Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009431.1 Hibiscus syriacus cultivar Beakdansim tig00113414_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 272534
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:7522 original size:59 final size:59
Alignment explanation
Indices: 7442--7554 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
7432 TGGTTAGAGC
* *
7442 CATATTATCTACTTTGACTTTTCATTGCGACTAGGAGGGTT-TGATAGGACACTTGGGGT
1 CATATTATCAACTTTGACTTTTCATTGCGACTAGGAGGGTTCT-ATAGCACACTTGGGGT
* *
7501 CATATTATCAAGTTT-ACCTTTTCATTGTGACTAGGAGGGTTCTATAGCACACTT
1 CATATTATCAACTTTGA-CTTTTCATTGCGACTAGGAGGGTTCTATAGCACACTT
7555 ATCCATCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 1 0.02
59 46 0.96
60 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (59 bp):
CATATTATCAACTTTGACTTTTCATTGCGACTAGGAGGGTTCTATAGCACACTTGGGGT
Found at i:11074 original size:22 final size:24
Alignment explanation
Indices: 11046--11093 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
11036 AATATATGAT
11046 GATTTATTATCTT-TTAGG-ATTA
1 GATTTATTATCTTATTAGGAATTA
*
11068 GATTTATTATTTTATTAGGAATTA
1 GATTTATTATCTTATTAGGAATTA
11092 GA
1 GA
11094 GTTAAGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
23 5 0.22
24 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (24 bp):
GATTTATTATCTTATTAGGAATTA
Found at i:22792 original size:22 final size:24
Alignment explanation
Indices: 22767--22814 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
22757 AATATATGAT
22767 GATTCATTATCTT-TTAGG-ATTA
1 GATTCATTATCTTATTAGGAATTA
* *
22789 GATTTATTATTTTATTAGGAATTA
1 GATTCATTATCTTATTAGGAATTA
22813 GA
1 GA
22815 GTTAAGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 5 0.23
24 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (24 bp):
GATTCATTATCTTATTAGGAATTA
Found at i:24768 original size:14 final size:15
Alignment explanation
Indices: 24749--24778 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24739 AACACCCATA
24749 ACCTATATA-ATTAT
1 ACCTATATAGATTAT
24763 ACCTATATAGATTAT
1 ACCTATATAGATTAT
24778 A
1 A
24779 GATGTCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (15 bp):
ACCTATATAGATTAT
Found at i:29600 original size:30 final size:30
Alignment explanation
Indices: 29564--29624 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29554 ATTAATATTA
29564 TGCATCGATACGCTACAATAACTGCTACAG
1 TGCATCGATACGCTACAATAACTGCTACAG
* * *
29594 TGCATCGATGCGCTATAGTAACTGCTACAG
1 TGCATCGATACGCTACAATAACTGCTACAG
29624 T
1 T
29625 AGTTTCATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (30 bp):
TGCATCGATACGCTACAATAACTGCTACAG
Found at i:32751 original size:18 final size:18
Alignment explanation
Indices: 32725--32759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32715 TCGAAAGGAC
*
32725 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
32743 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
32760 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:36959 original size:18 final size:18
Alignment explanation
Indices: 36933--36967 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36923 TCGAAAGGAC
*
36933 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
36951 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
36968 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:52609 original size:16 final size:16
Alignment explanation
Indices: 52588--52626 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
52578 GAATTTATGA
* *
52588 AAGAAATGGAATTGAT
1 AAGAAATGAAATGGAT
52604 AAGAAATGAAATGGAT
1 AAGAAATGAAATGGAT
52620 AA-AAATG
1 AAGAAATG
52627 TTATCAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (16 bp):
AAGAAATGAAATGGAT
Found at i:53019 original size:18 final size:18
Alignment explanation
Indices: 52996--53031 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52986 GATGTGTTTG
52996 ATCATTTGAGCTACTTTC
1 ATCATTTGAGCTACTTTC
53014 ATCATTTGAGCTACTTTC
1 ATCATTTGAGCTACTTTC
53032 CATGTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (18 bp):
ATCATTTGAGCTACTTTC
Found at i:55672 original size:59 final size:59
Alignment explanation
Indices: 55598--55711 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
55588 TGGTTAGGGT
* *
55598 CATATTATCGAGTTTGACTTTTCATTGCCACTAGGAGGGTTCGATAGGACACTTACTGC
1 CATATTATCGAGTTTGACTTTTCATTACCACTAGGAGGGTTCGATAAGACACTTACTGC
** * *
55657 CATATTATC-ATGTTTGTTTTTTCATTACGACTAGGAGGGTTTGATAAGACACTTA
1 CATATTATCGA-GTTTGACTTTTCATTACCACTAGGAGGGTTCGATAAGACACTTA
55712 TTCATCTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 1 0.02
59 47 0.98
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (59 bp):
CATATTATCGAGTTTGACTTTTCATTACCACTAGGAGGGTTCGATAAGACACTTACTGC
Found at i:57986 original size:22 final size:21
Alignment explanation
Indices: 57956--57999 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
57946 GAGAATATAT
* *
57956 CAAGATGGGCGTCAATATGAA
1 CAAGATGGGCGGCAAAATGAA
57977 CAAGTATGGGCGGCAAAATGAA
1 CAAG-ATGGGCGGCAAAATGAA
57999 C
1 C
58000 CAACACTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (21 bp):
CAAGATGGGCGGCAAAATGAA
Found at i:58584 original size:15 final size:14
Alignment explanation
Indices: 58565--58606 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
58555 AATTCTATCC
58565 CTTTCATTTCTTAT
1 CTTTCATTTCTTAT
58579 CATTTCATTTCTT-T
1 C-TTTCATTTCTTAT
*
58593 CTTTTATTTCTTAT
1 CTTTCATTTCTTAT
58607 TTCCATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTCATTTCTTAT
Found at i:64049 original size:15 final size:16
Alignment explanation
Indices: 64029--64058 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64019 TGAAATTCTC
64029 TTTTTCTT-TTTATGA
1 TTTTTCTTCTTTATGA
64044 TTTTTCTTCTTTATG
1 TTTTTCTTCTTTATG
64059 TCTTTGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTTCTTCTTTATGA
Found at i:71868 original size:11 final size:11
Alignment explanation
Indices: 71852--71915 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
71842 CTATTTTTTT
71852 CAAAAAAAAAA
1 CAAAAAAAAAA
71863 CAAAAAAACAAA
1 CAAAAAAA-AAA
71875 -AAACACAAAAAA
1 CAAA-A-AAAAAA
*
71887 -AACAAAAAACA
1 CAA-AAAAAAAA
*
71898 CAAAAAAAACA
1 CAAAAAAAAAA
71909 CAAAAAA
1 CAAAAAA
71916 GCCAAAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
11 31 0.66
12 12 0.26
13 4 0.09
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:71869 original size:9 final size:9
Alignment explanation
Indices: 71855--71915 Score: 88
Period size: 9 Copynumber: 6.8 Consensus size: 9
71845 TTTTTTTCAA
71855 AAAAAAAAC
1 AAAAAAAAC
71864 -AAAAAAAC
1 AAAAAAAAC
*
71872 AAAAAACAC
1 AAAAAAAAC
71881 AAAAAAAAC
1 AAAAAAAAC
*
71890 AAAAAACAC
1 AAAAAAAAC
71899 AAAAAAAAC
1 AAAAAAAAC
71908 ACAAAAAA
1 A-AAAAAA
71916 GCCAAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
8 8 0.17
9 32 0.70
10 6 0.13
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:71921 original size:20 final size:18
Alignment explanation
Indices: 71864--71922 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 18
71854 AAAAAAAAAC
71864 AAAAAAACAAAAAA-CACA
1 AAAAAAACAAAAAACCA-A
71882 AAAAAAACAAAAAACACAA
1 AAAAAAACAAAAAAC-CAA
71901 AAAAAACACAAAAAAGCCAA
1 AAAAAA-ACAAAAAA-CCAA
71921 AA
1 AA
71923 TTTCAAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 14 0.38
19 7 0.19
20 15 0.41
21 1 0.03
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAACCAA
Found at i:71931 original size:29 final size:29
Alignment explanation
