Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 435 of 770
Found at i:134221625 original size:25 final size:25
Alignment explanation
Indices: 134221597--134221644 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
134221587 TTATACCATG
* * *
134221597 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
134221622 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
134221645 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:134221747 original size:20 final size:20
Alignment explanation
Indices: 134221687--134221747 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
134221677 ATAAATATGG
*
134221687 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
134221707 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134221727 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134221747 T
1 T
134221748 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:134221824 original size:24 final size:24
Alignment explanation
Indices: 134221797--134221939 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
134221787 GAGGAAGTGA
134221797 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134221821 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134221845 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
134221868 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
134221892 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
134221916 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
134221940 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:134221890 original size:47 final size:47
Alignment explanation
Indices: 134221797--134221939 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
134221787 GAGGAAGTGA
134221797 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
134221845 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
134221892 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
134221940 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:134221913 original size:71 final size:72
Alignment explanation
Indices: 134221797--134221940 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
134221787 GAGGAAGTGA
*
134221797 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
134221860 CCAGTTAT
65 CCAGTTAT
** * *
134221868 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
134221933 CAGTTAT
66 CAGTTAT
134221940 A
1 A
134221941 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:134222191 original size:30 final size:31
Alignment explanation
Indices: 134222131--134222193 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
134222121 CGTTTACAGT
134222131 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
134222162 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
134222192 AA
1 AA
134222194 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:134225973 original size:35 final size:35
Alignment explanation
Indices: 134225934--134226098 Score: 181
Period size: 35 Copynumber: 4.6 Consensus size: 35
134225924 CCATGGAAAG
134225934 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
134225969 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
134226004 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
134226044 T-AAAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
134226078 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
134226099 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 11 0.10
35 69 0.61
36 2 0.02
38 3 0.03
39 14 0.12
40 13 0.12
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:134226086 original size:74 final size:75
Alignment explanation
Indices: 134225938--134226103 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
134225928 GGAAAGTGTG
** *
134225938 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
134225998 CTGAGCTGTG
66 CCGAGCTGAA
134226008 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
134226071 ACCGAGTTGAA
65 ACCGAGCTGAA
134226082 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
134226104 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:134231812 original size:134 final size:137
Alignment explanation
Indices: 134231607--134231890 Score: 520
Period size: 134 Copynumber: 2.1 Consensus size: 137
134231597 CATTGGGCCT
**
134231607 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
134231672 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
134231736 CATATGC
131 CATATGC
134231743 AAGCCCATTTGGGTAACAGT-GTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
134231806 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
134231871 CATATGC
131 CATATGC
134231878 AAGCCCATTTGGG
1 AAGCCCATTTGGG
134231891 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 93 0.65
135 33 0.23
136 18 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:134233697 original size:26 final size:25
Alignment explanation
Indices: 134233661--134233796 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 25
134233651 CATGATATTC
134233661 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
134233687 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
134233713 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
134233739 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
134233765 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
134233791 TTATCA
1 TTATCA
134233797 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.04
26 96 0.93
27 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:134233726 original size:52 final size:52
Alignment explanation
Indices: 134233661--134233796 Score: 247
Period size: 52 Copynumber: 2.6 Consensus size: 52
134233651 CATGATATTC
*
134233661 TTATCATGAAACATTTACCTAA-CTCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCT-ATTATCATGAAACATTTACCTAACCCA
134233713 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
134233765 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
134233797 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
52 80 0.98
53 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:134236928 original size:20 final size:19
Alignment explanation
Indices: 134236893--134236930 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
134236883 CTTTTTATAT
134236893 TTTAATTTTCTTTAAATAC
1 TTTAATTTTCTTTAAATAC
134236912 TTTATATTTT-TTATAAATA
1 TTTA-ATTTTCTT-TAAATA
134236931 TTAGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTTTCTTTAAATAC
Found at i:134237011 original size:12 final size:12
Alignment explanation
Indices: 134236987--134237021 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
134236977 TATTATATTG
*
134236987 TATAT-TTTATT
1 TATATATTTCTT
134236998 TATATATTTCTT
1 TATATATTTCTT
134237010 TATATATTTCTT
1 TATATATTTCTT
134237022 ATAAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATATTTCTT
Found at i:134238537 original size:15 final size:15
Alignment explanation
Indices: 134238488--134238550 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 15
134238478 AATAAGTTAT
134238488 ATAAT-AATATAAT-
1 ATAATAAATATAATA
*
134238501 ATGAATAGAATATAAGGA
1 AT-AATA-AATATAA-TA
134238519 A-ATATAATATATAATA
1 ATA-ATAA-ATATAATA
134238535 ATAATAAATATAATA
1 ATAATAAATATAATA
134238550 A
1 A
134238551 GTATTTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 2 0.05
14 3 0.08
15 9 0.22
16 15 0.38
17 10 0.25
18 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAAATATAATA
Found at i:134238624 original size:31 final size:28
Alignment explanation
Indices: 134238589--134238661 Score: 67
Period size: 31 Copynumber: 2.5 Consensus size: 28
134238579 TAGTTAGTAT
134238589 ATATAAAAAAATAGATAACATATAATAAAAA
1 ATATAAAAAAATAGAT-AC-TATAA-AAAAA
* **
134238620 ATATACGAAAAGATAGATACTATAAGGAAA
1 ATATA--AAAAAATAGATACTATAAAAAAA
134238650 AT-TAAAAAAATA
1 ATATAAAAAAATA
134238662 TAATATAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
27 7 0.19
29 2 0.06
30 5 0.14
31 10 0.28
32 2 0.06
33 10 0.28
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (28 bp):
ATATAAAAAAATAGATACTATAAAAAAA
Found at i:134239155 original size:20 final size:19
Alignment explanation
Indices: 134239132--134239169 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
134239122 ATATAACTAA
134239132 TATTTATAA-AAAATATAAAG
1 TATTTA-AAGAAAAT-TAAAG
134239152 TATTTAAAGAAAATTAAA
1 TATTTAAAGAAAATTAAA
134239170 ATATAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TATTTAAAGAAAATTAAAG
Found at i:134246649 original size:20 final size:20
Alignment explanation
Indices: 134246621--134246665 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
134246611 TTCTATTTCA
134246621 AAAAAAAAAAGAGAGAAA-AG
1 AAAAAAAAAAGAGA-AAATAG
* *
134246641 AAAAGAAAAATAGAAAATAG
1 AAAAAAAAAAGAGAAAATAG
134246661 AAAAA
1 AAAAA
134246666 GAGAAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAATAG
Found at i:134247835 original size:35 final size:35
Alignment explanation
Indices: 134247789--134247859 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
134247779 TTTTTTCTTT
* *
134247789 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
134247824 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
1 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
134247859 T
1 T
134247860 GATCTGATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (35 bp):
TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
Found at i:134250802 original size:26 final size:26
Alignment explanation
Indices: 134250773--134250882 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
134250763 TGATACAAAT
134250773 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
134250799 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
134250825 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
134250851 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
134250877 TGATAA
1 TGATAA
134250883 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:134254070 original size:12 final size:12
Alignment explanation
Indices: 134254053--134254082 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
134254043 ACTCGGGGAA
134254053 AGGCCGTGGTCG
1 AGGCCGTGGTCG
134254065 AGGCCGTGGTCG
1 AGGCCGTGGTCG
134254077 AGGCCG
1 AGGCCG
134254083 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.50, T:0.13
Consensus pattern (12 bp):
AGGCCGTGGTCG
Found at i:134257641 original size:26 final size:26
Alignment explanation
Indices: 134257612--134257721 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
134257602 TGATACAAAT
134257612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
134257638 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
134257664 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
134257690 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
134257716 TGATAA
1 TGATAA
