Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 24
Found at i:6552 original size:19 final size:19
Alignment explanation
Indices: 6510--6554 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
6500 CATATTTTCT
6510 AAATATAATATTAAACATA
1 AAATATAATATTAAACATA
* * **
6529 GAATATAATATTTATTATA
1 AAATATAATATTAAACATA
6548 AAATATA
1 AAATATA
6555 CTAAGATGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATAATATTAAACATA
Found at i:15780 original size:28 final size:28
Alignment explanation
Indices: 15740--15796 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15730 AGTGTTAATG
15740 TAAGGGGGAGTAATTTCAAAACTTGATT
1 TAAGGGGGAGTAATTTCAAAACTTGATT
15768 TAAGGGGGAGTAATTTCAAAACTTGATT
1 TAAGGGGGAGTAATTTCAAAACTTGATT
15796 T
1 T
15797 CAAAATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (28 bp):
TAAGGGGGAGTAATTTCAAAACTTGATT
Found at i:18805 original size:53 final size:52
Alignment explanation
Indices: 18691--18824 Score: 166
Period size: 53 Copynumber: 2.5 Consensus size: 52
18681 ACAGTTATCA
*
18691 AGAAATCCCT-AAAA-CTAGGCTTATCTTCTTTCAAAAATTCATTTCAAAACATC
1 AGAAACCCCTGAAAATC-AGGCTTAT-TTCTTTC-AAAATTCATTTCAAAACATC
* *
18744 ATGAAACCCCTGAAAATCAGGCTTAGTTTCTTTC-AAATTCATTTGAAATCATC
1 A-GAAACCCCTGAAAATCAGGCTTA-TTTCTTTCAAAATTCATTTCAAAACATC
18797 GAGAAACCCCTGAAAATCAGGCTTATTT
1 -AGAAACCCCTGAAAATCAGGCTTATTT
18825 TCCAAAAATC
Statistics
Matches: 73, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
52 3 0.04
53 41 0.56
54 9 0.12
55 18 0.25
56 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (52 bp):
AGAAACCCCTGAAAATCAGGCTTATTTCTTTCAAAATTCATTTCAAAACATC
Found at i:18926 original size:36 final size:36
Alignment explanation
Indices: 18879--19128 Score: 401
Period size: 36 Copynumber: 6.9 Consensus size: 36
18869 AAATCTTCTA
* *
18879 TTTCAAGGGAAACTGTCTCAAGGGAGACCAAATTTT
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
18915 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
* *
18951 TTTCAAGGGAAACAGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTG
*
18988 TTTCAAGGGAAACTGTCTCAAGGGAGACAACATTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
*
19024 TTTCAAGGGAAACTGTCTCAAGGGAGACAACATTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
*
19060 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTG
**
19097 TTTCAAGGGAAACTGTCTCAATAGAGACAAAA
1 TTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
19129 CTTTATTTTG
Statistics
Matches: 202, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
36 134 0.66
37 68 0.34
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTG
Found at i:19010 original size:15 final size:15
Alignment explanation
Indices: 18990--19081 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
18980 AAACTTTGTT
18990 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
*
19005 TCAAGGGAGACAACATTTGTT
1 TCAA-GG-GA-AAC---TGTC
19026 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
*
19041 TCAAGGGAGACAACATTTGTT
1 TCAA-GG-GA-AAC---TGTC
19062 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
19077 TCAAG
1 TCAAG
19082 AGAGACAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
15 19 0.31
16 4 0.07
17 4 0.07
18 12 0.20
19 4 0.07
20 4 0.07
21 14 0.23
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:19013 original size:73 final size:72
Alignment explanation
Indices: 18879--19128 Score: 401
Period size: 73 Copynumber: 3.4 Consensus size: 72
18869 AAATCTTCTA
* * *
18879 TTTCAAGGGAAACTGTCTCAAGGGAGACCAAATTTTTTTCAAGGGAAACTGTCTCAAGGGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACA
18944 AAATTTG
66 AAATTTG
*
18951 TTTCAAGGGAAACAGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
*
19016 AACATTTG
65 AAAATTTG
* * *
19024 TTTCAAGGGAAACTGTCTCAAGGGAGACAACATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACA
19089 AAACTTTG
66 AAA-TTTG
*
19097 TTTCAAGGGAAACTGTCTCAATAGAGACAAAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
19129 CTTTATTTTG
Statistics
Matches: 163, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
72 63 0.39
73 100 0.61
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (72 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACA
AAATTTG
Found at i:19029 original size:109 final size:108
Alignment explanation
Indices: 18855--19127 Score: 438
Period size: 109 Copynumber: 2.5 Consensus size: 108
18845 AATGAAACTA
* * * *
18855 TCTCAAGCGAGATAAAATCTTCTATTTCAAGGGAAACTGTCTCAAGGGAGACCAAATTTTTTTCA
1 TCTCAAGAGAGACAAAA-CTT-TGTTTCAAGGGAAACTGTCTCAAGGGAGA-CAAATTTGTTTCA
18920 AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAG
63 AGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAG
18966 TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAACATTTGTTTCAAG
1 TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAA-ATTTGTTTCAAG
* *
19031 GGAAACTGTCTCAAGGGAGACAACATTTGTTTCAAGGGAAACTG
65 GGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAG
**
19075 TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAATAGAGACAAA
1 TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAA
19128 ACTTTATTTT
Statistics
Matches: 153, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
108 4 0.03
109 131 0.86
110 3 0.02
111 15 0.10
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (108 bp):
TCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAATTTGTTTCAAGG
GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAG
Found at i:19221 original size:83 final size:83
Alignment explanation
Indices: 19068--19225 Score: 219
Period size: 83 Copynumber: 1.9 Consensus size: 83
19058 TGTTTCAAGG
* * *
19068 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAATAGAGACAAAACTTT
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTT
19133 ATTTTGAGTAGTTGAGTA
66 ATTTTGAGTAGTTGAGTA
* * ** *
19151 GAAACTGTCTCAAGAGATACGAAACTTTGTTTTGAGTATAAACAGTCTCAAGAGAGACAAAA-TT
1 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAG-AGAAACAGTCTCAAGAGAGACAAAACTT
*
19215 TGTTTTGAGTA
65 TATTTTGAGTA
19226 AAAATTGTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
83 44 0.68
84 21 0.32
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (83 bp):
GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTT
ATTTTGAGTAGTTGAGTA
Found at i:19245 original size:37 final size:37
Alignment explanation
Indices: 18888--19251 Score: 202
Period size: 36 Copynumber: 9.7 Consensus size: 37
18878 ATTTCAAGGG
* * * **
18888 AAACTGTCTCAAGGGAGACCAAATTT-TTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTT-GAGTAA
* ** **
18924 AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
* ** **
18960 AAACAGTCTCAAGAGAGACAAAACTTTGTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTTGAGTAA
* * ** **
18997 AAACTGTCTCAAGGGAGACAACATTTGTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
* * ** **
19033 AAACTGTCTCAAGGGAGACAACATTTGTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
** **
19069 AAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAG-GG
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTTGAGTAA
* *
19106 AAACTGTCTCAATAGAGACAAAACTTTATTTTGAGTAGTTGAGTA
1 AAACTGTCTCAAGAGAGACAAAA-TTTGTTTT--G-AG-T-A--A
* * *
19151 GAAACTGTCTCAAGAGATACGAAACTTTGTTTTGAGTAT
1 -AAACTGTCTCAAGAGAGAC-AAAATTTGTTTTGAGTAA
*
19190 AAACAGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
1 AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
* * *
19227 AAATTGTCTGAAGTGAGACAAAATT
1 AAACTGTCTCAAGAGAGACAAAATT
19252 CATTTAAAGG
Statistics
Matches: 287, Mismatches: 28, Indels: 25
0.84 0.08 0.07
Matches are distributed among these distances:
36 121 0.42
37 115 0.40
38 17 0.06
40 2 0.01
41 1 0.00
42 1 0.00
43 2 0.01
44 1 0.00
46 24 0.08
47 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAATTTGTTTTGAGTAA
Found at i:19415 original size:104 final size:101
Alignment explanation
Indices: 19188--19470 Score: 369
Period size: 104 Copynumber: 2.8 Consensus size: 101
19178 TGTTTTGAGT
*
19188 ATAAACAGTCTCAAGAGAGACAAAATTTGTTTTGAGTAAAAATTGTCT-GAAGTGAGACAAAA-T
1 ATAAACTGTCTCAAG-GAGACAAAATTT-TTTTGAGTAAAAATTGTCTCG-AG-GAGACAAAATT
* ** *
19251 TCATTT-AAAGGGAAACGTTCTCAAAGTTTATGTTTCAAG
62 TTATTTCTTAGAGAAACGTTCTCAAAGTTTATGTTTCAAG
* *
19290 AGAAATTGTCTCAAGGGAGACAAAATTTATTTTGAGTAAAAATTGTCTCGAGGGAGACAAAATTT
1 ATAAACTGTCTCAA-GGAGACAAAATTT-TTTTGAGTAAAAATTGTCTCGA-GGAGACAAAATTT
19355 TATTTCTTAGAGAAACGTTCTCAAAGTTTATGTTTCAAG
63 TATTTCTTAGAGAAACGTTCTCAAAGTTTATGTTTCAAG
*
19394 ATAAACTGTCTCAAGGTAGACAAAAATTTTTTTGAGTAAAAATTGTCTCGA--AAACAAAATTTT
1 ATAAACTGTCTCAAGG-AGAC-AAAATTTTTTTGAGTAAAAATTGTCTCGAGGAGACAAAATTTT
*
19457 GTTTCTTAGAGAAA
64 ATTTCTTAGAGAAA
19471 AACAATCTCA
Statistics
Matches: 162, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
101 24 0.15
102 52 0.32
103 11 0.07
104 68 0.42
105 7 0.04
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (101 bp):
ATAAACTGTCTCAAGGAGACAAAATTTTTTTGAGTAAAAATTGTCTCGAGGAGACAAAATTTTAT
TTCTTAGAGAAACGTTCTCAAAGTTTATGTTTCAAG
Found at i:19821 original size:19 final size:19
Alignment explanation
Indices: 19799--19857 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
19789 GTTCCGAAGG
19799 AAAATGTCTCAAGTGAGAC
1 AAAATGTCTCAAGTGAGAC
* *
19818 AAAATTTGTTTTAA--GAGA-
1 AAAA--TGTCTCAAGTGAGAC
19836 AAAATGTCTCAAGTGAGAC
1 AAAATGTCTCAAGTGAGAC
19855 AAA
1 AAA
19858 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
16 6 0.19
18 8 0.26
19 11 0.35
21 6 0.19
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (19 bp):
AAAATGTCTCAAGTGAGAC
Found at i:19843 original size:37 final size:36
Alignment explanation
Indices: 19799--20042 Score: 141