Indices: 71856--71915 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
71846 TTTTTTCAAA
*
71856 AAAAAAAC-AAAAAAACAAAAAACACAAA
1 AAAAACACAAAAAAAACAAAAAACACAAA
71884 AAAAACA-AAAAACACAA-AAAAAACACAAA
1 AAAAACACAAAAA-A-AACAAAAAACACAAA
71913 AAA
1 AAA
71916 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.36
29 16 0.57
30 2 0.07
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAACACAAAAAAAACAAAAAACACAAA
Found at i:78019 original size:24 final size:24
Alignment explanation
Indices: 77977--78024 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
77967 TGTGGATCAC
* *
77977 CAAAAGTCATGCTTATTGACTCTT
1 CAAAAGACATGCTTATTGAATCTT
* *
78001 CAAAAGACATGTTTCTTGAATCTT
1 CAAAAGACATGCTTATTGAATCTT
78025 TAACTTGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (24 bp):
CAAAAGACATGCTTATTGAATCTT
Found at i:85375 original size:23 final size:23
Alignment explanation
Indices: 85330--85375 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
85320 TTATACCTAT
*
85330 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
85353 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
85376 TATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:87031 original size:19 final size:19
Alignment explanation
Indices: 86971--87030 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
86961 TTGGAGTGCA
* *
86971 AAAAGAAGACAAAAATCAG
1 AAAAGAAGATAAAAATAAG
86990 AAAAGAAGATAAAAATAAG
1 AAAAGAAGATAAAAATAAG
87009 AAAAGAAGA-AAAGAA-AAG
1 AAAAGAAGATAAA-AATAAG
87027 AAAA
1 AAAA
87031 AAAATGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 10 0.26
19 28 0.74
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAAGAAGATAAAAATAAG
Found at i:89905 original size:23 final size:23
Alignment explanation
Indices: 89860--89905 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
89850 TTATACCTAT
*
89860 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
89883 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
89906 TTATACCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:92836 original size:80 final size:79
Alignment explanation
Indices: 92657--93078 Score: 308
Period size: 80 Copynumber: 5.1 Consensus size: 79
92647 AAAATAAACT
* * * *
92657 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGGCCTTTGAGTTCGATTA
1 ATCATTTGCA-TATAGCTCAAGGCTAGAAGGGCTATCTG-C--CAAAGACCTTTGAGTTCGATTA
*
92722 CACTCAGCT-CAACGGCAT
62 CACTCAGCTCCAA-GGCAC
* * *
92740 GTCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGC
1 ATCATTTGC-ATATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTACAC
92805 TCAGCTCCAAGGCAC
65 TCAGCTCCAAGGCAC
* * * *
92820 A-CTATTTGCATAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACA
1 ATC-ATTTGCAT-ATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTACA
* *
92884 CTCAGCTTCGAGGGCAC
64 CTCAGC-TCCAAGGCAC
* * * * * * *
92901 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTTGACT
1 ATCATTTGCA-TATAGCTCAAGGCTAGAAGGGCTATCTG---CC-AAAGACCTTTGAGTTCGATT
* * * * *
92966 ACAATTAACTCTAAGGCAG
61 ACACTCAGCTCCAAGGCAC
* * * * * * ** *
92985 ATCATTTACAGTATAACTTAAGGCTATAAGGGTTATCTATCACCAAAAGACCTTCAAGTTCGACT
1 ATCATTTGCA-TATAGCTCAAGGCTAGAAGGGCTATC--T-GCC-AAAGACCTTTGAGTTCGATT
* ** *
93050 ACGCTCAAATCCAAGGCAT
61 ACACTCAGCTCCAAGGCAC
93069 ATCATTTGCA
1 ATCATTTGCA
93079 GCATAACTTA
Statistics
Matches: 280, Mismatches: 45, Indels: 27
0.80 0.13 0.08
Matches are distributed among these distances:
79 3 0.01
80 90 0.32
81 40 0.14
82 2 0.01
83 33 0.12
84 87 0.31
85 24 0.09
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (79 bp):
ATCATTTGCATATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTACACT
CAGCTCCAAGGCAC
Found at i:92989 original size:84 final size:83
Alignment explanation
Indices: 92657--93117 Score: 411
Period size: 84 Copynumber: 5.6 Consensus size: 83
92647 AAAATAAACT
* * * *
92657 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGGCCTTTGAGTTCGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
*
92722 CACTCAGCT-CAACGGCAT
66 CACTCAGCTCCAA-GGCAC
* * *
92740 GTCATTTGC-G-ATATAGCTCAAGGCTAGAAGGGCTATCTG---CCAAAGACCTTTGAGTTCGAC
1 ATCATTTGCAGCATA-A-CTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGAC
*
92800 TACGCTCAGCTCCAAGGCAC
64 TACACTCAGCTCCAAGGCAC
** * * * * * *
92820 A-CTATTTGCATAATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGATT
1 ATC-ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACT
* *
92881 ACACTCAGCTTCGAGGGCAC
65 ACACTCAGC-TCCAAGGCAC
* *
92901 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTTGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACT
* * * * *
92966 ACAATTAACTCTAAGGCAG
65 ACACTCAGCTCCAAGGCAC
* * * * ** *
92985 ATCATTTACAGTATAACTTAAGGCTATAAGGGTTATCTATCACCAAAAGACCTTCAAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACT
* ** *
93050 ACGCTCAAATCCAAGGCAT
65 ACACTCAGCTCCAAGGCAC
* * * * *
93069 ATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCAACAAAGA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGA
93118 TGATGTAAGG
Statistics
Matches: 310, Mismatches: 56, Indels: 24
0.79 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 86 0.28
81 43 0.14
82 6 0.02
83 35 0.11
84 115 0.37
85 24 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (83 bp):
ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
CACTCAGCTCCAAGGCAC
Found at i:93091 original size:249 final size:244
Alignment explanation
Indices: 92657--93111 Score: 576
Period size: 249 Copynumber: 1.8 Consensus size: 244
92647 AAAATAAACT
* * * *
92657 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGGCCTTTGAGTTCGATTA
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTA
* * * * *
92722 CACTCAGCTCAACGGCATGTCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGAC
66 CAATCAACTCAACGGCATGTCATTTACGATATAACTCAAGGCTAGAAGGGCTATCTACCAAAGAC
** ** * *
92787 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACACTATTTGCATAATAGCTTAAGTCAAGAAGGG
131 CTTCAAGTTCGACTACGCTCAAATCCAAGGCACACTATTTGCAGAATAACTTAAGTCAAGAAGGG
*
92852 CTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
196 CTATATGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* *
92901 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTTGACT
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACT
* * * *
92966 ACAATTAACTCTAA-GGCA-GATCATTTAC-AGTATAACTTAAGGCTATAAGGGTTATCTATCAC
65 ACAATCAACTC-AACGGCATG-TCATTTACGA-TATAACTCAAGGCTAGAAGGGCTATC--T-AC
* *
93028 CAAAAGACCTTCAAGTTCGACTACGCTCAAATCCAAGGCATA-TCATTTGCAGCATAACTTAAGT
124 C-AAAGACCTTCAAGTTCGACTACGCTCAAATCCAAGGCACACT-ATTTGCAGAATAACTTAAGT
*
93092 CAAGAAGGGTTATATGCCAA
187 CAAGAAGGGCTATATGCCAA
93112 CAAAGATGAT
Statistics
Matches: 177, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
244 44 0.25
245 57 0.32
246 2 0.01
247 1 0.01
248 3 0.02
249 70 0.40
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (244 bp):
ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTA
CAATCAACTCAACGGCATGTCATTTACGATATAACTCAAGGCTAGAAGGGCTATCTACCAAAGAC
CTTCAAGTTCGACTACGCTCAAATCCAAGGCACACTATTTGCAGAATAACTTAAGTCAAGAAGGG
CTATATGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
Found at i:97563 original size:5 final size:5
Alignment explanation
Indices: 97553--97626 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
97543 GAACTTCTCT
**
97553 TTTTC TTTTC TTTTC TTTTC TTCTTC TTTTC --TTC TTTTC TGAT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