134257722 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:134265081 original size:12 final size:11
Alignment explanation
Indices: 134265064--134265160 Score: 60
Period size: 12 Copynumber: 8.7 Consensus size: 11
134265054 ATGTTCCACA
134265064 AAAAAAAAGGAC
1 AAAAAAAA-GAC
134265076 AAAAAAAAGAC
1 AAAAAAAAGAC
134265087 --AAAAAAGA-
1 AAAAAAAAGAC
134265095 AAAAAAAAGA-
1 AAAAAAAAGAC
**
134265105 AGAAGAAATAATTC
1 A-AA-AAA-AAGAC
*
134265119 GAAAAAAAGA-
1 AAAAAAAAGAC
*
134265129 AAAAAAAAGAA
1 AAAAAAAAGAC
*
134265140 AAAAGAAAAGAG
1 AAAA-AAAAGAC
134265152 AGAAAAAAA
1 A-AAAAAAA
134265161 AGTTAAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
9 8 0.12
10 18 0.26
11 11 0.16
12 25 0.36
13 7 0.10
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAC
Found at i:134265090 original size:9 final size:8
Alignment explanation
Indices: 134265077--134265160 Score: 62
Period size: 9 Copynumber: 9.9 Consensus size: 8
134265067 AAAAAGGACA
134265077 AAAAAAAG
1 AAAAAAAG
134265085 ACAAAAAAG
1 A-AAAAAAG
134265094 AAAAAAA-
1 AAAAAAAG
*
134265101 AAGAAGAAG
1 AA-AAAAAG
**
134265110 AAATAATTCG
1 AAA-AA-AAG
134265120 AAAAAAAG
1 AAAAAAAG
*
134265128 AAAAAAAA
1 AAAAAAAG
134265136 AGAAAAAAG
1 A-AAAAAAG
*
134265145 AAAAGAGAG
1 AAAA-AAAG
134265154 AAAAAAA
1 AAAAAAA
134265161 AGTTAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 2 0.03
8 26 0.44
9 27 0.46
10 4 0.07
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:134265104 original size:10 final size:10
Alignment explanation
Indices: 134265063--134265143 Score: 65
Period size: 10 Copynumber: 7.6 Consensus size: 10
134265053 CATGTTCCAC
134265063 AAAAAAAAAGG
1 AAAAAAAAA-G
134265074 ACAAAAAAAAG
1 A-AAAAAAAAG
*
134265085 -ACAAAAAAG
1 AAAAAAAAAG
134265094 AAAAAAAAAG
1 AAAAAAAAAG
*
134265104 AAGAAGAAATAATT
1 AA-AA-AAA-AA-G
**
134265118 CGAAAAAAAG
1 AAAAAAAAAG
134265128 AAAAAAAAAG
1 AAAAAAAAAG
134265138 AAAAAA
1 AAAAAA
134265144 GAAAAGAGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.14
10 24 0.43
11 6 0.11
12 14 0.25
13 4 0.07
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:134265157 original size:34 final size:33
Alignment explanation
Indices: 134265063--134265178 Score: 94
Period size: 34 Copynumber: 3.5 Consensus size: 33
134265053 CATGTTCCAC
* * *
134265063 AAAAAAAAAGGACAAA-AAAAAGA-CAAAAAAG
1 AAAAAAAAAGAAAAAAGAAAAAGAGAAAAAAAG
* **
134265094 AAAAAAAAAG-AAGAAGAAATAATTCGAAAAAAAG
1 AAAAAAAAAGAAAAAAGAAA-AA-GAGAAAAAAAG
134265128 AAAAAAAAAGAAAAAAGAAAAGAGAGAAAAAAAAG
1 AAAAAAAAAGAAAAAAGAAAA-AGAG-AAAAAAAG
* *
134265163 TTAAAAAAAATAAAAA
1 -AAAAAAAAAGAAAAA
134265179 GTTTGATGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
30 3 0.04
31 13 0.19
32 2 0.03
34 19 0.28
35 17 0.25
36 13 0.19
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (33 bp):
AAAAAAAAAGAAAAAAGAAAAAGAGAAAAAAAG
Found at i:134265169 original size:26 final size:24
Alignment explanation
Indices: 134265078--134265148 Score: 54
Period size: 25 Copynumber: 2.8 Consensus size: 24
134265068 AAAAGGACAA
134265078 AAAAAAGACAAAAAAGAAAAAAAAAG
1 AAAAAAG--AAAAAAGAAAAAAAAAG
* * *
134265104 -AAGAAGAAATAATTCGAAAAAAAGAAA
1 AAAAAAGAAA-AA--AGAAAAAAA-AAG
134265131 AAAAAAGAAAAAAGAAAA
1 AAAAAAGAAAAAAGAAAA
134265149 GAGAGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
23 3 0.09
24 2 0.06
25 10 0.29
26 8 0.23
27 4 0.11
28 8 0.23
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.04
Consensus pattern (24 bp):
AAAAAAGAAAAAAGAAAAAAAAAG
Found at i:134265176 original size:9 final size:9
Alignment explanation
Indices: 134265076--134265178 Score: 61
Period size: 9 Copynumber: 11.6 Consensus size: 9
134265066 AAAAAAGGAC
134265076 AAAAAAAAG
1 AAAAAAAAG
*
134265085 ACAAAAAAG
1 AAAAAAAAG
134265094 -AAAAAAA-
1 AAAAAAAAG
* *
134265101 AAGAAGAAG
1 AAAAAAAAG
***
134265110 AAATAATTCG
1 AAA-AAAAAG
134265120 -AAAAAAAG
1 AAAAAAAAG
134265128 AAAAAAAA-
1 AAAAAAAAG
*
134265136 AGAAAAAAG
1 AAAAAAAAG
* *
134265145 AAAAGAGAG
1 AAAAAAAAG
134265154 AAAAAAAAG
1 AAAAAAAAG
*
134265163 TTAAAAAAAAT
1 --AAAAAAAAG
134265174 AAAAA
1 AAAAA
134265179 GTTTGATGAT
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
8 21 0.30
9 37 0.54
10 3 0.04
11 8 0.12
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.06
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:134267364 original size:127 final size:127
Alignment explanation
Indices: 134267136--134267379 Score: 393
Period size: 127 Copynumber: 1.9 Consensus size: 127
134267126 CTTGTTAGGT
*
134267136 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGGCAGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATCT
* * *
134267201 CTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGG
66 CTCCGTAATAAGCGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTATTCGACAGGG
* *
134267263 AGCAGATCGAAGACATAGCAGA-CTTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATC
1 AGCAGATCAAAGACATAGCAGATC-TGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATC
*
134267327 TCTCCGTAAT-GGACGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTA
65 TCTCCGTAATAAG-CGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTA
134267380 ATGGGCGGGG
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
126 2 0.02
127 106 0.98
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (127 bp):
AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATCT
CTCCGTAATAAGCGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTATTCGACAGGG
Found at i:134267478 original size:172 final size:172
Alignment explanation
Indices: 134267189--134267551 Score: 620
Period size: 172 Copynumber: 2.1 Consensus size: 172
134267179 TCCAAGATGG
134267189 CAGATCTTATCTCTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAT
1 CAGATCTTATCTCTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAT
* * *
134267254 TCGACAGGGAGCAGATCGAAGACATAGCAGACTTGACCTTCATCGGGGCAGATCCAAGATGACAG
66 TCGACAGGGAGCAGATCAAAGACATAGCAGACTTGACCTTCATCGAGGCAGATCAAAGATGACAG
134267319 ATCTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAA
131 ATCTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAA
**
134267361 CAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAT
1 CAGATCTTATCTCTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAT
*
134267426 TCGACGGGGAGCAGATCAAAGACATAGCAGA-TCTGACCTTCATCGAGGCAGATCAAAGATGACA
66 TCGACAGGGAGCAGATCAAAGACATAGCAGACT-TGACCTTCATCGAGGCAGATCAAAGATGACA
* * * *
134267490 GATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGA
130 GATCTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAA
134267533 CAGATCTTATCTCTCTGTA
1 CAGATCTTATCTCTCTGTA
134267552 TTCGATGGGG
Statistics
Matches: 180, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
171 1 0.01
172 179 0.99
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (172 bp):
CAGATCTTATCTCTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAT
TCGACAGGGAGCAGATCAAAGACATAGCAGACTTGACCTTCATCGAGGCAGATCAAAGATGACAG
ATCTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAA
Found at i:134267674 original size:299 final size:298
Alignment explanation
Indices: 134267136--134268077 Score: 1210
Period size: 299 Copynumber: 3.2 Consensus size: 298
134267126 CTTGTTAGGT
* * * *
134267136 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGGCAGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
** *
134267201 CTCTGTAATAAGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGC
66 CTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
134267266 AGATCGAAGACATAGCAGA-CTTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCT
131 AGATCGAAGACATAGCAGATC-TGACCTTCATC-GGGCAGATCCAAGATGACAGATCTTATCTCT
* * * *
134267330 CCGTAATGGACGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAG
194 CTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAG
134267395 ATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
259 ATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
134267435 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
*
134267500 CTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGC
66 CTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
134267565 AGATCGAAGACATAGCAGATCTGACCTTCATCAGGGCAGATCCAAGATGACAGATCTTATCTCTC
131 AGATCGAAGACATAGCAGATCTGACCTTCATC-GGGCAGATCCAAGATGACAGATCTTATCTCTC
* * * *
134267630 TGTAATAGG-CGGGGAGTAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGACAGGGAGTAG
195 TGTAAT-GGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAG
* * *
134267694 ATCGAAGACAT-AGCAGATCTGA-C-CT-T-CA-T---C-GGG
259 ATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTCGACGGGG
* * ** ** * * * * * *
134267727 -GCAGATCCAAGATGACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAAATGACAGA
1 AGCAGAT-CAA-A-GACATAGCAGATCTGACCTTCAT---C-GAG-GCAGATCAAAGATGACAGA
* ** *
134267791 TCTTATCTCTCTGTAATGGACGGAAAGTAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGA
58 TCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGA
* * * * *
134267856 CGGGGAGCAGATCGAAAACGTAGCAGCTCTGACCTTCATCGGGACAGATCCAAGATGGCGGATCT
123 CGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGG-CAGATCCAAGATGACAGATCT
* *
134267921 TATCTCTCTGTAATGGACGGGGAGTAGTTCCAAGATGACAGATCTTATCTCTCTATAATGGACGG
187 TATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGG
*
134267986 AGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
252 GGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
* * * *
134268033 AGCAGATCGAAA-ACATAACAGATCTGACTTTCATCAAAGCAGATC
1 AGCAGATC-AAAGACATAGCAGATCTGACCTTCATCGAGGCAGATC
134268078 CAGGATGATT
Statistics
Matches: 550, Mismatches: 66, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
291 6 0.01
292 6 0.01
293 2 0.00
294 15 0.03
296 1 0.00
297 12 0.02
298 10 0.02
299 452 0.82
300 6 0.01
301 12 0.02
302 1 0.00
304 13 0.02
305 1 0.00
306 5 0.01
307 8 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (298 bp):
AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
CTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
AGATCGAAGACATAGCAGATCTGACCTTCATCGGGCAGATCCAAGATGACAGATCTTATCTCTCT
GTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGAT
CCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
Found at i:134267789 original size:172 final size:172
Alignment explanation
Indices: 134267611--134268085 Score: 700
Period size: 172 Copynumber: 2.8 Consensus size: 172
134267601 CAGATCCAAG
* *
134267611 ATGACAGATCTTATCTCTCTGTAATAGG-CGGGGAGTAGATCCAAGATGATAGATCTTATCTCTC
1 ATGACAGATCTTATCTCTCTGTAAT-GGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTC
* * *
134267675 TGTATTCGACAGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGAT
65 TGTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGAT
*
134267740 GACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAA
130 GACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
