Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 201 of 204
Found at i:59177971 original size:20 final size:20
Alignment explanation
Indices: 59177874--59178047 Score: 97
Period size: 19 Copynumber: 9.2 Consensus size: 20
59177864 AACATGAGAA
*
59177874 TTTTTTGAAAACACGAAA-A
1 TTTTTTGAAAACACGAAATT
* *
59177893 TTTTTTGAAAACGCTAAA--
1 TTTTTTGAAAACACGAAATT
* *
59177911 ATTTTTG-AAACACGAAA-A
1 TTTTTTGAAAACACGAAATT
*
59177929 TTTTTTGAAAACGCGAAA--
1 TTTTTTGAAAACACGAAATT
*
59177947 ATTTTT--AAACACGAGAATT
1 TTTTTTGAAAACACGA-AATT
*
59177966 TTTTTTGAAAACATGAAA-T
1 TTTTTTGAAAACACGAAATT
*
59177985 TTTTTTG-ACACGA-GAAAGTT
1 TTTTTTGAAAAC-ACGAAA-TT
** * *
59178005 TTTTTAAAAAAACTCAAAATT
1 TTTTT-TGAAAACACGAAATT
59178026 TTTTTTG-AAACACG-AATT
1 TTTTTTGAAAACACGAAATT
59178044 TTTT
1 TTTT
59178048 ATTTTTTAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
16 7 0.06
17 10 0.08
18 32 0.26
19 44 0.36
20 8 0.07
21 14 0.12
22 6 0.05
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTTTTGAAAACACGAAATT
Found at i:59177971 original size:55 final size:55
Alignment explanation
Indices: 59177840--59177992 Score: 161
Period size: 55 Copynumber: 2.8 Consensus size: 55
59177830 ACGATAATAA
* *
59177840 TTTTTGAAAAC-ACG-AAATTTATGAAACATGAGAATTTTTTGAAAACACGAAAAT
1 TTTTTGAAAACGA-GAAAATTTTTGAAACATGAAAATTTTTTGAAAACACGAAAAT
** * *
59177894 TTTTTGAAAACGCTAAAATTTTTGAAACACGAAAATTTTTTGAAAACGCGAAAA-
1 TTTTTGAAAACGAGAAAATTTTTGAAACATGAAAATTTTTTGAAAACACGAAAAT
** *
59177948 TTTTT-AAACACGAGAATTTTTTTTGAAAACATGAAATTTTTTTGA
1 TTTTTGAAA-ACGAGAA-AATTTTTG-AAACATGAAAATTTTTTGA
59177993 CACGAGAAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
53 3 0.04
54 21 0.26
55 41 0.50
56 17 0.21
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (55 bp):
TTTTTGAAAACGAGAAAATTTTTGAAACATGAAAATTTTTTGAAAACACGAAAAT
Found at i:59178007 original size:36 final size:35
Alignment explanation
Indices: 59177838--59178013 Score: 142
Period size: 37 Copynumber: 4.9 Consensus size: 35
59177828 ACACGATAAT
* *
59177838 AATTTTTGAAAACACG-AAA-TTTATG-AAACATGA
1 AATTTTT-TAAACACGAAAATTTTTTGAAAACATGA
* *
59177871 GAATTTTTTGAAAACACGAAAATTTTTTGAAAACGCTAA
1 -AATTTTTT--AAACACGAAAATTTTTTGAAAAC-ATGA
* **
59177910 AATTTTTGAAACACGAAAATTTTTTGAAAACGCGA
1 AATTTTTTAAACACGAAAATTTTTTGAAAACATGA
* *
59177945 AAATTTTTAAACACGAGAATTTTTTTTGAAAACATGA
1 AATTTTTTAAACACGA-AA-ATTTTTTGAAAACATGA
** *
59177982 AATTTTTTTGACACGAGAAAGTTTTTTTAAAA
1 AATTTTTTAAACACGA-AAA-TTTTTTGAAAA
59178014 AAACTCAAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
34 7 0.06
35 22 0.19
36 28 0.24
37 45 0.39
38 11 0.10
39 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (35 bp):
AATTTTTTAAACACGAAAATTTTTTGAAAACATGA
Found at i:59178549 original size:19 final size:18
Alignment explanation
Indices: 59178527--59178564 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
59178517 TTTTGTTTGT
59178527 TTTTTATTTTCTCTTTTTC
1 TTTTTATTTTCT-TTTTTC
*
59178546 TTTTTCTTTTCTTTTTTC
1 TTTTTATTTTCTTTTTTC
59178564 T
1 T
59178565 CCTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTCTTTTTTC
Found at i:59178555 original size:26 final size:26
Alignment explanation
Indices: 59178512--59178579 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 26
59178502 GCAATTCAGG
*
59178512 CCTTTTTTTGTTTGTTTT-TTATTTTCT
1 CCTTTTTTT-TTTCTTTTCTT-TTTTCT
59178539 -CTTTTTCTTTTTCTTTTCTTTTTTCT
1 CCTTTTT-TTTTTCTTTTCTTTTTTCT
59178565 CCTCTTTTTTTTTCT
1 CCT-TTTTTTTTTCT
59178580 GCAGATTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 19 0.53
27 13 0.36
28 4 0.11
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (26 bp):
CCTTTTTTTTTTCTTTTCTTTTTTCT
Found at i:59178933 original size:26 final size:26
Alignment explanation
Indices: 59178904--59178972 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
59178894 CCCTTTTTTC
59178904 TTTTTTCTTCTCTTTT-TTCTTTCTCT
1 TTTTTTCTTCTCTTTTCTTCTTTCT-T
59178930 TTTTCTTC-TCTCTTTTTCTTCTTTCTT
1 TTTT-TTCTTCTC-TTTTCTTCTTTCTT
*
59178957 TTTCTTCTTCTTCTTT
1 TTTTTTCTTC-TCTTT
59178973 CGGGCCGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
26 11 0.30
27 16 0.43
28 10 0.27
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTTCTTCTCTTTTCTTCTTTCTT
Found at i:59178962 original size:19 final size:19
Alignment explanation
Indices: 59178898--59178973 Score: 84
Period size: 19 Copynumber: 4.0 Consensus size: 19
59178888 TTTTTTCCCT
*
59178898 TTTTTCTTTTTTCTTCTCT-
1 TTTTTC-TTTTTCTTCTTTC
*
59178917 TTTTTCTTTCTCTT-TTTC
1 TTTTTCTTTTTCTTCTTTC
*
59178935 TTCTCTCTTTTTCTTCTTTC
1 TT-TTTCTTTTTCTTCTTTC
*
59178955 TTTTTCTTCTTCTTCTTTC
1 TTTTTCTTTTTCTTCTTTC
59178974 GGGCCGAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.04
18 9 0.19
19 31 0.65
20 6 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTCTTTTTCTTCTTTC
Found at i:59178973 original size:13 final size:12
Alignment explanation
Indices: 59178905--59178973 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 12
59178895 CCTTTTTTCT
59178905 TTTTTCTTC-TC
1 TTTTTCTTCTTC
59178916 TTTTTTCTT-TCTC
1 -TTTTTCTTCT-TC
59178929 TTTTTCTTCTCTC
1 TTTTTCTTCT-TC
59178942 TTTTTCTTCTTTC
1 TTTTTCTTC-TTC
59178955 TTTTTCTTCTTC
1 TTTTTCTTCTTC
59178967 TTCTTTC
1 TT-TTTC
59178974 GGGCCGAACT
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
12 21 0.40
13 30 0.58
14 1 0.02
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTCTTC
Found at i:59178973 original size:26 final size:24
Alignment explanation
Indices: 59178898--59178973 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 24
59178888 TTTTTTCCCT
59178898 TTTTTCTTTTTTCTTC-TCTTTTTTC
1 TTTTTC-TTTTTCTTCTTC-TTTTTC
*
59178923 TTTCTCTTTTTCTTCTCTCTTTTTC
1 TTTTTCTTTTTCTTCT-TCTTTTTC
59178948 TTCTTTCTTTTTCTTCTTCTTCTTTC
1 TT-TTTCTTTTTCTTCTTCTT-TTTC
59178974 GGGCCGAACT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 9 0.20
25 17 0.38
26 19 0.42
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTCTTTTTCTTCTTCTTTTTC
Found at i:59179114 original size:22 final size:23
Alignment explanation
Indices: 59179055--59179115 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
59179045 GGCACTCCCC
*
59179055 TTTTCTTC-CTCTTCTTTCTTCT
1 TTTTCTTCTCTTTTCTTTCTTCT
59179077 TTTTCTTTCCCTTCTTTTCTTTC-TCT
1 TTTTC-TT--C-TCTTTTCTTTCTTCT
59179103 TTTTCTTCTCTTT
1 TTTTCTTCTCTTT
59179116 GCTTGCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 10 0.30
23 3 0.09
25 3 0.09
26 8 0.24
27 9 0.27
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTCTTCTCTTTTCTTTCTTCT
Found at i:59179671 original size:30 final size:30
Alignment explanation
Indices: 59179511--59179670 Score: 123
Period size: 29 Copynumber: 5.4 Consensus size: 30
59179501 TTTTGGGGTA
* * *
59179511 AAAATGTAATTTTAGAAAAATAT-GGGGCT
1 AAAATGTAATTTTAGAAAAGTTTAGGGGCC
* * * *
59179540 AAAATGTAATTTTTGGAAATTTTAAGGGCTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGC-C
* * *
59179571 -GAATGTAA-TTTACAAAA-TATTAGGGGTC
1 AAAATGTAATTTTAGAAAAGT-TTAGGGGCC
** * *
59179599 AAGGTGTAAATTTAGAAAAG-TTAGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGCC
* *
59179628 AAAATGTAATTTTTGAAAAGTTTGGGGGCC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGCC
59179658 AAAATGTAATTTT
1 AAAATGTAATTTT
59179671 TTATTTTTGT
Statistics
Matches: 102, Mismatches: 22, Indels: 13
0.74 0.16 0.09
Matches are distributed among these distances:
28 2 0.02
29 61 0.60
30 39 0.38
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGCC
Found at i:59180691 original size:79 final size:78
Alignment explanation
Indices: 59179854--59181497 Score: 1679
Period size: 78 Copynumber: 20.9 Consensus size: 78
59179844 AAAAATAGCC
* * * * * *
59179854 CGGCATGCGACCCGAAGCTCAACTCACCTCTTG-AATTATGAGTTGA-TCTTCG--AAAAACAAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAAAACAGA
*
59179915 AATCGAAAA-TACCT
64 AATTGAAAAGTACCT
* * * *
59179929 TGGCATGTGCCTGAGGCTCAACTCACAC-ATCGCAATATGAGTTGATTTTTTTG--AACAACAGA
1 CGGCATGTGCCCGAGGCTCAACTCAC-CTCTCGCAATATGAGTTGA-TTTTTTGAAAAAAACAGA
*
59179991 AATTGAAAAATACCT
64 AATTGAAAAGTACCT
* ** * * *
59180006 CAGTGTGCGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAAATAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59180069 ATTGAAAAATACCT
65 ATTGAAAAGTACCT
** * * * *
59180083 CAACGTGTGACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAAAACATTA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACA-GA
* *
59180148 ATTTGAAAAAAATACCT
64 AATTG--AAAAGTACCT
* * * *
59180165 CAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTT--AAAAAA-A-AA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59180226 ATTTAAAAGATACCT
65 ATTGAAAAG-TACCT
** *
59180241 CGATATGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTT--AAAAAACAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59180303 ATTGAAAAGTAGCT
65 ATTGAAAAGTACCT
** * *
59180317 CGGCATGTGTGCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAAAAATAGA
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAAAACAGA
*
59180382 AATTTAAAAGAAATACCT
64 AATTGAAAAG---TACCT
* * *
59180400 CGGCATGTGTCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAACAAAAAC
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG--AA-AAAAAC
* * *
59180465 ATAAATTTAAAAAATACCT
61 AGAAA-TTGAAAAGTACCT
* * * **
59180484 CAGCGTGTGACCTGAGGCTCAACTCACCTCTCAAAATATGAGTTGA-TTTTTG-AAAAAACAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59180547 ATTCAAAAGATACCT
65 ATTGAAAAG-TACCT
59180562 CGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAACAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
59180626 ATTGAAAAGTACCT
65 ATTGAAAAGTACCT
* * * *
59180640 CGGCATGTGTCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAAAAAACATA
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAAAACAGA
* *
59180705 AATTTAAAAAATACCT
64 AA-TTGAAAAGTACCT
* * * * *
59180721 CAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAACATAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59180785 ATTTAAAAGATACCT
65 ATTGAAAAG-TACCT
* * * *
59180800 CGGTATGTGACCCAAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTTTG--AAAAGCAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
59180861 ATTGAAAAGTACCT
65 ATTGAAAAGTACCT
* *
59180875 CGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAATAGAAA
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAA
*
59180940 TTTAAAAGAAATACCT
66 TTGAAAAG---TACCT
** * * * *
59180956 CGGCATGTGACTTGAGGCTCAACTTACTTCTCGCATTATGAGTTGA-TTTTTGAAAAAAATAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
*
59181020 ATTTAAAAGATACCT
65 ATTGAAAAG-TACCT
* *
59181035 CGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAAACGGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
59181098 ATTGAAAAGTACCT
65 ATTGAAAAGTACCT
* *
59181112 CGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAATAGAAA
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAA
*
59181177 TTTAAAAGAAATACCT
66 TTGAAAAG---TACCT
* * * * *
59181193 CGGCATGTGTCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAAAAAAAAAG
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTT-GAAAAAAACAG
*
59181258 AAATTTAAAAGAAATACCT
63 AAATTGAAAAG---TACCT
* *
59181277 TGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT-AAAAAAA-AGAAA
1 CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAA
59181337 TTGAAAA-TACCT
66 TTGAAAAGTACCT
* * ***
59181349 CAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTGAAAAACAGAA
1 CGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
* *
59181412 ATTAAAAAATACCT
65 ATTGAAAAGTACCT
* *
59181426 CGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAACATAA
1 CGGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAA
59181490 ATTGAAAA
65 ATTGAAAA
59181498 ATATTTCTTG
Statistics
Matches: 1356, Mismatches: 151, Indels: 121
0.83 0.09 0.07
Matches are distributed among these distances:
70 3 0.00
71 34 0.03
72 7 0.01
74 63 0.05
75 75 0.06
76 153 0.11
77 180 0.13
78 189 0.14
79 182 0.13
80 48 0.04
81 107 0.08
82 124 0.09
83 51 0.04
84 90 0.07
85 35 0.03
86 9 0.01
87 6 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAA
TTGAAAAGTACCT
Found at i:59180747 original size:237 final size:236
Alignment explanation
Indices: 59179831--59181497 Score: 1942
Period size: 235 Copynumber: 7.1 Consensus size: 236
59179821 TATTTTTATT
* * * *
59179831 AAAAAA-AGAAA-TCAAAA-ATAGCC-CGGCATGCGACCCGAAGCTCAACTCACCTCTTG-AATT
1 AAAAAACAGAAATTGAAAAGATA-CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA-T
* * * * *
59179891 ATGAGTTGATCTTCG--AAAAACAAAAATCGAAAA-TACCTTGGCATGTG-CCTGAGGCTCAACT
64 ATGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCC-GAGGCTCAACT
* * * *
59179952 CACAC-ATCGCAATATGAGTTGATTTTTTTG--AACAACAGAAA-TTGAAAAATACCTCAGTGTG
128 CAC-CTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTTAAAAAATACCTCAGCGTG
* **
59180013 CGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
192 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
* ** * * *
59180059 -AAAAATAGAAATTGAAAA-ATACCTCAACGTGTGACCCAAGGCTCAACTCACATCTCGCAATAT
1 AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * * * *
59180122 GAGTTGATTTTTTGAAAAAAACATTAATTTGAAAAAAATACCTCAGCGTGTGACCTGAGGCTCAA
66 GAGTTGA-TTTTTGAAAAAAACA-GAAATTG--AAAAGTACCTCGGCATGTGTCC-GAGGCTCAA
* * **
59180187 CTCACCTCTCGCAATATGAGTTG-GTTTTTT--AAAAAA-A-AAATTTAAAAGATACCTC-GATA
126 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTTAAAAAATACCTCAG-CG
* *
59180246 TGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT-
190 TGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* ** *
59180292 AAAAAACAGAAATTGAAAAG-TAGCTCGGCATGTG-TGCGAGGCTCAACTCACCTCTCACAATAT
1 AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
59180355 GAGTTGATTTTTTTGAAAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCA
66 GAGTTGA--TTTTTG-AAAAAAACAGAAATTGAAAAG---TACCTCGGCATGTGTCCGAGGCTCA
* *
59180420 ACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAACAAAAACATAAATTTAAAAAATACCTC