97601 TCTTC -TTT- TTGTC TTTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
97627 TGCACTCCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:97566 original size:11 final size:11
Alignment explanation
Indices: 97550--97621 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
97540 TTTGAACTTC
97550 TCTTTTTCTTT
1 TCTTTTTCTTT
97561 TC-TTTTCTTT
1 TCTTTTTCTTT
*
97571 TCTTCTTCTTT
1 TCTTTTTCTTT
*
97582 TCTTCTTT-TCT
1 TCTT-TTTCTTT
** *
97593 GATTTTTCTCT
1 TCTTTTTCTTT
97604 TCTTTTTGTCTTT
1 TC-TTTT-TCTTT
97617 TCTTT
1 TCTTT
97622 CTTTTTGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 13 0.27
11 20 0.42
12 9 0.19
13 6 0.12
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:97571 original size:16 final size:17
Alignment explanation
Indices: 97550--97585 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
97540 TTTGAACTTC
97550 TCTTTTTCTT-TTCTTT
1 TCTTTTTCTTCTTCTTT
97566 TC-TTTTCTTCTTCTTT
1 TCTTTTTCTTCTTCTTT
97582 TCTT
1 TCTT
97586 CTTTTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 10 0.56
17 1 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTCTTCTTT
Found at i:97576 original size:8 final size:8
Alignment explanation
Indices: 97560--97626 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
97550 TCTTTTTCTT
97560 TTCTTTTC
1 TTCTTTTC
97568 TT-TTCTTC
1 TTCTT-TTC
97576 TTCTTTTC
1 TTCTTTTC
97584 TTCTTTTC
1 TTCTTTTC
*
97592 TGATTTTTCTC
1 T--TCTTT-TC
97603 TTCTTTT-
1 TTCTTTTC
97610 TGTCTTTTC
1 T-TCTTTTC
97619 TTTCTTTT
1 -TTCTTTT
97627 TGCACTCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.06
8 26 0.53
9 12 0.24
10 5 0.10
11 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (8 bp):
TTCTTTTC
Found at i:97592 original size:16 final size:17
Alignment explanation
Indices: 97561--97626 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 17
97551 CTTTTTCTTT
97561 TCTTTTCTT-TTCTTCT-
1 TCTTTTCTTCTT-TTCTG
97577 TCTTTTCTTCTTTTCTG
1 TCTTTTCTTCTTTTCTG
*
97594 ATTTTTCTCTTCTTTT-TG
1 -TCTTT-TCTTCTTTTCTG
97612 TCTTTTCTTTCTTTT
1 TCTTTTC-TTCTTTT
97627 TGCACTCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
16 15 0.35
17 13 0.30
18 6 0.14
19 9 0.21
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTCTTTTCTG
Found at i:97598 original size:27 final size:27
Alignment explanation
Indices: 97546--97619 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
97536 TCTTTTTGAA
**
97546 CTTCTCTTTT-TCTTTTCTTTTCTTTTCTT
1 CTTCT-TTTTGTCTTTTCTGAT-TTTTC-T
97575 CTTCTTTTCT-TCTTTTCTGATTTTTCT
1 CTTCTTTT-TGTCTTTTCTGATTTTTCT
97602 CTTCTTTTTGTCTTTTCT
1 CTTCTTTTTGTCTTTTCT
97620 TTCTTTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 1 0.02
27 17 0.41
28 8 0.20
29 15 0.37
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (27 bp):
CTTCTTTTTGTCTTTTCTGATTTTTCT
Found at i:97625 original size:17 final size:18
Alignment explanation
Indices: 97577--97628 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
97567 CTTTTCTTCT
97577 TCTTTTC-TTCTTTTCTGA
1 TCTTTTCTTTCTTTT-TGA
97595 T-TTTTCTCTTCTTTTTG-
1 TCTTTTCT-TTCTTTTTGA
97612 TCTTTTCTTTCTTTTTG
1 TCTTTTCTTTCTTTTTG
97629 CACTCCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.48
18 9 0.29
19 7 0.23
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (18 bp):
TCTTTTCTTTCTTTTTGA
Found at i:99636 original size:167 final size:167
Alignment explanation
Indices: 99353--99657 Score: 452
Period size: 167 Copynumber: 1.8 Consensus size: 167
99343 GATCACATCA
*
99353 AAAGACCTTTGAGTTCAATTACACTCAACTCAACGACATATCATTTACAGCATAACTCAAGGCTA
1 AAAGACCTTTGACTTCAATTACACTCAACTCAACGACATATCATTTACAGCATAACTCAAGGCTA
* * * * * * *
99418 TAAGGGTTATTTGTCACCTAAAGACCTTTGAGTTCGACTACGCTTAGCTCCATGGCATATCATTT
66 GAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
*
99483 GCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAAC
131 ACAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAAC
* * * *
99520 AAAGTCCTTTGACTTCGATTACACTCAACTCAAAGGTACAT-T-ATTTATAGCATAACTCAAGGC
1 AAAGACCTTTGACTTCAATTACACTCAACTC-AACG-ACATATCATTTACAGCATAACTCAAGGC
*
99583 TAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCAT
64 TAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
99648 TTACAGCATA
129 TTACAGCATA
99658 GTCCAAGGCA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
167 114 0.93
168 4 0.03
169 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (167 bp):
AAAGACCTTTGACTTCAATTACACTCAACTCAACGACATATCATTTACAGCATAACTCAAGGCTA
GAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
ACAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAAC
Found at i:99666 original size:84 final size:83
Alignment explanation
Indices: 99353--99657 Score: 317
Period size: 84 Copynumber: 3.7 Consensus size: 83
99343 GATCACATCA
* * * * * *
99353 AAAGACCTTTGAGTTCAATTACACTCAACT-CAACGACATATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGCT
* *
99417 ATAAGGGTTATTTGTCACC
65 AGAAGGGTTATCTGTCACC
* * * * * * *
99436 TAAAGACCTTTGAGTTCGACTACGCTTAGCTCCATGGCATATCATTTGCAGCATAACTTAAGTCA
1 -AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCT
*
99501 AGAAGGGTTATCTG-CTAAC
65 AGAAGGGTTATCTGTC-ACC
* * * * * * * * *
99520 AAAGTCCTTTGACTTCGATTACACTCAACTCAAAGGTACATTATTTATAGCATAACTCAAGGCTA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTA
99585 GAAGGGTTATCTGTCACC
66 GAAGGGTTATCTGTCACC
* *
99603 AAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA
1 -AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA
99658 GTCCAAGGCA
Statistics
Matches: 175, Mismatches: 42, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
83 65 0.37
84 108 0.62
85 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (83 bp):
AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTA
GAAGGGTTATCTGTCACC
Found at i:100364 original size:36 final size:35
Alignment explanation
Indices: 100267--100523 Score: 211
Period size: 36 Copynumber: 6.9 Consensus size: 35
100257 TGCAAATGGT
100267 TTTTGAAAATATATATAATATA-AAGTTTTGAAAACA
1 TTTTGAAAAT-TATATAATATATAAGTTTT-AAAACA
* *
100303 TGTTTGAAAACATTTATATATTATATAAATTTTAAAACA
1 T-TTTG-AAA-A-TTATATAATATATAAGTTTTAAAACA
100342 TTTTAGAAAATTATATAATATAT-AGTTTTTGAAAACA
1 TTTT-GAAAATTATATAATATATAAG-TTTT-AAAACA
* * *
100379 TTTTTAAAATATATATAATATAT-TGTATTGAAAACA
1 TTTTGAAAAT-TATATAATATATAAGT-TTTAAAACA
*
100415 TTTTGAAAACATTTATATATTATATAA-TTTTAAAATCA
1 TTTTG-AAA-A-TTATATAATATATAAGTTTTAAAA-CA
* * *
100453 TTTTCAAAATATATATAATATAT-AGTTTTTTAGAACG
1 TTTTGAAAAT-TATATAATATATAAG--TTTTAAAACA
100490 TTTTGAAAATTATAT-ATAATATATAGTTTTAAAA
1 TTTTGAAAATTATATAAT-ATATA-AGTTTTAAAA
100524 AATATTTTTG
Statistics
Matches: 182, Mismatches: 17, Indels: 44
0.75 0.07 0.18
Matches are distributed among these distances:
35 5 0.03
36 61 0.34
37 52 0.29
38 37 0.20
39 20 0.11
40 7 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
TTTTGAAAATTATATAATATATAAGTTTTAAAACA
Found at i:100468 original size:111 final size:112
Alignment explanation
Indices: 100266--100516 Score: 373
Period size: 111 Copynumber: 2.2 Consensus size: 112
100256 TTGCAAATGG
* *
100266 TTTTTGAAAATATATATAATATAAAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAA
1 TTTTT-AAAATATATATAATATATAGTATTGAAAACATGTTTGAAAACATTTATATATTATATAA
*
100331 ATTTTAAAACATTTTAGAAAATTATATAATATATAGTTTTTGAAAACA
65 ATTTTAAAACATTTTACAAAATTATATAATATATAGTTTTTGAAAACA
*
100379 TTTTTAAAATATATATAATATATTGTATTGAAAACAT-TTTGAAAACATTTATATATTATAT-AA
1 TTTTTAAAATATATATAATATATAGTATTGAAAACATGTTTGAAAACATTTATATATTATATAAA