* *
134267783 ATGACAGATCTTATCTCTCTGTAATGGACGGAAAGTAGATCTAAGATGACAGATCTTATCTCTCT
1 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
* * *
134267848 GTATTCGACGGGGAGCAGATCGAAAACGTAGCAGCTCTGACCTTCATCGGGACAGATCCAAGATG
66 GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGATG
* * * * * ** *
134267913 GCGGATCTTATCTCTCTGTAATGGACGGGGAGTAGTTCCAAG
131 ACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
*
134267955 ATGACAGATCTTATCTCTCTATAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
1 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
* * *** *
134268020 GTATTCGACGGGGAGCAGATCGAAAACATAACAGATCTGACTTTCATCAAAGCAGATCCAGGATG
66 GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGATG
134268085 A
131 A
134268086 TTTGGCATCT
Statistics
Matches: 270, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
171 2 0.01
172 268 0.99
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (172 bp):
ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGATG
ACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
Found at i:134267823 original size:127 final size:127
Alignment explanation
Indices: 134267348--134267805 Score: 754
Period size: 127 Copynumber: 3.6 Consensus size: 127
134267338 GACGGGGAGT
* *
134267348 AGATCAAAGATAACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
* *
134267413 TATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
66 TATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
*
134267475 AGATCAAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
* *
134267540 TATCTCTCTGTATTCGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCAGGGC
66 TATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
* *
134267602 AGATCCAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGATAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
* *
134267667 TATCTCTCTGTATTCGACAGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
66 TATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
* * * * ** *
134267729 AGATCCAAGATGACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAAATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
134267794 TATCTCTCTGTA
66 TATCTCTCTGTA
134267806 ATGGACGGAA
Statistics
Matches: 312, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 312 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (127 bp):
AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
TATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
Found at i:134268057 original size:47 final size:45
Alignment explanation
Indices: 134267901--134268040 Score: 208
Period size: 45 Copynumber: 3.1 Consensus size: 45
134267891 TCATCGGGAC
* *
134267901 AGATCCAAGATGGCGGATCTTATCTCTCTGTAATGGACGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * *
134267946 AGTTCCAAGATGACAGATCTTATCTCTCTATAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * *
134267991 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
134268036 AGATC
1 AGATC
134268041 GAAAACATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (45 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
Found at i:134269590 original size:20 final size:19
Alignment explanation
Indices: 134269555--134269592 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
134269545 CTTTTTATAT
134269555 TTTAATTTTCTTTAAATAC
1 TTTAATTTTCTTTAAATAC
134269574 TTTATATTTT-TTATAAATA
1 TTTA-ATTTTCTT-TAAATA
134269593 TTAGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTTTCTTTAAATAC
Found at i:134269683 original size:12 final size:12
Alignment explanation
Indices: 134269668--134269693 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
134269658 TGTATTTTAT
134269668 TTTATATATTTC
1 TTTATATATTTC
134269680 TTTATATATTTC
1 TTTATATATTTC
134269692 TT
1 TT
134269694 ATAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATATATTTC
Found at i:134272065 original size:19 final size:19
Alignment explanation
Indices: 134272034--134272078 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
134272024 GTTAATTTTC
*
134272034 AAAAATTATAAAAAATC-T
1 AAAAATTAAAAAAAATCTT
134272052 AAAAATATAAAAAAAATCTT
1 AAAAAT-TAAAAAAAATCTT
134272072 AAAAATT
1 AAAAATT
134272079 TTGAAAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATTAAAAAAAATCTT
Found at i:134275865 original size:25 final size:25
Alignment explanation
Indices: 134275800--134275875 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
134275790 GCCCTCCCCC
134275800 AAAAAAAACCTAA-CCAAAAAAAAA
1 AAAAAAAACCTAACCCAAAAAAAAA
134275824 AAAGAAAAACCTAACCCAAAAAAAAA
1 AAA-AAAAACCTAACCCAAAAAAAAA
* **
134275850 AGAAAAAACCTAACCCCCAAAAAAA
1 AAAAAAAACCTAACCCAAAAAAAAA
134275875 A
1 A
134275876 CCAAGAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
24 3 0.06
25 31 0.66
26 13 0.28
ACGTcount: A:0.72, C:0.21, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAAAACCTAACCCAAAAAAAAA
Found at i:134275884 original size:26 final size:25
Alignment explanation
Indices: 134275802--134275885 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 25
134275792 CCTCCCCCAA
*
134275802 AAAAAACCTAA-CCAAAAAAAAAAA
1 AAAAAACCTAACCCAAAAAAAAAAC
*
134275826 AGAAAAACCTAACCCAAAAAAAAAAG
1 A-AAAAACCTAACCCAAAAAAAAAAC
* *
134275852 AAAAAACCTAACCCCCAAAAAAAACC
1 AAAAAACCTAA-CCCAAAAAAAAAAC
*
134275878 AAGAAACC
1 AAAAAACC
134275886 CTAGCCACCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 1 0.02
25 20 0.38
26 31 0.60
ACGTcount: A:0.69, C:0.24, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAC
Found at i:134276436 original size:39 final size:39
Alignment explanation
Indices: 134276364--134276474 Score: 99
Period size: 39 Copynumber: 2.9 Consensus size: 39
134276354 TTTATATATA
* * *
134276364 TTATGTATATATTTTTTAATGCCATTAGTTATATATTTC
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
*
134276403 TTATGTATATATTCTTAAATA-C--TA-TTATATATAT-
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
* * *
134276437 ATATATATATATT-TTAAATACCATATTGTGTATATATT
1 TTATGTATATATTCTTAAATACCAT-TAGT-TATATATT
134276475 ATTATTACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
33 7 0.12
34 12 0.21
35 9 0.16
36 2 0.03
37 1 0.02
38 2 0.03
39 25 0.43
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (39 bp):
TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
Found at i:134276697 original size:3 final size:3
Alignment explanation
Indices: 134276658--134276683 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
134276648 TTATTGTAGA
134276658 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
134276684 CATACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:134278455 original size:12 final size:12
Alignment explanation
Indices: 134278435--134278470 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
134278425 AGTCATTTGA
134278435 CATTCATGCATT
1 CATTCATGCATT
*
134278447 CATTTATGCATT
1 CATTCATGCATT
*
134278459 CATTCATTCATT
1 CATTCATGCATT
134278471 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:134285258 original size:70 final size:70
Alignment explanation
Indices: 134285161--134285293 Score: 205
Period size: 70 Copynumber: 1.9 Consensus size: 70
134285151 CTTTTCAAGG
*
134285161 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTTGT
134285226 TTTCA
66 TTTCA
** * *
134285231 AAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTT
1 AAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTT
134285294 AAATTGACTC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 1 0.02
70 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTTGT
TTTCA
Found at i:134285320 original size:63 final size:66
Alignment explanation
Indices: 134285161--134285328 Score: 198
Period size: 70 Copynumber: 2.5 Consensus size: 66
134285151 CTTTTCAAGG
* *
134285161 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAA---TGT
134285226 TTTCA
63 TTT-A
* ** *
134285231 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT-A-GTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATGTTTT
134285294 -
66 A
** *
134285294 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
134285329 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
63 31 0.35
65 5 0.06
69 1 0.01
70 51 0.58
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (66 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATGTTTT
A
Found at i:134285449 original size:72 final size:71
Alignment explanation
Indices: 134285328--134285492 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
134285318 GAGTTAAGCC
** * *
134285328 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
134285392 TGAGGTA
65 TGAGGTA
*
134285399 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
134285464 TGAGGTA
65 TGAGGTA
* *
134285471 -TTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
134285493 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
70 8 0.09
71 16 0.19
72 57 0.67
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:134285677 original size:140 final size:140
Alignment explanation
Indices: 134285426--134286050 Score: 1168
Period size: 139 Copynumber: 4.5 Consensus size: 140
134285416 TTAATTTCAA
134285426 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA-TTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
134285490 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
134285555 TCAAAATCAG
131 TCAAAATCAG
134285565 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
134285630 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
134285695 TCAAAATCAG
131 TCAAAATCAG
134285705 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
134285769 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
134285834 TCAAAATCAG
131 TCAAAATCAG
134285844 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
134285909 TTTA-TTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
134285973 TCAAAATCAG
131 TCAAAATCAG
134285983 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
134286047 TCAA
62 TCAA
134286051 AAAAAAATTC
Statistics
Matches: 477, Mismatches: 3, Indels: 9
0.98 0.01 0.02
Matches are distributed among these distances:
138 2 0.00
139 284 0.60
140 162 0.34
141 23 0.05
142 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:134285763 original size:279 final size:279
Alignment explanation
Indices: 134285426--134286050 Score: 1166
Period size: 279 Copynumber: 2.2 Consensus size: 279
134285416 TTAATTTCAA
134285426 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA-TTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
134285490 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
134285555 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
134285620 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
196 CTGTTTTCAATTTA-GTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAAT
134285685 TTCTACTTTTTCAAAATCAG
260 TTCTACTTTTTCAAAATCAG
134285705 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
134285769 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
134285834 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
*
134285899 CTGTTTTCAATTTATTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
196 CTGTTTTCAATTTAGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
134285964 TCTACTTTTTCAAAATCAG
261 TCTACTTTTTCAAAATCAG
134285983 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
134286047 TCAA
62 TCAA
134286051 AAAAAAATTC
Statistics
Matches: 338, Mismatches: 2, Indels: 9
0.97 0.01 0.03
Matches are distributed among these distances:
277 2 0.01
278 107 0.32
279 201 0.59
280 3 0.01
281 19 0.06
282 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (279 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
CTGTTTTCAATTTAGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATT
TCTACTTTTTCAAAATCAG
Found at i:134286146 original size:72 final size:71
Alignment explanation
Indices: 134285970--134286193 Score: 281
Period size: 72 Copynumber: 3.0 Consensus size: 71
134285960 AATTTCTACT
* ** * * *
134285970 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACG-TGAGGTAATT
134286033 TCAATTTCTG
62 TCAATTTCTG
134286043 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTA
134286108 ATTTCAATTTCTG
59 ATTTCAATTTCTG
134286121 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTCAA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTCAA
134286186 TTTCTG
66 TTTCTG
134286192 TT
1 TT
134286194 CAAAATGAGT
Statistics
Matches: 136, Mismatches: 7, Indels: 18
0.84 0.04 0.11
Matches are distributed among these distances:
71 22 0.16
72 46 0.34
73 1 0.01
74 4 0.03
77 4 0.03
78 24 0.18
79 4 0.03
80 30 0.22
81 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (71 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTCAA
TTTCTG
Found at i:134286204 original size:48 final size:48
Alignment explanation
Indices: 134286148--134286241 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
134286138 ATATTGCGAG
134286148 AAATGAGTTGAGCCTCAAGACACG-TGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTTCTGTTCA
134286196 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTT
134286242 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 39 0.87
49 6 0.13
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (48 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTTCA
Found at i:134286288 original size:119 final size:121
Alignment explanation
Indices: 134286076--134286313 Score: 426
Period size: 119 Copynumber: 2.0 Consensus size: 121
134286066 ATATTGCGAG
*
134286076 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
134286141 TTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
134286196 AAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
134286260 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
134286314 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
119 62 0.55
120 51 0.45
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:134286460 original size:270 final size:268
Alignment explanation
Indices: 134285970--134286463 Score: 762
Period size: 270 Copynumber: 1.8 Consensus size: 268
134285960 AATTTCTACT
* ** *
134285970 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG-T-ACATGCTGAGGTATTTTC
134286035 AATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
64 AATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * *
134286100 TTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
129 CTGAGGTAATTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
134286165 AGACACGTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTATT
194 AGACACGTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTATT
134286230 TCAATTTCTG
259 TCAATTTCTG
*
134286240 TTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTC
1 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGTACATGCTGAGGTATTTTC
* * *
134286304 AATTTCTGTTTTTC-AAAAAAAA-TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATG
64 AATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* **
134286367 CTGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
129 CTGAGGTAATTTCAATTTCTG-TTTT--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
134286432 TC-AGACACGCTGAGGTAATTTCAATTTCTGTT
191 TCAAGACACG-TGAGGTAATTTCAATTTCTGTT
134286464 GTCAAAAAAT
Statistics
Matches: 204, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
267 58 0.28
268 12 0.06
269 38 0.19
270 66 0.32
271 29 0.14
272 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (268 bp):
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGTACATGCTGAGGTATTTTCAA
TTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
ACACGTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTC
AATTTCTG
Found at i:134286631 original size:79 final size:78
Alignment explanation
Indices: 134286534--134287120 Score: 431
Period size: 79 Copynumber: 7.2 Consensus size: 78
134286524 TTTTCAATTT
**
134286534 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
134286599 CACGCGCTGAGCTA
65 CACGCGCTGAGCTA
* * *
134286613 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
* * *
134286676 CACACACTGAGGTA
65 CACGCGCTGAGCTA
* * * * * *
134286690 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
** *
134286754 TCACATG-TCGAGGTA
64 TCACGCGCT-GAGCTA
** ** *
134286769 TTTTCAAAATCTGTTTTTCAATTCTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAA-------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
134286834 TTGGCTCACGTGCTGAGCTA
59 TTGGCTCACGCGCTGAGCTA
* *
134286854 TTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTA
1 TTTTCAATTTCTG---TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--CT-
** * * *
134286919 ATTTCTCGA-GAGTTGAGTTGA
60 -TGGCTC-ACGCGCTGAGCT-A
* * **
134286940 GTCTTTTAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG-
1 -T-TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
*** *
134287001 TCAC-ATATCGAGGTA
64 TCACGCGCT-GAGCTA
* *
134287016 TTTTCAA-ATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTT----TCAA-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
134287080 GCCTTGGCTCACGCGCTGAGCTA
56 GCCTTGGCTCACGCGCTGAGCTA
134287103 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
134287121 AATGTCTGTT
Statistics
Matches: 404, Mismatches: 61, Indels: 82
0.74 0.11 0.15
Matches are distributed among these distances:
73 4 0.01
74 9 0.02
75 1 0.00
76 7 0.02
77 70 0.17
78 3 0.01
79 80 0.20
80 3 0.01
81 32 0.08
82 33 0.08
83 2 0.00
85 75 0.19
86 40 0.10
87 21 0.05
88 24 0.06
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (78 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACGCGCTGAGCTA
Found at i:134286826 original size:85 final size:84
Alignment explanation
Indices: 134286714--134287186 Score: 294
Period size: 87 Copynumber: 5.6 Consensus size: 84
134286704 ATTTTTCAAA
* * * *
134286714 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAATT
134286779 CTGTTTTTCAATTCTGTTTC
66 CTGTTTTT-AATTCTGTTTC
* * * * *
134286799 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTC-GAGGTATTTTCAAAT
****
134286863 TCTGTTTTT--TT-T-CAAA
65 TCTGTTTTTAATTCTGTTTC
** * ** * * * *
134286879 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAG-CT--TTTAATTTCTCGA-G-A-GTT-GAGT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAAT
**
134286937 TGAGTCTTTTAATTTCTGTTTTTC
65 TCTGT-TTTTAA-TTCTG--TTTC
* * *
134286961 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG-TCACATATCGAGGTATTTTCAAA-
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAAT
* **
134287024 TCTGCTTTTCAAGTTAAGTTTC
65 TCTG-TTTTTAA-TTCTGTTTC
* ** *
134287046 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG-CTGAGCTATTTTCAA
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTC-GAGGTATTTTCAA
* *
134287110 TTTCTGTTTTTAATGTCTGTTTTT
63 ATTCTGTTTTTAAT-TCTG-TTTC
* * * ** * *
134287134 AGAAGTCAATTCATATTGCGAAAAATGAGTTGAG-CTCAGGATCACATGCCGAG
1 A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGTCGAG
134287187 TAGAGAATAA
Statistics
Matches: 294, Mismatches: 65, Indels: 56
0.71 0.16 0.13
Matches are distributed among these distances:
74 5 0.02
75 6 0.02
76 1 0.00
78 7 0.02
79 2 0.01
80 6 0.02
81 29 0.10
82 30 0.10
83 6 0.02
84 8 0.03
85 68 0.23
86 43 0.15
87 73 0.25
88 10 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (84 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAATT
CTGTTTTTAATTCTGTTTC
Found at i:134286937 original size:28 final size:29
Alignment explanation
Indices: 134286897--134286953 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
134286887 ACTCATATTG
134286897 CGAGAGGTGAGTTGAG-CTTTTAATTTCT
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCT
*
134286925 CGAGAGTTGAGTTGAGTCTTTTAATTTCT
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCT
134286954 GTTTTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (29 bp):
CGAGAGGTGAGTTGAGTCTTTTAATTTCT
Found at i:134287084 original size:249 final size:243
Alignment explanation
Indices: 134286366--134287120 Score: 929
Period size: 245 Copynumber: 3.1 Consensus size: 243
134286356 CTCAAGACAT
* *
134286366 GCTGAGGTATTTTCAATTTCTG---TTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * * * *
134286428 AGCCTCAG---ACACGCTGAGGTA--ATTTCAATTTCTG-TTGTCAAAAAATCAACTCGTATTGT
66 AGCTTCAGATCACACACTGAGGTATCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGC
* * *
134286487 GAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC-AAT-T-TTTTTCAATTTCTGCC
131 GAGAGGTGAGTTGAGCCTCA-GTCACATGTCGAGGTATTTTCAAATCTGTTTTTCAA-TTCTG--
134286549 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
192 TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
134286604 GCTGAGCTATTTTCAATTTCTG---TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
134286666 AGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTG
66 AGCTTCAGATCACACACTGAGGTATCTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTG
* *
134286731 CGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATTCTGT
130 CGAGAGGTGAGTTGAGCCTC-AGTCACATGTCGAGGTATTTTC-AAATCTGTTTTTCAATTCTGT
* *
134286796 TTC--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
193 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
134286845 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* * * * *
134286910 GAGCTTTTA-ATTTCTCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACT
65 GAGC-TTCAGA--TCAC-ACA-CTGAGGT-A-TCTTTTCAATTTCTGTTTTTCAAAAAATCAACT
* * *
134286972 CATATTGCGAGAGGTGAGTTGAACCTCAGTCACATATCGAGGTATTTTCAAATCTGCTTTTCAAG
123 CATATTGCGAGAGGTGAGTTGAGCCTCAGTCACATGTCGAGGTATTTTCAAATCTGTTTTTCAA-
**
134287037 TTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