125 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG--AA-AAAAACAGAAATTTAAAAAATACCTC
**
59180485 AGCGTGTGACCTGAGGCTCAACTCACCTCTCAAAATATGAGTTGATTTTTG
186 AGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
59180536 AAAAAACAGAAATTCAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
59180601 GAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCAC
66 GAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCAC
* * *
59180666 CTTTCACAATATGAGTTGATTTTTTTGAAAAAAAACATAAATTTAAAAAATACCTCAGCGTGTGA
131 CTCTCGCAATATGAGTTGATTTTTTTG-AAAAAAACAGAAATTTAAAAAATACCTCAGCGTGTGA
*
59180731 CCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG
195 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
59180773 AAAAAAACATAAATTTAAAAGATACCTCGGTATGTGACCCAAGGCTCAACTCATCTCTCGCAATA
1 -AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
59180838 TGAGTTGA-TTTTG--AAAAGCAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCA
65 TGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCA
* * *
59180900 CCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGT
130 CCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTT-AAA-AAATACCTCAGCGTGT
* * * *
59180964 GACTTGAGGCTCAACTTACTTCTCGCATTATGAGTTGATTTTTG
193 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
59181008 AAAAAAATAGAAATTTAAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 -AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
59181073 TGAGTTGATTTTTG-AAAAAACGGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCA
65 TGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCA
* * *
59181137 CCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAAATAGAAATTTAAAAGAAATACCTCGGCATGT
130 CCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTT-AAA-AAATACCTCAGCGTGT
* * *
59181201 G-TCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAA
193 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT--G
* * * *
59181249 AAAAAAAAGAAATTTAAAAGAAATACCTTGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAAT
1 AAAAAACAGAAATTGAAAAG--ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* *
59181313 ATGAGTTGA--TTT-AAAAAAA-AGAAATTGAAAA-TACCTCAGC--GTGACCCGAGGCTCAACT
64 ATGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTG-TCCGAGGCTCAACT
* *
59181371 CACCTCTCGCATTATGAGTTGATTTTTTTTG--AAAAACAGAAA-TTAAAAAATACCTCGGCGTG
128 CACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAAAACAGAAATTTAAAAAATACCTCAGCGTG
* *
59181433 TGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
192 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
59181478 AAAAAAACATAAATTGAAAA
1 -AAAAAACAGAAATTGAAAA
59181498 ATATTTCTTG
Statistics
Matches: 1272, Mismatches: 113, Indels: 106
0.85 0.08 0.07
Matches are distributed among these distances:
227 5 0.00
228 7 0.01
229 43 0.03
230 22 0.02
231 5 0.00
232 11 0.01
233 65 0.05
234 124 0.10
235 272 0.21
236 107 0.08
237 231 0.18
238 88 0.07
239 22 0.02
240 66 0.05
241 40 0.03
242 14 0.01
243 78 0.06
244 26 0.02
245 13 0.01
246 33 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (236 bp):
AAAAAACAGAAATTGAAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAAAACAGAAATTGAAAAGTACCTCGGCATGTGTCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTTAAAAAATACCTCAGCGTGTGAC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:59181370 original size:71 final size:73
Alignment explanation
Indices: 59179862--59181497 Score: 1023
Period size: 77 Copynumber: 20.8 Consensus size: 73
59179852 CCCGGCATGC
* * * * *
59179862 GACCCGAAGCTCAACTCACCTCTTG-AATTATGAGTTGATCTTCGAAAAACAA-AAATCGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGAT-TT-TAAAAAAAAGAAATTGAAAAT
** *
59179925 ACCTTGGCATGT
63 ACCTCAGC-GGT
* * * * *
59179937 G-CCTGAGGCTCAACTCACAC-ATCGCAATATGAGTTGATTTTTTTGAACAACAGAAATTGAAAA
1 GACCCGAGGCTCAACTCAC-CTCTCGCAATATGAGTTGA---TTTTAAAAAAAAGAAATTG-AAA
* *
59180000 ATACCTCAGTGTGC
61 ATACCTCAGCG-GT
* * *
59180014 GACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTAAAAAAAAGAAATTG-AAAAT
*
59180079 ACCTCAACGTGT
63 ACCTCAGCG-GT
* * * *
59180091 GACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAAAACATTAATTTGAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-AAAAAAA-A-GAAATTG---
59180156 AAAATACCTCAGCGTGT
58 AAAATACCTCAGCG-GT
* * * *
59180173 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTAAAAAAAA-AATTTAAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTAAAAAAAAGAAATTGAAA-AT
***
59180237 ACCTCGATATGT
63 ACCTC-AGCGGT
* *
59180249 GACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAAGTA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAAAAAAGAAATTGAAAA-TA
* * *
59180314 GCTCGGCATGT
64 CCTCAGC-GGT
** *
59180325 G-TGCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAAAAATAGAAATTTAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT--AAAAAAA-AGAAA-TT--
* * *
59180389 AAGAAATACCTCGGCATGT
57 GA-AAATACCTCAGC-GGT
* * * *
59180408 G-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTGAAAACAAAAACATAAATT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT---AA-AAAAA-AGAAA-T
*
59180472 TAAAAAATACCTCAGCGTGT
56 T-GAAAATACCTCAGCG-GT
* ** * *
59180492 GACCTGAGGCTCAACTCACCTCTCAAAATATGAGTTGATTTTTGAAAAAACAGAAATTCAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAAAGAAATT-GAAA-A
* *
59180557 TACCTCGGCATGT
62 TACCTCAGC-GGT
59180570 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACAGAAATTGAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAA-AGAAATTGAAAA-
* *
59180635 TACCTCGGCATGT
62 TACCTCAGC-GGT
* * * * *
59180648 G-TCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGAAAAAAAACATAAATTTAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT--AAAAAAA-AGAAA-TT-G
59180712 AAAATACCTCAGCGTGT
58 AAAATACCTCAGCG-GT
* * * *
59180729 GACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACATAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAA-AGAAA-TTGAAA-
* **
59180794 ATACCTCGGTATGT
61 ATACCTCAG-CGGT
* * * **
59180808 GACCCAAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTGAAAAGTAC
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAGAAATTGAAAA-TAC
* *
59180873 CTCGGCATGT
65 CTCAGC-GGT
* *
59180883 G-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAATAGAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-AAAAAAA-AGAAA-TT--GA
* *
59180947 GAAATACCTCGGCATGT
59 -AAATACCTCAGC-GGT
** * * * *
59180964 GACTTGAGGCTCAACTTACTTCTCGCATTATGAGTTGATTTTTGAAAAAAATAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAA-AGAAA-TTGAAA-
* **
59181029 ATACCTCGGTATGT
61 ATACCTCAG-CGGT
**
59181043 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACGGAAATTGAAAAGT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAAAGAAATTGAAAA-T
* *
59181108 ACCTCGGCATGT
63 ACCTCAGC-GGT
* *
59181120 G-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAATAGAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-AAAAAAA-AGAAA-TT--GA
* *
59181184 GAAATACCTCGGCATGT
59 -AAATACCTCAGC-GGT
* * *
59181201 G-TCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAAAAAAAAAGAAATTTA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT---AAAAAAAAGAAA-TT-
* ** *
59181265 AAAGAAATACCTTGGCATGT
57 -GA-AAATACCTCAGC-GGT
*
59181285 G-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAAAGAAATTGAAAATACC
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAGAAATTGAAAATACC
59181348 TCAGC-GT
66 TCAGCGGT
* * * *
59181355 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTGAAAAACAGAAATTAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTAAAAAAAAGAAATT-GAAA
*
59181420 ATACCTCGGCGTGT
61 ATACCTCAGCG-GT
* *
59181434 GGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAACATAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-AAAAAAA-AGAAATTGAAAA
59181498 ATATTTCTTG
Statistics
Matches: 1322, Mismatches: 153, Indels: 170
0.80 0.09 0.10
Matches are distributed among these distances:
70 3 0.00
71 34 0.03
72 10 0.01
73 1 0.00
74 61 0.05
75 75 0.06
76 142 0.11
77 195 0.15
78 149 0.11
79 187 0.14
80 30 0.02
81 108 0.08
82 130 0.10
83 53 0.04
84 87 0.07
85 45 0.03
86 12 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (73 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAGAAATTGAAAATACC
TCAGCGGT
Found at i:59181498 original size:79 final size:79
Alignment explanation
Indices: 59179844--59181498 Score: 1747
Period size: 79 Copynumber: 21.1 Consensus size: 79
59179834 AAAAGAAATC
* * * * *
59179844 AAAAATAGCC-CGGCATGCGACCCGAAGCTCAACTCACCTCTTG-AATTATGAGTTGATCTTCG-
1 AAAAATA-CCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTGA
* *
59179906 -AAAAACAAAAATCG-
64 AAAAAACAGAAATTGA
* * * ***
59179920 -AAAATACCTTGGCATGTG-CCTGAGGCTCAACTCACAC-ATCGCAATATGAGTTGATTTTTTTG
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC-CTCTCGCAATATGAGTTGATTTTTGAA
*
59179982 AACAACAGAAATTG-
65 AAAAACAGAAATTGA
* ** * *
59179996 AAAAATACCTCAGTGTGCGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
*
59180059 AAAAATAGAAATTG-
65 AAAAACAGAAATTGA
** * * *
59180073 AAAAATACCTCAACGTGTGACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
* *
59180138 AAAAACATTAATTTGAA
65 AAAAACA-GAAATTG-A
* * * * *
59180155 AAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTT-TAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
59180219 AAAA-A-AAATTTA
66 AAAACAGAAATTGA
* ** *
59180231 AAAGATACCTCGATATGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT--AA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
59180294 AAAACAGAAATTG-
66 AAAACAGAAATTGA
* * ** *
59180307 AAAAGTAGCTCGGCATGTG-TGCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-
* *
59180371 AAAAAAATAGAAATTTAA
63 AAAAAAACAGAAA-TTGA
* * *
59180389 AAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTT
1 AA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT
* *
59180453 GAAAACAAAAACATAAATTTA
62 G--AA-AAAAACAGAAATTGA
* * * **
59180474 AAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCAAAATATGAGTTGATTTTTG-AA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
59180538 AAAACAGAAATTCA
66 AAAACAGAAATTGA
*
59180552 AAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
59180617 AAAACAGAAATTG-
66 AAAACAGAAATTGA
* * * *
59180630 AAAAGTACCTCGGCATGTG-TCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTGA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-
* *
59180694 AAAAAAACATAAATTTA
63 AAAAAAACAGAAATTGA
* * * *
59180711 AAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
59180776 AAAACATAAATTTA
66 AAAACAGAAATTGA
* * * *
59180790 AAAGATACCTCGGTATGTGACCCAAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTG--A
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
59180852 AAAGCAGAAATTG-
66 AAAACAGAAATTGA
* *
59180865 AAAAGTACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
* *
59180929 AAAAATAGAAATTTAA
65 AAAAACAGAAA-TTGA
** * * *
59180945 AAGAAATACCTCGGCATGTGACTTGAGGCTCAACTTACTTCTCGCATTATGAGTTGATTTTTGAA
1 AA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* *
59181010 AAAAATAGAAATTTA
65 AAAAACAGAAATTGA
* *
59181025 AAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
59181089 AAAACGGAAATTG-
66 AAAACAGAAATTGA
* *
59181102 AAAAGTACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
* *
59181166 AAAAATAGAAATTTAA
65 AAAAACAGAAA-TTGA
* * *
59181182 AAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTT
1 AA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT
* * *
59181246 AAAAAAAAAAAGAAATTTAA
62 -GAAAAAAACAGAAA-TTGA
* *
59181266 AAGAAATACCTTGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-AA
1 AA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
59181327 AAAAA-AGAAATTG-
65 AAAAACAGAAATTGA
* * ***
59181340 -AAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTG
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
59181402 AAAAACAGAAATT-A
65 AAAAACAGAAATTGA
* *
59181416 AAAAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
59181481 AAAACATAAATTGA
66 AAAACAGAAATTGA
59181495 AAAA
1 AAAA
59181499 TATTTCTTGA
Statistics
Matches: 1354, Mismatches: 164, Indels: 119
0.83 0.10 0.07
Matches are distributed among these distances:
70 3 0.00
71 34 0.03
72 10 0.01
73 1 0.00
74 68 0.05
75 77 0.06
76 143 0.11
77 173 0.13
78 170 0.13
79 201 0.15
80 51 0.04
81 108 0.08
82 120 0.09
83 53 0.04
84 93 0.07
85 40 0.03
86 9 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (79 bp):
AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AAAACAGAAATTGA
Found at i:59182368 original size:11 final size:11
Alignment explanation
Indices: 59182354--59182380 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59182344 TGATTTTTTA
59182354 TTTTTTTTGTT
1 TTTTTTTTGTT
59182365 TTTTTTTTGTT
1 TTTTTTTTGTT
59182376 TTTTT
1 TTTTT
59182381 AGACATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:59188208 original size:50 final size:50
Alignment explanation
Indices: 59188093--59188336 Score: 353
Period size: 50 Copynumber: 4.9 Consensus size: 50
59188083 GATAATAACA
* ** *
59188093 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *** *
59188144 TGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
59188194 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
59188244 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
59188294 TGCCAATGCCAAGTCCCAGACATAGTCTTACATGGGACCTCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
59188337 TACCCAAATG
Statistics
Matches: 173, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 142 0.82
51 31 0.18
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:59188451 original size:13 final size:13
Alignment explanation
Indices: 59188430--59188459 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59188420 GCTTGGATCA
59188430 TCATCAAATAAAT
1 TCATCAAATAAAT
*
59188443 TCATGAAATAAAT
1 TCATCAAATAAAT
59188456 TCAT
1 TCAT
59188460 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:59190372 original size:4 final size:4