* * *
100442 TTTTAAAATCATTTT-CAAAATATATATAATATATAGTTTTTTAGAACG
66 TTTTAAAA-CATTTTACAAAAT-TATATAATATATAGTTTTTGAAAACA
*
100490 TTTTGAAAATTATATATAATATATAGT
1 TTTTTAAAA-TATATATAATATATAGT
100517 TTTAAAAAAT
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
110 15 0.12
111 61 0.48
112 45 0.36
113 5 0.04
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (112 bp):
TTTTTAAAATATATATAATATATAGTATTGAAAACATGTTTGAAAACATTTATATATTATATAAA
TTTTAAAACATTTTACAAAATTATATAATATATAGTTTTTGAAAACA
Found at i:100484 original size:38 final size:37
Alignment explanation
Indices: 100267--100555 Score: 268
Period size: 37 Copynumber: 7.8 Consensus size: 37
100257 TGCAAATGGT
*
100267 TTTTGAAAATATATATAATATAAAG-TTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* * **
100303 TGTTTGAAAACATTTATATATTATATAAATTTT-AAAACA
1 T-TTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
100342 TTTTAGAAAAT-TATATAATATATAGTTTTTGAAAACA
1 TTTT-GAAAATATATATAATATATAGTTTTTGAAAACA
* * *
100379 TTTTTAAAATATATATAATATATTG-TATTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* * *
100415 TTTTGAAAACATTTATATATTATATA-ATTTT-AAAATCA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAA-CA
* * * *
100453 TTTTCAAAATATATATAATATATAGTTTTTTAGAACG
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
** *
100490 TTTTGAAAATTATATATAATATATAGTTTTAAAAAATA
1 TTTTGAAAA-TATATATAATATATAGTTTTTGAAAACA
* *
100528 TTTTTG-AAATATATATATTAGATAGTTT
1 -TTTTGAAAATATATATAATATATAGTTT
100556 ATATCATATT
Statistics
Matches: 209, Mismatches: 29, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
36 50 0.24
37 69 0.33
38 60 0.29
39 26 0.12
40 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:100547 original size:111 final size:111
Alignment explanation
Indices: 100267--100545 Score: 366
Period size: 111 Copynumber: 2.5 Consensus size: 111
100257 TGCAAATGGT
* *
100267 TTTTGAAAATATATATAATATAAAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAAA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTG-AAACATTTATATATTATATAAA
*
100332 TTTTAAAACATTTTAGAAAATTATATAATATATAGTTTTTGAAAACA
65 TTTTAAAACATTTTACAAAATTATATAATATATAGTTTTTGAAAACA
* * *
100379 TTTTTAAAATATATATAATATATTGTATTGAAAACA-TTTTGAAAACATTTATATATTATAT-AA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTG-AAACATTTATATATTATATAAA
* * *
100442 TTTTAAAATCATTTT-CAAAATATATATAATATATAGTTTTTTAGAACG
65 TTTTAAAA-CATTTTACAAAAT-TATATAATATATAGTTTTTGAAAACA
* * * *
100490 TTTTGAAAATTATATATAATATATAGTTTTAAAAAATATTTTTGAAATATATATAT
1 TTTTGAAAA-TATATATAATATATAGTTTT-GAAAACATTTTTGAAACATTTATAT
100546 TAGATAGTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
110 15 0.10
111 61 0.42
112 50 0.34
113 15 0.10
114 5 0.03
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (111 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTGAAACATTTATATATTATATAAAT
TTTAAAACATTTTACAAAATTATATAATATATAGTTTTTGAAAACA
Found at i:100553 original size:75 final size:72
Alignment explanation
Indices: 100267--100555 Score: 269
Period size: 75 Copynumber: 3.9 Consensus size: 72
100257 TGCAAATGGT
* * * * *
100267 TTTTGAAAATATATATAATATAAAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATA-A
1 TTTTGAAAAT-TATATAATATATAGTTTTGAAAACAT-TTT-TAAA-ATATATATAATATATAGT
*
100331 ATTTTAAAACA
62 TTTTTAAAACA
* *
100342 TTTTAGAAAATTATATAATATATAGTTTTTGAAAACATTTTTAAAATATATATAATATATTG-TA
1 TTTT-GAAAATTATATAATATATAG-TTTTGAAAACATTTTTAAAATATATATAATATATAGTTT
*
100406 TTGAAAACA
64 TTTAAAACA
* * *
100415 TTTTGAAAACATTTATATATTATATAATTTT-AAAATCATTTTCAAAATATATATAATATATAGT
1 TTTTG-AAA-A-TTATATAATATATAGTTTTGAAAA-CATTTTTAAAATATATATAATATATAGT
* *
100479 TTTTTAGAACG
62 TTTTTAAAACA
* * * * *
100490 TTTTGAAAATTATATATAATATATAGTTTTAAAAAATATTTTTGAAATATATATATTAGATAGTT
1 TTTTGAAAA-T-TATATAATATATAGTTTT-GAAAACATTTTTAAAATATATATAATATATAGTT
100555 T
63 T
100556 ATATCATATT
Statistics
Matches: 180, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
72 1 0.01
73 35 0.19
74 52 0.29
75 70 0.39
76 22 0.12
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (72 bp):
TTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTTAAAATATATATAATATATAGTTTTT
TAAAACA
Found at i:100578 original size:5 final size:5
Alignment explanation
Indices: 100570--100629 Score: 68
Period size: 5 Copynumber: 12.2 Consensus size: 5
100560 CATATTAATA
* * * * *
100570 TTTAT TTTAT TTTAT TTCA- TTTAT TTCAT ATTAT TTCAT TTCAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
100619 TTTAT TTTAT T
1 TTTAT TTTAT T
100630 AATTTAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
4 3 0.07
5 43 0.93
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:100593 original size:19 final size:19
Alignment explanation
Indices: 100569--100643 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
100559 TCATATTAAT
100569 ATTTATTTTATTTTATTTC
1 ATTTATTTTATTTTATTTC
* *
100588 ATTTATTTCATATTATTTC
1 ATTTATTTTATTTTATTTC
*
100607 ATTTCATTTTATTTTATTTT
1 ATTT-ATTTTATTTTATTTC
* *
100627 A-TTAATTTAATTTATTT
1 ATTTATTTTATTTTATTT
100644 GTTTTTGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
18 12 0.25
19 23 0.48
20 13 0.27
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATTTTATTTC
Found at i:100624 original size:39 final size:37
Alignment explanation
Indices: 100553--100643 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 37
100543 TATTAGATAG
* *
100553 TTTATATCATATTA-ATATTTATTTTATTTTATTTCA
1 TTTATTTCATATTATTTATTTATTTTATTTTATTTCA
*
100589 TTTATTTCATATTATTTCATTTCATTTTATTTTATTTTA
1 TTTATTTCATATTATTT-ATTT-ATTTTATTTTATTTCA
* *
100628 TTAATTTAAT-TTATTT
1 TTTATTTCATATTATTT
100644 GTTTTTGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 13 0.28
37 1 0.02
38 10 0.21
39 23 0.49
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTATTTCATATTATTTATTTATTTTATTTTATTTCA
Found at i:102021 original size:19 final size:19
Alignment explanation
Indices: 101999--102042 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
101989 TTTAAACATC
101999 TTTTATATTCCATTTTATT
1 TTTTATATTCCATTTTATT
* *
102018 TTTTATTTTCCTTTTTATT
1 TTTTATATTCCATTTTATT
102037 TATTTA
1 T-TTTA
102043 AATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATATTCCATTTTATT
Found at i:102867 original size:19 final size:19
Alignment explanation
Indices: 102830--102883 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
102820 AACCCCTTTC
*
102830 AAAATACATTATGTTTAATG
1 AAAATACATGAT-TTTAATG
102850 AAAATACATGATTTTAATG
1 AAAATACATGATTTTAATG
* *
102869 AAAGTACATGCTTTT
1 AAAATACATGATTTT
102884 GGCTGAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (19 bp):
AAAATACATGATTTTAATG
Found at i:103774 original size:19 final size:20
Alignment explanation
Indices: 103736--103778 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
103726 TGAAACCCTT
103736 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
103756 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
103775 TGAA
1 TGAA
103779 GATATATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:104344 original size:18 final size:18
Alignment explanation
Indices: 104321--104360 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
104311 AGTGTGAGTT
104321 GCTATGCTTTCCCTTTTA
1 GCTATGCTTTCCCTTTTA
104339 GCTATGCTTTCCCTTTTA
1 GCTATGCTTTCCCTTTTA
104357 GCTA
1 GCTA
104361 AGCAAGCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.28, G:0.12, T:0.47
Consensus pattern (18 bp):
GCTATGCTTTCCCTTTTA