187 TTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
134287094 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTGTTTTT
134287121 AATGTCTGTT
Statistics
Matches: 453, Mismatches: 38, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
238 66 0.15
241 78 0.17
243 10 0.02
244 16 0.04
245 84 0.19
246 21 0.05
247 33 0.07
248 43 0.09
249 84 0.19
250 13 0.03
251 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (243 bp):
GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCTTCAGATCACACACTGAGGTATCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCAGTCACATGTCGAGGTATTTTCAAATCTGTTTTTCAATTCTGTTTC
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:134287790 original size:21 final size:21
Alignment explanation
Indices: 134287766--134287838 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 21
134287756 TAAGCCCCCC
**
134287766 AAAAAAAAAACCTAACCAAAAAA
1 AAAAAAAAAACCTAACC--CCAA
134287789 AAAAGAAAAAACCTAACCCCAA
1 AAAA-AAAAAACCTAACCCCAA
*
134287811 AAAAGAAAAACCTAACCCCAA
1 AAAAAAAAAACCTAACCCCAA
134287832 AAAAAAA
1 AAAAAAA
134287839 CCAAGAAACN
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 22 0.49
22 6 0.13
23 4 0.09
24 13 0.29
ACGTcount: A:0.71, C:0.22, G:0.03, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACCTAACCCCAA
Found at i:134296654 original size:40 final size:40
Alignment explanation
Indices: 134296606--134296811 Score: 206
Period size: 40 Copynumber: 5.2 Consensus size: 40
134296596 CTCTTCGAAT
* * * *
134296606 TTAG-CCGGATATAACCACAAGCGCAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
134296645 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
134296685 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
134296725 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * *
134296764 TTAGCCCGGATATATTC-ACT-GCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATA-ACAACTAGCACAAATGCCTTCGGGTC
134296803 TTAGCCCGG
1 TTAGCCCGG
134296812 GTATCATTCA
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 14 0.10
39 37 0.26
40 89 0.63
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:134298670 original size:40 final size:40
Alignment explanation
Indices: 134298622--134298829 Score: 215
Period size: 40 Copynumber: 5.2 Consensus size: 40
134298612 TCTTCGAAAT
* * * *
134298622 TTAG-CCGGATATAACCACAAGCGCAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
134298661 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
134298701 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
134298741 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * * *
134298781 TTAGCCCGGATATATTC-ACTGGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATA-ACAACTAGCACAAATGCCTTCGGGTC
134298821 TTAGCCCGG
1 TTAGCCCGG
134298830 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:134303797 original size:40 final size:40
Alignment explanation
Indices: 134303735--134303939 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
134303725 AAGCCAAGTA
* * *
134303735 CCTTCGGGATTTA-ACCGGATATAG-CTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTCGCACAAATG
*
134303774 CCTTCGGGACTTAGCCCGGATATAGT-AGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCA-CTCGCACAAATG
* *
134303814 CCTTCGGTACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
*
134303854 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATG
*
134303894 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATG
134303934 CCTTCG
1 CCTTCG
134303940 TTGTCATCCG
Statistics
Matches: 152, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
39 14 0.09
40 137 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
Found at i:134312378 original size:38 final size:38
Alignment explanation
Indices: 134312327--134312418 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
134312317 CTATACGACT
*
134312327 TGGTGTGTAGGGCTGGGTGGGTTGATTTTACCCCCACA
1 TGGTGTGTAGGGCTGGGTAGGTTGATTTTACCCCCACA
134312365 TGGTGTGTAGGGCTGGGTAGGTTGATTTTACCCCCACA
1 TGGTGTGTAGGGCTGGGTAGGTTGATTTTACCCCCACA
134312403 TGGTGTGTAGGGCTGG
1 TGGTGTGTAGGGCTGG
134312419 TATGGAGATG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.32
Consensus pattern (38 bp):
TGGTGTGTAGGGCTGGGTAGGTTGATTTTACCCCCACA
Found at i:134315322 original size:44 final size:46
Alignment explanation
Indices: 134315212--134315333 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 46
134315202 GATAAGATGA
* *
134315212 TGACGCCATGTCCCAGACATGGTCTTACGCTGGCTAGCACATCAAAG
1 TGACGCCATGTCCCAGACA-GGTCTTACACTGACTAGCACATCAAAG
*
134315259 TCGATGCCATGTCCCAGACAGGTCTTACACTGAC-ACGCA-A-C-AAG
1 T-GACGCCATGTCCCAGACAGGTCTTACACTGACTA-GCACATCAAAG
*
134315303 CTGACGCCATGTCCCAGACAGGTTTTACACT
1 -TGACGCCATGTCCCAGACAGGTCTTACACT
134315334 AGCTTGTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 30 0.45
45 2 0.03
46 2 0.03
47 16 0.24
48 17 0.25
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (46 bp):
TGACGCCATGTCCCAGACAGGTCTTACACTGACTAGCACATCAAAG
Found at i:134315863 original size:46 final size:48
Alignment explanation
Indices: 134315747--134315871 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
134315737 ACTCGATTTT
* * *
134315747 GCTGATGCATGTCCCAAACATGTCTCACACTGGCTGGTATATCTCGAG
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGCTCGTATATATCGAG
* * * *
134315795 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTA-ATAT-GTG
1 GCTGATGCATGTCCCAAACATGTCTTACACTGGCTCGTATATATCGAG
*
134315841 GCTGATGCATGTCCTAAACATGTCTTACACT
1 GCTGATGCATGTCCCAAACATGTCTTACACT
134315872 AGCACACATA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 30 0.45
47 3 0.04
48 34 0.51
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (48 bp):
GCTGATGCATGTCCCAAACATGTCTTACACTGGCTCGTATATATCGAG
Found at i:134316325 original size:19 final size:20
Alignment explanation
Indices: 134316297--134316339 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
134316287 TATAGCAACC
*
134316297 CAAAATTACCAT-TATTTCA
1 CAAAAGTACCATCTATTTCA
*
134316316 CAAAAGTACCATCTATTTTA
1 CAAAAGTACCATCTATTTCA
134316336 CAAA
1 CAAA
134316340 CTTTACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (20 bp):
CAAAAGTACCATCTATTTCA
Found at i:134318081 original size:86 final size:85
Alignment explanation
Indices: 134317925--134318081 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
134317915 AGCTTGTACA
* *
134317925 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
134317990 CTTACACAAAAACATATATG
66 CTTACACAAAAACATATATG
** * *
134318010 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTTCCAGAC-G
1 ATGCCAACATCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGACAG
134318072 TGGTCTTACA
63 -GGTCTTACA
134318082 TGATAACTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 28 0.45
86 30 0.48
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACAAAAACATATATG
Found at i:134329049 original size:42 final size:42
Alignment explanation
Indices: 134328941--134329061 Score: 100
Period size: 42 Copynumber: 2.8 Consensus size: 42
134328931 AACAAGTACA
* * * * *
134328941 ATGCCGACGTCCCAGACGTGGTCTTAAATCTAATTCAATATCG
1 ATGCCGATGTCCCAAACATGGTCTTAAA-CGAAATCAATATCG
** * * * *
134328984 ATGCCTCTGTCCCATATAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCGATGTCCCAAACATGGTCTTAAACGAAATC-AATATCG
*
134329026 ATGCCGATGTCCCAAACATGGTCTTATACGTAAATC
1 ATGCCGATGTCCCAAACATGGTCTTAAACG-AAATC
134329062 TCAATCGAGG
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCGATGTCCCAAACATGGTCTTAAACGAAATCAATATCG
Found at i:134331533 original size:27 final size:27
Alignment explanation
Indices: 134331503--134331594 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
134331493 ATTACCAAAG
* *
134331503 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
134331530 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
134331557 TACCCTC-AGTTTACAAAACTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
134331584 TACCCTCGATT
1 TACCCTCGATT
134331595 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:134331536 original size:54 final size:53
Alignment explanation
Indices: 134331478--134331604 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
134331468 TATTGAAATG
* * *
134331478 CCCTCGACTTGTAAAATTACCAAAGTACCCTC-GATTTATAAAATTATCGTTTTA
1 CCCTCGA-TTGTAAAATTACCAAAGTACCCTCAG-TTTACAAAACTACCGTTTTA
***
134331532 CCCTCGATT-TACAAAATTACCATTTTACCCTCAGTTTACAAAACTACCGTTTTA
1 CCCTCGATTGT--AAAATTACCAAAGTACCCTCAGTTTACAAAACTACCGTTTTA
*
134331586 CCCTCGATTGTGAAATTAC
1 CCCTCGATTGTAAAATTAC
134331605 TGAAATACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
52 1 0.02
53 9 0.15
54 50 0.81
55 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (53 bp):
CCCTCGATTGTAAAATTACCAAAGTACCCTCAGTTTACAAAACTACCGTTTTA
Found at i:134331616 original size:27 final size:27
Alignment explanation
Indices: 134331586--134331724 Score: 97
Period size: 27 Copynumber: 5.1 Consensus size: 27
134331576 TACCGTTTTA
**
134331586 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
*
134331613 CCCT-G-TAG-GATAGAATTACCAAAATAC
1 CCCTCGATTGTG--A-AATTACCAAAATAC
* * *
134331640 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
* * * * *
134331667 CACTGGTTTGTGAAATTATCGAAATA-
1 CCCTCGATTGTGAAATTACCAAAATAC
* *
134331693 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTGAAATTACCAAAATAC
134331721 CCCT
1 CCCT
134331725 AATTTACAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 5 0.06
27 71 0.82
28 6 0.07
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (27 bp):
CCCTCGATTGTGAAATTACCAAAATAC
Found at i:134331665 original size:54 final size:54
Alignment explanation
Indices: 134331584--134331724 Score: 137
Period size: 54 Copynumber: 2.6 Consensus size: 54
134331574 ACTACCGTTT
* * **
134331584 TACCCTCGA-TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGGTAGG-TGA-AATTACCAAAA
* * ** * *
134331637 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
134331691 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
134331725 AATTTACAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 5 0.07
54 60 0.85
55 5 0.07
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
Found at i:134331694 original size:81 final size:81
Alignment explanation
Indices: 134331593--134331748 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
134331583 TTACCCTCGA
** * * **
134331593 TTGTGAAATTACTGAAATACCC-CTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCTCAATAGG-TAAAATTACCAAAATACCCCTAATTTACAAAATT
134331657 ACCA-AAATACCACTGGT
65 A-CAGAAATACCACTGGT
**
134331674 TTGTGAAATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACT-GAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTACAAAATT
134331738 ACAGAAATACC
65 ACAGAAATACC
134331749 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.05
81 58 0.91