Alignment explanation
Indices: 59190363--59190411 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
59190353 ATGTACATGC
59190363 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
59190411 A
1 A
59190412 CCAATGGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:59192141 original size:71 final size:72
Alignment explanation
Indices: 59192063--59192228 Score: 230
Period size: 71 Copynumber: 2.3 Consensus size: 72
59192053 ACGATAATAA
* *
59192063 TTTTTGAAAACACGAAATTTATGAAACATGAGAA-TTTTTTGAAAACGCTAAAATTTTTGAAACA
1 TTTTTGAAAACACGAAATTT-TGAAACATGAGAATTTTTTTGAAAACACAAAAATTTTT-AAACA
59192127 TGA-AA-CT
64 TGAGAATCT
* *
59192134 TTTTTGAAAACGCGAAAATTTTTAAACATGAGAATTTTTTTGAAAACACAAAAATTTTTAAACAT
1 TTTTTGAAAACACG-AAATTTTGAAACATGAGAATTTTTTTGAAAACACAAAAATTTTTAAACAT
*
59192199 GAGAATTTT
65 GAGAA-TCT
59192208 TTTTTGAAAACACGAAATTTT
1 TTTTTGAAAACACGAAATTTT
59192229 TTTGACACGA
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
71 33 0.39
72 30 0.36
73 7 0.08
74 14 0.17
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (72 bp):
TTTTTGAAAACACGAAATTTTGAAACATGAGAATTTTTTTGAAAACACAAAAATTTTTAAACATG
AGAATCT
Found at i:59192169 original size:16 final size:16
Alignment explanation
Indices: 59192150--59192208 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
59192140 AAAACGCGAA
59192150 AATTTTTAAACATGAG
1 AATTTTTAAACATGAG
** *
59192166 AATTTTTTTGAAAACACAAA
1 AA--TTTTT--AAACATGAG
59192186 AATTTTTAAACATGAG
1 AATTTTTAAACATGAG
59192202 AATTTTT
1 AATTTTT
59192209 TTTTGAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 15 0.45
18 10 0.30
20 8 0.24
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (16 bp):
AATTTTTAAACATGAG
Found at i:59192228 original size:18 final size:17
Alignment explanation
Indices: 59192046--59192285 Score: 114
Period size: 18 Copynumber: 13.1 Consensus size: 17
59192036 CGTGATCCGA
59192046 TTGAAACACGATAATAATTT
1 TTGAAACACGA-AAT--TTT
59192066 TTGAAAACACGAAA-TTT
1 TTG-AAACACGAAATTTT
* *
59192083 ATGAAACATGAGAATTTT
1 TTGAAACACGA-AATTTT
*
59192101 TTGAAA-ACGCTAAAATTT
1 TTGAAACACG--AAATTTT
*
59192119 TTGAAACATGAAACTTTT
1 TTGAAACACGAAA-TTTT
* *
59192137 TTGAAAACGCGAAAATTT
1 TTG-AAACACGAAATTTT
*
59192155 TT-AAACATGAGAATTTTT
1 TTGAAACACGA-AA-TTTT
* *
59192173 TTGAAAACACAAAAATTT
1 TTG-AAACACGAAATTTT
*
59192191 TT-AAACATGAGAATTTTTTT
1 TTGAAACACGA-AA---TTTT
59192211 TTGAAAACACGAAATTTTT
1 TTG-AAACACGAAA-TTTT
*
59192230 TTGACACGA-GAAAGTTTTTT
1 TTGAAAC-ACGAAA---TTTT
* *
59192250 TTAAAACACGAATTTTTT
1 TTGAAACACGAA-ATTTT
59192268 TTGAAACACG-AATTTT
1 TTGAAACACGAAATTTT
59192284 TT
1 TT
59192286 TATTTTTTAA
Statistics
Matches: 171, Mismatches: 26, Indels: 50
0.69 0.11 0.20
Matches are distributed among these distances:
16 25 0.15
17 17 0.10
18 60 0.35
19 23 0.13
20 29 0.17
21 10 0.06
22 7 0.04
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TTGAAACACGAAATTTT
Found at i:59192259 original size:38 final size:36
Alignment explanation
Indices: 59192063--59192261 Score: 224
Period size: 36 Copynumber: 5.4 Consensus size: 36
59192053 ACGATAATAA
*
59192063 TTTTTGAAAACACG-AAATTTATGAAACATGAGAA-T
1 TTTTTGAAAACACGAAAATTT-TTAAACATGAGAATT
* * *
59192098 TTTTTGAAAACGCTAAAATTTTTGAAACATGA-AACT
1 TTTTTGAAAACACGAAAATTTTT-AAACATGAGAATT
*
59192134 TTTTTGAAAACGCGAAAATTTTTAAACATGAGAATT
1 TTTTTGAAAACACGAAAATTTTTAAACATGAGAATT
*
59192170 TTTTTGAAAACACAAAAATTTTTAAACATGAGAATTTT
1 TTTTTGAAAACACGAAAATTTTTAAACATGAGAA--TT
* ** *
59192208 TTTTTGAAAACACGAAATTTTTTTGACACGAGAAAGTT
1 TTTTTGAAAACACGAAAATTTTTAAACATGAG-AA-TT
*
59192246 TTTTTTAAAACACGAA
1 TTTTTGAAAACACGAA
59192262 TTTTTTTTGA
Statistics
Matches: 143, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
35 23 0.16
36 72 0.50
38 46 0.32
39 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTAAACATGAGAATT
Found at i:59192286 original size:38 final size:38
Alignment explanation
Indices: 59192063--59192286 Score: 138
Period size: 36 Copynumber: 6.1 Consensus size: 38
59192053 ACGATAATAA
*
59192063 TTTTTGAAAACACGAAA--TTTATGAAACATGAGAA---T
1 TTTTTGAAAACACGAAATTTTTTTGAAAC--GAGAATTTT
* * * **
59192098 TTTTTGAAAACGCTAAA-ATTTTTGAAAC-ATGAA-ACT
1 TTTTTGAAAACACGAAATTTTTTTGAAACGA-GAATTTT
* *
59192134 TTTTTGAAAACGCGAAA-ATTTTT-AAACATGAGAA--TT
1 TTTTTGAAAACACGAAATTTTTTTGAAAC--GAGAATTTT
**
59192170 TTTTTGAAAACAC-AAAAATTTTT-AAACATGAGAATTTT
1 TTTTTGAAAACACGAAATTTTTTTGAAAC--GAGAATTTT
* *
59192208 TTTTTGAAAACACGAAATTTTTTTGACACGAGAAAGTTT
1 TTTTTGAAAACACGAAATTTTTTTGAAACGAG-AATTTT
*
59192247 TTTTT-AAAACACGAATTTTTTTTGAAAC-ACGAATTTT
1 TTTTTGAAAACACGAAATTTTTTTGAAACGA-GAATTTT
59192284 TTT
1 TTT
59192287 ATTTTTTAAG
Statistics
Matches: 162, Mismatches: 13, Indels: 26
0.81 0.06 0.13
Matches are distributed among these distances:
33 1 0.01
34 3 0.02
35 22 0.14
36 62 0.38
37 12 0.07
38 41 0.25
39 18 0.11
40 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTTTGAAAACACGAAATTTTTTTGAAACGAGAATTTT
Found at i:59192772 original size:7 final size:7
Alignment explanation
Indices: 59192762--59192801 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
59192752 TTTTTTTGTT
59192762 TTTTTTC
1 TTTTTTC
*
59192769 TTTTCTC
1 TTTTTTC
59192776 TTTTTTC
1 TTTTTTC
59192783 -TTTTTC
1 TTTTTTC
59192789 --TTTTC
1 TTTTTTC
59192794 TTTTTTC
1 TTTTTTC
59192801 T
1 T
59192802 CCTTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 6 0.21
7 18 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:59192779 original size:14 final size:14
Alignment explanation
Indices: 59192762--59192809 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
59192752 TTTTTTTGTT
59192762 TTTTTTCTTTTCTC
1 TTTTTTCTTTTCTC
59192776 TTTTTTCTTTT-TC
1 TTTTTTCTTTTCTC
59192789 TTTTCTT-TTTTCTCC
1 TTTT-TTCTTTTCT-C
59192804 TTTTTT
1 TTTTTT
59192810 TCTGCAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.32
14 16 0.52
15 5 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTTCTC
Found at i:59192788 original size:20 final size:19
Alignment explanation
Indices: 59192751--59192799 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
59192741 CTATTCAGGC
*
59192751 CTTTT-TTTGTTT-TTTTT
1 CTTTTCTTTTTTTCTTTTT
59192768 CTTTTCTCTTTTTTCTTTTT
1 CTTTTCT-TTTTTTCTTTTT
59192788 CTTTTCTTTTTT
1 CTTTTCTTTTTT
59192800 CTCCTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 1 0.04
19 10 0.36
20 12 0.43
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (19 bp):
CTTTTCTTTTTTTCTTTTT
Found at i:59192792 original size:25 final size:24
Alignment explanation
Indices: 59192751--59192797 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
59192741 CTATTCAGGC
59192751 CTTTTTTTGTTTTTTTTCTTTTCT
1 CTTTTTTTGTTTTTTTTCTTTTCT
59192775 CTTTTTTCT-TTTTCTTTTCTTTT
1 CTTTTTT-TGTTTT-TTTTCTTTT
59192798 TTCTCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (24 bp):
CTTTTTTTGTTTTTTTTCTTTTCT
Found at i:59192807 original size:20 final size:20
Alignment explanation
Indices: 59192764--59192807 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
59192754 TTTTTGTTTT
*
59192764 TTTTCTTTTCTCTTTTTTCT
1 TTTTCTTTTCTCTTTTTTCC
59192784 TTTTCTTTTCT-TTTTTCTCC
1 TTTTCTTTTCTCTTTTT-TCC
59192804 TTTT
1 TTTT
59192808 TTTCTGCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTCTCTTTTTTCC
Found at i:59193135 original size:13 final size:13
Alignment explanation
Indices: 59193117--59193156 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
59193107 TATATTTTTT
59193117 TCTATTTTTCTTC
1 TCTATTTTTCTTC
59193130 TCTATTTTTCTTC
1 TCTATTTTTCTTC
* *
59193143 TTTCTTTTTCTTC
1 TCTATTTTTCTTC
59193156 T
1 T
59193157 TCTTCTTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTATTTTTCTTC
Found at i:59193156 original size:16 final size:15
Alignment explanation
Indices: 59193115--59193164 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 15
59193105 GATATATTTT
*
59193115 TTTCTATTTTTCTTC
1 TTTCTTTTTTTCTTC
*
59193130 --TCTATTTTTCTTC
1 TTTCTTTTTTTCTTC
59193143 TTTCTTTTTCTTCTTC
1 TTTCTTTTT-TTCTTC
59193159 -TTCTTT
1 TTTCTTT
59193165 CGGGCCGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
15 12 0.39
16 6 0.19
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTTTTTTCTTC
Found at i:59193165 original size:13 final size:12
Alignment explanation
Indices: 59193121--59193165 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
59193111 TTTTTTTCTA
*
59193121 TTTTTCTTCTCTA
1 TTTTTCTTCT-TC
59193134 TTTTTCTTCTTTC
1 TTTTTCTTC-TTC
59193147 TTTTTCTTCTTC
1 TTTTTCTTCTTC
59193159 TTCTTTC
1 TT-TTTC
59193166 GGGCCGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.17
13 23 0.79
14 1 0.03
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTCTTCTTC
Found at i:59193290 original size:14 final size:15
Alignment explanation
Indices: 59193255--59193303 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 15
59193245 CTTCTTCTTC
59193255 TTCTTCTTTCT--TAT
1 TTCTTCTTTCTCCT-T
59193269 TT-TTCTTTC-CCTT
1 TTCTTCTTTCTCCTT
*
59193282 TTCTTCTTTCTCTTT
1 TTCTTCTTTCTCCTT
59193297 TTCTTCT
1 TTCTTCT
59193304 CTTTGCTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.33
14 10 0.33
15 10 0.33
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTCTTTCTCCTT
Found at i:59193835 original size:30 final size:30
Alignment explanation
Indices: 59193692--59193851 Score: 116
Period size: 29 Copynumber: 5.5 Consensus size: 30
59193682 TTTTAAGGTA
* * *
59193692 AAAATGTAATTTTAGGAAAA-TATA-GGGCT
1 AAAATGTAATTTT-TGAAAAGTTTAGGGGCC
* *
59193721 AAAATGTAATTTTTG-AAAGTTTAAGAGCC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
* ** *
59193750 CAAATGTAA-TTTACAAAA-TATTAGGGGTC
1 AAAATGTAATTTTTGAAAAGT-TTAGGGGCC
** * * * *
59193779 AAGGTGAAAATTTAGAAAAG-TTAGGGGAC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
59193808 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
*
59193838 AATATGTAATTTTT
1 AAAATGTAATTTTT
59193852 TAATTTTGTA
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
27 3 0.03
28 8 0.08
29 61 0.60
30 29 0.29
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.33
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTAGGGGCC
Found at i:59195044 original size:27 final size:27
Alignment explanation
Indices: 59195006--59195502 Score: 397
Period size: 27 Copynumber: 17.7 Consensus size: 27
59194996 TCTCGAAATA
*
59195006 CCCCTGTAGGGTAAAATGATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
59195033 CCCCTGTAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
59195060 CCCTTATAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
59195087 CCCTTGTAGGGTAAAATGACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
59195114 -CCCTGTAGGGTAAAATAACCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * ** *
59195140 CCACTGTAGGATAAAATAATTGTAATTGTAACG
1 CCCCTGTAGGGT--AA-AA-TG--ACCGTAATG
* * **
59195173 CCCCTATAAGGTAAAATGATTGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
59195200 CCCATGTAGGGTAAAATGATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* *
59195227 CCTCTGTAGGGTAAAATGACCATAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * *
59195254 --CCTATAGGGTAAAATAATCGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
59195279 CCCCTGTAGGGTAAAATGACCATAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * * *
59195306 ACCAAAATGCCCTTGTAAGATAAAATAATCGTAATG
1 --C------CCC-TGTAGGGTAAAATGACCGTAATG
* * * * *
59195342 CCCCTATAAGGTAAAATAATCGTAACG
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
59195369 CCCCTGTAGGTTAAAATAACCGTGACCGTAATG
1 CCCCTGTAGGGT--AA-AA---TGACCGTAATG
* * **
59195402 CCCTTGTAGGGTAAAATAACTTTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * *
59195429 CCCATGTAAGGTAAAATGACCGTAACG
1 CCCCTGTAGGGTAAAATGACCGTAATG
*
59195456 CCCCTGTAGGGTAAAATGACAGTAATG
1 CCCCTGTAGGGTAAAATGACCGTAATG
* * *
59195483 CCTCTGTACGGTACAATGAC
1 CCCCTGTAGGGTAAAATGAC
59195503 TATTTTGCCC
Statistics
Matches: 380, Mismatches: 66, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
25 20 0.05
26 24 0.06
27 259 0.68
28 3 0.01
29 7 0.02
30 8 0.02
31 5 0.01
33 32 0.08
34 1 0.00
35 3 0.01
36 18 0.05
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
CCCCTGTAGGGTAAAATGACCGTAATG
Found at i:59195430 original size:229 final size:228
Alignment explanation
Indices: 59195006--59195485 Score: 552
Period size: 229 Copynumber: 2.1 Consensus size: 228
59194996 TCTCGAAATA
* * * * *
59195006 CCCCTGTAGGGTAAAATGATC-GTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTTATAGG
1 CCCCTGTAGGGTAAAATGA-CAGTAATG--CCTATAGGGTAAAATAATCGTAATGCCCCTGTAGG
* * * * * *
59195070 GTAAAATGACC-----G----TAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCTGTAGGGTA
63 GTAAAATGACCATAATGACCAAAATGCCCTTGTAAGATAAAATAACCGTAATGCCCTATAAGGTA
* ** ** *
59195126 AAATAACCGTAATGCCACTGTAGGATAAAATAATTGTAATTGTAACGCCCCTATAAGGTAAAATG
128 AAATAACCGTAACGCCACTGTAGGATAAAATAACCGTAACCGTAACGCCCCTATAAGGTAAAATA
* * *
59195191 ATTGTAATGCCCATGTAGGGTAAAATGATCGTAATG
193 ATTGTAATGCCCATGTAAGGTAAAATGACCGTAACG
*
59195227 CCTCTGTAGGGTAAAATGACCA-TAATGCCTATAGGGTAAAATAATCGTAATGCCCCTGTAGGGT
1 CCCCTGTAGGGTAAAATGA-CAGTAATGCCTATAGGGTAAAATAATCGTAATGCCCCTGTAGGGT
*
59195291 AAAATGACCATAATGACCAAAATGCCCTTGTAAGATAAAATAATCGTAATGCCCCTATAAGGTAA
65 AAAATGACCATAATGACCAAAATGCCCTTGTAAGATAAAATAACCGTAATG-CCCTATAAGGTAA
* * * * * * * *
59195356 AATAATCGTAACGCCCCTGTAGGTTAAAATAACCGTGACCGTAATGCCCTTGTAGGGTAAAATAA
129 AATAACCGTAACGCCACTGTAGGATAAAATAACCGTAACCGTAACGCCCCTATAAGGTAAAATAA
59195421 CTT-TAATGCCCATGTAAGGTAAAATGACCGTAACG
194 -TTGTAATGCCCATGTAAGGTAAAATGACCGTAACG
59195456 CCCCTGTAGGGTAAAATGACAGTAATGCCT
1 CCCCTGTAGGGTAAAATGACAGTAATGCCT
59195486 CTGTACGGTA
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
219 41 0.19
221 24 0.11
224 1 0.00
228 29 0.14
229 117 0.55
230 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (228 bp):
CCCCTGTAGGGTAAAATGACAGTAATGCCTATAGGGTAAAATAATCGTAATGCCCCTGTAGGGTA
AAATGACCATAATGACCAAAATGCCCTTGTAAGATAAAATAACCGTAATGCCCTATAAGGTAAAA
TAACCGTAACGCCACTGTAGGATAAAATAACCGTAACCGTAACGCCCCTATAAGGTAAAATAATT
