Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 93 of 410
Found at i:27164759 original size:86 final size:85
Alignment explanation
Indices: 27164652--27164813 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
27164642 TAGGATTCCG
* * *
27164652 ATATGTGATTTCATGTAAGACCAC-GTTTGGGACATTGGCATC-A-ATTTGATAGTTACGTGTAA
1 ATATGTGATTTCATGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTG--A-TTACATGTAA
*
27164714 GACCATGTCTGGGACATCGGCATC
62 GACCACGTCTGGGACATCGGCATC
*
27164738 ATATTTGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
1 ATATGTGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
27164803 ACGTCTGGGAC
66 ACGTCTGGGAC
27164814 GTTGGCATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 24 0.35
86 38 0.56
87 1 0.01
88 5 0.07
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (85 bp):
ATATGTGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
ACGTCTGGGACATCGGCATC
Found at i:27164799 original size:43 final size:42
Alignment explanation
Indices: 27164652--27164821 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 42
27164642 TAGGATTCCG
* * * *
27164652 ATATGTGATTTCATGTAAGACCACGTTTGGGACATTGGCATC
1 ATATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCATC
* *
27164694 A-ATTTGATAGTTACGTGTAAGACCATGTCTGGGACA-TCGGCATC
1 ATATTTG--A-TTACATGTAAGACCACGTCTGGGACAGT-GGCATC
*
27164738 ATATTTGATTTCATGTAAGACC-CTGTCTGGGACAGTGGCATC
1 ATATTTGATTACATGTAAGACCAC-GTCTGGGACAGTGGCATC
27164780 GATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 -ATATTTGATTACATGTAAGACCACGTCTGGGACAG-TGGCAT
27164822 TGTACGAGCT
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 4 0.04
42 30 0.28
43 40 0.37
44 30 0.28
45 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
ATATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCATC
Found at i:27172291 original size:42 final size:43
Alignment explanation
Indices: 27172231--27172334 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
27172221 GAGATTTATG
* *
27172231 TGTAACACCATGTCTGGGACA-TCGGGATC-ATATTTGATTTCA
1 TGTAAAACCATGTCTGGGACAGT-GGGATCGATATTTGATTACA
* * * *
27172273 TGTAAAACCCTGTTTGGGATAGTGGTATCGATATTTGATTACA
1 TGTAAAACCATGTCTGGGACAGTGGGATCGATATTTGATTACA
* * *
27172316 TGTAAGACCACGTATGGGA
1 TGTAAAACCATGTCTGGGA
27172335 TGTTGGCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 22 0.44
43 28 0.56
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAAACCATGTCTGGGACAGTGGGATCGATATTTGATTACA
Found at i:27175906 original size:20 final size:19
Alignment explanation
Indices: 27175881--27175918 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27175871 TCTTCCAAAA
27175881 TATTGATACCTGTGATGGCG
1 TATTGATACCTGT-ATGGCG
*
27175901 TATTGATACTTGTATGGC
1 TATTGATACCTGTATGGC
27175919 TCCTAAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.39
Consensus pattern (19 bp):
TATTGATACCTGTATGGCG
Found at i:27176391 original size:21 final size:21
Alignment explanation
Indices: 27176367--27176408 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27176357 TTAGTCACTT
27176367 ATCAATTTAGTCCATGTATTA
1 ATCAATTTAGTCCATGTATTA
27176388 ATCAATTTAGTCCATGTATTA
1 ATCAATTTAGTCCATGTATTA
27176409 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
ATCAATTTAGTCCATGTATTA
Found at i:27176849 original size:55 final size:54
Alignment explanation
Indices: 27176790--27176905 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
27176780 GTGTGTGAAT
* * *
27176790 CTGACTTAAGAACATGGCCATGGCACATGCCCGTGTGACCTGCCCGTATACAATA
1 CTGACTTAAG-ACATGGCCATGGCACACGCCCGTGTGACCTACCCGTATACAACA
* * *
27176845 CTGACTTTAAGACATGGCCATGGCACACGCCCGTGTGGCCTACCTGTGTACAACA
1 CTGAC-TTAAGACATGGCCATGGCACACGCCCGTGTGACCTACCCGTATACAACA
27176900 CTGACT
1 CTGACT
27176906 AAAAAGTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
54 1 0.02
55 48 0.89
56 5 0.09
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (54 bp):
CTGACTTAAGACATGGCCATGGCACACGCCCGTGTGACCTACCCGTATACAACA
Found at i:27177743 original size:49 final size:45
Alignment explanation
Indices: 27177671--27177987 Score: 210
Period size: 46 Copynumber: 6.8 Consensus size: 45
27177661 GGATAAGTTA
27177671 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCGAGG
* * * * *
27177720 CCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCT-CGAGG
* * * * *
27177770 CTGATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCTTA-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTC-GAGG
* * *
27177814 CCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCTCGAGG
* * * * * *
27177860 CCAATGCATGTCCCAAACATGTCTTACATTGGCACTCGTCTCTATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCGAGG
* * * *
27177906 CCGATGCCATGTCCTAGACATGGTCTTATACTGGCACTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCAT-CTCGAGG
* * * *