Found at i:107618 original size:20 final size:20
Alignment explanation
Indices: 107593--107646 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
107583 AACCCCTTTT
107593 AAAATACATGATTTTTAATG
1 AAAATACATGATTTTTAATG
107613 AAAATACATGA-TTTTAATG
1 AAAATACATGATTTTTAATG
* *
107632 AAAGTACATGCTTTT
1 AAAATACATGATTTT
107647 GGCCAAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAATACATGATTTTTAATG
Found at i:108140 original size:9 final size:9
Alignment explanation
Indices: 108126--108165 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
108116 TTAATGAAAT
108126 AAGAAATGA
1 AAGAAATGA
108135 AAGAAA-GA
1 AAGAAATGA
108143 AATGAAATGA
1 AA-GAAATGA
108153 TAAGAAATGA
1 -AAGAAATGA
108163 AAG
1 AAG
108166 GGATATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.14
9 13 0.46
10 9 0.32
11 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (9 bp):
AAGAAATGA
Found at i:108159 original size:15 final size:14
Alignment explanation
Indices: 108124--108165 Score: 68
Period size: 13 Copynumber: 3.0 Consensus size: 14
108114 GATTAATGAA
108124 ATAAGAAATGAAAG
1 ATAAGAAATGAAAG
108138 A-AAGAAATGAAATG
1 ATAAGAAATGAAA-G
108152 ATAAGAAATGAAAG
1 ATAAGAAATGAAAG
108166 GGATATAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 4 0.15
15 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
ATAAGAAATGAAAG
Found at i:125916 original size:21 final size:20
Alignment explanation
Indices: 125873--125925 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
125863 GAAATCCCTT
*
125873 TGAAAATACATGATTTGTAA
1 TGAAAATACATGACTTGTAA
125893 TGAAAATATGCATGACTT-TAA
1 TGAAAATA--CATGACTTGTAA
125914 TGAAAATACATG
1 TGAAAATACATG
125926 GTCTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 8 0.27
21 11 0.37
22 7 0.23
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (20 bp):
TGAAAATACATGACTTGTAA
Found at i:127578 original size:13 final size:11
Alignment explanation
Indices: 127537--127621 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
127527 ACAATCTGTC
127537 CATCACCATTAT
1 CATCACCA-TAT
*
127549 CA-CGCCTATAT
1 CATCACC-ATAT
127560 CATCACCATAGT
1 CATCACCATA-T
127572 CCATCACCATTAT
1 -CATCACCA-TAT
*
127585 CATGC-CTATAT
1 CAT-CACCATAT
127596 CATCACCATATT
1 CATCACCATA-T
127608 CCATCACCATAT
1 -CATCACCATAT
127620 CA
1 CA
127622 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
10 1 0.02
11 23 0.38
12 14 0.23
13 20 0.33
14 2 0.03
ACGTcount: A:0.32, C:0.35, G:0.04, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:127581 original size:36 final size:36
Alignment explanation
Indices: 127534--127638 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
127524 GATACAATCT
127534 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
127570 GTCCATCACCATTATCATGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
127606 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
127639 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:131137 original size:13 final size:11
Alignment explanation
Indices: 131096--131180 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
131086 ACAATCTGTC
131096 CATCACCATTAT
1 CATCACCA-TAT
*
131108 CA-CGCCTATAT
1 CATCACC-ATAT
131119 CATCACCATAGT
1 CATCACCATA-T
131131 CCATCACCATTAT
1 -CATCACCA-TAT
*
131144 CA-CGCCTATAT
1 CATCACC-ATAT
131155 CATCACCATATT
1 CATCACCATA-T
131167 CCATCACCATAT
1 -CATCACCATAT
131179 CA
1 CA
131181 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:131140 original size:36 final size:36
Alignment explanation
Indices: 131093--131197 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
131083 GATACAATCT
131093 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
131129 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
131165 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
131198 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:141358 original size:4 final size:4
Alignment explanation
Indices: 141349--141375 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
141339 TGAGCTAAGA
141349 AATG AATG AATG AATG AATG AATG AAT
1 AATG AATG AATG AATG AATG AATG AAT
141376 ATGCTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:143697 original size:18 final size:18
Alignment explanation
Indices: 143674--143716 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
143664 GTATTTACTT
143674 TATACTAGCTTTATAATA
1 TATACTAGCTTTATAATA
*
143692 TATACTAGTTTTATAATA
1 TATACTAGCTTTATAATA
143710 TATACTA
1 TATACTA
143717 TTATAATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (18 bp):
TATACTAGCTTTATAATA
Found at i:143722 original size:15 final size:16
Alignment explanation
Indices: 143683--143724 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
143673 TTATACTAGC
143683 TTTATAATATATACTA
1 TTTATAATATATACTA
143699 GTTTTATAATATATACTA
1 --TTTATAATATATACTA
143717 -TTATAATA
1 TTTATAATA
143725 CATTTCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.33
18 16 0.67
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTATAATATATACTA
Found at i:146043 original size:90 final size:91
Alignment explanation
Indices: 145941--146105 Score: 260
Period size: 90 Copynumber: 1.8 Consensus size: 91
145931 ATGCTTGGCC
* * *
145941 GAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGGACAT-GGGGCTGT
1 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATGGGGGCTGG
146005 TCACATGCAAAACACATGGCTTGGAT
66 TCACATGCAAAACACATGGCTTGGAT
* * *
146031 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATGGGGGCTGG
1 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATGGGGGCTGG
*
146096 TCATATGCAA
66 TCACATGCAA
146106 GGCTCATGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 51 0.76
91 16 0.24
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (91 bp):
GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATGGGGGCTGG
TCACATGCAAAACACATGGCTTGGAT
Found at i:147811 original size:24 final size:24
Alignment explanation
Indices: 147766--147811 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
147756 CTTGGCACTT
* *
147766 CAAGTGGCATATCTTTTTGAACAG
1 CAAGTGGCATATCTGTTGGAACAG
147790 CAAGTGGCATAAT-TGTTGGAAC
1 CAAGTGGCAT-ATCTGTTGGAAC
147812 GTCAAAGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (24 bp):
CAAGTGGCATATCTGTTGGAACAG
Found at i:150030 original size:90 final size:91
Alignment explanation
Indices: 149914--150095 Score: 269
Period size: 90 Copynumber: 2.0 Consensus size: 91
149904 GGGAAATGAT
*
149914 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCAT-ATGCAAGGCACAT
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACC-TCATGCAAGGCACAT
*
149978 -GGGGCTGTTCACATGCAAAACACATG
65 GGGGGCTGGTCACATGCAAAACACATG
* * *
150004 GCTTGGCTGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCTCATGCAAGGCACATG
* **
150069 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
150095 G
1 G
150096 GTGTTCAAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 1 0.01
90 58 0.71
91 23 0.28
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCTCATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:158115 original size:90 final size:91
Alignment explanation
Indices: 158001--158174 Score: 244
Period size: 90 Copynumber: 1.9 Consensus size: 91
157991 ATGCTTTGCC
*
158001 GAATAGGGAGAGAGCTCTTCATCTTGGCGCCT-AATAAAACCACATGCAAGGCACAT-GGGGCTG
1 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAAT-AAACCACATGCAAGGCACATGGGGGCTG
*
158064 TTCACATGCAAAACACATGGCTTGGCT
65 GTCACATGCAAAACACATGGCTTGGCT