Period size: 37 Copynumber: 7.1 Consensus size: 36
19789 GTTCCGAAGG
19799 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGA-A
* *
19836 AAAATGTCTCAAGTGAGACAAATTTTTTTTTAAG-A
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAA
* ** * *
19871 AAAA-----CAACTTTG---AAATTTGTGTTCCAA-AGG
1 AAAATGTCTCAAGTGAGACAAAATTTGT-TT-TAAGA-A
* *
19901 AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAG-A
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAA
* ** *
19936 AAAA-----CAACTTTG---AAATTTGTGTTTCGAAG-G
1 AAAATGTCTCAAGTGAGACAAAATTTGT-TTT--AAGAA
*
19966 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGA-A
20003 AAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAA
1 AAAATGTCTCAAGTGAGACAAAATTTG-TTTTAAGAA
20040 AAA
1 AAA
20043 TAACTTTGAA
Statistics
Matches: 155, Mismatches: 25, Indels: 54
0.66 0.11 0.23
Matches are distributed among these distances:
27 14 0.09
28 5 0.03
29 2 0.01
30 20 0.13
35 21 0.14
36 2 0.01
37 67 0.43
38 24 0.15
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (36 bp):
AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAA
Found at i:19853 original size:18 final size:18
Alignment explanation
Indices: 19799--19858 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
19789 GTTCCGAAGG
19799 AAAATGTCTCAAGTGAGA
1 AAAATGTCTCAAGTGAGA
* *
19817 CAAAATTTGTTTTAA--GAGA
1 -AAAA--TGTCTCAAGTGAGA
19836 AAAATGTCTCAAGTGAGA
1 AAAATGTCTCAAGTGAGA
*
19854 CAAAT
1 AAAAT
19859 TTTTTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
16 6 0.19
18 12 0.38
19 8 0.25
21 6 0.19
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (18 bp):
AAAATGTCTCAAGTGAGA
Found at i:19925 original size:102 final size:103
Alignment explanation
Indices: 19595--19939 Score: 543
Period size: 103 Copynumber: 3.4 Consensus size: 103
19585 ATTTTGGGAG
* * *
19595 AATGTCTCAAGCGAGAC-AATGTTTGCTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTATT
1 AATGTCTCAAGTGAGACGAA-ATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTATT
* *
19659 TTTAAGAAAAATAACTTAGAAATTTGTGTTCCGAAGGAA
65 TTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAA
* * * *
19698 AATGTCTCAAGTGAGACGAAATTTATTTAAAGAGAAAAATGTCTCAAATGAGACAAAATTTGTTT
1 AATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTATTT
19763 TTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAA
66 TTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAA
* *
19801 AATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAC-AAATTTTTTT
1 AATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTATTT
*
19865 TTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAGGAA
66 TTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAA
*
19903 AATGTCTTAAGTGAGACGAAATTTGTTTTAAGA-AAAA
1 AATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAA
19940 CAACTTTGAA
Statistics
Matches: 224, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
101 4 0.02
102 77 0.34
103 141 0.63
104 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (103 bp):
AATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTATTT
TTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGGAA
Found at i:19932 original size:65 final size:65
Alignment explanation
Indices: 19836--20005 Score: 279
Period size: 65 Copynumber: 2.6 Consensus size: 65
19826 TTTTAAGAGA
*
19836 AAAATGTCTCAAGTGAGAC-AAATTTTTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAG
1 AAAATGTCTCAAGTGAGACGAAA-TTTGTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAG
19900 G
65 G
* * *
19901 AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTGTGTTTCGAAGG
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAGG
19966 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAA
1 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGA-AAAA
20006 ATGTCTCAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
65 91 0.93
66 7 0.07
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (65 bp):
AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAAGG
Found at i:19948 original size:167 final size:169
Alignment explanation
Indices: 19715--20109 Score: 629
Period size: 167 Copynumber: 2.3 Consensus size: 169
19705 CAAGTGAGAC
* *
19715 GAAATTTAT-TT--AAAGAGAAAAATGTCTCAAATGAGACAAAATTTGTTTTTAAGAAAAACAAC
1 GAAATTTATATTCCAAAG-GAAAAATGTCTCAAGTGAGACGAAATTTG-TTTTAAGAAAAACAAC
19777 TTTGAAATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATG
64 TTTGAAATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATG
*
19842 TCTCAAGTGAGAC-AAATTTTTTTTTAAGAAAAACAACTTT
129 TCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTT
* * *
19882 GAAATTTGTGTTCCAAAGG-AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTT
1 GAAATTTATATTCCAAAGGAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTT
* *
19946 TGAAATTTGTGTTTCGAAGGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTC
66 TGAAATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATGTC
*
20011 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAATAACTTT
131 TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTT
**
20050 GAAATTTATATTCTGAAGGAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAA
1 GAAATTTATATTCCAAAGGAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGA-AAAA
20110 ATGTCTCTAG
Statistics
Matches: 209, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
167 100 0.48
168 66 0.32
169 35 0.17
170 8 0.04
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (169 bp):
GAAATTTATATTCCAAAGGAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTT
TGAAATTTGTGTTCCGAAGGAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATGTC
TCAAGTGAGACAAAATTTGTTTTTAAGAAAAACAACTTT
Found at i:19971 original size:270 final size:272
Alignment explanation
Indices: 19630--20125 Score: 834
Period size: 270 Copynumber: 1.8 Consensus size: 272
19620 CTTTAAGAGA
* *
19630 AAAATGTCTCAAGTGAGACAAAATTTATTTTTAAGAAAAATAACTTAGAAATTTGTGTTCCGAAG
1 AAAATGTCTCAAGTGAGACAAAATTTAGTTTTAAGAAAAACAACTTAGAAATTTGTGTTCCGAAG
19695 GAAAATGTCTCAAGTGAGACGAAATTTATTTAAAGAGAAAAATGTCTCAAATGAGACAAAATTTG
66 GAAAATGTCTCAAGTGAGACGAAATTTATTTAAAGAGAAAAATGTCTCAAATGAGACAAAATTTG
* *
19760 TTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAAGG-AAAATGTCTCAAGTGAGACAAAATT
131 TTTTTAAGAAAAACAACTTTGAAATTTATATTCCGAAGGAAAAATGTCTCAAGTGAGACAAAATT
*
19824 TGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAATTTTTTTTTAAGAAAAACAACTTTGAAATTT
196 TGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAATTTTTTTTTAAGAAAAACAACTTTGAAATTT
19889 GTGTTCCAAAGG
261 GTGTTCCAAAGG
* * * *
19901 AAAATGTCTTAAGTGAGACGAAATTT-GTTTTAAGAAAAACAACTTTGAAATTTGTGTTTCGAAG
1 AAAATGTCTCAAGTGAGACAAAATTTAGTTTTAAGAAAAACAACTTAGAAATTTGTGTTCCGAAG
* * *
19965 GAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTG
66 GAAAATGTCTCAAGTGAGACGAAATTTATTTAAAGAGAAAAATGTCTCAAATGAGACAAAATTTG
* * *
20030 TTTTTAAGAAAAATAACTTTGAAATTTATATTCTGAAGGAAAAATGTCTCAAGTGAGACGAAATT
131 TTTTTAAGAAAAACAACTTTGAAATTTATATTCCGAAGGAAAAATGTCTCAAGTGAGACAAAATT
*
20095 TGTTTTAAGAGAAAAATGTCTCTAGCGAGAC
196 TGTTTTAAGAGAAAAATGTCTCAAGCGAGAC
20126 GATATTTTGT
Statistics
Matches: 208, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
270 131 0.63
271 77 0.37
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.31
Consensus pattern (272 bp):
AAAATGTCTCAAGTGAGACAAAATTTAGTTTTAAGAAAAACAACTTAGAAATTTGTGTTCCGAAG
GAAAATGTCTCAAGTGAGACGAAATTTATTTAAAGAGAAAAATGTCTCAAATGAGACAAAATTTG
TTTTTAAGAAAAACAACTTTGAAATTTATATTCCGAAGGAAAAATGTCTCAAGTGAGACAAAATT
TGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAATTTTTTTTTAAGAAAAACAACTTTGAAATTT
GTGTTCCAAAGG
Found at i:20007 original size:102 final size:103
Alignment explanation
Indices: 19901--20137 Score: 354
Period size: 104 Copynumber: 2.3 Consensus size: 103
19891 GTTCCAAAGG
* *
19901 AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTGTGTT-TCGAAG
1 AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTATATTCT-GAAG
19965 G-AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
65 GAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
* * *
20003 AAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGAAAAATAACTTTGAAATTTATATTCTGAAG
1 AAAATGTCTTAAGTGAGACGAAATTTG-TTTTAAGAAAAACAACTTTGAAATTTATATTCTGAAG
20068 GAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
65 GAAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
* *
20107 AAAATGTCTCT-AGCGAGACGATATTTTGTTT
1 AAAATGTCT-TAAGTGAGACGA-AATTTGTTT
20138 CGAGAGAAAC
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
102 25 0.21
103 33 0.27
104 58 0.48
105 5 0.04
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.33
Consensus pattern (103 bp):
AAAATGTCTTAAGTGAGACGAAATTTGTTTTAAGAAAAACAACTTTGAAATTTATATTCTGAAGG
AAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
Found at i:20111 original size:37 final size:38
Alignment explanation
Indices: 20068--20146 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
20058 TATTCTGAAG
* *
20068 GAAAAATGTCTCAAGTGAGACGA-AATTTGTTTTAAGA
1 GAAAAATGTCTCAAGCGAGACGATAATTTGTTTCAAGA
* * *
20105 GAAAAATGTCTCTAGCGAGACGATATTTTGTTTCGAGA
1 GAAAAATGTCTCAAGCGAGACGATAATTTGTTTCAAGA
20143 GAAA
1 GAAA
20147 CAACACCCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 21 0.58
38 15 0.42
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (38 bp):
GAAAAATGTCTCAAGCGAGACGATAATTTGTTTCAAGA
Found at i:27633 original size:22 final size:22
Alignment explanation
Indices: 27582--27634 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
27572 GCGCAATTCT
*
27582 GACTATCGCATTGTGATTTTCC
1 GACTATCGCATTGAGATTTTCC
* * * *
27604 AAAT-TCGCGTTGAGATTTTTC