GTAATGCCCATGTAAGGTAAAATGACCGTAACG
Found at i:59195439 original size:87 final size:87
Alignment explanation
Indices: 59195214--59195472 Score: 283
Period size: 87 Copynumber: 3.0 Consensus size: 87
59195204 TGTAGGGTAA
* * * *
59195214 AATGATCGTAATG-CCTCTGTAGGGTAAAATGACCATAATG-CCTATAGGGTAAAATAATCGTAA
1 AATGACCGTAATGCCCT-TGTAGGGTAAAATAACTATAATGCCCTATAAGGTAAAATAATCGTAA
* *
59195277 TGCCCCTGTAGGGTAAAATGACC
65 CGCCCCTGTAGGGTAAAATAACC
** * * *
59195300 ATAATGACCAAAATGCCCTTGTAAGATAAAATAA-TCGTAATGCCCCTATAAGGTAAAATAATCG
1 --AATGACCGTAATGCCCTTGTAGGGTAAAATAACT-ATAATG-CCCTATAAGGTAAAATAATCG
*
59195364 TAACGCCCCTGTAGGTTAAAATAACC
62 TAACGCCCCTGTAGGGTAAAATAACC
* * * * *
59195390 -GTGACCGTAATGCCCTTGTAGGGTAAAATAACTTTAATGCCCATGTAAGGTAAAATGACCGTAA
1 AATGACCGTAATGCCCTTGTAGGGTAAAATAACTATAATGCCC-TATAAGGTAAAATAATCGTAA
59195454 CGCCCCTGTAGGGTAAAAT
65 CGCCCCTGTAGGGTAAAAT
59195473 GACAGTAATG
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
86 3 0.02
87 67 0.47
88 28 0.20
89 3 0.02
90 42 0.29
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (87 bp):
AATGACCGTAATGCCCTTGTAGGGTAAAATAACTATAATGCCCTATAAGGTAAAATAATCGTAAC
GCCCCTGTAGGGTAAAATAACC
Found at i:59195444 original size:60 final size:60
Alignment explanation
Indices: 59195335--59195451 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
59195325 ATAAAATAAT
*
59195335 CGTAATGCCCCTATAAGGTAAAATAATCGTAACGCCCCTGTAGGTTAAAATAACCGTGAC
1 CGTAATGCCCCTATAAGGTAAAATAATCGTAACGCCCATGTAGGTTAAAATAACCGTGAC
* * * * * *
59195395 CGTAATGCCCTTGTAGGGTAAAATAA-CTTTAATGCCCATGTAAGG-TAAAATGACCGT
1 CGTAATGCCCCTATAAGGTAAAATAATC-GTAACGCCCATGT-AGGTTAAAATAACCGT
59195452 AACGCCCCTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 44 0.92
61 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (60 bp):
CGTAATGCCCCTATAAGGTAAAATAATCGTAACGCCCATGTAGGTTAAAATAACCGTGAC
Found at i:59195556 original size:24 final size:24
Alignment explanation
Indices: 59195520--59195653 Score: 155
Period size: 24 Copynumber: 5.6 Consensus size: 24
59195510 CCCTTCGGGG
*
59195520 TTAAATGATTGATTTG-CATGTGAT
1 TTAAATGACTGATTTGTC-TGTGAT
*
59195544 GTAAATGACTGATTTGTCTGAT-AT
1 TTAAATGACTGATTTGTCTG-TGAT
* * *
59195568 GTAAATGACTGATTTATTTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
59195592 TTAAATGACCGGTTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
59195616 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
**
59195640 TTGTATGACTGATT
1 TTAAATGACTGATT
59195654 CCGTGCATGG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.01
24 91 0.97
25 2 0.02
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:59195807 original size:26 final size:26
Alignment explanation
Indices: 59195773--59195822 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
59195763 CCACATATAC
59195773 TGTTACTGGAAACTTTGCTGCGATAT
1 TGTTACTGGAAACTTTGCTGCGATAT
* * *
59195799 TGTTGCTGGCAGCTTTGCTGCGAT
1 TGTTACTGGAAACTTTGCTGCGAT
59195823 GCTATTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (26 bp):
TGTTACTGGAAACTTTGCTGCGATAT
Found at i:59195834 original size:26 final size:26
Alignment explanation
Indices: 59195785--59195834 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
59195775 TTACTGGAAA
* * *
59195785 CTTTGCTGCGATATTGTTGCTGGCAG
1 CTTTGCTGCGATACTATTGATGGCAG
*
59195811 CTTTGCTGCGATGCTATTGATGGC
1 CTTTGCTGCGATACTATTGATGGC
59195835 TTTATACCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.20, G:0.30, T:0.38
Consensus pattern (26 bp):
CTTTGCTGCGATACTATTGATGGCAG
Found at i:59195929 original size:64 final size:64
Alignment explanation
Indices: 59195828--59196045 Score: 303
Period size: 64 Copynumber: 3.4 Consensus size: 64
59195818 GCGATGCTAT
* * * *
59195828 TGATGGCTTTATACCGATCATATTACCATTACTGATGGCTGTGTGCCGATTATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATTATATTACTACTAC
* * *
59195892 TGATGG-TTGTGTGCCGATCATATTACCATTACCGATGGCTTTGTGCCGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATTATATTACTACTAC
* * * *
59195956 TGATGGCTTTGTGCCGATCACACTACTATTATTGATGGCTGTGTGCCGATTATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATTATATTACTACTAC
* *
59196020 TAATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCGATCATATTAC
59196046 TGTACTTATG
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
63 2 0.01
64 130 0.97
65 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGCCGATTATATTACTACTAC
Found at i:59196046 original size:32 final size:32
Alignment explanation
Indices: 59195828--59196059 Score: 270
Period size: 32 Copynumber: 7.3 Consensus size: 32
59195818 GCGATGCTAT
* * *
59195828 TGATGGCTTTATACCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
59195860 TGATGGCTGTGTGCCGATTATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
59195892 TGATGG-TTGTGTGCCGATCATATTACCATTAC
1 TGATGGCTT-TGTGCCGATCATATTACTATTAC
* *
59195924 CGATGGCTTTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
59195956 TGATGGCTTTGTGCCGATCACACTACTATTAT
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
59195988 TGATGGCTGTGTGCCGATTATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
59196020 TAATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
59196051 TTATGGCTT
1 TGATGGCTT
59196060 GTAGTCATTC
Statistics
Matches: 172, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
31 12 0.07
32 158 0.92
33 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:59198880 original size:27 final size:27
Alignment explanation
Indices: 59198850--59199192 Score: 312
Period size: 27 Copynumber: 12.7 Consensus size: 27
59198840 TATCTTATAG
* * *
59198850 GGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTTATTTTACCCTTCGA
*** * *
59198877 GGGTATTTTAATAATTTTACCCTTCAA
1 GGGTATTTCGGTTATTTTACCCTTCGA
** *
59198904 GGGTATTTTAGTTATTTTACCTTTCGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
*
59198931 GGGTAATTT-GGTTATTTTACCTTTCGA
1 GGGT-ATTTCGGTTATTTTACCCTTCGA
* ** * *
59198958 GGGTAATTCAATTATTTTACCCTTTGG
1 GGGTATTTCGGTTATTTTACCCTTCGA
* * *
59198985 GGGTAATCCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* * *
59199012 GGGTATTTCGATAATCTTACCCTTCGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* * **
59199039 AGGTATTTCAGACATTTTACCCATT-GA
1 GGGTATTTCGGTTATTTTACCC-TTCGA
* *
59199066 AGGTATTTCGGTTATTTTACCATTCGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* *
59199093 GGGTATTTCAGTTATTTTACCCTTCAA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* *
59199120 AGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* * *
59199147 GGGTATTTCAGTTATTTTACCTTTTGA
1 GGGTATTTCGGTTATTTTACCCTTCGA
* *
59199174 GGGTATTTCGATCATTTTA
1 GGGTATTTCGGTTATTTTA
59199193 ACAACCTTTT
Statistics
Matches: 261, Mismatches: 51, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 5 0.02
27 250 0.96
28 6 0.02
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTTATTTTACCCTTCGA
Found at i:59200717 original size:25 final size:25
Alignment explanation
Indices: 59200681--59200729 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59200671 GAACCTCTGA
*
59200681 CCTCCTTACCACACCTGTGACGCCG
1 CCTCCTTACCACACATGTGACGCCG
* *
59200706 CCTCCTTGCCACACATGTGTCGCC
1 CCTCCTTACCACACATGTGACGCC
59200730 ATCTTGCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.14, C:0.47, G:0.16, T:0.22
Consensus pattern (25 bp):
CCTCCTTACCACACATGTGACGCCG
Found at i:59202615 original size:27 final size:25
Alignment explanation
Indices: 59202527--59202617 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 25
59202517 GGGGTAAACT
* *
59202527 AGTCATTTTATCCTATAGGGGTATTTT
1 AGTCATTTTA-CCTTTA-GGGTATTTC
* *
59202554 GGTCATTTTACATTTCTAGGGTATTTC
1 AGTCATTTTAC-CTT-TAGGGTATTTC
*
59202581 -GATAATTTTACCCTTTGAGGGTATTTC
1 AG-TCATTTTA-CCTTT-AGGGTATTTC
59202608 AGTCATTTTA
1 AGTCATTTTA
59202618 ACAACCTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
26 3 0.06
27 44 0.86
28 4 0.08
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (25 bp):
AGTCATTTTACCTTTAGGGTATTTC
Found at i:59214755 original size:2 final size:2
Alignment explanation
Indices: 59214748--59214794 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
59214738 TTAGAGATGA
59214748 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
59214790 TC TC T
1 TC TC T
59214795 TTTCTATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:59216252 original size:14 final size:14
Alignment explanation
Indices: 59216233--59216266 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
59216223 CATTATAGTG
59216233 ACCATGAAAGCAGT
1 ACCATGAAAGCAGT
59216247 ACCATGAAAGCAGT
1 ACCATGAAAGCAGT
59216261 ACCATG
1 ACCATG
59216267 TGGAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (14 bp):
ACCATGAAAGCAGT
Found at i:59219760 original size:44 final size:44
Alignment explanation
Indices: 59219694--59220772 Score: 866
Period size: 44 Copynumber: 24.6 Consensus size: 44
59219684 TCCACTTCCT
* * *
59219694 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
59219738 ACCAATATATGAATACGAGATCTACTTTCTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
* * * * *
59219783 ACTAGTATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *** * *
59219825 TATCAATATAGGAATATGGGACCTGTTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
59219870 GCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTCAC
* * *
59219913 TACCAATATAGGAAGACAAGATCTGC-ATCGTCGATCCACTTTC-T
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC-TTCAC
** * * *
59219957 ACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59220001 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * * *
59220046 ACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCATTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
59220088 TACCAATATAGGAAGAC-CGAACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59220133 GCCAATACATGAAGACAAGATCTACTTTCTTCGGTCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
*
59220176 TACCAATATAGGAAGA-TAGAATCTGC-ATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
59220220 GCCAATATATGAAGATAAGATCTGCTTTCTTCGATTTGCTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
59220265 ACCAGTATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
59220307 ATCAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
59220351 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
59220396 ACCAATATGGGAAGACAAGATCTGC-ATCTTGGATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
59220438 TATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
59220483 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
59220528 ACCAATATGGGAGGACAAGATCTGC-ATCTTGGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
59220570 TATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * * *
59220615 GCTAATACATGAAAACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
59220660 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
59220702 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
59220747 GCCAATACATGAAGACAAGATCTGCT
1 ACCAATATAGGAAGACAAGATCTGCT
59220773 TTAATGACTT
Statistics
Matches: 790, Mismatches: 209, Indels: 72
0.74 0.20 0.07
Matches are distributed among these distances:
42 26 0.03
43 178 0.23
44 455 0.58
45 131 0.17
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:59220126 original size:219 final size:218
Alignment explanation
Indices: 59219891--59220436 Score: 686
Period size: 219 Copynumber: 2.5 Consensus size: 218
59219881 AAGACAAGAT
* * * * *
59219891 CTGCTTTCTGTGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGC-ATCGTCGATCCACTT
1 CTGCTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCGTCGATCCACTT
* * * * *
59219954 TCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
65 CCTACCAATATAGGAAGACAGAACCTG-CATCTTCGATCTACTTCACGCCAATACATGAAGACAA
*
59220019 GATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAT
129 GATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
* *
59220084 TTCCTACCAATATAGGAAGACCGAAC
194 TTCC-ACCAATATAGAAAGACAGAAC
* * * * * *
59220110 CTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGGTCTACTTC
1 CTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCGTCGATCCACTTC
* * * *
59220175 CTACCAATATAGGAAGATAGAATCTGCATCTTCGATCTACTTCACGCCAATATATGAAGATAAGA
66 CTACCAATATAGGAAGACAGAACCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
* * *
59220240 TCTGCTTTCTTCGATTTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTT
131 TCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTT
* * *
59220305 CCATCAATATAGAAAGATAGGAC
196 CCACCAATATAGAAAGACAGAAC
* * *
59220328 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-TGCGATCTACTT
1 CTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCGT-CGATCCACTT
* * * *
59220392 CGCCACCAATATGGGAAGACA-AGATCTGCATCTTGGATCTACTTC
65 C-CTACCAATATAGGAAGACAGA-ACCTGCATCTTCGATCTACTTC
59220437 CTATCAATAT
Statistics
Matches: 285, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
217 1 0.00
218 76 0.27
219 174 0.61
220 34 0.12
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (218 bp):
CTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCGTCGATCCACTTC
CTACCAATATAGGAAGACAGAACCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
TCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTT
CCACCAATATAGAAAGACAGAAC
Found at i:59220150 original size:263 final size:263
Alignment explanation
Indices: 59219683--59220534 Score: 781
Period size: 263 Copynumber: 3.2 Consensus size: 263
59219673 CTGTTTTTCA
* * * *
59219683 ATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTATTTCACACCAATATAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACACCAATACAT
* * * *
59219748 GAATACGAGATCTACTTTCTTCGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGT
* * * ** *
59219813 GGATCCACTTCCTATCAATATAGGAATATGGGACCTGTTATCTTCGATCTACTTCACGCCAATAC
131 CGATCCACTTCCTACCAATATAGGAAGACCGAACCTGTTATCTTCGATCTACTTCACGCCAATAC
*
59219878 ATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCCTACCAATATAGGAAGACAAG-ATCTGCAT