* * * *
158091 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCATATGGGGGCTGG
1 GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATGGGGGCTGG
* **
158156 TCATATGCAAGGCACATGG
66 TCACATGCAAAACACATGG
158175 GTGTTCAAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
90 47 0.64
91 26 0.36
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (91 bp):
GAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATGGGGGCTGG
TCACATGCAAAACACATGGCTTGGCT
Found at i:159876 original size:24 final size:24
Alignment explanation
Indices: 159830--159881 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
159820 CCTTGGCACT
* * *
159830 TCAAGTGGCACATCTTTTTGAACA
1 TCAAGTGGCACAACTGTTGGAACA
* *
159854 TCAAGTGGCATAACTGTTGGAACG
1 TCAAGTGGCACAACTGTTGGAACA
159878 TCAA
1 TCAA
159882 AGGACATGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
TCAAGTGGCACAACTGTTGGAACA
Found at i:161171 original size:23 final size:24
Alignment explanation
Indices: 161145--161199 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
161135 CCAACTTTTC
161145 TTTTCTTTTTCTTC-TTTTGAGTG
1 TTTTCTTTTTCTTCTTTTTGAGTG
**
161168 TTTTCAATTTCTTCTTTTTGAGTG
1 TTTTCTTTTTCTTCTTTTTGAGTG
*
161192 -CTTCTTTT
1 TTTTCTTTT
161200 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTTCTTTTTCTTCTTTTTGAGTG
Found at i:163430 original size:18 final size:18
Alignment explanation
Indices: 163404--163438 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
163394 CTTGTACTCC
*
163404 AAAGGTTGTATCCTTTCG
1 AAAGATTGTATCCTTTCG
*
163422 AAAGATTGTATCTTTTC
1 AAAGATTGTATCCTTTC
163439 ACTCTTACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (18 bp):
AAAGATTGTATCCTTTCG
Found at i:163912 original size:24 final size:24
Alignment explanation
Indices: 163861--163912 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
163851 CCTTGGCACT
* **
163861 TCAAGTGGCAAAACTTTTTTAACC
1 TCAAGTGGCAAAACTGTTGGAACC
* *
163885 TCAAGTGGCATAACTGTTGGAACG
1 TCAAGTGGCAAAACTGTTGGAACC
163909 TCAA
1 TCAA
163913 AGGACATCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (24 bp):
TCAAGTGGCAAAACTGTTGGAACC
Found at i:168825 original size:31 final size:31
Alignment explanation
Indices: 168787--168852 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
168777 TCACAGAATA
* *
168787 ATCAAAACACTGATGCATCTAATGCAGTTCG
1 ATCAAAACACTGATACATCTAAAGCAGTTCG
168818 ATCAAAACACTGATACATCTAAAGCAGTTCG
1 ATCAAAACACTGATACATCTAAAGCAGTTCG
168849 ATCA
1 ATCA
168853 CCATATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (31 bp):
ATCAAAACACTGATACATCTAAAGCAGTTCG
Found at i:177674 original size:28 final size:29
Alignment explanation
Indices: 177631--177687 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
177621 GAAAATAAAG
177631 AAAACATTGCAATGGCCTCAACTACAAGT
1 AAAACATTGCAATGGCCTCAACTACAAGT
*
177660 AAAA-ATTGCAGTGGCCTCAACTACAAGT
1 AAAACATTGCAATGGCCTCAACTACAAGT
177688 TCCTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (29 bp):
AAAACATTGCAATGGCCTCAACTACAAGT
Found at i:184745 original size:21 final size:21
Alignment explanation
Indices: 184721--184762 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
184711 TTTTTCATGT
*
184721 AAGTATATTCATTTTCTTACA
1 AAGTATATTCATTATCTTACA
* *
184742 AAGTGTATTCCTTATCTTACA
1 AAGTATATTCATTATCTTACA
184763 TATTAACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (21 bp):
AAGTATATTCATTATCTTACA
Found at i:202004 original size:9 final size:10
Alignment explanation
Indices: 201983--202007 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
201973 TAGTAACTTG
201983 TTTTGAAATT
1 TTTTGAAATT
201993 TTTTGAAATT
1 TTTTGAAATT
202003 TTTTG
1 TTTTG
202008 GTATGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (10 bp):
TTTTGAAATT
Found at i:217870 original size:681 final size:682
Alignment explanation
Indices: 216511--218112 Score: 2863
Period size: 682 Copynumber: 2.3 Consensus size: 682
216501 TTAGTAATAT
** * *** * * * *
216511 TTAAAGATAATAACACAAAAA-ACAACTTAGTTTAACAACCCGGAGCCTGTAAGCATTCTTGTTT
1 TTAAA-ATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTC
* * * * *
216575 TTCCTTTTTAAGGTTCAGATTGGGAT-GGTTCAGTAACTTGTTTTGAAATTTTTTGAAATGATTT
65 TGCCTTTTTAAGGTTCAAATTGGG-TCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATGATTT
216639 GGTATGCTTCAAAAATTTTCATAAATATTTTTGAATAACTCATGTAGAATATAAAAATATTTGTG
129 GGTATGCTTCAAAAATTTTCATAAATATTTTTGAATAACTCATGTAGAATATAAAAATATTTGTG
216704 TTCTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTAGTTGACCAATCGTTCCATGTTGAGTTAA
194 TTCTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTAGTTGACCAATCGTTCCATGTTGAGTTAA
* *
216769 TATTGAATAGGCTTGTAATCCTTGCACTACAAAGAGCGAGAGGTGATCGTTGCTCTGTTAAACTA
259 TATTGAATAGGCTTGTAATCCTTCCACTACAAAAAGCGAGAGGTGATCGTTGCTCTGTTAAACTA
216834 GCCTCATGCATTACCCTCTCCTTTAGGAATCATAGGTCCCGATCTTTCACTCAAATCCCATAGCT
324 GCCTCATGCATTACCCTCTCCTTTAGGAATCATAGGTCCCGATCTTTCACTCAAATCCCATAGCT
216899 AAACTCTTTTCTTGTAATGTTTTAATATTTTTGAATTTATTTGATATACCTCAAAAAAAAATTCA
389 AAACTCTTTTCTTGTAATGTTTTAATATTTTTGAATTTATTTGATATACCTCAAAAAAAAATTCA
216964 TAAATATATTTTTCGAGTAACTTTTGTATAATTTAAAATTATTTTTGCGTTTTCGAAATAGGAGA
454 TAAATATATTTTTCGAGTAACTTTTGTATAATTTAAAATTATTTTTGCGTTTTCGAAATAGGAGA
*
217029 AAAGATTACAGTCCAGTTTAGGTCGACCCATTGTGCCATGTTGAGTTCATATGGAATAGGCTTGT
519 AAAGATTACAGTCCAGTTTAGGTCGACCAATTGTGCCATGTTGAGTTCATATGGAATAGGCTTGT
217094 AATCCTTCCACTGCAAAGAACGAGAGGTGATCTTTGCTCTGTTAAACTAGCCTCACACATTACAC
584 AATCCTTCCACTGCAAAGAACGAGAGGTGATCTTTGCTCTGTTAAACTAGCCTCACACATTACAC
217159 TCTCCATTAAGAATAATGAGGCCCAAGCTCTCAC
649 TCTCCATTAAGAATAATGAGGCCCAAGCTCTCAC
217193 TTAAAATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTCT
1 TTAAAATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTCT
217258 GCCTTTTTAAGGTTCAAATTGGGTCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATGATTTGG
66 GCCTTTTTAAGGTTCAAATTGGGTCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATGATTTGG
217323 TATGCTTCAAAAATTTTCATAAATATTTTTGAATAACTCATGTAGAATATAAAAATATTTGTGTT
131 TATGCTTCAAAAATTTTCATAAATATTTTTGAATAACTCATGTAGAATATAAAAATATTTGTGTT
217388 CTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTAGTTGACCAATCGTTCCATGTTGAGTTAATA
196 CTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTAGTTGACCAATCGTTCCATGTTGAGTTAATA
217453 TTGAATAGGCTTGTAATCCTTCCACTACAAAAAGCGAGAGGTGATCGTTGCTCTGTTAAACTAGC
261 TTGAATAGGCTTGTAATCCTTCCACTACAAAAAGCGAGAGGTGATCGTTGCTCTGTTAAACTAGC
217518 CTCATGCATTACCCTCTCCTTTAGGAATCATAGGTCCCGATCTTTCACTCAAATCCCATAGCTAA
326 CTCATGCATTACCCTCTCCTTTAGGAATCATAGGTCCCGATCTTTCACTCAAATCCCATAGCTAA
217583 ACTCTTTTCTTGTAATGTTTTAATATTTTTGAATTTATTTGATATACCTC-AAAAAAAATTCATA
391 ACTCTTTTCTTGTAATGTTTTAATATTTTTGAATTTATTTGATATACCTCAAAAAAAAATTCATA
217647 AATATATTTTTCGAGTAACTTTTGTATAATTTAAAATTATTTTTGCGTTTTCGAAATAGGAGAAA
456 AATATATTTTTCGAGTAACTTTTGTATAATTTAAAATTATTTTTGCGTTTTCGAAATAGGAGAAA
217712 AGATTACAGTCCAGTTTAGGTCGACCAATTGTGCCATGTTGAGTTCATATGGAATAGGCTTGTAA
521 AGATTACAGTCCAGTTTAGGTCGACCAATTGTGCCATGTTGAGTTCATATGGAATAGGCTTGTAA
217777 TCCTTCCACTGCAAAGAACGAGAGGTGATCTTTGCTCTGTTAAACTAGCCTCACACATTACACTC
586 TCCTTCCACTGCAAAGAACGAGAGGTGATCTTTGCTCTGTTAAACTAGCCTCACACATTACACTC
217842 TCCATTAAGAATAATGAGGCCCAAGCTCTCAC
651 TCCATTAAGAATAATGAGGCCCAAGCTCTCAC
217874 TTAAAATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTCT
1 TTAAAATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTCT
*
217939 GCCTTTTTAAGGTTCAAATTGGGTCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATTATTTGG
66 GCCTTTTTAAGGTTCAAATTGGGTCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATGATTTGG
* * ** * *
218004 TATGCTTCAAAAAATTTCATAAATATTTTTCGAGTAACTCATGTAGAATAT-AATTTTTTTTTGC
131 TATGCTTCAAAAATTTTCATAAATATTTTT-GAATAACTCATGTAGAATATAAAAATATTTGTG-
* * *
218068 ATTGTCGAAAAATGAAAAAAGATTCCAGTCCAAC-TTAGGTTGACC
194 -TTCTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTA-GTTGACC
218113 CATTCTGCAA
Statistics
Matches: 886, Mismatches: 28, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
681 422 0.48
682 427 0.48
683 37 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (682 bp):
TTAAAATAATAACACAAAAATTTAGCTTAGTTTAACAACATAGAGCCTTTAAGCATTCATGCTCT
GCCTTTTTAAGGTTCAAATTGGGTCAGTTTAGTAACTTGTTTTGAAAATTTTTGAAATGATTTGG
TATGCTTCAAAAATTTTCATAAATATTTTTGAATAACTCATGTAGAATATAAAAATATTTGTGTT
CTCGAAAAAGGAAAAAATATTCCAGTCCAACTTTAGTTGACCAATCGTTCCATGTTGAGTTAATA
TTGAATAGGCTTGTAATCCTTCCACTACAAAAAGCGAGAGGTGATCGTTGCTCTGTTAAACTAGC
CTCATGCATTACCCTCTCCTTTAGGAATCATAGGTCCCGATCTTTCACTCAAATCCCATAGCTAA
ACTCTTTTCTTGTAATGTTTTAATATTTTTGAATTTATTTGATATACCTCAAAAAAAAATTCATA
AATATATTTTTCGAGTAACTTTTGTATAATTTAAAATTATTTTTGCGTTTTCGAAATAGGAGAAA
AGATTACAGTCCAGTTTAGGTCGACCAATTGTGCCATGTTGAGTTCATATGGAATAGGCTTGTAA
TCCTTCCACTGCAAAGAACGAGAGGTGATCTTTGCTCTGTTAAACTAGCCTCACACATTACACTC
TCCATTAAGAATAATGAGGCCCAAGCTCTCAC
Found at i:233266 original size:59 final size:59
Alignment explanation
Indices: 233167--233288 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
233157 CTAACCCGAG
* * * * * * *
233167 TATGAGACGTAAGGTCATGTCCACCATCTGTAGTAGGTATCCTTATGTACAGTCCTGAA
1 TATGACACATAAGGTCATGCCCACCAACTGTACTAAGTATCCTTAAGTACAGTCCTGAA
*
233226 TATGACACATAAGGTCGTGCCCACCAACTGTACTAAGTATCCTTAAGTACAGTCCTGAA
1 TATGACACATAAGGTCATGCCCACCAACTGTACTAAGTATCCTTAAGTACAGTCCTGAA
233285 TATG
1 TATG
233289 CAGCCTGTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (59 bp):
TATGACACATAAGGTCATGCCCACCAACTGTACTAAGTATCCTTAAGTACAGTCCTGAA
Found at i:235796 original size:10 final size:10
Alignment explanation
Indices: 235759--235812 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
235749 GAAATATCTT
235759 TATTATTTAA
1 TATTATTTAA
* *
235769 TTATTATATAT
1 -TATTATTTAA
235780 TATTATTTAA
1 TATTATTTAA
235790 TATTATTTAAA
1 TATTATTT-AA
*
235801 TAATATTTAA
1 TATTATTTAA
235811 TA
1 TA
235813 ATAATTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 20 0.54
11 17 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTATTTAA
Found at i:235813 original size:10 final size:10
Alignment explanation
Indices: 235783--235821 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
235773 TATATATTAT
*
235783 TATTTAATAT
1 TATTTAATAA
235793 TATTTAAATAA
1 TATTT-AATAA
235804 TATTTAATAA
1 TATTTAATAA
235814 TAATTTAA
1 T-ATTTAA
235822 GTTTTAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 11 0.42
11 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTTAATAA
Found at i:235852 original size:8 final size:8
Alignment explanation
Indices: 235835--235917 Score: 58
Period size: 8 Copynumber: 11.4 Consensus size: 8
235825 TTAAGTATTA
*
235835 TAATATTT
1 TAATAATT
*
235843 TATTAATT
1 TAATAATT
235851 TAATAA-T
1 TAATAATT
*
235858 TAATATTT
1 TAATAATT
*
235866 TATTAATT
1 TAATAATT
235874 TAATAA-T
1 TAATAATT
235881 TAA-AATT
1 TAATAATT
235888 T--T-ATT
1 TAATAATT
235893 TAATAATAT
1 TAATAAT-T
235902 T--T-ATT
1 TAATAATT
235907 TAATAATT
1 TAATAATT
235915 TAA
1 TAA
235918 AATCTCATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
5 6 0.10
6 4 0.07
7 15 0.26
8 31 0.53
9 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TAATAATT
Found at i:235861 original size:23 final size:23
Alignment explanation
Indices: 235835--235892 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
235825 TTAAGTATTA
235835 TAATATTTTATTAATTTAATAAT
1 TAATATTTTATTAATTTAATAAT
235858 TAATATTTTATTAATTTAATAAT
1 TAATATTTTATTAATTTAATAAT
*
235881 TAAAATTTTATT
1 TAATATTTTATT
235893 TAATAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATATTTTATTAATTTAATAAT
Found at i:235872 original size:15 final size:16
Alignment explanation
Indices: 235801--235890 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 16
235791 ATTATTTAAA
235801 TAATATTTAATAATAATT
1 TAATATTT--TAATAATT
*
235819 TAA-GTTTTAAGT-ATT
1 TAATATTTTAA-TAATT
*
235834 ATAATATTTTATTAATT
1 -TAATATTTTAATAATT
* *
235851 TAATA-ATTAATATTT
1 TAATATTTTAATAATT
* *
235866 TATTAATTTAATAA-T
1 TAATATTTTAATAATT
*
235881 TAAAATTTTA
1 TAATATTTTA
235891 TTTAATAATA
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
15 25 0.45
16 16 0.29
17 11 0.20
18 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATTTTAATAATT
Found at i:235893 original size:19 final size:23
Alignment explanation
Indices: 235835--235899 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
235825 TTAAGTATTA
*
235835 TAATATTTTATTAATTTAATAAT
1 TAATATATTATTAATTTAATAAT
*
235858 TAATATTTTATTAATTTAATAAT
1 TAATATATTATTAATTTAATAAT
235881 TAA-A-ATT-TT-ATTTAATAAT
1 TAATATATTATTAATTTAATAAT
235900 ATTTATTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 2 0.05
22 1 0.02
23 26 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATATTATTAATTTAATAAT
Found at i:235904 original size:14 final size:14
Alignment explanation
Indices: 235887--235913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
235877 TAATTAAAAT
235887 TTTATTTAATAATA
1 TTTATTTAATAATA
235901 TTTATTTAATAAT
1 TTTATTTAATAAT
235914 TTAAAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATTTAATAATA
Found at i:237048 original size:7 final size:7
Alignment explanation
Indices: 237037--237195 Score: 107
Period size: 8 Copynumber: 21.9 Consensus size: 7
237027 CTCTCATCTT
237037 TTTTTCTC
1 TTTTT-TC
237045 TTTTTTC
1 TTTTTTC
237052 TTTTTTC
1 TTTTTTC
237059 TTTTTT-
1 TTTTTTC
*
237065 TTTTCT-
1 TTTTTTC
237071 TTTTTTC
1 TTTTTTC
237078 TTTTTTTC
1 -TTTTTTC
237086 TTTTTT-
1 TTTTTTC
*
237092 TCTTTTC
1 TTTTTTC
237099 TTTTTTTC
1 -TTTTTTC
237107 ATTTCATTTC
1 -TTT--TTTC
237117 TTTTTTTCC
1 -TTTTTT-C
237126 TTTCTTTCC
1 TTT-TTT-C
*
237135 TTTTTTT
1 TTTTTTC
237142 TCTTTTTC
1 T-TTTTTC
*
237150 -CTTTTC
1 TTTTTTC
237156 GTTTTTT-
1 -TTTTTTC
*
237163 TCTTTT-
1 TTTTTTC
237169 TTTTTTC
1 TTTTTTC
237176 -TTTTTC
1 TTTTTTC
237182 TTTTTTC
1 TTTTTTC
237189 TTCTTTT
1 TT-TTTT
237196 TCTTCTTTTA
Statistics
Matches: 125, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
6 36 0.29
7 30 0.24
8 43 0.34
9 9 0.07
10 7 0.06
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:237056 original size:8 final size:8
Alignment explanation
Indices: 237033--237204 Score: 142
Period size: 9 Copynumber: 21.0 Consensus size: 8
237023 GCATCTCTCA
237033 TCTTTTTT
1 TCTTTTTT
237041 TCTCTTTTT
1 TCT-TTTTT
237050 TCTTTTTTCT
1 TC-TTTTT-T
*
237060 TTTTTTTT
1 TCTTTTTT
237068 TCTTTTTT
1 TCTTTTTT
237076 TCTTTTTT
1 TCTTTTTT
237084 TCTTTTTT
1 TCTTTTTT
237092 TC---TTT
1 TCTTTTTT
237097 TCTTTTTT
1 TCTTTTTT
*
237105 TCATTTCATT
1 TC-TTT-TTT
237115 TCTTTTTT
1 TCTTTTTT
237123 TCCTTTCTTT
1 T-CTTT-TTT
*
237133 CCTTTTTT
1 TCTTTTTT
*
237141 T-TCTTTT
1 TCTTTTTT
*
237148 TC--CTTT
1 TCTTTTTT
237154 TCGTTTTTT
1 TC-TTTTTT
237163 TCTTTTTT
1 TCTTTTTT
*
237171 TTTTCTTTT
1 TCTT-TTTT
237180 TC-TTTTT
1 TCTTTTTT
237187 TCTTCTTTT
1 TCTT-TTTT
237196 TCTTCTTTT
1 TCTT-TTTT
237205 ATTTAGCTAT
Statistics
Matches: 136, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.04
6 5 0.04
7 12 0.09