1 GACTATCGCATTGAGATTTTCC
27625 GACTATCGCA
1 GACTATCGCA
27635 ATGCGAATAT
Statistics
Matches: 22, Mismatches: 8, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (22 bp):
GACTATCGCATTGAGATTTTCC
Found at i:27680 original size:20 final size:20
Alignment explanation
Indices: 27657--27762 Score: 113
Period size: 20 Copynumber: 5.3 Consensus size: 20
27647 AAATCGCAAT
*
27657 GCGATTATGAGTATCACAAC
1 GCGATTATGACTATCACAAC
*
27677 GCGATTCTGACTATCACAAC
1 GCGATTATGACTATCACAAC
* *
27697 GAGATTATGACTATCGCAAC
1 GCGATTATGACTATCACAAC
* * *
27717 GCGATTCTGACTGTCGCAAC
1 GCGATTATGACTATCACAAC
** * *
27737 GCGATGCTGACTATCGCAAT
1 GCGATTATGACTATCACAAC
27757 GCGATT
1 GCGATT
27763 TTCAAAGCGC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (20 bp):
GCGATTATGACTATCACAAC
Found at i:27717 original size:40 final size:40
Alignment explanation
Indices: 27659--27762 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
27649 ATCGCAATGC
* *
27659 GATTATGAGTATCACAACGCGATTCTGACTATCACAACGA
1 GATTATGACTATCGCAACGCGATTCTGACTATCACAACGA
* * *
27699 GATTATGACTATCGCAACGCGATTCTGACTGTCGCAACGC
1 GATTATGACTATCGCAACGCGATTCTGACTATCACAACGA
** *
27739 GATGCTGACTATCGCAATGCGATT
1 GATTATGACTATCGCAACGCGATT
27763 TTCAAAGCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (40 bp):
GATTATGACTATCGCAACGCGATTCTGACTATCACAACGA
Found at i:27961 original size:22 final size:22
Alignment explanation
Indices: 27936--27978 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27926 GGCGACATCC
27936 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
27958 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
27979 CCTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:28388 original size:19 final size:20
Alignment explanation
Indices: 28364--28449 Score: 88
Period size: 19 Copynumber: 4.3 Consensus size: 20
28354 AGAATCGCAA
28364 TGCGATTAT-AGTTTCGTGT
1 TGCGATTATCAGTTTCGTGT
* *
28383 TGCGATT-TTAGTTTCGCGT
1 TGCGATTATCAGTTTCGTGT
*
28402 TGCGA-TAGTCATTTTCGTGT
1 TGCGATTA-TCAGTTTCGTGT
* *
28422 TGCGATTTTCATTTTTCGTGT
1 TGCGATTATCA-GTTTCGTGT
28443 TGCGATT
1 TGCGATT
28450 TTAAGTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.04
19 21 0.37
20 17 0.30
21 17 0.30
ACGTcount: A:0.13, C:0.14, G:0.24, T:0.49
Consensus pattern (20 bp):
TGCGATTATCAGTTTCGTGT
Found at i:28423 original size:20 final size:19
Alignment explanation
Indices: 28375--28450 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 19
28365 GCGATTATAG
* *
28375 TTTCGTGTTGCGATTTTAG
1 TTTCGTGTTGCGATTTCAT
* *
28394 TTTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGAT-TTCAT
28414 TTTCGTGTTGCGATTTTCATT
1 TTTCGTGTTGCGA-TTTCA-T
28435 TTTCGTGTTGCGATTT
1 TTTCGTGTTGCGATTT
28451 TAAGTTTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
19 13 0.27
20 20 0.42
21 15 0.31
ACGTcount: A:0.11, C:0.14, G:0.24, T:0.51
Consensus pattern (19 bp):
TTTCGTGTTGCGATTTCAT
Found at i:28439 original size:21 final size:20
Alignment explanation
Indices: 28375--28451 Score: 102
Period size: 21 Copynumber: 3.9 Consensus size: 20
28365 GCGATTATAG
*
28375 TTTCGTGTTGCGATTTT-AG
1 TTTCGTGTTGCGATTTTCAT
* **
28394 TTTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATTTTCAT
28414 TTTCGTGTTGCGATTTTCATT
1 TTTCGTGTTGCGATTTTCA-T
28435 TTTCGTGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
28452 AAGTTTCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.29
20 17 0.35
21 18 0.37
ACGTcount: A:0.10, C:0.14, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:30209 original size:18 final size:18
Alignment explanation
Indices: 30186--30235 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
30176 TTTACTCGTA
*
30186 ATTTCACTTAGATTAACT
1 ATTTCACTTAGATTAACC
30204 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
30222 ATTTCACTTAGATT
1 ATTTCACTTAGATT
30236 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:30408 original size:20 final size:20
Alignment explanation
Indices: 30383--30430 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
30373 TAGTTTACTT
30383 TCGCAACGCGAAAATAACTA
1 TCGCAACGCGAAAATAACTA
** *
30403 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATAACTA
30423 TCGCAACG
1 TCGCAACG
30431 AAAGAATCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATAACTA
Found at i:30505 original size:20 final size:20
Alignment explanation
Indices: 30476--30566 Score: 114
Period size: 20 Copynumber: 4.7 Consensus size: 20
30466 ATTCTCTCGA
**
30476 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCATTTTCGCGT
* *
30496 TGCAATAGTCATTTTTGCGT
1 TGCGATAGTCATTTTCGCGT
30516 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCGT
*
30536 TGCGATAGTCA--TTCGTGT
1 TGCGATAGTCATTTTCGCGT
*
30554 TACGATAGTCATT
1 TGCGATAGTCATT
30567 CGTGTTGCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 16 0.26
20 45 0.74
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
TGCGATAGTCATTTTCGCGT
Found at i:30559 original size:18 final size:18
Alignment explanation
Indices: 30476--30577 Score: 96
Period size: 20 Copynumber: 5.3 Consensus size: 18
30466 ATTCTCTCGA
*
30476 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTC--ATTCGTGT
* * *
30496 TGCAATAGTCATTTTTGCGT
1 TGCGATAGTCA--TTCGTGT
*
30516 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCA--TTCGTGT
30536 TGCGATAGTCATTCGTGT
1 TGCGATAGTCATTCGTGT
*
30554 TACGATAGTCATTCGTGT
1 TGCGATAGTCATTCGTGT
30572 TGCGAT
1 TGCGAT
30578 TTTAAGTTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
18 29 0.40
20 44 0.60
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (18 bp):
TGCGATAGTCATTCGTGT
Found at i:31107 original size:18 final size:19
Alignment explanation
Indices: 31068--31109 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
31058 CTCACCTGTC
31068 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
31089 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
31107 ATC
1 ATC
31110 ATCCCTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:32601 original size:14 final size:14
Alignment explanation
Indices: 32565--32626 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
32555 TTGTTTGTTT
*
32565 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
32579 AATTCATTTGTAAA
1 AATTGATTTGTAAA
* *
32593 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
32608 TATTGATGTGTAAA
1 AATTGATTTGTAAA
32622 TAATT
1 -AATT
32627 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:32777 original size:20 final size:20
Alignment explanation
Indices: 32740--32778 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32730 ACGCTAAACT
*
32740 CAAAATCACAATGCGAAAGA
1 CAAAATCACAACGCGAAAGA
* *
32760 CAAAATCGCAACGTGAAAG
1 CAAAATCACAACGCGAAAG
32779 TCAATTCACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.21, G:0.18, T:0.10
Consensus pattern (20 bp):
CAAAATCACAACGCGAAAGA
Found at i:32846 original size:20 final size:20
Alignment explanation
Indices: 32821--33099 Score: 146
Period size: 20 Copynumber: 14.8 Consensus size: 20
32811 GCGATTTTCT
* *
32821 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCA
* *
32841 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCA
*
32861 CGTTGCGATACTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
32881 CATTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
* *
32901 CATTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCA
** * *
32915 CGTTGCTTTAATCAAATAGC-
1 CGTTGCGATAGTCAAAT-TCA
* **
32935 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCA
* *
32955 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCA
**
32975 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCA
* *
32989 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCA
* *
33009 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* *
33029 CGTTGCGAT--T---TTTGA
1 CGTTGCGATAGTCAAATTCA
* *
33044 -GTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* *
33063 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
*
33083 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
33100 GAATGTGTAA
Statistics
Matches: 204, Mismatches: 35, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
14 29 0.14
15 2 0.01
16 3 0.01
18 2 0.01
19 2 0.01
20 165 0.81
21 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:32867 original size:54 final size:54
Alignment explanation
Indices: 32777--33091 Score: 235
Period size: 54 Copynumber: 5.7 Consensus size: 54
32767 GCAACGTGAA
* * * *
32777 AGTC-AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGAT
* * * * *
32830 AGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCACATTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCTCGTTGCGAT
* * ** *** * * * * **
32890 AGTCAAATTCACATTGCGATTTTCTCGTT-GCTTTAATCAAATAGC-CGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT--GCGATTTTCTCGTTGCGAT
* * *
32944 AATCAAATTTGCGTTGCGATAGACAAATTCGCGTTGCGATTTT-TGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGAT
* * *
32998 AGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGAT
* *
33052 AATCAAATTCGCGTTGCAATAGTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
33092 ATTCAAATGA
Statistics
Matches: 201, Mismatches: 49, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
53 7 0.03
54 149 0.74
55 5 0.02
56 1 0.00
59 5 0.02
60 32 0.16
61 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (54 bp):
AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGAT
Found at i:32910 original size:94 final size:94
Alignment explanation
Indices: 32781--32983 Score: 289
Period size: 94 Copynumber: 2.2 Consensus size: 94
32771 CGTGAAAGTC
* * * *