196 ATGAAGACAAGATCTACTTTCT-TCGATCTACTTCCTACCAATATAGGAAGA-AAGAATCTGCAT
59219941 CGTCG
259 CGTCG
* * * * *
59219946 ATCCACTTTCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACACCAATACAT
* * *
59220011 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGT
66 GAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGT
* *
59220076 CGATCCATTTCCTACCAATATAGGAAGACCGAACCTGTTATCTTTGATCTACTTCACGCCAATAC
131 CGATCCACTTCCTACCAATATAGGAAGACCGAACCTGTTATCTTCGATCTACTTCACGCCAATAC
* * *
59220141 ATGAAGACAAGATCTACTTTCTTCGGTCTACTTCCTACCAATATAGGAAGATAGAATCTGCATCT
196 ATGAAGACAAGATCTACTTTCTTCGATCTACTTCCTACCAATATAGGAAGAAAGAATCTGCATCG
59220206 TCG
261 TCG
* * * * * * * * * * * *
59220209 ATCTACTTCAC-GCCAATATATGAAGATAAGATCTGCTTTCTTCGATTTGCTTCGCCACCAGTAT
1 ATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-ACACCAATAC
** * * * * * * * * * * *
59220273 GGGAAGACAAGATCTGC-ATCTTGGATCCACTT--CCATCAATATAGAAAGATAGGACCTGCTAT
64 ATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-AT
* * * * * * * * * *
59220335 CTTCGATCTACTTCAC-GCCAATACATGAAGA-CAAGATCTGCTT-TCTGCGATCTACTTCGCCA
128 CGTCGATCCACTTC-CTACCAATATAGGAAGACCGA-ACCTG-TTATCTTCGATCTACTTC-ACG
*** * * * * * *
59220397 CCAATATGGGAAGACAAGATCTGC-ATCTTGGATCTACTTCCTATCAATATAGGAAGATAGGATC
189 CCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCCTACCAATATAGGAAGAAAGAATC
* *
59220461 TGCTACCTTCG
254 TGC-ATCGTCG
* * * * * * * *
59220472 ATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
1 ATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-ACACCAATA
59220535 TGGGAGGACA
Statistics
Matches: 494, Mismatches: 85, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
261 22 0.04
262 83 0.17
263 367 0.74
264 22 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (263 bp):
ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACACCAATACAT
GAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGT
CGATCCACTTCCTACCAATATAGGAAGACCGAACCTGTTATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTACTTTCTTCGATCTACTTCCTACCAATATAGGAAGAAAGAATCTGCATCG
TCG
Found at i:59220279 original size:132 final size:132
Alignment explanation
Indices: 59220143--59220774 Score: 1018
Period size: 132 Copynumber: 4.8 Consensus size: 132
59220133 GCCAATACAT
* * * * *
59220143 GAAGACAAGATCTACTTTCTTCGG-TCTACTTCCTACCAATATAGGAAGATAGAATCTGC-ATCT
1 GAAGACAAGATCTGC-ATCTT-GGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCT
* * * * * *
59220206 TCGATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCTTCGATTTGCTTCGCCACCAGT
64 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAAT
59220271 ATGG
129 ATGG
* *
59220275 GAAGACAAGATCTGCATCTTGGATCCACTTCC-ATCAATATAGAAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTC
59220339 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
59220404 GG
131 GG
* *
59220406 GAAGACAAGATCTGCATCTTGGATCTACTTCCTATCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTC
*
59220471 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
59220536 GG
131 GG
* *
59220538 GAGGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTC
* *
59220603 GATCTACTTCACGCTAATACATGAAAACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
59220668 GG
131 GG
* * *
59220670 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTC
59220735 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
59220775 AATGACTTCA
Statistics
Matches: 465, Mismatches: 32, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
130 23 0.05
131 110 0.24
132 332 0.71
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
GG
Found at i:59220447 original size:219 final size:219
Alignment explanation
Indices: 59219983--59220480 Score: 687
Period size: 219 Copynumber: 2.3 Consensus size: 219
59219973 CGGACCTGTT
* * * *
59219983 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCAC
1 ATCTTCGATCTACTTCACACCAATATATGAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCAC
* * *
59220048 CAGTATGGGAAGACAAGATCTGCATCGTCGATCCATTTCCTACCAATATAGGAAGACCGAACCTG
66 CAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGAAAGACAGAACCTG
* * * * *
59220113 TTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGGTCTACTTCCTA
131 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCCCA
*
59220178 CCAATATAGGAAGATAGAATCTGC
196 CCAATATAGGAAGAAAGAATCTGC
* *
59220202 ATCTTCGATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCTTCGATTTGCTTCGCCAC
1 ATCTTCGATCTACTTCACACCAATATATGAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCAC
* * * * *
59220267 CAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCC-ATCAATATAGAAAGATAGGACCTG
66 CAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGAAAGACAGAACCTG
*
59220331 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
131 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTC-CC
*
59220396 ACCAATATGGGAAGACAAG-ATCTGC
195 ACCAATATAGGAAGA-AAGAATCTGC
* * * * ** *
59220421 ATCTTGGATCTACTTC-CTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC
1 ATCTTCGATCTACTTCAC-ACCAATATATGAAGATAAGATCTGCTTTCTTCGATCTGCTTC
59220481 ACGCCAATAC
Statistics
Matches: 247, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
218 77 0.31
219 168 0.68
220 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (219 bp):
ATCTTCGATCTACTTCACACCAATATATGAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCAC
CAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGAAAGACAGAACCTG
CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCCCA
CCAATATAGGAAGAAAGAATCTGC
Found at i:59220505 original size:350 final size:350
Alignment explanation
Indices: 59219793--59220771 Score: 1069
Period size: 350 Copynumber: 2.8 Consensus size: 350
59219783 ACTAGTATGG
* * * * * * * *
59219793 GAAGACAAGATCTGC-ATCTT-GGATCCACTTCCTATCAATATAGGAATATGGGACCTGTTATCT
1 GAAGACAAGATCTGCTTTCTTCGG-TCTACTTCCTACCAATATAGGAAGATAGAATCTG-CATCT
* * *
59219856 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCCTACCAAT
64 TCGATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCT-TCGATCTACTTCCCACCAAT
* * * *
59219920 ATAGGAAGACAAGATCTGCATCGTCGATCCACTTTCTACCAATATAGGAAGACCGGACCTGTTAT
128 ATAGGAAGACAAGATCTGCATCGTCGATCCACTTTCCACCAATATAGAAAGACAGGACCTGCTAT
* * *
59219985 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCA
193 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCA
* * * *
59220050 GTATGGGAAGACAAGATCTGCATCGTCGATCCATTTCCTACCAATATAGGAAGACCGAACCTGTT
258 ATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCT
* *
59220115 ATCTTTGATCTACTTCACGCCAATACAT
323 ACCTTCGATCTACTTCACGCCAATACAT
*
59220143 GAAGACAAGATCTACTTTCTTCGGTCTACTTCCTACCAATATAGGAAGATAGAATCTGCATCTTC
1 GAAGACAAGATCTGCTTTCTTCGGTCTACTTCCTACCAATATAGGAAGATAGAATCTGCATCTTC
* * *
59220208 GATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCTTCGATTTGCTTCGCCACCAGTAT
66 GATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATAT
* * * * *
59220273 GGGAAGACAAGATCTGCATCTTGGATCCAC-TTCCATCAATATAGAAAGATAGGACCTGCTATCT
130 AGGAAGACAAGATCTGCATCGTCGATCCACTTTCCACCAATATAGAAAGACAGGACCTGCTATCT
59220337 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAAT
195 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAAT
* * * * * * *
59220402 ATGGGAAGACAAGATCTGCATCTTGGATCTACTTCCTATCAATATAGGAAGATAGGATCTGCTAC
260 ATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAC
59220467 CTTCGATCTACTTCACGCCAATACAT
325 CTTCGATCTACTTCACGCCAATACAT
* * * * *
59220493 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAGGACA-AGATCTGCATCT
1 GAAGACAAGATCTGCTTTCTTCGGTCTACTTC-CTACCAATATAGGAAGATAGA-ATCTGCATCT
* * ** * * * * * * *
59220557 TGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCTAAT
64 TCGATCTACTTCAC-GCCAATATATGAAGATAAGATCTGCTTTCTTCGATCTACTTCCCACCAAT
* * * * * * * * * *
59220621 ACATGAAAACAAGATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
128 ATAGGAAGACAAGATCTGC-ATCGT-CGATCCACTT-TCCACCAATATAGAAAGACAGGACCTGC
* * * * * * ** * *
59220685 -ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-AC
190 TATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
* ***
59220747 GCCAATACATGAAGACAAGATCTGC
254 ACCAATATGGGAAGACAAGATCTGC
59220772 TTTAATGACT
Statistics
Matches: 529, Mismatches: 88, Indels: 23
0.83 0.14 0.04
Matches are distributed among these distances:
349 1 0.00
350 288 0.54
351 167 0.32
352 52 0.10
353 21 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (350 bp):
GAAGACAAGATCTGCTTTCTTCGGTCTACTTCCTACCAATATAGGAAGATAGAATCTGCATCTTC
GATCTACTTCACGCCAATATATGAAGATAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATA
GGAAGACAAGATCTGCATCGTCGATCCACTTTCCACCAATATAGAAAGACAGGACCTGCTATCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
TGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTACC
TTCGATCTACTTCACGCCAATACAT
Found at i:59221448 original size:108 final size:108
Alignment explanation
Indices: 59221259--59221454 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 108
59221249 GAAAAATGCT
*
59221259 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
59221324 CAATCAAGATAGCAAATTTTGCTGAGATACGTGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGTGATGAATAAGA
* * * **
59221367 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
59221432 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
59221455 AGAATACAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 81 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGTGATGAATAAGA
Found at i:59221807 original size:7 final size:7
Alignment explanation
Indices: 59221791--59221840 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
59221781 TGGCCTCTCC
59221791 TTTTTC-
1 TTTTTCT
59221797 TTTTTCT
1 TTTTTCT
59221804 TTTTTC-
1 TTTTTCT
59221810 -TTTTCT
1 TTTTTCT
59221816 TTTTTCAT
1 TTTTTC-T
*
59221824 TTTTTCA
1 TTTTTCT
59221831 TTTTTCT
1 TTTTTCT
59221838 TTT
1 TTT
59221841 CGTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.13
6 6 0.16
7 20 0.53
8 7 0.18
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:59221847 original size:7 final size:6
Alignment explanation
Indices: 59221790--59221840 Score: 50
Period size: 6 Copynumber: 7.8 Consensus size: 6
59221780 TTGGCCTCTC
59221790 CTTTTT CTTTTT CTTTTT -TCTTTT CTTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT C-TTTTT C--TTTTT C-TTTTT CTTTT
59221841 CGTTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 1 0.03
6 20 0.50
7 11 0.28
8 8 0.20
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:59221847 original size:12 final size:13
Alignment explanation
Indices: 59221791--59221840 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
59221781 TGGCCTCTCC
59221791 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
59221804 TTTTTC-TTTTCT
1 TTTTTCTTTTTCT
*
59221816 TTTTTCATTTTTTCA
1 TTTTTC--TTTTTCT
59221831 TTTTTCTTTT
1 TTTTTCTTTT
59221841 CGTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.36
13 10 0.30
15 11 0.33
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:59222309 original size:12 final size:12
Alignment explanation
Indices: 59222294--59222339 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
59222284 TTTTATTTGG
59222294 TTTTTTTTGGTT
1 TTTTTTTTGGTT
*
59222306 TTTTTTTTGCTT
1 TTTTTTTTGGTT
*
59222318 TTTATTTTCTCGTT
1 TTT-TTTT-TGGTT
59222332 TTTTTTTT
1 TTTTTTTT
59222340 TACTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.52
13 8 0.28
14 6 0.21
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.83
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:59222346 original size:12 final size:11
Alignment explanation
Indices: 59222294--59222360 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 11
59222284 TTTTATTTGG
**
59222294 TTTTTTTTGGT
1 TTTTTTTTTCT
59222305 TTTTTTTTTGCT
1 TTTTTTTTT-CT
59222317 TTTTATTTTCTCGTT
1 TTTT-TTTT-TC--T
59222332 TTTTTTTTTACT
1 TTTTTTTTT-CT
*
59222344 TTTTTTTGTCT
1 TTTTTTTTTCT
59222355 TTTTTT
1 TTTTTT
59222361 CCCCCACTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
11 16 0.34
12 14 0.30
13 6 0.13
14 6 0.13
15 5 0.11
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:59223754 original size:62 final size:62
Alignment explanation
Indices: 59223652--59223830 Score: 322
Period size: 62 Copynumber: 2.9 Consensus size: 62
59223642 CTCAATGCAC
*
59223652 TTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATGCGTAT
1 TTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATGCATAT
*
59223714 TTTTAGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATGCATAT
1 TTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATGCATAT
* *
59223776 TTTTGGATTTTAAGAAATTTATTGTATGCAATAAAATGTAATGTTGATGCATGAA
1 TTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAA
59223831 AAGATACGTG
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 112 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (62 bp):
TTTTGGATTTTAAGAAATTTATTGTATGCAATGAAACGTAATGTTGATGCATGAATGCATAT
Found at i:59229579 original size:3 final size:3
Alignment explanation
Indices: 59229571--59229598 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
59229561 CTGTCGTATA
59229571 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
59229599 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:59230485 original size:628 final size:623
Alignment explanation
Indices: 59229147--59230553 Score: 2175
Period size: 628 Copynumber: 2.2 Consensus size: 623
59229137 CTTATCTTTT
*
59229147 TTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATCTACATATACATATA
1 TTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATCTACATATCCATATA
**
59229212 TGCATTGAATGTGGATGTAAGGGATACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTT
66 TGC--T--ATGTGGATGTAAGGGGCACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTT
* * * *
59229277 ACCCCTGGCCATGTTTCTAATAAATTTAATTTCAAATCATCTGGTTTGGATTTTGGAGGACTGGT
127 ACCCCTGACCATGTTTCTAATAAATTTAACTTCAAATCACCTGGTTTGGATTTTGGAGGACTGAT
*
59229342 CGGAATGTAAACTTCCCAAAATAGAAGTTTTGAATTATCATTTTATTTATTTATGTATTTATCTC