27177954 CTGATGCATGACCCAGGCATGTTTTACACTGGCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA
27177988 CACAAGAAAT
Statistics
Matches: 211, Mismatches: 45, Indels: 27
0.75 0.16 0.10
Matches are distributed among these distances:
43 1 0.00
44 31 0.15
45 3 0.01
46 58 0.27
47 23 0.11
48 34 0.16
49 50 0.24
50 7 0.03
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCGAGG
Found at i:27177828 original size:44 final size:46
Alignment explanation
Indices: 27177671--27177887 Score: 154
Period size: 49 Copynumber: 4.6 Consensus size: 46
27177661 GGATAAGTTA
* * * *
27177671 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTATCAAC-GCGAGG
* * * ** *
27177720 CCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACG-TG
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTATC--A-ACGCGAGG
* * *
27177770 CTGATGCATGTCCCAAACATGTCTTACACTAGC-A-CAACTCTTA-G
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCTATCAACGC-GAGG
* * * * *
27177814 CCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGCGAGG
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCTATCAACGCGAGG
*
27177860 CCAATGCATGTCCCAAACATGTCTTACA
1 CCGATGCATGTCCCAAACATGTCTTACA
27177888 TTGGCACTCG
Statistics
Matches: 134, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.22
45 2 0.01
46 30 0.22
48 12 0.09
49 49 0.37
50 6 0.04
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCTATCAACGCGAGG
Found at i:27180841 original size:23 final size:23
Alignment explanation
Indices: 27180815--27180864 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
27180805 ATTAGCATAC
*
27180815 TAAAATAATA-AATTTAAATATTT
1 TAAAACAATACAATTTAAA-ATTT
*
27180838 T-AAACAATACAATTTTAAATTT
1 TAAAACAATACAATTTAAAATTT
27180860 TAAAA
1 TAAAA
27180865 ATAACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAACAATACAATTTAAAATTT
Found at i:27180846 original size:22 final size:20
Alignment explanation
Indices: 27180821--27180868 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
27180811 ATACTAAAAT
27180821 AATAAATTTAAATATTTTAAA
1 AATAAATTTAAA-ATTTTAAA
*
27180842 CAATACAATTTTAAATTTTAAA
1 -AATA-AATTTAAAATTTTAAA
27180864 AATAA
1 AATAA
27180869 CATAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 12 0.50
23 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAAATTTAAAATTTTAAA
Found at i:27184866 original size:21 final size:20
Alignment explanation
Indices: 27184841--27184895 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
27184831 ACAAAAATTA
27184841 CAAAACAATCAAAATAATTTT
1 CAAAA-AATCAAAATAATTTT
* *
27184862 CAAAAATTGAAAATAATTTT
1 CAAAAAATCAAAATAATTTT
* *
27184882 -TAAAATTCAAAATA
1 CAAAAAATCAAAATA
27184896 TTCATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.40
20 13 0.43
21 5 0.17
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (20 bp):
CAAAAAATCAAAATAATTTT
Found at i:27184874 original size:20 final size:19
Alignment explanation
Indices: 27184849--27184914 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
27184839 TACAAAACAA
27184849 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
* *
27184869 TGAAAATAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
*
27184888 TCAAAAT-ATTCATAAAAAT
1 TCAAAATAATT-TTAAAAAT
27184907 TCTAAAAT
1 TC-AAAAT
27184915 TTGTATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 3 0.08
19 19 0.49
20 17 0.44
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:27192159 original size:11 final size:11
Alignment explanation
Indices: 27192122--27192179 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
27192112 CCTTTTGTCA
27192122 TTTTCTCTTCC
1 TTTTCTCTTCC
*
27192133 CTTTCT-TTCC
1 TTTTCTCTTCC
** *
27192143 CATTCTTTTCC
1 TTTTCTCTTCC
27192154 TTTTCTCTT-C
1 TTTTCTCTTCC
*
27192164 TTTTCTC-CCC
1 TTTTCTCTTCC
27192174 TTTTCT
1 TTTTCT
27192180 TCTCTACCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 24 0.62
11 15 0.38
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTCTCTTCC
Found at i:27197646 original size:47 final size:47
Alignment explanation
Indices: 27197607--27197739 Score: 248
Period size: 47 Copynumber: 2.8 Consensus size: 47
27197597 TGTCGACTAC
27197607 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
27197654 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
27197701 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
27197740 CTTATCCCGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:27207761 original size:24 final size:24
Alignment explanation
Indices: 27207734--27207803 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
27207724 GAGCTTACTG
27207734 TTCAGCTCAATAAAGCTTA-TCATT
1 TTCAGCTCAATAAAGCTTACT-ATT
* *
27207758 TTCAACTCAATAAAGCTTACTGTT
1 TTCAGCTCAATAAAGCTTACTATT
*
27207782 TATCAGCTCAGTAAAAGCTTAC
1 T-TCAGCTCAAT-AAAGCTTAC
27207804 CGACCATGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 21 0.54