8 51 0.38
9 53 0.39
10 10 0.07
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.81
Consensus pattern (8 bp):
TCTTTTTT
Found at i:237066 original size:18 final size:18
Alignment explanation
Indices: 237045--237204 Score: 132
Period size: 19 Copynumber: 8.6 Consensus size: 18
237035 TTTTTTTCTC
237045 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCTTTT
*
237063 TTTTTTC-TTTTT-TTCT
1 TTTTTTCTTTTTTCTTTT
237079 TTTTTTCTTTTTTTCTTTT
1 TTTTTTC-TTTTTTCTTTT
**
237098 CTTTTTT-TCATTTCATTTCT
1 -TTTTTTCTTTTTTC-TTT-T
*
237118 TTTTTTCCTTTCTTTC-CTT
1 TTTTTT-CTTT-TTTCTTTT
*
237137 TTTTTTCTTTTTCCTTTTCGT
1 TTTTTTCTTTTTTC-TTT--T
237158 TTTTTTCTTTTTT-TTTT
1 TTTTTTCTTTTTTCTTTT
*
237175 CTTTTTCTTTTTTCTTCTT
1 TTTTTTCTTTTTTCTT-TT
*
237194 TTTCTTCTTTT
1 TTTTTTCTTTT
237205 ATTTAGCTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 29
0.73 0.08 0.19
Matches are distributed among these distances:
16 10 0.09
17 21 0.18
18 23 0.20
19 34 0.30
20 8 0.07
21 14 0.12
22 4 0.04
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTTTT
Found at i:237148 original size:57 final size:53
Alignment explanation
Indices: 237045--237204 Score: 171
Period size: 56 Copynumber: 2.8 Consensus size: 53
237035 TTTTTTTCTC
237045 TTTTTTCTTTTTTCTTTTTTTTTTCTTTTTT-TCTTTTTTTCTTTTTTTCTTTTC-T
1 TTTTTTCTTTTTTC--TTTTTTTTCTTTTTTCT-TTTTTTTC-TTTTTTCTTTTCGT
* *
237100 TTTTTTCATTTCATTTCTTTTTTTCCTTTCTTTCCTTTTTTTTCTTTTTCCTTTTCGT
1 TTTTTTC-TTT--TTTCTTTTTTTTCTTT-TTT-CTTTTTTTTCTTTTTTCTTTTCGT
* *
237158 TTTTTTCTTTTTTTTTTCTTTTTCTTTTTTCTTCTTTTTCTTCTTTT
1 TTTTTTCTTTTTTCTTT-TTTTTCTTTTTTCTTTTTTTTCTT-TTTT
237205 ATTTAGCTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
54 11 0.12
55 19 0.21
56 22 0.24
57 17 0.19
58 20 0.22
59 1 0.01
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (53 bp):
TTTTTTCTTTTTTCTTTTTTTTCTTTTTTCTTTTTTTTCTTTTTTCTTTTCGT
Found at i:237155 original size:31 final size:32
Alignment explanation
Indices: 237045--237204 Score: 99
Period size: 31 Copynumber: 5.2 Consensus size: 32
237035 TTTTTTTCTC
*
237045 TTTTTTCTTTTTTCTTTT--TTT-TTTCT-TT
1 TTTTTTCTTTTTCCTTTTCCTTTCTTTCTCTT
*
237073 TTTTCTT-TTTTT-CTTTT--TTTCTTTTCTTTT
1 TTTT-TTCTTTTTCCTTTTCCTTTC-TTTCTCTT
*
237103 TTTCATTTCATTTCTT-TTTTTCCTTTCTTTC-CTT
1 TTT--TTTC-TTT-TTCCTTTTCCTTTCTTTCTCTT
* * *
237137 TTTTTTCTTTTTCCTTTTCGTTTTTTTCTTTT
1 TTTTTTCTTTTTCCTTTTCCTTTCTTTCTCTT
* * *
237169 TTTTTTCTTTTTCTTTTTTC-TTCTTTTTCTT
1 TTTTTTCTTTTTCCTTTTCCTTTCTTTCTCTT
*
237200 CTTTT
1 TTTTT
237205 ATTTAGCTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
27 8 0.08
28 9 0.08
29 7 0.07
30 7 0.07
31 29 0.27
32 24 0.23
33 3 0.03
34 11 0.10
35 4 0.04
36 4 0.04
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (32 bp):
TTTTTTCTTTTTCCTTTTCCTTTCTTTCTCTT
Found at i:237188 original size:82 final size:82
Alignment explanation
Indices: 237033--237187 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 82
237023 GCATCTCTCA
* * *
237033 TCTTTTTTTCTCTTTTTTCTTTTTTCTTTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTT
1 TCTTTTTTTCTCTTTTTTCCTTTTTCTTTCTTTTTCCTTTTTTTCTTTTTTTCTTTTTTTCTTTT
237098 CTTTTTTTCATTTCATT
66 CTTTTTTTCATTTCATT
237115 TCTTTTTTTC-CTTTCTTTCCTTTTT-TTTCTTTTTCCTTTTCGTTT-TTTTCTTT-TTTTTTTC
1 TCTTTTTTTCTCTTT-TTTCCTTTTTCTTTCTTTTTCCTTTT--TTTCTTTT-TTTCTTTTTTTC
237176 TTTTTCTTTTTT
62 -TTTTCTTTTTT
237188 CTTCTTTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
81 17 0.26
82 31 0.48
83 17 0.26
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (82 bp):
TCTTTTTTTCTCTTTTTTCCTTTTTCTTTCTTTTTCCTTTTTTTCTTTTTTTCTTTTTTTCTTTT
CTTTTTTTCATTTCATT
Found at i:237196 original size:1 final size:1
Alignment explanation
Indices: 237035--237187 Score: 63
Period size: 1 Copynumber: 153.0 Consensus size: 1
237025 ATCTCTCATC
* * * * * * * * *
237035 TTTTTTTCTCTTTTTTCTTTTTTCTTTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * ** * ** * ** ** *
237100 TTTTTTCATTTCATTTCTTTTTTTCCTTTCTTTCCTTTTTTTTCTTTTTCCTTTTCGTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
237165 TTTTTTTTTTCTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
237188 CTTCTTTTTC
Statistics
Matches: 107, Mismatches: 45, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 107 1.00
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (1 bp):
T
Found at i:237957 original size:20 final size:19
Alignment explanation
Indices: 237932--237981 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
237922 ACCCCTTTGA
237932 AAATACATGCTTTTTAATGG
1 AAATACATGCTTTTTAAT-G
*
237952 AAATACATG-ATTTTAATG
1 AAATACATGCTTTTTAATG
237970 AAGATACATGCT
1 AA-ATACATGCT
237982 CTTGGCCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (19 bp):
AAATACATGCTTTTTAATG
Found at i:242135 original size:26 final size:26
Alignment explanation
Indices: 242099--242148 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
242089 AAGAACAAGT
242099 TTTAGGAATAGGTAAAGGCATGTAGC
1 TTTAGGAATAGGTAAAGGCATGTAGC
242125 TTTAGGAATAGGTAAAGGCATGTA
1 TTTAGGAATAGGTAAAGGCATGTA
242149 AAGTCCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (26 bp):
TTTAGGAATAGGTAAAGGCATGTAGC
Found at i:244737 original size:12 final size:12
Alignment explanation
Indices: 244720--244752 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
244710 TTTGGTACTG
244720 GAAACAAGAAAA
1 GAAACAAGAAAA
244732 GAAACAAGAAAA
1 GAAACAAGAAAA
*
244744 GAAATAAGA
1 GAAACAAGA
244753 TTAAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.03
Consensus pattern (12 bp):
GAAACAAGAAAA
Found at i:251045 original size:14 final size:16
Alignment explanation
Indices: 251026--251062 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
251016 AAATTTTGGA
251026 TTTTTTG-CTTCT-TT
1 TTTTTTGCCTTCTATT
*
251040 TTTTTTGCCTTTTATT
1 TTTTTTGCCTTCTATT
251056 TTTTTTG
1 TTTTTTG
251063 AAAAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTTTGCCTTCTATT
Found at i:265206 original size:19 final size:20
Alignment explanation
Indices: 265168--265210 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
265158 GCTGAGCCTT
*
265168 TGAAAATATATGATTTTTAA
1 TGAAAATACATGATTTTTAA
265188 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
265207 TGAA
1 TGAA
265211 GATAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:269067 original size:16 final size:19
Alignment explanation
Indices: 269029--269071 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
269019 ACATCAGCTA
269029 GAATAACATGACATGAGAT
1 GAATAACATGACATGAGAT
269048 -AATAA-ATGA-ATGA-AT
1 GAATAACATGACATGAGAT
269063 GAAT-ACATG
1 GAATAACATG
269072 CTGTCATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 4 0.18
18 5 0.23
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (19 bp):
GAATAACATGACATGAGAT
Found at i:272019 original size:58 final size:58
Alignment explanation
Indices: 271908--272032 Score: 198
Period size: 58 Copynumber: 2.2 Consensus size: 58
271898 TAGTGCTAAT
* *
271908 CTGAGTATGACACATAAGGTCGTGCCACCATCTGTACTAGGTATCCTTAAGTACAATC
1 CTGAATATGACACATAAGGTCGTGCCACCATCTGTACTAGGTATACTTAAGTACAATC
*
271966 CTGAATATGACACATAAGGTCGTGTCCACCATCTGTACTATGTATACTT-AGTACAATC
1 CTGAATATGACACATAAGGTCGTG-CCACCATCTGTACTAGGTATACTTAAGTACAATC
*
272024 CCGAATATG
1 CTGAATATG
272033 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 40 0.65
59 22 0.35
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (58 bp):
CTGAATATGACACATAAGGTCGTGCCACCATCTGTACTAGGTATACTTAAGTACAATC
Done.