192 CGGAATGTAAACTTCCCAAAATAGAAGTTTTGAATTATCATTTTATTTATTTATATATTTATCTC
59229407 CATCGCCTTAGGTTTTTTATTTTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTG
257 CATCGCCTTAGGTTTTTTA-TTTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTG
59229472 AAACAGACTCCAGCTTGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAGGATAAG
321 AAACAGACTCCAGCTTGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAGGATAAG
* *
59229537 GAACTCAAAGGTATTTCTTGAATTCTGTCGTATATCTTCTTCTTCTTCTTCTTCTTCTTCTTTTT
386 GAACTCAAAGGTATTTCTTGAATTCTGTAGTATATCTTCTTCTTCTTCTTCTTCTTCTTATTTTT
*
59229602 TTTTTTCCTATTTACTAAGGAAAGATACGATGGTCCAAAAAGAAAAAGGGGAACGCATTTGGATT
451 TTTTTTCCTATTTACTAAGGAAAGATACGATGGTCCAAAAACAAAAAGGGGAACGCATTTGGATT
* *
59229667 CAGTGCTTAGCTTTTTCTTTTGGTTTGGCATGAATTTTATTTGGCTTTAGCCTTTACCCTTATTT
516 CAGTGCTTAGCTTTTTCTTTTGGTTTGGCACGAATTTTATTTGGCTTTAGCCTTTACCCTTACTT
*
59229732 TGACTCAGGTGTGTCTGAGATGGATCAACATGGGTATTTTCAA
581 TGACTCAGGTGTGTCTGAGATGAATCAACATGGGTATTTTCAA
* * *
59229775 TTTTCTTCTAGGCATTTTCATGTATTTGTTGGTTTTTTAGAGGGTCATAACTACATATCCATATA
1 TTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATCTACATATCCATATA
*
59229840 TGCATTGGATGTGGATGTAAGGGGCACTTTAAGAAATATGGAGAGTTAGAACAACATAACCTTTT
66 TGC--T--ATGTGGATGTAAGGGGCACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTT
*
59229905 ACCCCTGACCATTTTTCTAATAAATTTAACTTCAAATCACCTGGTTTGGATTTTGGAGGACTGAT
127 ACCCCTGACCATGTTTCTAATAAATTTAACTTCAAATCACCTGGTTTGGATTTTGGAGGACTGAT
* *
59229970 CGGAACT-TAAA-TTCCCCAAAATAGAAGTTTTGAATTGTCATTTTATTTATTTATATATTTATT
192 CGGAA-TGTAAACTT-CCCAAAATAGAAGTTTTGAATTATCATTTTATTTATTTATATATTTATC
59230033 TCCATCGCCTTAGG-TTTTTA-TTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATT
255 TCCATCGCCTTAGGTTTTTTATTTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATT
59230096 GAAACAGACTCCAGCTTGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAAGGGGA
320 GAAACAGACTCCAGCTTGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGG-A---G-
*
59230161 AGATACA-GAACTCAAAGGTATTTCTTGAATTCTGTAGTCTATCTTCTTCTTCTTCTT-TT-TAT
380 -GATA-AGGAACTCAAAGGTATTTCTTGAATTCTGTAGTATATCTTCTTCTTCTTCTTCTTCT-T
*
59230223 -TTATTTTTATTATTTT-CTATTTACTAAGGAAAGATACGATGGTCCAAAAACCAAAAGGGGAAC
442 CTTATTTTT-TT-TTTTCCTATTTACTAAGGAAAGATACGATGGTCCAAAAACAAAAAGGGGAAC
* *
59230286 GCATTTGGATTCAGTGTTTAGCTTTTTCTTTTGGTTTGGCACGAATTTTATTTGGCTTTTGCCTT
505 GCATTTGGATTCAGTGCTTAGCTTTTTCTTTTGGTTTGGCACGAATTTTATTTGGCTTTAGCCTT
* *
59230351 TACCCTTACTTTGACTCAGGTGTGAGTGTCTGAGATGAATCGACATGGGTATTTTCAG
570 TACCCTTACTTTGACTCA-G-GT--GTGTCTGAGATGAATCAACATGGGTATTTTCAA
* * * *
59230409 TTTTCTTCTAGGCTTTTTAATGTATTTGTTGGATGTTTAGATGGTCATATCTACTTATCCATATA
1 TTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATCTACATATCCATATA
*
59230474 TGCATTGGATGTGAATGTAAGGGGCACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTT
66 TGC--T--ATGTGGATGTAAGGGGCACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTT
* * *
59230539 TCCCCTTATCATGTT
127 ACCCCTGACCATGTT
59230554 AAGTATCTCA
Statistics
Matches: 722, Mismatches: 41, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
625 101 0.14
626 1 0.00
627 8 0.01
628 251 0.35
629 10 0.01
630 129 0.18
631 57 0.08
632 3 0.00
634 162 0.22
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (623 bp):
TTTTCTTCTAGGCTTTTTCATGTATTTGTTGGATTTTTAGAGGGTCATATCTACATATCCATATA
TGCTATGTGGATGTAAGGGGCACTTTAAGAAATATGAAGAGTTAGAACAACATAACCTTTTACCC
CTGACCATGTTTCTAATAAATTTAACTTCAAATCACCTGGTTTGGATTTTGGAGGACTGATCGGA
ATGTAAACTTCCCAAAATAGAAGTTTTGAATTATCATTTTATTTATTTATATATTTATCTCCATC
GCCTTAGGTTTTTTATTTTTCTTCAATTGATTGAATATTTTCACATATGAAATGCAATTGAAACA
GACTCCAGCTTGATGAAGCAACCTGAATGCAACAAGGGAGAAGGGGAAGGGGAGGATAAGGAACT
CAAAGGTATTTCTTGAATTCTGTAGTATATCTTCTTCTTCTTCTTCTTCTTCTTATTTTTTTTTT
TCCTATTTACTAAGGAAAGATACGATGGTCCAAAAACAAAAAGGGGAACGCATTTGGATTCAGTG
CTTAGCTTTTTCTTTTGGTTTGGCACGAATTTTATTTGGCTTTAGCCTTTACCCTTACTTTGACT
CAGGTGTGTCTGAGATGAATCAACATGGGTATTTTCAA
Found at i:59240480 original size:27 final size:28
Alignment explanation
Indices: 59240425--59240490 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
59240415 ATAAAAAATA
*
59240425 ACCAAAATGTTATAACTTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTTATTT
59240454 ACCAAAATATTATAA-TTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
59240481 ACCAAAATAT
1 ACCAAAATAT
59240491 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 22 0.61
29 14 0.39
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (28 bp):
ACCAAAATATTATAACTTTTTTTTATTT
Found at i:59240589 original size:27 final size:27
Alignment explanation
Indices: 59240551--59240629 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
59240541 GGCCAATCAC
* *
59240551 ATTGGCGGCACCAAAGGTGTCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
*
59240578 ATTGGCGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
*
59240605 ATTGGCGGCACTAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
59240630 GGGCTAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.29, C:0.20, G:0.33, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:59240720 original size:19 final size:19
Alignment explanation
Indices: 59240693--59240762 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
59240683 TCAACTCATT
*
59240693 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
59240712 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
59240730 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
59240749 TTTTAATTTAATAA
1 TTTTAATTTAATAA
59240763 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:59240743 original size:37 final size:37
Alignment explanation
Indices: 59240698--59240768 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
59240688 TCATTTTTTT
59240698 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
59240735 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
59240769 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:59241104 original size:30 final size:32
Alignment explanation
Indices: 59241068--59241129 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
59241058 AGTTTTATTA
59241068 TTACT-AAA-ATGAGTTGAAAGGGAATAAAAT
1 TTACTAAAATATGAGTTGAAAGGGAATAAAAT
*
59241098 TTACTAAAAATATGAGTTGAAGGGGAATAAAA
1 TTACT-AAAATATGAGTTGAAAGGGAATAAAA
59241130 AGAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 5 0.18
32 3 0.11
33 20 0.71
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (32 bp):
TTACTAAAATATGAGTTGAAAGGGAATAAAAT
Found at i:59241376 original size:37 final size:37
Alignment explanation
Indices: 59241334--59241404 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
59241324 AGTATTACTT
*
59241334 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAATTATTAAATGAG
59241371 AATAGTTTATTAAATTAAAATAGAATTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAATTATTAAAT
59241405 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAATTATTAAATGAG
Found at i:59241382 original size:18 final size:19
Alignment explanation
Indices: 59241334--59241408 Score: 93
Period size: 18 Copynumber: 4.1 Consensus size: 19
59241324 AGTATTACTT
59241334 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
59241352 AATAGAGTTATTAAATGAG
1 AATAGATTTATTAAATTAA
59241371 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
*
59241389 AATAGAATTATTAAA-TAA
1 AATAGATTTATTAAATTAA
59241407 AA
1 AA
59241409 AAATGAGTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 25 0.52
19 23 0.48
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:59241409 original size:19 final size:19
Alignment explanation
Indices: 59241340--59241408 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
59241330 ACTTAATAGT
*
59241340 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAA
* * *
59241359 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAA
59241377 TTATTAAATTAAAATAGAA
1 TTATTAAATTAAAATAGAA
59241396 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
59241409 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAA
Found at i:59246517 original size:51 final size:51
Alignment explanation
Indices: 59246441--59246543 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
59246431 TACATGCACA
59246441 TATAAAAAAAAGTGTTTACTTTGTGTTTGTTTAAATGCAGTCTGTAATACG
1 TATAAAAAAAAGTGTTTACTTTGTGTTTGTTTAAATGCAGTCTGTAATACG
*
59246492 TATAAGAAAAAGTGTTTACTTTGTGTTTGTTTAAATGCAGTCTGTAATACG
1 TATAAAAAAAAGTGTTTACTTTGTGTTTGTTTAAATGCAGTCTGTAATACG
59246543 T
1 T
59246544 CCAAGTGCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (51 bp):
TATAAAAAAAAGTGTTTACTTTGTGTTTGTTTAAATGCAGTCTGTAATACG
Found at i:59248334 original size:47 final size:47
Alignment explanation
Indices: 59248265--59248362 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
59248255 AGAATGGTAC
59248265 TATTAGAGATCAGGTATGAACCATTAATCTCTTTGGGAATTTCATTT
1 TATTAGAGATCAGGTATGAACCATTAATCTCTTTGGGAATTTCATTT
59248312 TATTAGAGATCAGGTATGAACCATTAATCTCTTTGGGAATTTCATTT
1 TATTAGAGATCAGGTATGAACCATTAATCTCTTTGGGAATTTCATTT
59248359 TATT
1 TATT
59248363 CTTTTCATCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (47 bp):
TATTAGAGATCAGGTATGAACCATTAATCTCTTTGGGAATTTCATTT
Found at i:59248930 original size:143 final size:143
Alignment explanation
Indices: 59248743--59249009 Score: 385
Period size: 145 Copynumber: 1.9 Consensus size: 143
59248733 TGGTGTCATA
*
59248743 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTACACTA-TCTCTGGTGTACCA
1 CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTACACTATTCCCTGGTGTACCA
*
59248807 TCCTAGTCCCT-GTTTGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGT
66 TCCTAGT-CCTGGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGT
59248871 GTCATACATAGATT
130 GTCATACATAGATT
* * * *
59248885 CATACATGCTCTGAGTACTCTTAGGTTCTAACTATGGGTGCTTTTATACTATTTCCCTGGTGTGC
1 CATACATGCTCTGAGTACTCTGAGGGTCT-ACTATGGGTGCTTTTACACTA-TTCCCTGGTGTAC
* * * * **
59248950 CATTCTGGTCCTGGTTAGCTATCTGAATTTTCCATTCTAGTGGCATTCGTTACATACATA
64 CATCCTAGTCCTGGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATA
59249010 CATGCTCTGA
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
142 27 0.25
143 20 0.18
144 3 0.03
145 59 0.54
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (143 bp):
CATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTACACTATTCCCTGGTGTACCA
TCCTAGTCCTGGTTAGCCATCTGAATTTTCCATTCTAGTGGAATTCAATACATACATATATGGTG
TCATACATAGATT
Found at i:59252027 original size:46 final size:44
Alignment explanation
Indices: 59251923--59252030 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
59251913 TGTCTTTGAC
** * * *
59251923 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
59251967 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
59252013 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
59252031 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:59259372 original size:46 final size:44
Alignment explanation
Indices: 59259268--59259375 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
59259258 TGTCTTTGAC
** * * *
59259268 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
59259312 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
59259358 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
59259376 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:59273988 original size:24 final size:24
Alignment explanation
Indices: 59273956--59274005 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59273946 CATAATGTTA
59273956 CTGAATCCAACAAGGTCAGTAAAG
1 CTGAATCCAACAAGGTCAGTAAAG
59273980 CTGAATCCAACAAGGTCAGTAAAG
1 CTGAATCCAACAAGGTCAGTAAAG
59274004 CT
1 CT
59274006 AACTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (24 bp):
CTGAATCCAACAAGGTCAGTAAAG
Found at i:59275688 original size:19 final size:19
Alignment explanation
Indices: 59275666--59275720 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
59275656 TACAAATTTG
*
59275666 GAAGGTATTTTCAAATATT
1 GAAGGTATTTTCAAATATA
*
59275685 GAAGGTATAATT-AAATATA
1 GAAGGTAT-TTTCAAATATA
59275704 GAAGGTATTTTCAAATA
1 GAAGGTATTTTCAAATA
59275721 ATTATACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 2 0.06
19 27 0.87
20 2 0.06
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (19 bp):
GAAGGTATTTTCAAATATA
Found at i:59279987 original size:62 final size:62
Alignment explanation
Indices: 59279890--59280014 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
59279880 AACAAACTGT
59279890 TAATTCAACATAAATAAATCTTCCATAAATGGATTCTTATGTGATATTTGAATATTTAATAC
1 TAATTCAACATAAATAAATCTTCCATAAATGGATTCTTATGTGATATTTGAATATTTAATAC
59279952 TAATTCAACATAAATAAATCTTCCATAAATGGATTCTTATGTGATATTTGAATATTTAATAC
1 TAATTCAACATAAATAAATCTTCCATAAATGGATTCTTATGTGATATTTGAATATTTAATAC
59280014 T
1 T
59280015 TGCATCCTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (62 bp):
TAATTCAACATAAATAAATCTTCCATAAATGGATTCTTATGTGATATTTGAATATTTAATAC
Found at i:59283115 original size:46 final size:46
Alignment explanation
Indices: 59283011--59283485 Score: 672
Period size: 46 Copynumber: 10.6 Consensus size: 46
59283001 TACTTATGAT
* *
59283011 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
**
59283054 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
59283100 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATG-CTAC
* * *
59283146 CACTTATCATTTTGTCACTTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
59283192 CACTTATCACTTTGTCACTTAATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
59283238 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
59283284 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
59283330 CACTTATTACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
59283376 CACTTATCACTTTTGTCTCTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCAC-TTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
59283413 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* **
59283459 CACTTATCACTTTATTTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
59283486 AGTACTCAAA
Statistics
Matches: 396, Mismatches: 20, Indels: 29
0.89 0.04 0.07