32781 AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCACGTTGCGATAGTCAAATACACATTGCGATTTTCTCGTTGCGATAATCAAATACCCGTTG
*
32846 CGATAATCAAATTCGCGTTGCGATACTCA
66 CGATAATCAAATTCGCGTTGCGATACACA
* * ** *
32875 AATTCACATTGCGATAGTCAAATTCACATTGCGATTTTCTCGTTGCTTTAATCAAATAGCCGTTG
1 AATTCACGTTGCGATAGTCAAATACACATTGCGATTTTCTCGTTGCGATAATCAAATACCCGTTG
* *
32940 CGATAATCAAATTTGCGTTGCGATAGACA
66 CGATAATCAAATTCGCGTTGCGATACACA
*
32969 AATTCGCGTTGCGAT
1 AATTCACGTTGCGAT
32984 TTTTGCGTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (94 bp):
AATTCACGTTGCGATAGTCAAATACACATTGCGATTTTCTCGTTGCGATAATCAAATACCCGTTG
CGATAATCAAATTCGCGTTGCGATACACA
Found at i:32919 original size:74 final size:74
Alignment explanation
Indices: 32841--33037 Score: 236
Period size: 74 Copynumber: 2.7 Consensus size: 74
32831 GTCAAATACC
* * * *
32841 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCACATTGCGATAGTCAAATTCACATTG
1 CGTTGCGATAATCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCACATTG
32906 CGATTTTCT-
66 CGATTTT-TG
** * * * *
32915 CGTTGCTTTAATCAAA-TAGCCGTTGCGATAATCAAATTTGCGTTGCGATAGACAAATTCGCGTT
1 CGTTGCGATAATCAAATTCG-CGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCACATT
32979 GCGATTTTTG
65 GCGATTTTTG
* * * *
32989 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGAT
33038 TTTTGAGTTG
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
73 3 0.03
74 97 0.95
75 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (74 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTCACATTG
CGATTTTTG
Found at i:32994 original size:34 final size:34
Alignment explanation
Indices: 32951--33017 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
32941 GATAATCAAA
32951 TTTGCGTTGCGATAGACAAATTCGCGTTGCGATT
1 TTTGCGTTGCGATAGACAAATTCGCGTTGCGATT
* * *
32985 TTTGCGTTGCGATAGTCATATTCGTGTTGCGAT
1 TTTGCGTTGCGATAGACAAATTCGCGTTGCGAT
33018 AGTCAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (34 bp):
TTTGCGTTGCGATAGACAAATTCGCGTTGCGATT
Found at i:33321 original size:140 final size:140
Alignment explanation
Indices: 33069--33339 Score: 497
Period size: 140 Copynumber: 1.9 Consensus size: 140
33059 TTCGCGTTGC
* *
33069 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATC
1 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATC
33134 ATAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAATGTTTACACATA
66 ATAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAATGTTTACACATA
33199 AAATACACAT
131 AAATACACAT
*
33209 AATAGTCAAATTCGCGTTTCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATC
1 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATC
* *
33274 ATAGCAATGTTCAAACTCAAGTTACTAATACATGTCTAACTGAAAATGTTAAATGTTTACACATA
66 ATAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAATGTTTACACATA
33339 A
131 A
33340 TACAACGTTT
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (140 bp):
AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATC
ATAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAATGTTTACACATA
AAATACACAT
Found at i:33422 original size:18 final size:18
Alignment explanation
Indices: 33399--33433 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33389 AAGCCGGTTA
*
33399 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
33417 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
33434 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:35488 original size:14 final size:14
Alignment explanation
Indices: 35469--35505 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
35459 TCCCGTGGAA
35469 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
35483 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
35497 TTCTTCTTC
1 TT-TTCTTC
35506 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:35653 original size:24 final size:24
Alignment explanation
Indices: 35626--35703 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
35616 CTGTTTCATC
* *
35626 ATCAAAATTCAGGTATTGATCAAT
1 ATCAAAATTCAGGTATTGACCAAG
*
35650 ATCAAAA-TCCGAGTATTGACCAAG
1 ATCAAAATTCAG-GTATTGACCAAG
* * *
35674 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCAGGTATTGACCAAG
35698 ATCAAA
1 ATCAAA
35704 TTTTGAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.07
24 41 0.89
25 2 0.04
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATTCAGGTATTGACCAAG
Found at i:36548 original size:20 final size:20
Alignment explanation
Indices: 36523--36634 Score: 161
Period size: 20 Copynumber: 5.6 Consensus size: 20
36513 GAAATTCAGT
36523 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
36543 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
36563 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
* *
36583 GTTACGATAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
* * *
36603 ATTGCGATAGTCATAATCGC
1 GTTGCGACAGTCAGAATCGC
* *
36623 ATTGCGATAGTC
1 GTTGCGACAGTC
36635 GGAAAATCGT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (20 bp):
GTTGCGACAGTCAGAATCGC
Found at i:41359 original size:90 final size:89
Alignment explanation
Indices: 41205--41378 Score: 285
Period size: 90 Copynumber: 1.9 Consensus size: 89
41195 CTAACACACT
*
41205 CTTTTATAGCCAAGTTACCCTAATCATATTACGGTTTTTATTATTTCAAATTAATTAAAACTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAAACTATA
*
41270 TTTAATTAATTAGAATTTAATAATC
66 TTTAATTAATT-GAAATTAATAATC
* * * *
41295 CTTTTATATCCAAGTTACCCTAATTATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAAACTATA
41360 TTTAATTAATTGAAATTAA
66 TTTAATTAATTGAAATTAA
41379 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
CTTTTATAGCCAAGTTACCCTAATCATATTACGGATTTTATTATTTCAAATTAATTAAAACTATA
TTTAATTAATTGAAATTAATAATC
Found at i:50261 original size:22 final size:22
Alignment explanation
Indices: 50233--50301 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
50223 CAAAGTTTGT
50233 AGATTTTCAGGGGAAGGACATG
1 AGATTTTCAGGGGAAGGACATG
50255 AGATTTTCAGGGGAAGGACATG
1 AGATTTTCAGGGGAAGGACATG
* * *
50277 AGATCTTCA-GTGAAGGACATA
1 AGATTTTCAGGGGAAGGACATG
50298 AGAT
1 AGAT
50302 GTTGGAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 14 0.32
22 30 0.68
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (22 bp):
AGATTTTCAGGGGAAGGACATG
Found at i:52775 original size:11 final size:12
Alignment explanation
Indices: 52750--52787 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
52740 AAGTTGTAGT
*
52750 TAAAATAAAAAA
1 TAAAAGAAAAAA
*
52762 TAAAA-AATAAA
1 TAAAAGAAAAAA
52773 TAAAAGAAAAAA
1 TAAAAGAAAAAA
52785 TAA
1 TAA
52788 TTAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
TAAAAGAAAAAA
Found at i:52776 original size:23 final size:24
Alignment explanation
Indices: 52750--52805 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
52740 AAGTTGTAGT
52750 TAAAATAAAAAATAA-AAAATAAA
1 TAAAATAAAAAATAATAAAATAAA
* *
52773 TAAAAGAAAAAATAATTAAATAAA
1 TAAAATAAAAAATAATAAAATAAA
* *
52797 CAAATTAAA
1 TAAAATAAA
52806 GAGATTAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
TAAAATAAAAAATAATAAAATAAA
Found at i:52801 original size:16 final size:15
Alignment explanation
Indices: 52751--52801 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
52741 AGTTGTAGTT
52751 AAAATAAA-AAATAA
1 AAAATAAATAAATAA
*
52765 AAAATAAATAAAAGAA
1 AAAATAAAT-AAATAA
*
52781 AAAATAATTAAATAA
1 AAAATAAATAAATAA
52796 ACAAAT
1 A-AAAT
52802 TAAAGAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 8 0.26
15 6 0.19
16 17 0.55
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAATAA
Found at i:55360 original size:19 final size:19
Alignment explanation
Indices: 55337--55374 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
55327 CAAAAAACTA
*
55337 AAAAAGAATAAAAAGAAAAT
1 AAAAA-AATAAAAACAAAAT
55357 AAAAAAATAAAAACAAAA
1 AAAAAAATAAAAACAAAA
55375 ATATAACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAAAATAAAAACAAAAT
Found at i:55375 original size:20 final size:20
Alignment explanation
Indices: 55337--55377 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
55327 CAAAAAACTA
*
55337 AAAAAGAATAAAAAGAAAAT
1 AAAAAGAATAAAAAAAAAAT
55357 AAAAA-AATAAAAACAAAAAT
1 AAAAAGAATAAAAA-AAAAAT
55377 A
1 A
55378 TAACGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAGAATAAAAAAAAAAT
Found at i:61058 original size:19 final size:19
Alignment explanation
Indices: 61036--61088 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
61026 GTTGTGGTTA
61036 AAATAAAAAAATAAGAATT
1 AAATAAAAAAATAAGAATT
*
61055 AAATAAAAGAAAAATAATAATT
1 AAAT--AA-AAAAATAAGAATT
*
61077 AAATAAACAAAT
1 AAATAAAAAAAT
61089 TAAAGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 9 0.31
20 2 0.07
21 2 0.07
22 16 0.55
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAATAAAAAAATAAGAATT
Found at i:61070 original size:22 final size:22
Alignment explanation
Indices: 61042--61083 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61032 GTTAAAATAA
61042 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
61064 AAAAATAATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
61084 CAAATTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:61812 original size:75 final size:77
Alignment explanation
Indices: 61731--61873 Score: 218
Period size: 76 Copynumber: 1.9 Consensus size: 77
61721 AAAAAATAAT
* ** *
61731 ATAATATTCTAATTCCTATTTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGAT-AAAGA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAGA
61794 TAAAATATAAAA
66 TAAAATATAAAA
* *
61806 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAATATAAAAGA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAGA
61871 TAA
66 TAA