82 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCTCAATAGGTAAAATTACCAAAATACCCCTAATTTACAAAATTA
CAGAAATACCACTGGT
Found at i:134331728 original size:27 final size:27
Alignment explanation
Indices: 134331626--134331749 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
134331616 TGTAGGATAG
*
134331626 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
134331653 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
134331680 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
134331707 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
134331734 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
134331750 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:134331737 original size:54 final size:54
Alignment explanation
Indices: 134331646--134331806 Score: 146
Period size: 54 Copynumber: 2.9 Consensus size: 54
134331636 ATACCCCTAG
** ***
134331646 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATC-GAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTA-CAGAAATACCCTCAA
* * *
134331700 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTACAGAAATACCC-TCAA
* * * ** *
134331755 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTAATTTACAAAATTACAGAAATACCCT
134331807 TGGTTTGTAG
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 42 0.48
55 8 0.09
56 37 0.42
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTACAAAATTACAGAAATACCCTCAA
Found at i:134331800 original size:27 final size:27
Alignment explanation
Indices: 134331727--134331812 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
134331717 ATACCCCTAA
* *
134331727 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
134331755 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
134331783 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
134331810 TTT
1 TTT
134331813 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:134332814 original size:24 final size:25
Alignment explanation
Indices: 134332738--134332807 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
134332728 AGGAAGTGCT
* *
134332738 AAAAA-GGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
*
134332762 GAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
134332787 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
134332808 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:134332820 original size:24 final size:24
Alignment explanation
Indices: 134332737--134332832 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
134332727 GAGGAAGTGC
*
134332737 TAAAAAGGCTATGCCCCAGTTTACC
1 TAAAAAGGCTATGCCCCAGTTTA-T
* * *
134332762 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAAGGCTATGCCCCAGTTTAT
* *
134332786 CAAAAAGGGCTTTGCCCCAG-TTAT
1 TAAAAA-GGCTATGCCCCAGTTTAT
*
134332810 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAA-AGGCTATGCC-CCAGTT
134332833 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
24 19 0.33
25 38 0.66
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
TAAAAAGGCTATGCCCCAGTTTAT
Found at i:134333078 original size:31 final size:31
Alignment explanation
Indices: 134333029--134333140 Score: 169
Period size: 31 Copynumber: 3.7 Consensus size: 31
134333019 CGTTTACAGT
134333029 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
134333059 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
134333090 AAAAGCTTTGGCCCAGTGATATGATTT-TGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
134333120 AAA-GCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
134333141 TCGAGACTGA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
28 5 0.06
29 11 0.14
30 17 0.22
31 44 0.57
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:134336809 original size:2 final size:2
Alignment explanation
Indices: 134336802--134336827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
134336792 CACATTCGGC
134336802 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
134336828 AATGTATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134345251 original size:28 final size:28
Alignment explanation
Indices: 134345219--134345288 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
134345209 AATGAGATTG
*
134345219 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
134345247 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
134345275 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
134345289 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:134353919 original size:40 final size:39
Alignment explanation
Indices: 134353845--134354069 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
134353835 AACCTAAGTA
* *
134353845 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
134353884 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
134353924 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
134353967 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
134354007 CCTTCGGGACTTAGCCCGGATATAGGAACTTGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
* *
134354047 CCTTCAGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
134354070 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.08
40 112 0.69
41 2 0.01
43 35 0.21
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:134353968 original size:83 final size:83
Alignment explanation
Indices: 134353845--134354069 Score: 320
Period size: 83 Copynumber: 2.8 Consensus size: 83
134353835 AACCTAAGTA
* *
134353845 CCTTCGGGATTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
134353906 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
* * *
134353924 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
134353989 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
* * * *
134354007 CCTTCGGGACTTAGCCCGGATATAGGAACT--T-GCACAAATACCTTCAGGACTTAGCTCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
134354069 T
66 T
134354070 CATCCGAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 37 0.28
81 2 0.02
83 78 0.60
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
TAGTCACTAGCACAAATG
Found at i:134362828 original size:20 final size:20
Alignment explanation
Indices: 134362718--134362820 Score: 197
Period size: 20 Copynumber: 5.2 Consensus size: 20
134362708 ATTTTGATAA
134362718 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
134362738 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
134362758 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
134362778 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
134362798 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
134362818 ACA
1 ACA
134362821 CGAGATGTTC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:134362905 original size:23 final size:23
Alignment explanation
Indices: 134362875--134363018 Score: 236
Period size: 23 Copynumber: 6.1 Consensus size: 23
134362865 AGGAAGTACA
134362875 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
134362898 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
134362923 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
134362946 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
134362969 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
134362992 AAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
134363016 AAA
1 AAA
134363019 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 2, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
22 3 0.03
23 68 0.59
24 12 0.10
25 32 0.28
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:134362946 original size:48 final size:47
Alignment explanation
Indices: 134362875--134363018 Score: 231
Period size: 48 Copynumber: 3.1 Consensus size: 47
134362865 AGGAAGTACA
134362875 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AT
134362923 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
*
134362969 AAAGGGCTTACGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTATAT
134363016 AAA
1 AAA
134363019 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
46 23 0.25
47 16 0.17
48 54 0.58
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
Found at i:134362998 original size:71 final size:70
Alignment explanation
Indices: 134362875--134363018 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 70
134362865 AGGAAGTACA
* *
134362875 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCA
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATGAAAAAGGGCTT-TGCCCCA
134362940 GTTATT
65 GTTATT
*
134362946 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATTAAAAAGGGCTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATGAAAAAGGGCTTTGCCCCAG
134363011 TTATT
66 TTATT
134363016 AAA
1 AAA
134363019 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 16 0.23
71 54 0.77
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTATGAAAAAGGGCTTTGCCCCAG
TTATT
Found at i:134370682 original size:39 final size:40
Alignment explanation
Indices: 134370582--134370763 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
134370572 TCGAATGATG
* * *
134370582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
134370622 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
134370662 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
134370700 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
** *
134370741 -CCGGGCTTCGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
134370764 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:134370747 original size:78 final size:80
Alignment explanation
Indices: 134370582--134370733 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 80
134370572 TCGAATGATG
* * * *
134370582 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
134370647 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
134370662 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
134370724 CGTGCGAGTT
65 CGTGCGAGTT
134370734 GCTATAACCG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 1 0.02
78 37 0.58
79 15 0.23
80 11 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:134370896 original size:43 final size:43
Alignment explanation
Indices: 134370835--134370924 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
134370825 GCTGTAAAAT
134370835 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
1 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
134370878 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
1 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
134370921 TTCA
1 TTCA
134370925 TATGAGCTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (43 bp):
TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
Found at i:134370934 original size:40 final size:42
Alignment explanation
Indices: 134370835--134370936 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 42
134370825 GCTGTAAAAT
*
134370835 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
