GTGACAGAGG
* * ** * *
15711042 CAACACCAATGGTCGAGAAAACAAATATGACTCAGGCAACACCGCAAGTCAAAAAAATAAAAATG
1 CAACACCAATGGTTGAGAAAA-AAATATAACTCAAACAACACCACAAGTCAAAAAAATAAAAATA
15711107 ACCA-GAA
65 ACCATG-A
* * * * * *
15711114 TAACACCAATGGTTGAGAAAAAGAATATAACTCAAATAACATCACAGGTCAGAAAAATAAAGATA
1 CAACACCAATGGTTGAGAAAAA-AATATAACTCAAACAACACCACAAGTCAAAAAAATAAAAATA
15711179 ACCATGA
65 ACCATGA
* * **
15711186 CAACACCAATGGTTGAAAAAATAAATATAATTGGAACAACACCA
1 CAACACCAATGGTTGAGAAAA-AAATATAACTCAAACAACACCA
15711230 ATGGTCGAGA
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 91 0.97
73 2 0.02
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.15
Consensus pattern (71 bp):
CAACACCAATGGTTGAGAAAAAAATATAACTCAAACAACACCACAAGTCAAAAAAATAAAAATAA
CCATGA
Found at i:15711206 original size:36 final size:36
Alignment explanation
Indices: 15711166--15711351 Score: 144
Period size: 36 Copynumber: 5.2 Consensus size: 36
15711156 CACAGGTCAG
* *
15711166 AAAAATAAAGATAACCATGACAACACCAATGGTTGA
1 AAAAATAAAGATAACCAAGACAACACCAATGGTCGA
* ***
15711202 AAAAATAAATATAA-TTGGAACAACACCAATGGTCG-
1 AAAAATAAAGATAACCAAG-ACAACACCAATGGTCGA
* ** * *
15711237 AGAGGTAAAGATGACCAAAACAACACCAATGGTC-A
1 AAAAATAAAGATAACCAAGACAACACCAATGGTCGA
** * * * *
15711272 GGAGATAAAGATAACTAGGACAACACCAATAGTCGA
1 AAAAATAAAGATAACCAAGACAACACCAATGGTCGA
* * * * *
15711308 GAAAATAAAAATCACCAAGACAACACCAACGGTCAA
1 AAAAATAAAGATAACCAAGACAACACCAATGGTCGA
15711344 AAAAATAA
1 AAAAATAA
15711352 GGAAGTAAAG
Statistics
Matches: 115, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
35 52 0.45
36 63 0.55
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.14
Consensus pattern (36 bp):
AAAAATAAAGATAACCAAGACAACACCAATGGTCGA
Found at i:15711331 original size:71 final size:71
Alignment explanation
Indices: 15711167--15711347 Score: 195
Period size: 71 Copynumber: 2.5 Consensus size: 71
15711157 ACAGGTCAGA
* * * *
15711167 AAAATAAAGATAACCATGACAACACCAATGGTTGAAAAAATAAATATAATTGGAACAACACCAAT
1 AAAATAAAGATAACCAAGACAACACCAATGG-TCAAAAAATAAAGATAATAGGAACAACACCAAT
*
15711232 GGTCGAG
65 AGTCGAG
** * * ** *
15711239 -AGGTAAAGATGACCAAAACAACACCAATGGTCAGGAGATAAAGATAACTAGG-ACAACACCAAT
1 AAAATAAAGATAACCAAGACAACACCAATGGTCAAAAAATAAAGATAA-TAGGAACAACACCAAT
15711302 AGTCGAG
65 AGTCGAG
* * *
15711309 AAAATAAAAATCACCAAGACAACACCAACGGTCAAAAAA
1 AAAATAAAGATAACCAAGACAACACCAATGGTCAAAAAA
15711348 ATAAGGAAGT
Statistics
Matches: 86, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
70 29 0.34
71 57 0.66
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (71 bp):
AAAATAAAGATAACCAAGACAACACCAATGGTCAAAAAATAAAGATAATAGGAACAACACCAATA
GTCGAG
Done.