61874 TGTTTAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 24 0.40
76 28 0.47
77 8 0.13
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (77 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAAGA
TAAAATATAAAA
Found at i:68815 original size:31 final size:31
Alignment explanation
Indices: 68777--68904 Score: 129
Period size: 31 Copynumber: 4.1 Consensus size: 31
68767 GAACCTCGAC
* * *
68777 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCTCGAAGAACATAGGTA
*
68808 AACTGTCCATATGT-TCGTTAGAACATAGGTA
1 AACTGTCCATATGTCTCG-AAGAACATAGGTA
*
68839 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTCTCGAAGA-ACATAGGTA
*
68870 ATTCTGTCCATATGT-TCTGTAA-AACATAGGTA
1 A-ACTGTCCATATGTCTC-G-AAGAACATAGGTA
68902 AAC
1 AAC
68905 CCTCGAATCT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
30 3 0.04
31 50 0.61
32 26 0.32
33 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTCTCGAAGAACATAGGTA
Found at i:68896 original size:63 final size:62
Alignment explanation
Indices: 68778--68901 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 62
68768 AACCTCGACA
* *
68778 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCGTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCGTTAAAACATAGGTAT
* * *
68840 ACTGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCCATATGTTC-TGTAAAACATAGGTA
1 ACTGTCCATAGGTCCCGAAGA-ACATAGGTAA-ACTGTCCATATGTTCGT-TAAAACATAGGTA
68902 AACCCTCGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 1 0.02
62 27 0.50
63 26 0.48
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCGTTAAAACATAGGTAT
Found at i:70445 original size:88 final size:88
Alignment explanation
Indices: 70296--70472 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
70286 GTAATTAATT
70296 TCTATTCCTGGGTGGAAATGAGAGAATGTGACGATGGATTTCGTAACAGGGTTACCTTTAACTCT
1 TCTATTCCTGGGTGGAAATGAGAGAATGTGACGATGGATTTCGTAACAGGGTTACCTTTAACTCT
70361 GAATAAAAGAGATTCAATTTGGG
66 GAATAAAAGAGATTCAATTTGGG
70384 TCTATTCCTGGGTGGAAATGAGAGAATGTGACGATGGATTTCGTAACAGGGTTACCTTTAACTCT
1 TCTATTCCTGGGTGGAAATGAGAGAATGTGACGATGGATTTCGTAACAGGGTTACCTTTAACTCT
70449 GAATAAAAGAGATTCAATTTGGG
66 GAATAAAAGAGATTCAATTTGGG
70472 T
1 T
70473 GATAGTTGAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (88 bp):
TCTATTCCTGGGTGGAAATGAGAGAATGTGACGATGGATTTCGTAACAGGGTTACCTTTAACTCT
GAATAAAAGAGATTCAATTTGGG
Found at i:72090 original size:14 final size:16
Alignment explanation
Indices: 72056--72092 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
72046 GACATTGATT
*
72056 TATGTGAGTATATGAC
1 TATGTGAGTATAAGAC
72072 TATGTGA-TATAAG-C
1 TATGTGAGTATAAGAC
72086 TATGTGA
1 TATGTGA
72093 AATGTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (16 bp):
TATGTGAGTATAAGAC
Found at i:72240 original size:25 final size:25
Alignment explanation
Indices: 72212--72260 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
72202 TCTTCGGGAC
* *
72212 ATTTCTACATGGCACTTTGGTGCAT
1 ATTTCTACACGGCACTTCGGTGCAT
*
72237 ATTTCTACGCGGCACTTCGGTGCA
1 ATTTCTACACGGCACTTCGGTGCA
72261 AATCTATGTG
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:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
ATTTCTACACGGCACTTCGGTGCAT
Found at i:76339 original size:18 final size:18
Alignment explanation
Indices: 76316--76406 Score: 92
Period size: 18 Copynumber: 4.8 Consensus size: 18
76306 TGTATATTTA
76316 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
* *
76334 TCCCGAAAGACCACTGATTTA
1 TCCCGAAGGACCACT-A--TG
*
76355 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
*
76373 TCCCGAAATGACCACTATG
1 TCCCG-AAGGACCACTATG
* *
76392 TCTCGAAGGATCACT
1 TCCCGAAGGACCACT
76407 CCTTAAGAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 28 0.45
19 18 0.29
20 1 0.02
21 15 0.24
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:76360 original size:39 final size:40
Alignment explanation
Indices: 76311--76388 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 40
76301 GGCACTGTAT
76311 ATTTATCCCGAAGGACCACTATGTCCCGAAA-GACCACTG
1 ATTTATCCCGAAGGACCACTATGTCCCGAAATGACCACTG
*
76350 ATTTATCCCGAATGACCACTATGTCCCGAAATGACCACT
1 ATTTATCCCGAAGGACCACTATGTCCCGAAATGACCACT
76389 ATGTCTCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (40 bp):
ATTTATCCCGAAGGACCACTATGTCCCGAAATGACCACTG
Found at i:76384 original size:19 final size:19
Alignment explanation
Indices: 76324--76398 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
76314 TATCCCGAAG
76324 GACCACTATGTCCCGAAA-
1 GACCACTATGTCCCGAAAT
*
76342 GACCACTGATTTATCCCG-AAT
1 GACCACT-A--TGTCCCGAAAT
76363 GACCACTATGTCCCGAAAT
1 GACCACTATGTCCCGAAAT
*
76382 GACCACTATGTCTCGAA
1 GACCACTATGTCCCGAA
76399 GGATCACTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 13 0.27
19 20 0.41
20 3 0.06
21 13 0.27
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (19 bp):
GACCACTATGTCCCGAAAT
Found at i:80104 original size:3 final size:3
Alignment explanation
Indices: 80096--80127 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
80086 GGAATTGGGT
80096 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
80128 TTCTGCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:82896 original size:2 final size:2
Alignment explanation
Indices: 82889--82918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
82879 AGGTATTTGC
82889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82919 TTCATGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88931 original size:18 final size:18
Alignment explanation
Indices: 88908--88970 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
88898 TTCATCATTT
88908 TTTATTGTCTATAGATTC
1 TTTATTGTCTATAGATTC
* *
88926 TTTATTTCTTCTTCTATAGATTT
1 TTTA----TT-GTCTATAGATTC
*
88949 TTTATGGTCTATAGATTC
1 TTTATTGTCTATAGATTC
88967 TTTA
1 TTTA
88971 ATTTAAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
18 18 0.51
19 1 0.03
22 2 0.06
23 14 0.40
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.59
Consensus pattern (18 bp):
TTTATTGTCTATAGATTC
Found at i:94136 original size:29 final size:29
Alignment explanation
Indices: 94070--94125 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
94060 CTATTGGTTT
* *
94070 TGAATTCTACTTTTCTACTCTTCTGATTA
1 TGAATTTTACTTTTCTACTCATCTGATTA
94099 TGAATTTTACTTTTCTACTCATCTGAT
1 TGAATTTTACTTTTCTACTCATCTGAT
94126 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.52
Consensus pattern (29 bp):
TGAATTTTACTTTTCTACTCATCTGATTA
Found at i:94369 original size:25 final size:22
Alignment explanation
Indices: 94341--94385 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
94331 GTGTTATGAG
*
94341 GAAGAAGACAGTCTATTATGTT
1 GAAGAAGACAATCTATTATGTT
94363 GAAGAAGACAATCTATTATGTT
1 GAAGAAGACAATCTATTATGTT
94385 G
1 G
94386 TATGGGGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (22 bp):
GAAGAAGACAATCTATTATGTT
Found at i:96653 original size:2 final size:2
Alignment explanation
Indices: 96646--96671 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96636 GGTACTTTTA
96646 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
96672 TTTTTTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:99040 original size:11 final size:12
Alignment explanation
Indices: 99013--99045 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
99003 ATATTATCCC
99013 TATGTATGCATG
1 TATGTATGCATG
*
99025 CATGTAT-CATG
1 TATGTATGCATG
99036 TATGTATGCA
1 TATGTATGCA
99046 GTGATTCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (12 bp):
TATGTATGCATG
Found at i:99915 original size:22 final size:22
Alignment explanation
Indices: 99890--99935 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
99880 TAGCCTATAT
*
99890 ATATAATAAGTTAAAAATAGAA
1 ATATAAGAAGTTAAAAATAGAA
99912 ATATAAGAAGTTAAAAATAGAA
1 ATATAAGAAGTTAAAAATAGAA
99934 AT
1 AT
99936 GGGATAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (22 bp):
ATATAAGAAGTTAAAAATAGAA
Found at i:100978 original size:5 final size:5
Alignment explanation
Indices: 100964--101010 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
100954 ATTTTTTCAA
* * *
100964 AAAAT AAAAT GAAAT AAAAT AAAAC AAAAT AAAA- AATA- AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
101011 ATAGGTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
4 6 0.17
5 29 0.83
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:102771 original size:3 final size:3
Alignment explanation
Indices: 102763--102830 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
102753 AAAATGTAAA
*
102763 AAT AAT AATT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
102809 AAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
102831 AAACGAGAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:103272 original size:47 final size:46
Alignment explanation
Indices: 103202--103364 Score: 193
Period size: 47 Copynumber: 3.5 Consensus size: 46
103192 TCGGTGAATG
* * ** *
103202 ACACGGTTCCTACGTGATAAGGACGATA-GACATCTTTAGGGTTGATA
1 ACACGGTTCCTACGTGATGAGGACAATAGGTTATC-TAAGGG-TGATA
* *
103249 ACACGGTTCCTACGTGATGAGGACCATAGGTTATCTAAGGAATGATA
1 ACACGGTTCCTACGTGATGAGGACAATAGGTTATCTAAGG-GTGATA
* * * *
103296 ACACAGTTCCTACGTGATGAGGATAACATGTTATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACAATAGGTTATCTAAGGGTGATA
103342 ACACGGTTCCTACGTGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
103365 TGGCAAGTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
46 27 0.27
47 70 0.69
48 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (46 bp):
ACACGGTTCCTACGTGATGAGGACAATAGGTTATCTAAGGGTGATA
Found at i:103358 original size:46 final size:46
Alignment explanation
Indices: 103239--103385 Score: 186