1 TTCAG-TAATGAGCTTGAAAAAAAATTCCAGCAATGAGGTATG
*
134370878 TTCAGTTAATGCGCTTGAAAAAAAATTCCAGCAATGAGGTATG
1 TTCAG-TAATGAGCTTGAAAAAAAATTCCAGCAATGAGGTATG
134370921 TTCA-T-ATGAGCTTGAA
1 TTCAGTAATGAGCTTGAA
134370937 TTAGTTGATT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
40 10 0.17
41 1 0.02
43 47 0.81
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (42 bp):
TTCAGTAATGAGCTTGAAAAAAAATTCCAGCAATGAGGTATG
Found at i:134373000 original size:42 final size:42
Alignment explanation
Indices: 134372892--134373051 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 42
134372882 AGCTCATACA
* ***
134372892 ATGCCAACGTCCCAAATATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAA-GTGGTCTTACACAAAATCAAATATCG
134372935 ATGCC-ACTGTCCCAGATAG-GGTCTTACACAAAATCAAATAT-G
1 ATGCCAAC-GTCCCA-A-AGTGGTCTTACACAAAATCAAATATCG
* * ** *
134372977 ATGCCAACGCCCCAAACGTGGTCTTACTCGTCAATCATAA-GTCG
1 ATGCCAACGTCCCAAA-GTGGTCTTACAC-AAAATCA-AATATCG
* *
134373021 ATGCCAACATCCCAGACGTGGTCTTACACAA
1 ATGCCAACGTCCCA-AAGTGGTCTTACACAA
134373052 GAACACATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 22 0.24
43 38 0.41
44 27 0.29
45 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAAAGTGGTCTTACACAAAATCAAATATCG
Found at i:134375516 original size:93 final size:93
Alignment explanation
Indices: 134375404--134375575 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
134375394 GCCCATAAGT
* *
134375404 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
134375468 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
134375497 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
134375562 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
134375576 AAATATCCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:134375571 original size:46 final size:46
Alignment explanation
Indices: 134375396--134375571 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
134375386 TGTAACCCGC
* *
134375396 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCAT
* *
134375442 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
134375492 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
134375535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
134375572 TGCCAAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 67 0.60
47 31 0.28
48 2 0.02
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:134377998 original size:30 final size:30
Alignment explanation
Indices: 134377954--134378042 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
134377944 CAAAGATAAC
*
134377954 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
134377983 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
134378013 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
134378043 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:134378002 original size:15 final size:14
Alignment explanation
Indices: 134377954--134378036 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
134377944 CAAAGATAAC
*
134377954 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
134377968 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
134377983 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
134377998 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
134378013 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
134378028 AAGAAACCC
1 AAGAAACCC
134378037 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:134378042 original size:15 final size:15
Alignment explanation
Indices: 134377965--134378042 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
134377955 AGAAAACCGA
134377965 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
134377980 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
134377994 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
134378009 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
134378025 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
134378040 ATA
1 ATA
134378043 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:134380481 original size:93 final size:93
Alignment explanation
Indices: 134380368--134380540 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
134380358 CGCCCATAAG
* *
134380368 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
134380433 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
134380461 CGAACTCTGACTCAACTCAACGAGTTCGGACGCTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
134380526 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
134380541 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:134380536 original size:46 final size:46
Alignment explanation
Indices: 134380361--134380536 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
134380351 TGTAACCCGC
* * *
134380361 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* * *
134380407 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGTAT
* * * *
134380453 ACATCTCA-CGAACTCTGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* *
134380500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
134380537 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 71 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
Found at i:134384549 original size:41 final size:41
Alignment explanation
Indices: 134384504--134384621 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
134384494 TGAAAGATAA
134384504 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
134384545 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
134384575 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
134384616 ATGTAG
1 ATGTAG
134384622 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:134384560 original size:71 final size:71
Alignment explanation
Indices: 134384472--134384635 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
134384462 GAGATGTATC
134384472 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
134384537 AGGACA
66 AGGACA
134384543 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
134384608 AGGACA
66 AGGACA
134384614 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
134384636 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:134390689 original size:41 final size:41
Alignment explanation
Indices: 134390644--134390761 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
134390634 TGAAAGATAA
134390644 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
134390685 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
134390715 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
134390756 ATGTAG
1 ATGTAG
134390762 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:134390700 original size:71 final size:71
Alignment explanation
Indices: 134390612--134390775 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
134390602 GAGATGTATC
134390612 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
134390677 AGGACA
66 AGGACA
134390683 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
134390748 AGGACA
66 AGGACA
134390754 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
134390776 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:134393689 original size:17 final size:18
Alignment explanation
Indices: 134393667--134393701 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
134393657 GTTTACCCGT
134393667 GTAGGGCCCACA-AGCCC
1 GTAGGGCCCACACAGCCC
134393684 GTAGGGCCCACACAGCCC
1 GTAGGGCCCACACAGCCC
134393702 ATTTCGGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.23, C:0.43, G:0.29, T:0.06
Consensus pattern (18 bp):
GTAGGGCCCACACAGCCC
Found at i:134397520 original size:29 final size:29
Alignment explanation
Indices: 134397486--134397559 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 29
134397476 TACTCGATTT
* * *
134397486 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
134397515 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
134397544 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
134397560 CATATTTCCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.20
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:134397577 original size:29 final size:29
Alignment explanation
Indices: 134397545--134397674 Score: 208
Period size: 29 Copynumber: 4.5 Consensus size: 29
134397535 CTTCGAGCTC
*
134397545 GCACACTTAGTGCCACATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* * *
134397574 GCACACTCAGTGCCGTATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
134397603 GCACACTCAGTGCCATAT-TTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
134397631 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
134397660 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
134397675 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 27 0.29
29 67 0.71
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:134397643 original size:57 final size:58
Alignment explanation
Indices: 134397545--134397674 Score: 208
Period size: 57 Copynumber: 2.3 Consensus size: 58
134397535 CTTCGAGCTC
* *
134397545 GCACACTTAGTGCCACATATTTCCAGCATGCACACTCAGTGCCGTATTTTTCCAGCAT
1 GCACACTTAGTGCCACATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
* * *
134397603 GCACACTCAGTGCCATAT-TTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCACATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
134397660 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
134397675 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
57 50 0.76
58 16 0.24
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (58 bp):
GCACACTTAGTGCCACATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
Found at i:134400006 original size:30 final size:30
Alignment explanation
Indices: 134399970--134400070 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
134399960 GACAAGATTG
* * *
134399970 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
134400000 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
134400028 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
134400057 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
134400071 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:134400082 original size:29 final size:28
Alignment explanation
Indices: 134399999--134400074 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
134399989 AAAATTGTAC
* *
134399999 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
134400027 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
134400056 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
134400075 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:134408871 original size:40 final size:40
Alignment explanation
Indices: 134408331--134408852 Score: 902
Period size: 40 Copynumber: 13.1 Consensus size: 40
134408321 AGTTGTATAG
* * * *
134408331 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408371 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