Matches are distributed among these distances:
36 18 0.05
37 10 0.03
38 3 0.01
40 1 0.00
41 2 0.01
42 2 0.01
43 11 0.03
44 5 0.01
45 23 0.06
46 302 0.76
47 19 0.05
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:59283441 original size:36 final size:37
Alignment explanation
Indices: 59283376--59283449 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
59283366 CTAATGCTAC
*
59283376 CACTTATCACTTTTGTCTCTTGATCAGATAAGTATAG
1 CACTTATCACTTTTGTCACTTGATCAGATAAGTATAG
*
59283413 CACTTATCACTTTT-TCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTGTCACTTGATCAGATAAGTATAG
59283449 C
1 C
59283450 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 21 0.60
37 14 0.40
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
CACTTATCACTTTTGTCACTTGATCAGATAAGTATAG
Found at i:59283469 original size:83 final size:82
Alignment explanation
Indices: 59283330--59283485 Score: 260
Period size: 83 Copynumber: 1.9 Consensus size: 82
59283320 CTAATGCTAC
* *
59283330 CACTTATTACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTT-TGTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTAT-T-T
59283394 CTTGATCAGATAAGTATAG
64 CTTGATCAGATAAGTATAG
*
59283413 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATTTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATTTCT
59283478 TGATCAGA
66 TGATCAGA
59283486 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
82 11 0.16
83 57 0.83
84 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATTTCT
TGATCAGATAAGTATAG
Found at i:59286538 original size:22 final size:24
Alignment explanation
Indices: 59286512--59286555 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59286502 GAAAAATATT
59286512 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
59286534 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
59286556 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:59286666 original size:9 final size:9
Alignment explanation
Indices: 59286652--59286679 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
59286642 TTTTGTTACA
59286652 ACAATTAAT
1 ACAATTAAT
59286661 ACAATTAAT
1 ACAATTAAT
59286670 ACAATTAAT
1 ACAATTAAT
59286679 A
1 A
59286680 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:59286701 original size:68 final size:68
Alignment explanation
Indices: 59286622--59286822 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 68
59286612 TCAAGTTTGT
*
59286622 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
59286687 AAA
66 AAA
*
59286690 TTTACTAATCAAATGTTAAATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
59286746 AAA
66 AAA
59286749 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
59286812 AAT
66 AAA
59286815 TTTACTAA
1 TTTACTAA
59286823 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 31 0.26
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:59286832 original size:16 final size:16
Alignment explanation
Indices: 59286811--59286852 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
59286801 AATAATTTGA
*
59286811 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
59286827 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
59286843 TAGTTTTAAT
1 TAATTTTAAT
59286853 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:59286836 original size:22 final size:22
Alignment explanation
Indices: 59286826--59286886 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
59286816 TTACTAACAA
* * *
59286826 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
59286848 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
59286870 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
59286887 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:59296085 original size:19 final size:20
Alignment explanation
Indices: 59296061--59296113 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
59296051 ATTTAATACA
59296061 TTCTATATTTGAATAAG-CT
1 TTCTATATTTGAATAAGACT
59296080 TTCTATATTT-AAT-AGACT
1 TTCTATATTTGAATAAGACT
* *
59296098 TTCCATATTTGTATAA
1 TTCTATATTTGAATAA
59296114 ATTTAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 12 0.41
20 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (20 bp):
TTCTATATTTGAATAAGACT
Found at i:59296195 original size:19 final size:19
Alignment explanation
Indices: 59296140--59296196 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
59296130 GAATGTATTT
*
59296140 TCAAATATAGAAAATATAA
1 TCAAATATAGAAGATATAA
* *
59296159 TCCATATATAGAAAATATAA
1 T-CAAATATAGAAGATATAA
*
59296179 TCAAATATGGAAGATATA
1 TCAAATATAGAAGATATA
59296197 TATTATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (19 bp):
TCAAATATAGAAGATATAA
Found at i:59296268 original size:19 final size:19
Alignment explanation
Indices: 59296221--59296257 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59296211 TACAAATTTG
**
59296221 AAAGATATTTTCAAATATA
1 AAAGATATAATCAAATATA
59296240 AAAGATATAATCAAATAT
1 AAAGATATAATCAAATAT
59296258 GGAAGGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAGATATAATCAAATATA
Found at i:59299403 original size:28 final size:26
Alignment explanation
Indices: 59299350--59299405 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
59299340 ACCCAAACTC
**
59299350 AATTTAAATAATAAAAAATATTTTAA
1 AATTTAAATAATAAAAAATAAATTAA
*
59299376 AATTTAATTAATATAAAATATAAATTAA
1 AATTTAAATAATA-AAAA-ATAAATTAA
59299404 AA
1 AA
59299406 AATTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 4 0.16
28 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AATTTAAATAATAAAAAATAAATTAA
Found at i:59300342 original size:17 final size:18
Alignment explanation
Indices: 59300320--59300362 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
59300310 CAAGTAGCTC
*
59300320 AAAATGATCCAAATC-TG
1 AAAATGATCCAAAACTTG
59300337 AAAATGA-CCAAAACTTG
1 AAAATGATCCAAAACTTG
59300354 -AAATGATCC
1 AAAATGATCC
59300363 GTAACCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAATGATCCAAAACTTG
Found at i:59302599 original size:6 final size:6
Alignment explanation
Indices: 59302566--59302598 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
59302556 TATTTAGATG
*
59302566 TATACA TATACA TATACA TATACA TATGCA TAT
1 TATACA TATACA TATACA TATACA TATACA TAT
59302599 GTATTCAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (6 bp):
TATACA
Found at i:59305420 original size:21 final size:22
Alignment explanation
Indices: 59305396--59305444 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
59305386 TTTTACTATA
*
59305396 TTAAAAATAAATTTT-TATTTT
1 TTAAAAATAAATTTTATAATTT
* *
59305417 TTAATAATTATATTTTATAATTT
1 TTAA-AAATAAATTTTATAATTT
59305440 TTAAA
1 TTAAA
59305445 TGATTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAAATAAATTTTATAATTT
Found at i:59305476 original size:28 final size:28
Alignment explanation
Indices: 59305422--59305492 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
59305412 ATTTTTTAAT
*
59305422 AATTATATTTTATAATTTTTAAATGATTA
1 AATTA-ATTTTATAATTTTTAAATGATCA
* *
59305451 AATTAATTTT-TTATTTTTAGAGTGATCA
1 AATTAATTTTATAATTTTTA-AATGATCA
59305479 AAGTATAATTTTAT
1 AA-T-TAATTTTAT
59305493 CATATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
28 13 0.37
29 6 0.17
30 7 0.20
31 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (28 bp):
AATTAATTTTATAATTTTTAAATGATCA
Found at i:59306458 original size:65 final size:65
Alignment explanation
Indices: 59306314--59306443 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 65
59306304 TTAATTCTTG
*
59306314 TATAATATGATATATGATCAAGGTTTACCTCTCCCAATAATATCGTTTCGAAATTTAAATTGTTA
1 TATAATATAATATATGATCAAGGTTTACCTCTCCCAATAATATCGTTTCGAAATTTAAATTGTTA
* * *
59306379 TATAATATAATATATGTTCGAGGTTTACCTCTCCCAATAATATTGTTGT-GAAATTTAAATTGTT
1 TATAATATAATATATGATCAAGGTTTACCTCTCCCAATAATATCGTT-TCGAAATTTAAATTGTT
59306443 A
65 A
59306444 ATCTTTTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 59 0.98
66 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (65 bp):
TATAATATAATATATGATCAAGGTTTACCTCTCCCAATAATATCGTTTCGAAATTTAAATTGTTA
Found at i:59310843 original size:398 final size:398
Alignment explanation
Indices: 59309700--59312479 Score: 4354
Period size: 398 Copynumber: 7.0 Consensus size: 398
59309690 ATGAAAAAGA
* * * * * * * *
59309700 GCTTTTGAAAAGTTTGACAGTGTTTACTATTGCCGTCAGAAAGTACTTTTGAAAATGATAAAGTG
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAA-GATAAAATG
* * * * * * * *
59309765 TTAATTTTAAATATGGTGTTGTAAAGTGAAAAATTTACTGGG-GGTAAAAAAAGGTAACTTCGTT
65 TTAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAA-GTAACTTCGTT
* * *
59309829 G-AAAGTACTTTTCCAAAATTTTTGACTTGGTTAAAATCCTAGTTTAAAATCATGTTCAGTTTAA
129 GAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAA
* * **
59309893 AAAGCTGCTTGCTTACTAAACTTTTGTTGTTTA-TGCTTTTAAGCCTCAATAGTAAACAAAAAAT
194 AAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAAT
59309957 TTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAA
259 TTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAA
* * * *
59310022 ATTTTTAACCTTCAACTTTTAGAAAAATGTTTTTCAATGAACTTACCTTTTTATCTCCCATTAAA
324 ATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAA
59310087 TCTTTCATAT
389 TCTTTCATAT
*
59310097 GCTTTTGAAAAGTTTGATAATGTTTACCATTGTTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
*
59310162 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGACGAAAAAAAGTAACTTCGTTG
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATG-AAAAAAGTAACTTCGTTG
* *
59310227 AAAAATACTTTTCTAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAAA
130 AAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAA
*
59310292 AAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCATCCTCAATAGTAAACAAAAAATT
195 AAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATT
59310357 TGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAA
260 TGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAA
* * *
59310422 TTTTTAACCATCAGCTTTTGGAAAAATATTTTTCAATAAACTTACCTTTTTATTTCTCATTAAAT
325 TTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAAT
59310487 CTTTCATAT
390 CTTTCATAT
* * * **
59310496 GCTTTTAAAAAGTTTGATAATGTTTATCATTGCCGTCAAAAAGTATTTTTGAGAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
59310561 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
* * *
59310626 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCTTAGATTAAAATTATGTTCGGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
59310691 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
59310756 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
* *
59310821 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCTCATTAAATC
326 TTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAATC
59310886 TTTCATAT
391 TTTCATAT
* * *
59310894 GCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTACTTTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
* ** *
59310959 CAATTTTAGACATGATGCCATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTTGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
59311024 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
* *
59311089 AGCTGCTTGCTTACTAAATTTTTGTTGTTTACTGCTTTCTAGCCTCAATAGTAAACAAAAAATTT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
59311154 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
* * *
59311219 TTTTAACCTTCAGCTCTTGGAAAAATGCTTTTCAATAAACTTACCTTTTTATCTCCCATTAAATC
326 TTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAATC
59311284 TTTCATAT
391 TTTCATAT
* *
59311292 GCTTTTAAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
* * ** *
59311357 CAATTTTAAACATGATGCCATAAAGTGAAAGA-TT--T---A-AT---AAAAGTAACTTTGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
59311412 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
59311477 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
*
59311542 GATAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
* * * * *
59311607 TTTTAACCTTCAACTCTTGGAAAAATGCTTTTCAATAAACTTACATTTTTATCTCCCATTAAATC
326 TTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAATC
59311672 TTTCATAT
391 TTTCATAT
* *
59311680 GCTTTTGAAAAGTTTGATAATGTTTACCATTACTGTCAAAAAGTGCTTTTGAGAATATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
* * * ** * *
59311745 CAATTTTAGATATGACGCCATAAAGCGAAAGATTTAATGGGAGATG-AAAAAGTAACTTTGTTGA
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
59311809 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
131 AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
* *
59311874 AGCTGCTTGCTTACCAAATTTTTGTTGTTTCCTGCTTTCCAGCCTCAATAGTAAACAAAAAAATT
196 AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
59311939 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
261 GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
*
59312004 TTTTAACCTT---CTTTTGGAAAAAATGTTTTTCAATGAACTTACCTTTTTATCTCTCATTAAAT
326 TTTTAACCTTCAGCTTTTGG-AAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAAT
59312066 CTTTCATAT
390 CTTTCATAT
* * * * *
59312075 GCTTTTAAAAAGTTTGATAATGTTTACCATTGTTGTCAAAAAGTGTTTTTCAAAAGATAAAATGT
1 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
* **
59312140 TAATTTTAGACGTGATGTTATAAAGTGAAAGATTTAATGGGAGAT-AAAAGAAGTAACTTATTTG
66 TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAA-AAGTAACTTCGTTG
* *
59312204 AAAAATACTTTTCCAAACTTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAAA
130 AAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAA
* * *
59312269 AAGCTGCTTGGTTACCAAATTTTTGTTGTTTACTGCTTTCAAGCCTTAATAGTAAACAAAAAATT
195 AAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATT
* * *
59312334 TGGTAAACAAAGAGCTCTTCAAACCAAACCATGATTTTAAATTGTGATTCTAACCCAAGCCAAAA
260 TGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAA--C---CC---A
* * * * * *
59312399 AGCCAAAATTTTTAACCTTCGGCTTTTGGAAAAGTATTTTTCAATGAAGTTACTTTTTTTTATCT
317 AGCCAAAATTTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTAC--CTTTTTATCT
*
59312464 CCCATTAAATCTTTCA
380 CTCATTAAATCTTTCA
59312480 ATTATAACAT
Statistics