Period size: 46 Copynumber: 3.2 Consensus size: 46
103229 AGACATCTTT
** * *
103239 AGGGTTGATAACACGGTTCCTACGTGATGAGGACCATAGGTTATCTA
1 AGGG-TGATAACACGGTTCCTACGTGATGAGGATAACAAGTTATCTA
* * *
103286 AGGAATGATAACACAGTTCCTACGTGATGAGGATAACATGTTATCTA
1 AGG-GTGATAACACGGTTCCTACGTGATGAGGATAACAAGTTATCTA
** *
103333 AGGGTGATAACACGGTTCCTACGTGATGAGGATGGCAAGTTAGCTA
1 AGGGTGATAACACGGTTCCTACGTGATGAGGATAACAAGTTATCTA
103379 AGGGTGA
1 AGGGTGA
103386 CATGGCTCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 44 0.51
47 43 0.49
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (46 bp):
AGGGTGATAACACGGTTCCTACGTGATGAGGATAACAAGTTATCTA
Found at i:103579 original size:30 final size:30
Alignment explanation
Indices: 103545--103617 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
103535 TCGTTTAAAG
** *
103545 AGAAAC-GATCTCAAAGATGTTTGTTTCATA
1 AGAAACAGATCTCAAAGAT-TTTCCTTCAAA
103575 AGAAACAGA-CTCAAAGATTTTCCTTCAAA
1 AGAAACAGATCTCAAAGATTTTCCTTCAAA
*
103604 AGAAACTG-TCTCAA
1 AGAAACAGATCTCAA
103618 GAGAGACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 20 0.54
30 15 0.41
31 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (30 bp):
AGAAACAGATCTCAAAGATTTTCCTTCAAA
Found at i:103634 original size:66 final size:66
Alignment explanation
Indices: 103564--103831 Score: 350
Period size: 66 Copynumber: 4.1 Consensus size: 66
103554 CTCAAAGATG
* * *
103564 TTTGTTT-CATAAGAAACAGACTCAAAGATTTTCCTTCAAAAGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCCA-AAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAA
103628 AT
65 AT
*
103630 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTATCTCAAAAGAGACAAAA
1 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAAA
103695 T
66 T
* *
103696 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAAATGTTTCAAAAGAGACAAAA
1 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAAA
103761 T
66 T
** * * **
103762 TTTGTTT-CAAGAGAAACAATTTTAAAG-TTTGTCTT-AAGAA-AAACTGTCTCAAGTGAGAC-A
1 TTTGTTTCCAA-AGAAACAAACTCAAAGATTTTTCTTCAA-AAGAAACTGTCTCAAAAGAGACAA
*
103822 AAG
64 AAT
103825 TTTGTTT
1 TTTGTTT
103832 TGAGAAAAAC
Statistics
Matches: 183, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
63 10 0.05
64 17 0.09
65 12 0.07
66 142 0.78
67 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (66 bp):
TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAAA
T
Found at i:103671 original size:29 final size:29
Alignment explanation
Indices: 103639--103740 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
103629 TTTTGTTTCC
103639 AAAGAAACAAACTCAAAGATTTTTCTTCA
1 AAAGAAACAAACTCAAAGATTTTTCTTCA
* * *
103668 AAAGAAACTATCTCAAAAGAGACAAAATTTTGT-TTCC
1 AAAGAAACAAACTC--AA-AG-----ATTTT-TCTTCA
103705 AAAGAAACAAACTCAAAGATTTTTCTTCA
1 AAAGAAACAAACTCAAAGATTTTTCTTCA
103734 AAAGAAA
1 AAAGAAA
103741 ATGTTTCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
28 1 0.02
29 27 0.47
31 2 0.04
32 2 0.04
34 2 0.04
35 2 0.04
37 20 0.35
38 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (29 bp):
AAAGAAACAAACTCAAAGATTTTTCTTCA
Found at i:103684 original size:95 final size:95
Alignment explanation
Indices: 103503--103675 Score: 244
Period size: 95 Copynumber: 1.8 Consensus size: 95
103493 AAGATGATGT
* * *
103503 TTCAAAAGAAACTGTCTCAAGGGAGACAAAATTCGTTTAAAGAGAAACGATCTCAAAGATGTTTG
1 TTCAAAAGAAACTGTCTCAAGAGAGACAAAATTCGTTTAAAGAGAAACAAACTCAAAGATGTTTG
*
103568 TTTCATAAGAAACAGACTCAAAGATTTTCC
66 TTTCAAAAGAAACAGACTCAAAGATTTTCC
* *
103598 TTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCCAA-AGAAACAAACTCAAAGAT-TT
1 TTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTCGTTT-AAAGAGAAACAAACTCAAAGATGTT
103661 T-TCTTCAAAAGAAAC
64 TGT-TTCAAAAGAAAC
103676 TATCTCAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
94 1 0.01
95 44 0.64
96 22 0.32
97 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (95 bp):
TTCAAAAGAAACTGTCTCAAGAGAGACAAAATTCGTTTAAAGAGAAACAAACTCAAAGATGTTTG
TTTCAAAAGAAACAGACTCAAAGATTTTCC
Found at i:103838 original size:36 final size:36
Alignment explanation
Indices: 103785--103853 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
103775 AAACAATTTT
**
103785 AAAGTTTGTCTTAAGAAAAACTGTCTCAAGTGAGAC
1 AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGAC
* *
103821 AAAGTTTGTTTTGAGAAAAACAATCTCAAGTGA
1 AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGA
103854 CATTAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
AAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGAC
Found at i:103865 original size:36 final size:36
Alignment explanation
Indices: 103789--103867 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
103779 AATTTTAAAG
* ** * *
103789 TTTGTCTTAAGAAAAACTGTCTCAAGTGAGACAAAG
1 TTTGTTTTAAGAAAAACAATCTCAAGTGACACAAAC
* **
103825 TTTGTTTTGAGAAAAACAATCTCAAGTGACATTAAC
1 TTTGTTTTAAGAAAAACAATCTCAAGTGACACAAAC
103861 TTTGTTT
1 TTTGTTT
103868 CAAGTGAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (36 bp):
TTTGTTTTAAGAAAAACAATCTCAAGTGACACAAAC
Found at i:105287 original size:13 final size:14
Alignment explanation
Indices: 105261--105287 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105251 TTGTTCTTTC
105261 TCTTAGATTTTTTT
1 TCTTAGATTTTTTT
105275 TCTTAGATTTTTT
1 TCTTAGATTTTTT
105288 CTTTGATCCT
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:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TCTTAGATTTTTTT
Found at i:107878 original size:44 final size:44
Alignment explanation
Indices: 107826--107926 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
107816 TCCCTTTGAA
* *
107826 GTGCATCGATTCATTCTACAGTGTATCGATGCATCCCTTAACAT
1 GTGCATCGATGCATTATACAGTGTATCGATGCATCCCTTAACAT
*
107870 GTGCATCGATGCATTATACAGTGTATTGATGCATCCCTTAACAT
1 GTGCATCGATGCATTATACAGTGTATCGATGCATCCCTTAACAT
107914 GTGCATCGATGCA
1 GTGCATCGATGCA
107927 CTCCTTATGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (44 bp):
GTGCATCGATGCATTATACAGTGTATCGATGCATCCCTTAACAT
Found at i:107933 original size:24 final size:24
Alignment explanation
Indices: 107850--107926 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
107840 TCTACAGTGT
107850 ATCGATGCATCCCTTAACATGTGC
1 ATCGATGCATCCCTTAACATGTGC
*
107874 ATCGATGCA----TTATACA-GTGT
1 ATCGATGCATCCCTTA-ACATGTGC
*
107894 ATTGATGCATCCCTTAACATGTGC
1 ATCGATGCATCCCTTAACATGTGC
107918 ATCGATGCA
1 ATCGATGCA
107927 CTCCTTATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
23 3 0.07
24 23 0.53
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (24 bp):
ATCGATGCATCCCTTAACATGTGC
Found at i:108174 original size:31 final size:31
Alignment explanation
Indices: 108136--108202 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
108126 TGTTTCATAT
108136 TTCATCTCCTTTCTTATTCTTAACTTACAAA
1 TTCATCTCCTTTCTTATTCTTAACTTACAAA
* *
108167 TTCATCTCCTTTTTTATTCTTAACTTACATA
1 TTCATCTCCTTTCTTATTCTTAACTTACAAA
108198 TTCAT
1 TTCAT
108203 TAAACTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (31 bp):
TTCATCTCCTTTCTTATTCTTAACTTACAAA
Found at i:118581 original size:806 final size:806
Alignment explanation
Indices: 117029--118646 Score: 2932
Period size: 806 Copynumber: 2.0 Consensus size: 806
117019 AAAAAATTAT
* *
117029 ATTTTTCCTATTGGAGGATGCTTTGACCTTTTTGGACTTATAAATAGGGTATTCCTTCATATTTT
1 ATTTTTCCTATTAGAGGATGCTTTGACCTTTTTGGACTTATAAATAGGGTATTCCTTCATATGTT
117094 TTGAGGATCAATCAATTCATCTCCAACATTTCTCTCCACCACATTCGATCCACGATGACAGCCTA
66 TTGAGGATCAATCAATTCATCTCCAACATTTCTCTCCACCACATTCGATCCACGATGACAGCCTA
* * * *
117159 TTTCTATCATCAGGGAGTGCACTAGCAGCAGTGGAAAAACCATGTAGCAGCAACAACTGATTGGA
131 ATTCTATCATCAGGGAGTGCACCAGCAGCAGTGGAAAAACCATATAGCAGCAACAACTGATTAGA
*
117224 GTTCAACATTATCTTTGTGTTATTTACTTGAGAGGGAAATACACTTTGCTAAGTTGAATGATTAA
196 GTTCAACATTATCTTTGTATTATTTACTTGAGAGGGAAATACACTTTGCTAAGTTGAATGATTAA
117289 TTTTTTGTTATTATTTAGTACCGAACATAAGATGTTCAGTGAATTGCATGACTCGTGGTTTTTGT
261 TTTTTTGTTATTATTTAGTACCGAACATAAGATGTTCAGTGAATTGCATGACTCGTGGTTTTTGT
*
117354 TTTAAGCTATATGTTTATGAATTGCATTTTAATGTTGCTAGAGATAATTGCATCTTAATTGTATG
326 TTCAAGCTATATGTTTATGAATTGCATTTTAATGTTGCTAGAGATAATTGCATCTTAATTGTATG
* *
117419 TTATCTTAGTAGTTTTTAGAGATAAAGATTATTGAGATTGCATACTACTATTTTCCCAGCATTGA
391 TTATCTTAGTAGTTTTTAGAGATAAAGATTATTGAGATTGCATACTACTATTGTCCCAACATTGA
117484 TGTTTATGAGAGTAAACAATTTCATATAAAGATATATGATGCTAAGTGTTATGATTCGTTAACTA
456 TGTTTATGAGAGTAAACAATTTCATATAAAGATATATGATGCTAAGTGTTATGATTCGTTAACTA
*
117549 TTTAATCTAAGGCTTTAATGAGAATTAAAATCACTAGGTTAAGTGTTAATCGCTACCTAACTCAT
521 TTTAATCTAAGGCTTTAATGAGAATTAAAATCACTACGTTAAGTGTTAATCGCTACCTAACTCAT
*
117614 AAATATATTGCTACACCATAGTCATTCTGCCAACAGTTAAGTAAAACAACATTGTAGGTTCATCG
586 AAATATATTGCAACACCATAGTCATTCTGCCAACAGTTAAGTAAAACAACATTGTAGGTTCATCG
* *
117679 ACCTGATTGTTCTATTGTTTACTGCAACATTCTTTTACTTTCATTATCTTGGTCTCTTTATTTTG
651 ACCTGATTGTTCTATTGTTTACTGCAACATTCTTTTACTTTCATTAGCCTGGTCTCTTTATTTTG
117744 TTATATGTTTGTTAATTACCAAATATATCATTCTCCTCCAGTTAAACTCTTTTGTAATTTATTTT
716 TTATATGTTTGTTAATTACCAAATATATCATTCTCCTCCAGTTAAACTCTTTTGTAATTTATTTT
*
117809 GCTCCATGTGGAATTCAACACTCAGA
781 GCTCCATATGGAATTCAACACTCAGA
*
117835 ATTTTTCCTATTAGAGGATGCTTTGACCTTTTTGGACTTATAAATAGGGTATTCCTTCTTATGTT
1 ATTTTTCCTATTAGAGGATGCTTTGACCTTTTTGGACTTATAAATAGGGTATTCCTTCATATGTT
* * * *
117900 TTGAGGATCAATTAATTCATCTCCAACATTTCTCTCCACCACATTCGATCTATGATGGCAGCCTA
66 TTGAGGATCAATCAATTCATCTCCAACATTTCTCTCCACCACATTCGATCCACGATGACAGCCTA
* ** **
117965 ATTCTATCATCAGGGAGTGTACCAGCAGCAGTGGAGCAACCATATAGCAGCGGCAACTGATTAGA
131 ATTCTATCATCAGGGAGTGCACCAGCAGCAGTGGAAAAACCATATAGCAGCAACAACTGATTAGA
118030 GTTCAACATTATCTTTGTATTATTTACTTGAGAGGGAAATACACTTTGCTAAGTTGAATGATTAA