134408411 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
134408451 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408491 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408531 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408571 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
134408611 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408651 CCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
134408691 CCGGACTAAATCCCG-AGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408730 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
134408770 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
134408810 CTGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
134408850 CCG
1 CCG
134408853 AGCTGGGTCC
Statistics
Matches: 460, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
39 38 0.08
40 422 0.92
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:134412391 original size:47 final size:47
Alignment explanation
Indices: 134412323--134412541 Score: 357
Period size: 47 Copynumber: 4.7 Consensus size: 47
134412313 CCTGTATATA
* *
134412323 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
134412370 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
134412417 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
134412464 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * * * *
134412511 TATATGTGGTAAAGCCAAATGGCTAATGTGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGA
134412542 GGCCGAATGG
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:134412551 original size:66 final size:65
Alignment explanation
Indices: 134412475--134412607 Score: 180
Period size: 65 Copynumber: 2.0 Consensus size: 65
134412465 ATGTGTGATA
* *
134412475 AGGCCGAATGGCCAATGTGATGAATGTG-AACATG-TATATATGTGGTAAAGCCAAATGGCTAAT
1 AGGCCGAATGGCCAATGCGA--AATGTGTAACA-GATAGATATGTGGTAAAGCCAAATGGCTAAT
134412538 GTG
63 GTG
* **
134412541 AGGCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
1 AGGCCGAATGGCCAATGCGAAATGTGTAACAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
134412606 AG
1 AG
134412608 ATATGTATGA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 7 0.12
65 35 0.58
66 18 0.30
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (65 bp):
AGGCCGAATGGCCAATGCGAAATGTGTAACAGATAGATATGTGGTAAAGCCAAATGGCTAATGTG
Found at i:134420843 original size:47 final size:47
Alignment explanation
Indices: 134420774--134420973 Score: 310
Period size: 47 Copynumber: 4.3 Consensus size: 47
134420764 CCCTTCGGGA
* * * *
134420774 CTTATCACACATATGCACTTTCACATCCATCATATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
134420821 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
134420868 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
134420915 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
134420962 CTTATCACACAT
1 CTTATCACACAT
134420974 GTATGTATAT
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 138 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:134420935 original size:94 final size:94
Alignment explanation
Indices: 134420774--134420973 Score: 373
Period size: 94 Copynumber: 2.1 Consensus size: 94
134420764 CCCTTCGGGA
*
134420774 CTTATCACACATATGCACTTTCACATCCATCATATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
134420839 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* *
134420868 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
134420933 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
134420962 CTTATCACACAT
1 CTTATCACACAT
134420974 GTATGTATAT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATGCACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:134423707 original size:2 final size:2
Alignment explanation
Indices: 134423700--134423736 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
134423690 CTATAGCCGA
134423700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
134423737 ACATGCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:134455634 original size:46 final size:46
Alignment explanation
Indices: 134455581--134455756 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
134455571 TATTTGGGCA
134455581 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
134455627 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
134455672 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
134455720 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
134455757 GCTGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:134455736 original size:93 final size:93
Alignment explanation
Indices: 134455577--134455749 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
134455567 GGGATATTTG
*
134455577 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
134455642 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
134455670 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
134455734 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
134455750 CTTATGGGCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
92 1 0.01
93 76 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:134460299 original size:30 final size:30
Alignment explanation
Indices: 134460265--134460325 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
134460255 TCCTTAACTC
134460265 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
134460295 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
134460325 A
1 A
134460326 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:134467091 original size:29 final size:28
Alignment explanation
Indices: 134467045--134467110 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
134467035 TCAGCTGCAC
134467045 TAGTGCC-ATATTTCCAGCACGCACACT
1 TAGTGCCAATATTTCCAGCACGCACACT
134467072 TAGTGCCATATATTTCCAGCACGCACACT
1 TAGTGCCA-ATATTTCCAGCACGCACACT
134467101 TAGTGCCAAT
1 TAGTGCCAAT
134467111 CTCGTCACCG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
27 7 0.19
28 2 0.05
29 28 0.76
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
TAGTGCCAATATTTCCAGCACGCACACT
Found at i:134474918 original size:57 final size:58
Alignment explanation
Indices: 134474856--134474985 Score: 147
Period size: 57 Copynumber: 2.3 Consensus size: 58
134474846 AATTTAAGCC
* * * * * *
134474856 CGCACACATAGTGCCATA-CCCTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* ** **
134474913 TGCACA-TTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
134474970 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
134474986 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 10 0.17
57 40 0.68
58 9 0.15
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:134474961 original size:29 final size:29
Alignment explanation
Indices: 134474884--134474985 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
134474874 CCCTCGAGCT
** * *
134474884 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
134474913 TGCACA-TTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
134474941 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
134474970 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
134474986 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 23 0.35
29 43 0.65
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:134480823 original size:79 final size:79
Alignment explanation
Indices: 134480706--134480930 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 79
134480696 GCTACTCGTT
* * *
134480706 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
134480771 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * *
134480786 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCTG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
134480849 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * * *
134480865 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-ACCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
134480929 GA
64 GA
134480931 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.03
79 66 0.53
80 44 0.35
81 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:134480930 original size:40 final size:40
Alignment explanation
Indices: 134480706--134480930 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
134480696 GCTACTCGTT
* *
134480706 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
134480746 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
134480786 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
134480825 CGAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * *
134480865 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
134480906 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
134480931 CATCATTCGA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:134483755 original size:281 final size:274
Alignment explanation
Indices: 134483260--134483810 Score: 780
Period size: 281 Copynumber: 2.0 Consensus size: 274
134483250 TCTTCAATTC
* **
134483260 TTTTGCACATTATTGCCTCAGTAGATCCACATTCTCATGCATACTGACTTAGTCTTACAATCGTA
1 TTTTGCACATTATTGCCTCAGTAGATCCACATTCTCATGCATACTGACTCAACCTTACAATCGTA
* * * *
134483325 TTTTGTAACAGACATACGACCTTACTTCAGTTCAAGAAACTCTTTGCGTTTCTGATCGATGAATC
66 TTCTGTAACAGACATACGACCATACTTCAGTTCAAGAAACTCTTTACATTTCTGATCGATGAATC
* * * * * * ** *
134483390 TTTTACTAATGTATTTCTTTTGGAATTCAACTTGGAAGAAATCCCAGGTAACTTGTTTTTTTGGA
131 TCTGACTAATGTATTTATTTTGGAATTCAACTTGGAAGAAATCCAACGTAACTTATTCCTTCGGA
* ** *
134483455 ACCACGGATATTAAAGTCTTCCA-TAATGATACGTTGTATCTCTCAAAAATGAAATGACACACTT
196 ACCACGGATATTAAAGTCTTCCACCAATGATACGTCATATCTCTCAAAAATGAAAGGACACACTT
134483519 AAGGCATTCAAATA
261 AAGGCATTCAAATA
134483533 TTTTGCACATTATTGCCTCAGTAGATCCACATTCTCATGCATACTGACTCAACCTTACAAATTCT
1 TTTTGCACATTATTGCCTCAGTAGATCCACATTCTCATGCATACTGACTCAACCTTAC-AA---T
* * *
134483598 CGCTTGTATTCTGTAACAGACATACGACCATGCTTCAGTTCAAGAAACTCTTTACATTTTTTATC
62 --C--GTATTCTGTAACAGACATACGACCATACTTCAGTTCAAGAAACTCTTTACATTTCTGATC
*
134483663 GATGTATCTCTGACTAATGTATTTATTTTGGAATTCAACTTGGAAGAAATCCAACGTAACTTATT
123 GATGAATCTCTGACTAATGTATTTATTTTGGAATTCAACTTGGAAGAAATCCAACGTAACTTATT
* * *
134483728 CCTTCGGAACCACGGATATTAAAGTCTTCCACCAATGATAGGTCATATCTTTCAAAAGTGAAAGG
188 CCTTCGGAACCACGGATATTAAAGTCTTCCACCAATGATACGTCATATCTCTCAAAAATGAAAGG
134483793 ACACACTTAAGGCATTCA
253 ACACACTTAAGGCATTCA
134483811 TCCGAAGTCA
Statistics
Matches: 242, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
273 55 0.23
274 2 0.01
277 1 0.00
279 1 0.00
281 139 0.57
282 44 0.18
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (274 bp):
TTTTGCACATTATTGCCTCAGTAGATCCACATTCTCATGCATACTGACTCAACCTTACAATCGTA
TTCTGTAACAGACATACGACCATACTTCAGTTCAAGAAACTCTTTACATTTCTGATCGATGAATC
TCTGACTAATGTATTTATTTTGGAATTCAACTTGGAAGAAATCCAACGTAACTTATTCCTTCGGA
ACCACGGATATTAAAGTCTTCCACCAATGATACGTCATATCTCTCAAAAATGAAAGGACACACTT
AAGGCATTCAAATA
Done.