Matches: 2233, Mismatches: 121, Indels: 47
0.93 0.05 0.02
Matches are distributed among these distances:
388 371 0.17
389 2 0.00
391 3 0.00
392 1 0.00
394 7 0.00
395 151 0.07
396 229 0.10
397 281 0.13
398 849 0.38
399 265 0.12
401 2 0.00
404 20 0.01
406 21 0.01
407 7 0.00
408 24 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (398 bp):
GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTGCTTTTGAGAAGATAAAATGT
TAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATGAAAAAAGTAACTTCGTTGA
AAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCCTAGTTTAAAATCATGTTCGGTTTAAAA
AGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTT
GGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAAT
TTTTAACCTTCAGCTTTTGGAAAAATGTTTTTCAATAAACTTACCTTTTTATCTCTCATTAAATC
TTTCATAT
Found at i:59312659 original size:28 final size:28
Alignment explanation
Indices: 59312627--59312680 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
59312617 TTAGCCCTAG
59312627 ACAACTATGCATAGTATTAGTATCTCGC
1 ACAACTATGCATAGTATTAGTATCTCGC
* *
59312655 ACAACTATGTATGGTATTAGTATCTC
1 ACAACTATGCATAGTATTAGTATCTC
59312681 ACAACCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
ACAACTATGCATAGTATTAGTATCTCGC
Found at i:59329516 original size:25 final size:25
Alignment explanation
Indices: 59329459--59329505 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
59329449 TATTCACACA
59329459 TATT-CTTA-CTTAATTTCAAATGT
1 TATTACTTACCTTAATTTCAAATGT
*
59329482 TATTACTTACCTTACTTT-AAATGT
1 TATTACTTACCTTAATTTCAAATGT
59329506 CTCATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (25 bp):
TATTACTTACCTTAATTTCAAATGT
Found at i:59338675 original size:2 final size:2
Alignment explanation
Indices: 59338668--59338694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59338658 AACCAAAGAT
59338668 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
59338695 TATAAACCAA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:59364347 original size:4 final size:4
Alignment explanation
Indices: 59364338--59364388 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
59364328 CAATTCAATA
59364338 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
59364386 ACA
1 ACA
59364389 AGGAAAACAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:59364573 original size:4 final size:4
Alignment explanation
Indices: 59364564--59364595 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
59364554 AATTCAAGAC
59364564 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
59364596 TAAAGGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:59364755 original size:283 final size:292
Alignment explanation
Indices: 59364410--59364973 Score: 790
Period size: 283 Copynumber: 1.9 Consensus size: 292
59364400 GTAGCTCAAT
59364410 CCCTTTGTTTCAATCAATTATGAACGTGAAAAAGCCAATTCAAGACCATACATACATGCATGCAT
1 CCCTTTGTTTCAATCAATTATGAACGTGAAAAAGCCAATTCAAGACCATACATACATGCATGCAT
*
59364475 GCATGCA-A-ATACA-C-ATAT-AAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAAA
66 GCATGCACATACACACCAATATAAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTC--AA
* *
59364535 TTATGAATGTGAAAAAGCCA-AT-TCAAGACCATACATACATACATACAT-A-CATACATACATA
129 TTATGAATGTGAAAAAGCCACATATCAAGACCATAAATACATACATACATAAGCATACACACATA
* *
59364596 TA-AAGG-AAACATGGTAGCTCAAGTCCCTTTGTTTCAGTCAATTATGAATGCGAAAAGGCCAAT
194 TATAAGGAAAACATGGTAGCTCAAGTCCCTTTGTTTCAATCAATTATGAACGCGAAAAGGCCAAT
59364659 TCAAGACCATACATGCATGCACACACACACAGAC
259 TCAAGACCATACATGCATGCACACACACACAGAC
* * * *
59364693 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATACATACATGCATGCAT
1 CCCTTTGTTTCAATCAATTATGAACGTGAAAAAGCCAATTCAAGACCATACATACATGCATGCAT
* *
59364758 GCATGCATCCATACACACGCATATATATACAAGGAAAACATGGTAGCTCAAGTCCCTTTGTTTCA
66 GCATGCA--CATACACAC-C--A-ATATA-AAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAA
* * * * * *
59364823 GTCAATTATGAATGTGGAAATGCCACTTGATCAAGACCATAAATACATGCATGCATAATGCATTC
124 GTCAATTATGAATGTGAAAAAGCCACAT-ATCAAGACCATAAATACATACATACATAA-GCATAC
*
59364888 ACACATATATAAGGAAAACATGGTAGCTCAAGTCCCTTTGTTTCAATCAATTATGAACGTGAAAA
187 ACACATATATAAGGAAAACATGGTAGCTCAAGTCCCTTTGTTTCAATCAATTATGAACGCGAAAA
59364953 GGCCAATTCAAGACCATACAT
252 GGCCAATTCAAGACCATACAT
59364974 ACACACATAC
Statistics
Matches: 243, Mismatches: 18, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
283 68 0.28
286 1 0.00
287 4 0.02
289 1 0.00
293 24 0.10
294 1 0.00
295 36 0.15
296 23 0.09
297 1 0.00
299 12 0.05
300 4 0.02
301 68 0.28
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (292 bp):
CCCTTTGTTTCAATCAATTATGAACGTGAAAAAGCCAATTCAAGACCATACATACATGCATGCAT
GCATGCACATACACACCAATATAAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAATT
ATGAATGTGAAAAAGCCACATATCAAGACCATAAATACATACATACATAAGCATACACACATATA
TAAGGAAAACATGGTAGCTCAAGTCCCTTTGTTTCAATCAATTATGAACGCGAAAAGGCCAATTC
AAGACCATACATGCATGCACACACACACAGAC
Found at i:59364892 original size:118 final size:109
Alignment explanation
Indices: 59364693--59364976 Score: 365
Period size: 110 Copynumber: 2.5 Consensus size: 109
59364683 ACACACAGAC
*
59364693 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATACATACATGCATGCAT
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATAAATACATGCATGCAT
*
59364758 GCATGCATCCATACACACGCATATATATACAAGGAAAACATGGTAGCTCAAGT
66 GAATGCAT-C--ACACA--C--ATATAT--AAGGAAAACATGGTAGCTCAAGT
* *
59364811 CCCTTTGTTTCAGTCAATTATGAATGTGGAAATGCCACTTGATCAAGACCATAAATACATGCATG
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAC-T--TCAAGACCATAAATACATGCATG
*
59364876 CAT-AATGCAT-TCACACATATATAAGGAAAACATGGTAGCTCAAGT
63 CATGAATGCATCACACACATATATAAGGAAAACATGGTAGCTCAAGT
* * * *
59364921 CCCTTTGTTTCAATCAATTATGAACGTGAAAAGGCCAATTCAAGACCATACATACA
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATAAATACA
59364977 CACATACATA
Statistics
Matches: 152, Mismatches: 11, Indels: 17
0.84 0.06 0.09
Matches are distributed among these distances:
107 16 0.11
109 1 0.01
110 56 0.37
112 6 0.04
114 1 0.01
116 4 0.03
118 36 0.24
119 1 0.01
120 6 0.04
121 25 0.16
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (109 bp):
CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATAAATACATGCATGCAT
GAATGCATCACACACATATATAAGGAAAACATGGTAGCTCAAGT
Found at i:59367013 original size:3 final size:3
Alignment explanation
Indices: 59367005--59367045 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
59366995 TTTCCTACGC
59367005 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
59367046 ACTTAAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:59369240 original size:12 final size:11
Alignment explanation
Indices: 59369223--59369252 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
59369213 AATTTGGGAA
59369223 TTTTTTTAAAT
1 TTTTTTTAAAT
59369234 TTTTTTTAAAT
1 TTTTTTTAAAT
59369245 TTTATTTT
1 TTT-TTTT
59369253 GAAAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:59369427 original size:22 final size:21
Alignment explanation
Indices: 59369388--59369431 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59369378 AATTTATATA
59369388 TTTAATTATTTCTCATATATTT
1 TTTAATTATTTCTCATAT-TTT
*
59369410 TTTAGATTCTTTCT-ATATTTT
1 TTTA-ATTATTTCTCATATTTT
59369431 T
1 T
59369432 ATTATTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTAATTATTTCTCATATTTT
Found at i:59370807 original size:48 final size:48
Alignment explanation
Indices: 59370755--59370850 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
59370745 TGATTGTGGT
*
59370755 ACTGAATATATAGTTTCAAGTAACGAATTAACTGAATTCAAGATTAAG
1 ACTGAATATATAGTTTCAAGTAACGAATTAACTGAATTAAAGATTAAG
* *
59370803 ACTGAATATATAGTTTCAAGTAATGAATTAACTGTATTAAAGATTAAG
1 ACTGAATATATAGTTTCAAGTAACGAATTAACTGAATTAAAGATTAAG
59370851 CTTTCTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (48 bp):
ACTGAATATATAGTTTCAAGTAACGAATTAACTGAATTAAAGATTAAG
Found at i:59376189 original size:15 final size:15
Alignment explanation
Indices: 59376169--59376208 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
59376159 AGTTACAGTT
59376169 ATGTGTTCAACATGG
1 ATGTGTTCAACATGG
*
59376184 ATGTGTTCGACATGG
1 ATGTGTTCAACATGG
59376199 ATGTGTTCAA
1 ATGTGTTCAA
59376209 TCTTTTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (15 bp):
ATGTGTTCAACATGG
Found at i:59380896 original size:24 final size:24
Alignment explanation
Indices: 59380851--59380910 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
59380841 ATATATATAT
* *
59380851 AATATATATATTGTGAATATAACA
1 AATATATATATTATGAATATAAAA
59380875 AATATATATATATATGAA-ATAAAA
1 AATATATATAT-TATGAATATAAAA
59380899 AATCATGATATA
1 AAT-AT-ATATA
59380911 ATTGTCGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 19 0.61
25 7 0.23
26 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (24 bp):
AATATATATATTATGAATATAAAA
Found at i:59380909 original size:26 final size:26
Alignment explanation
Indices: 59380852--59380910 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
59380842 TATATATATA
* *
59380852 ATATATATATTGTGAATATAACAAAT
1 ATATATATATTATGAATATAAAAAAT
59380878 ATATATATA-TATGAA-ATAAAAAAT
1 ATATATATATTATGAATATAAAAAAT
59380902 CATGATATA
1 -AT-ATATA
59380911 ATTGTCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.28
25 7 0.24
26 14 0.48
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (26 bp):
ATATATATATTATGAATATAAAAAAT
Found at i:59384977 original size:11 final size:9
Alignment explanation
Indices: 59384948--59384982 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
59384938 AAAGAGGGGA
59384948 AAAAATAAT
1 AAAAATAAT
59384957 AAAAATAAT
1 AAAAATAAT
59384966 AAAAAGTAAAT
1 AAAAA-T-AAT
59384977 AAAAAT
1 AAAAAT
59384983 GAAGTAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.58
10 2 0.08
11 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAAATAAT
Found at i:59390019 original size:15 final size:14
Alignment explanation
Indices: 59389989--59390031 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
59389979 ATAAATATGG
59389989 TATTTATATCTTTTAT
1 TATTTA-AT-TTTTAT
59390005 TAATTTAATTTTTAT
1 T-ATTTAATTTTTAT
*
59390020 TTTTTAATTTTT
1 TATTTAATTTTT
59390032 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 10 0.40
15 7 0.28
16 3 0.12
17 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTAATTTTTAT
Found at i:59390809 original size:17 final size:17
Alignment explanation
Indices: 59390782--59390906 Score: 79
Period size: 17 Copynumber: 6.7 Consensus size: 17
59390772 TCGATATAAT
* * *
59390782 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
59390799 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
59390816 AAATATTTTTAAAATACTTTTT
1 AAATATTTTT---A-A-TTTTA
* *
59390838 TATTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
59390856 AAATATTTTTAAAATACTTTTA
1 AAATATTTTT---A-A-TTTTA
*
59390878 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
59390895 AAATATTTTTAA
1 AAATATTTTTAA
59390907 AATATTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
17 43 0.51
18 8 0.10
19 2 0.02
20 3 0.04
21 2 0.02
22 21 0.25
23 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:59390897 original size:39 final size:39
Alignment explanation
Indices: 59390794--59390924 Score: 208
Period size: 39 Copynumber: 3.3 Consensus size: 39
59390784 ATATATTTAT
59390794 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
59390833 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
* *
59390873 TTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
59390912 TTTTTTAATTTTT
1 TTTTTAAATTTTT
59390925 AAAATAAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 47 0.57
40 36 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:59390919 original size:13 final size:11
Alignment explanation
Indices: 59390811--59390915 Score: 86
Period size: 11 Copynumber: 10.4 Consensus size: 11
59390801 ATTTTTTTAA
59390811 TTTTAAAATAT
1 TTTTAAAATAT
59390822 TTTTAAAATACT
1 TTTTAAAATA-T
* *
59390834 TTTT-TATTAT
1 TTTTAAAATAT
*
59390844 TTTT----TAA
1 TTTTAAAATAT
59390851 TTTTAAAATAT
1 TTTTAAAATAT
*
59390862 TTTTAAAATAC
1 TTTTAAAATAT
59390873 TTTTAAAAT-T
1 TTTTAAAATAT
*
59390883 TTTT----TAA
1 TTTTAAAATAT
59390890 TTTTAAAATAT
1 TTTTAAAATAT
59390901 TTTTAAAATAT
1 TTTTAAAATAT
59390912 TTTT
1 TTTT
59390916 TTAATTTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.01
7 10 0.13
10 9 0.12
11 51 0.67
12 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:59390936 original size:20 final size:20
Alignment explanation
Indices: 59390899--59390937 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59390889 ATTTTAAAAT
**
59390899 ATTTTTAAAATATTTTTTTA
1 ATTTTTAAAATAAATTTTTA
59390919 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
59390938 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:59390944 original size:22 final size:21
Alignment explanation
Indices: 59390898--59390955 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
59390888 AATTTTAAAA
*
59390898 TATTTTTAAAAT--ATTTTTT
1 TATTTTTAAAATAAATTTTTG
59390917 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
59390940 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
59390956 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:59390944 original size:31 final size:29
Alignment explanation
Indices: 59390862--59390930 Score: 104
Period size: 28 Copynumber: 2.3 Consensus size: 29
59390852 TTTAAAATAT
*
59390862 TTTTAAAATACTTTTAAA-ATTTTTTTAA
1 TTTTAAAATATTTTTAAATATTTTTTTAA
59390890 TTTTAAAATATTTTTAAAATATTTTTTTAA
1 TTTTAAAATATTTTT-AAATATTTTTTTAA
59390920 TTTTTAAAATA
1 -TTTTAAAATA
59390931 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 14 0.38
29 3 0.08
30 10 0.27
31 10 0.27
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAATATTTTTTTAA
Found at i:59392333 original size:4 final size:4
Alignment explanation
Indices: 59392324--59392352 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
59392314 GAAAAAGCTG
59392324 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
59392353 GCCACTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Done.