196 GTTCAACATTATCTTTGTATTATTTACTTGAGAGGGAAATACACTTTGCTAAGTTGAATGATTAA
*
118095 TTTTTTGTTATTATTTGGTACCGAACATAAGATGTTCAGTGAATTGCATGACTCGTGGTTTTTTG
261 TTTTTTGTTATTATTTAGTACCGAACATAAGATGTTCAGTGAATTGCATGACTCGTGG-TTTTTG
118160 TTTCAAGCTATATGTTTATGAATTGCATTTTAATGTTGCTAGAGATAATTGCATCTTAATTGTAT
325 TTTCAAGCTATATGTTTATGAATTGCATTTTAATGTTGCTAGAGATAATTGCATCTTAATTGTAT
118225 GTTATCTTAGTAGTTTTTAGAGATAAAGATTATTGAGATTGCATACTACTATTGTCCCAACATTG
390 GTTATCTTAGTAGTTTTTAGAGATAAAGATTATTGAGATTGCATACTACTATTGTCCCAACATTG
*
118290 GTGTTTATGAGAGTAAACAATTTCATATAAAGATATATGATGCTAAGTGTTATGATTCGTTAACT
455 ATGTTTATGAGAGTAAACAATTTCATATAAAGATATATGATGCTAAGTGTTATGATTCGTTAACT
118355 ATTTAATCTAAGGCTTTAATGAGAATTAAAATCACTACGTTAAGTGTTAATCGCTACCT-ACTCA
520 ATTTAATCTAAGGCTTTAATGAGAATTAAAATCACTACGTTAAGTGTTAATCGCTACCTAACTCA
118419 TAAATATATTGCAACACCATAGTCATTCTGCCAACAGTTAAGTAAAACAACATTGTAGGTTCATC
585 TAAATATATTGCAACACCATAGTCATTCTGCCAACAGTTAAGTAAAACAACATTGTAGGTTCATC
* *
118484 GTCCTGATTGTTCTATTGTTTACTGCAACATTCTTTTGCTTTCATTAGCCTGGTCTCTTTATTTT
650 GACCTGATTGTTCTATTGTTTACTGCAACATTCTTTTACTTTCATTAGCCTGGTCTCTTTATTTT
118549 GTTATATGTTTGTTAATTACCAAATATATCATTCTCCTCCAGTTAAACTCTTTTGTAATTTATTT
715 GTTATATGTTTGTTAATTACCAAATATATCATTCTCCTCCAGTTAAACTCTTTTGTAATTTATTT
* **
118614 TGCTCTATATGGAATTCAACACTCTTA
780 TGCTCCATATGGAATTCAACACTCAGA
118641 ATTTTT
1 ATTTTT
118647 AACTTACCAA
Statistics
Matches: 779, Mismatches: 32, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
806 524 0.67
807 255 0.33
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (806 bp):
ATTTTTCCTATTAGAGGATGCTTTGACCTTTTTGGACTTATAAATAGGGTATTCCTTCATATGTT
TTGAGGATCAATCAATTCATCTCCAACATTTCTCTCCACCACATTCGATCCACGATGACAGCCTA
ATTCTATCATCAGGGAGTGCACCAGCAGCAGTGGAAAAACCATATAGCAGCAACAACTGATTAGA
GTTCAACATTATCTTTGTATTATTTACTTGAGAGGGAAATACACTTTGCTAAGTTGAATGATTAA
TTTTTTGTTATTATTTAGTACCGAACATAAGATGTTCAGTGAATTGCATGACTCGTGGTTTTTGT
TTCAAGCTATATGTTTATGAATTGCATTTTAATGTTGCTAGAGATAATTGCATCTTAATTGTATG
TTATCTTAGTAGTTTTTAGAGATAAAGATTATTGAGATTGCATACTACTATTGTCCCAACATTGA
TGTTTATGAGAGTAAACAATTTCATATAAAGATATATGATGCTAAGTGTTATGATTCGTTAACTA
TTTAATCTAAGGCTTTAATGAGAATTAAAATCACTACGTTAAGTGTTAATCGCTACCTAACTCAT
AAATATATTGCAACACCATAGTCATTCTGCCAACAGTTAAGTAAAACAACATTGTAGGTTCATCG
ACCTGATTGTTCTATTGTTTACTGCAACATTCTTTTACTTTCATTAGCCTGGTCTCTTTATTTTG
TTATATGTTTGTTAATTACCAAATATATCATTCTCCTCCAGTTAAACTCTTTTGTAATTTATTTT
GCTCCATATGGAATTCAACACTCAGA
Found at i:124019 original size:30 final size:30
Alignment explanation
Indices: 123983--124050 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
123973 TGATCATCAA
123983 AACTTGGTTATTGAACAAGTACTATTAGCC
1 AACTTGGTTATTGAACAAGTACTATTAGCC
*
124013 AACTTGGTTATTGAATAAGTACTATTAGCC
1 AACTTGGTTATTGAACAAGTACTATTAGCC
124043 AACTTGGT
1 AACTTGGT
124051 GTTGTGTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (30 bp):
AACTTGGTTATTGAACAAGTACTATTAGCC
Found at i:130031 original size:3 final size:3
Alignment explanation
Indices: 130023--130071 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
130013 TAAAAGAAAC
130023 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
130071 A
1 A
130072 AACCCAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:133805 original size:21 final size:19
Alignment explanation
Indices: 133759--133798 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
133749 TTTGACCAGA
133759 AGTTTCGAAATTTCTACAAG
1 AGTTTCGAAATTTC-ACAAG
133779 AGTTTCGAAACTTTC-CAAG
1 AGTTTCGAAA-TTTCACAAG
133798 A
1 A
133799 CAGTTTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (19 bp):
AGTTTCGAAATTTCACAAG
Found at i:136047 original size:31 final size:31
Alignment explanation
Indices: 136009--136132 Score: 176
Period size: 31 Copynumber: 4.0 Consensus size: 31
135999 AGGGTCGAGG
*
136009 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
136040 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
136071 ATTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * * *
136102 GATTACCTAGGTTCTTCAGAACCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
136133 AGTCCTTCGG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 85 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:136480 original size:18 final size:17
Alignment explanation
Indices: 136447--136485 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
136437 TAAAATGTAT
*
136447 TAATGATAATAAGAGGA
1 TAATGATAAGAAGAGGA
136464 TAATGATAAGGAAGAGGA
1 TAATGATAA-GAAGAGGA
136482 TAAT
1 TAAT
136486 CATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (17 bp):
TAATGATAAGAAGAGGA
Found at i:136932 original size:21 final size:21
Alignment explanation
Indices: 136906--136949 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
136896 CGGTAGTAGT
136906 ACTGTAGCAGTGCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
*
136927 ACTGTAGCAGTTCATCGATGC
1 ACTGTAGCAGTGCATCGATGC
136948 AC
1 AC
136950 AATTTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATGC
Found at i:142249 original size:31 final size:31
Alignment explanation
Indices: 142211--142275 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
142201 AGAGTTGAGG
*
142211 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTCTTT-GAGACATATGGACA
* *
142242 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 GTTTACCTAGGTTCTTTGAGACATATGGACA
142273 GTT
1 GTT
142276 GTCGAGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGAGACATATGGACA
Found at i:142286 original size:30 final size:30
Alignment explanation
Indices: 142250--142324 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
142240 CAGTTTACCT
* *
142250 AGGTTCTTTGGGACCTATGGACAGTTGTCG
1 AGGTTCTTTAGGACCTATAGACAGTTGTCG
* *
142280 AGGTTCTTTATGACCTATAGATAGTTGTCG
1 AGGTTCTTTAGGACCTATAGACAGTTGTCG
* *
142310 -GGGTCTTTATGACCT
1 AGGTTCTTTAGGACCT
142325 CTGGATAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 14 0.35
30 26 0.65
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (30 bp):
AGGTTCTTTAGGACCTATAGACAGTTGTCG
Found at i:142331 original size:29 final size:30
Alignment explanation
Indices: 142261--142332 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
142251 GGTTCTTTGG
* *
142261 GACCTATGGACAGTTGTCGAGGTTCTTTAT
1 GACCTATGGATAGTTGTCGAGGGTCTTTAT
*
142291 GACCTATAGATAGTTGTCG-GGGTCTTTAT
1 GACCTATGGATAGTTGTCGAGGGTCTTTAT
*
142320 GACCTCTGGATAG
1 GACCTATGGATAG
142333 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (30 bp):
GACCTATGGATAGTTGTCGAGGGTCTTTAT
Found at i:143231 original size:31 final size:31
Alignment explanation
Indices: 143113--143232 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
143103 AGGGTCGAGG
* *
143113 GTTTACCTACGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGAACATATGGATT
*
143144 GTTTACCTATG-TCTTTGG-ACATATGGATT
1 GTTTACCTATGTTCTTCGGAACATATGGATT
143173 GTTTACCTATGTTCTTCGGAACATATGGATT
1 GTTTACCTATGTTCTTCGGAACATATGGATT
* * * *
143204 GATTACCTAGGTTCTTCGAAACCTATGGA
1 GTTTACCTATGTTCTTCGGAACATATGGA
143233 CTGGTCCTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.28
30 12 0.15
31 46 0.57
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGATT
Found at i:143580 original size:18 final size:17
Alignment explanation
Indices: 143547--143585 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
143537 TAAAAGGTAT
*
143547 TAATGATAATAAGAGGA
1 TAATGATAAGAAGAGGA
143564 TAATGATAAGGAAGAGGA
1 TAATGATAA-GAAGAGGA
143582 TAAT
1 TAAT
143586 CATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (17 bp):
TAATGATAAGAAGAGGA
Found at i:145650 original size:3 final size:3
Alignment explanation
Indices: 145642--145691 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
145632 TTAAAAAATC
*
145642 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
145690 AT
1 AT
145692 GAAACTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:151224 original size:15 final size:16
Alignment explanation
Indices: 151195--151233 Score: 71
Period size: 15 Copynumber: 2.5 Consensus size: 16
151185 CTAAAATTAA
151195 TGTTTGTGTATTACAT
1 TGTTTGTGTATTACAT
151211 TGTTTGTG-ATTACAT
1 TGTTTGTGTATTACAT
151226 TGTTTGTG
1 TGTTTGTG
151234 GATTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.15, C:0.05, G:0.23, T:0.56
Consensus pattern (16 bp):
TGTTTGTGTATTACAT
Found at i:151658 original size:42 final size:42
Alignment explanation
Indices: 151568--151666 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
151558 ACCCCCACTT
* * * * *
151568 CGAGAGACATCACCTGATCGAGCCGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
* *
151610 CCAGAGCCATAACCTGATCGAGCCGATTATACACCTCCACAA
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
151652 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
151667 ATTCCATCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.16
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
Found at i:151808 original size:21 final size:21
Alignment explanation
Indices: 151781--151830 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
151771 GTTAGGGGAG
* *
151781 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATAAGGTCAGTACT
* *
151802 TTGCGTGATAAGGTCGGTACT
1 TTACGTGATAAGGTCAGTACT
151823 TTACGTGA
1 TTACGTGA
151831 CGAAAATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (21 bp):
TTACGTGATAAGGTCAGTACT
Found at i:151927 original size:21 final size:21
Alignment explanation
Indices: 151903--151942 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
151893 ATGACAATGG
*
151903 TACTTTACGTGGTGAGGTATC
1 TACTTTACGTGATGAGGTATC
151924 TACTTTACGTGATGAGGTA
1 TACTTTACGTGATGAGGTA
151943 GTCGCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.38
Consensus pattern (21 bp):
TACTTTACGTGATGAGGTATC
Found at i:152062 original size:4 final size:4
Alignment explanation
Indices: 152053--152086 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
152043 TTTTTTGACA
* *
152053 TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
152087 TTAGCGGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:152260 original size:21 final size:22
Alignment explanation
Indices: 152230--152288 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
152220 GATTCAATTG
* *
152230 TCATCTTTCAAGATGTCC-CTC
1 TCATCATTCAAGATGGCCGCTC
*
152251 TTATCATTCAAG-TGGCCGCTC
1 TCATCATTCAAGATGGCCGCTC
*
152272 TCATCGTTCAAGA-GGCC
1 TCATCATTCAAGATGGCC
152289 CCTTTCAACG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (22 bp):
TCATCATTCAAGATGGCCGCTC
Found at i:152300 original size:21 final size:21
Alignment explanation
Indices: 152257--152327 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
152247 CCTCTTATCA
* * *
152257 TTCAAGTGGCCGCTCTCATCG
1 TTCAAGAGGCCCCTCTCAACG
*
152278 TTCAAGAGGCCCCTTTCAACG
1 TTCAAGAGGCCCCTCTCAACG
* * *
152299 TTCAAGAGGCCTCTCCCACCG
1 TTCAAGAGGCCCCTCTCAACG
152320 TTCAAGAG
1 TTCAAGAG
152328 CCCGATTCAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCTCAACG
Found at i:153735 original size:16 final size:16
Alignment explanation
Indices: 153706--153741 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
153696 TGTAAATAAG
* *
153706 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
153722 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
153738 AATT
1 AATT
153742 TCAATATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:153878 original size:29 final size:29
Alignment explanation
Indices: 153845--153926 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
153835 AATTTGATTT
* *
153845 TCGCATTGCAAATTTGACTTTTGCAACAA
1 TCGCAATGCAAATTTGACTTTCGCAACAA
*
153874 TCGCAATGCAAATTTGACTTTCGTAACAA
1 TCGCAATGCAAATTTGACTTTCGCAACAA
* ** *
153903 TCGCAACGTGAATTTAACTTTCGC
1 TCGCAATGCAAATTTGACTTTCGC
153927 GTTGCGAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (29 bp):
TCGCAATGCAAATTTGACTTTCGCAACAA
Found at i:154164 original size:18 final size:18
Alignment explanation
Indices: 154141--154176 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
154131 AAGTCGGTTG
154141 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
154159 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
154177 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:160873 original size:23 final size:23
Alignment explanation
Indices: 160847--160890 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
160837 AAAGATCCAA
160847 ATCCAAAATAAATA-AATAAAATC
1 ATCC-AAATAAATAGAATAAAATC
*
160870 ATCCAAATAACTAGAATAAAA
1 ATCCAAATAAATAGAATAAAA
160891 GTCGCAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (23 bp):
ATCCAAATAAATAGAATAAAATC
Found at i:165022 original size:36 final size:36
Alignment explanation
Indices: 164974--165076 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
164964 AGTTGAGTAT
*
164974 TATCAGCATTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
165010 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
**
165046 TATCAGCTTTGAAACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
165077 CCAGCACCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:173288 original size:36 final size:36
Alignment explanation
Indices: 173241--173337 Score: 167
Period size: 36 Copynumber: 2.7 Consensus size: 36
173231 GTATTAGCAG
173241 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
1 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
* * *
173277 CTTTTGTACATTCGTGTATCAATGTTATCCTATCAG
1 CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
173313 CTTTGGTACATTCGTGTATCAATGT
1 CTTTGGTACATTCGTGTATCAATGT
173338 CCAACAACGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (36 bp):
CTTTGGTACATTCGTGTATCAATGTTATCATATCAA
Found at i:174349 original size:19 final size:19
Alignment explanation
Indices: 174309--174350 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
174299 TTTTGCACAC
* *
174309 AAAGTTTTGAAACTTTGGG
1 AAAGTTTCGAAACTTTGCG
174328 AAAGTTTCGAAACTCTT-CG
1 AAAGTTTCGAAACT-TTGCG
174347 AAAG
1 AAAG
174351 AGTCGTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (19 bp):
AAAGTTTCGAAACTTTGCG
Found at i:176994 original size:74 final size:74
Alignment explanation
Indices: 176910--177063 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 74
176900 TATCCCGTTG
* *
176910 GAATTAACAACAACGGTTTAATTGAATCCTCTAGAAGTGAATAAGCCTTTGAGGATCTAACTTTT
1 GAATTAACAACAACGGTTTAATTGAATCCTCTAGAAGTGAAGAAGCCTATGAGGATCTAACTTTT
176975 ATGTATCCA
66 ATGTATCCA
* *
176984 GAATTAACAACAATGGTTTAATTGAATCCTCTAGAAGTGACGAAGCCTATGAGGATCTAACTTTT
1 GAATTAACAACAACGGTTTAATTGAATCCTCTAGAAGTGAAGAAGCCTATGAGGATCTAACTTTT
*
177049 ATGTATCCG
66 ATGTATCCA
177058 GAATTA
1 GAATTA
177064 CGAGGAATAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (74 bp):
GAATTAACAACAACGGTTTAATTGAATCCTCTAGAAGTGAAGAAGCCTATGAGGATCTAACTTTT
ATGTATCCA
Found at i:178037 original size:23 final size:23
Alignment explanation
Indices: 178010--178063 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
178000 TCTAACGCAT
*
178010 CGTTAGAGTAGAGAAAATCTCCA
1 CGTTAGAGTACAGAAAATCTCCA
*
178033 CGTTAGAATACAGAAAATCTCCA
1 CGTTAGAGTACAGAAAATCTCCA
*
178056 CTTTAGAG
1 CGTTAGAG
178064 ATGAATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (23 bp):
CGTTAGAGTACAGAAAATCTCCA
Found at i:178212 original size:25 final size:25
Alignment explanation
Indices: 178165--178211 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
178155 CGCTATATTT
178165 TTTTTGTTATTTTTATAATTTTTAG
1 TTTTTGTTATTTTTATAATTTTTAG
* *
178190 TTTTTGTT-TTTTTTTACTTTTT
1 TTTTTGTTATTTTTATAATTTTT
178212 TTTATTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTTGTTATTTTTATAATTTTTAG
Found at i:181316 original size:22 final size:21
Alignment explanation
Indices: 181291--181331 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
181281 TATAAAAAAT
181291 TATTTTTATTAAATATTTTTGA
1 TATTTTTATTAAAT-TTTTTGA
*
181313 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
181332 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGA
Found at i:187144 original size:18 final size:18
Alignment explanation
Indices: 187123--187173 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
187113 CTAGCGAATA
187123 TGAATCTTCTTGCACCTT
1 TGAATCTTCTTGCACCTT
187141 TGAATCTTCTTGCACCTT
1 TGAATCTTCTTGCACCTT
* *
187159 TAAATCTTCGTGCAC
1 TGAATCTTCTTGCAC
187174 ATTCTCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (18 bp):
TGAATCTTCTTGCACCTT
Found at i:193477 original size:20 final size:20
Alignment explanation
Indices: 193447--193580 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
193437 AAATGACCAA
*
193447 TAAATTTGCAACACG-ATTT
1 TAAATTCGCAACACGAATTT
193466 TCAAATTCGCAACACTGAATTT
1 T-AAATTCGCAACAC-GAATTT
*
193488 TAAATTCGCAACTCG-ATTT
1 TAAATTCGCAACACGAATTT
* *
193507 CTGAATTCGCAACGCGAATTT
1 -TAAATTCGCAACACGAATTT
** * *
193528 TATTTTCGCAACTCGATTTT
1 TAAATTCGCAACACGAATTT
*
193548 TGAATTCGCAACACGAATTT
1 TAAATTCGCAACACGAATTT
*
193568 TAATTTCGCAACA
1 TAAATTCGCAACA
193581 GGTTTTAGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.05
20 67 0.71
21 17 0.18
22 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
TAAATTCGCAACACGAATTT
Found at i:193505 original size:41 final size:40
Alignment explanation
Indices: 193447--193579 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
193437 AAATGACCAA
* * *
193447 TAAATTTGCAACACGATTTTCAAATTCGCAACACTGAATTT
1 TAAATTCGCAACTCGATTTTCGAATTCGCAACAC-GAATTT
*
193488 TAAATTCGCAACTCGA-TTTCTGAATTCGCAACGCGAATTT
1 TAAATTCGCAACTCGATTTTC-GAATTCGCAACACGAATTT
** *
193528 TATTTTCGCAACTCGATTTTTGAATTCGCAACACGAATTT
1 TAAATTCGCAACTCGATTTTCGAATTCGCAACACGAATTT
*
193568 TAATTTCGCAAC
1 TAAATTCGCAAC
193580 AGGTTTTAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
40 53 0.65
41 28 0.35
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (40 bp):
TAAATTCGCAACTCGATTTTCGAATTCGCAACACGAATTT
Found at i:193537 original size:40 final size:40
Alignment explanation
Indices: 193469--193579 Score: 177
Period size: 40 Copynumber: 2.8 Consensus size: 40
193459 ACGATTTTCA
*
193469 AATTCGCAACACTGAATTTTAAATTCGCAACTCGATTTCTG
1 AATTCGCAACAC-GAATTTTAATTTCGCAACTCGATTTCTG
* * *
193510 AATTCGCAACGCGAATTTTATTTTCGCAACTCGATTTTTG
1 AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTCTG
193550 AATTCGCAACACGAATTTTAATTTCGCAAC
1 AATTCGCAACACGAATTTTAATTTCGCAAC
193580 AGGTTTTAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
40 53 0.83
41 11 0.17
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (40 bp):
AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTCTG
Found at i:194576 original size:24 final size:24
Alignment explanation
Indices: 194549--194602 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
194539 GTATTCGAAA
194549 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
194573 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
194597 TTTGAT
1 TTTGAT
194603 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:197201 original size:20 final size:20
Alignment explanation
Indices: 197150--197202 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
197140 AAACGCGAAA
197150 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* ***
197170 TTCGCGTTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
197190 ATCGCAACGCGAA
1 ATCGCAACGCGAA
197203 AATCGCATTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Done.