25 9 0.23
26 9 0.23
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (24 bp):
TTCAGCTCAATAAAGCTTACTATT
Found at i:27212244 original size:40 final size:40
Alignment explanation
Indices: 27212181--27212258 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
27212171 TGCGGTATCT
* *
27212181 TATGGTGTGTAGGGTTAGATGGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATAGATGGGTCGATTATATCCCCATA
* * *
27212221 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATAGATGGGTCGATTATATCCCCA
27212259 CATGATATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATAGATGGGTCGATTATATCCCCATA
Found at i:27218748 original size:46 final size:46
Alignment explanation
Indices: 27218692--27218919 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
27218682 AGTGTGCTCT
27218692 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
27218738 CTGTTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
27218784 CTGATCTGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
27218830 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
27218876 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
27218920 TCACGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:27222822 original size:40 final size:40
Alignment explanation
Indices: 27222755--27222835 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
27222745 TGCGGTACCT
* * *
27222755 TATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATA
1 TATGCTGTGCAGGGATGGATGGGTCGATTATATCCCCATA
* *
27222795 TATGCTGTGCAGGGATGGGTGGGTCGATTTTATCCCCATA
1 TATGCTGTGCAGGGATGGATGGGTCGATTATATCCCCATA
27222835 T
1 T
27222836 GGTGTAATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.35
Consensus pattern (40 bp):
TATGCTGTGCAGGGATGGATGGGTCGATTATATCCCCATA
Found at i:27225657 original size:31 final size:32
Alignment explanation
Indices: 27225565--27225659 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 32
27225555 AGATAAAGAA
* *
27225565 GATAATTTTTCAATACAAAATTCTTACCCAATAT
1 GATAGTTTTTCAATACAAAATTCTT--CCAACAT
* *
27225599 GATAGATTTGTCTCCTCATCCAAAATTCTT-CAACAT
1 GATAG-TTT-T-T-C-AATACAAAATTCTTCCAACAT
27225635 GATAGTTTTTCAATACAAAATTCTT
1 GATAGTTTTTCAATACAAAATTCTT
27225660 ACCCAATAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
31 12 0.24
32 1 0.02
33 1 0.02
34 5 0.10
35 6 0.12
36 11 0.22
37 1 0.02
38 1 0.02
39 12 0.24
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (32 bp):
GATAGTTTTTCAATACAAAATTCTTCCAACAT
Found at i:27226432 original size:15 final size:15
Alignment explanation
Indices: 27226408--27226437 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27226398 ACTTCAGTGA
27226408 ATGAGATTCAATATG
1 ATGAGATTCAATATG
*
27226423 ATGAGCTTCAATATG
1 ATGAGATTCAATATG
27226438 CGTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (15 bp):
ATGAGATTCAATATG
Found at i:27231208 original size:20 final size:19
Alignment explanation
Indices: 27231170--27231208 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
27231160 AATCGAAATG
* *
27231170 TAAATGATAGTGTTCATAT
1 TAAATGAGAGTGTTAATAT
27231189 TAAATGAGATGTGTTAATAT
1 TAAATGAGA-GTGTTAATAT
27231209 ATGATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (19 bp):
TAAATGAGAGTGTTAATAT
Found at i:27231301 original size:38 final size:38
Alignment explanation
Indices: 27231259--27231394 Score: 152
Period size: 38 Copynumber: 3.5 Consensus size: 38
27231249 AAAGACCAGC
* *
27231259 AGGCTATATGCTGGAATTATATCCTGGTTAAATCCCGT
1 AGGCTATGTGCTGGTATTATATCCTGGTTAAATCCCGT
* *
27231297 AGGCT-TCGTGCTGGTATTATATCCGGGTTAAATCCCGC
1 AGGCTAT-GTGCTGGTATTATATCCTGGTTAAATCCCGT
27231335 AGGCCTA-GTGCTGGTATTATAT-CTGAGTTTAAAGTCCCGT
1 AGG-CTATGTGCTGGTATTATATCCTG-G-TTAAA-TCCCGT
* *
27231375 AGGCTTTGTGCTGGTGTTAT
1 AGGCTATGTGCTGGTATTAT
27231395 GTTCGGGTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
37 3 0.04
38 51 0.61
39 9 0.11
40 20 0.24
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (38 bp):
AGGCTATGTGCTGGTATTATATCCTGGTTAAATCCCGT
Found at i:27235883 original size:30 final size:30
Alignment explanation
Indices: 27235847--27235977 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
27235837 GACAAGATTG
* * * * *
27235847 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
27235877 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
27235905 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
27235935 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
27235964 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27235978 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:27235938 original size:58 final size:58
Alignment explanation
Indices: 27235847--27235977 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
27235837 GACAAGATTG
* * * * * *
27235847 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
27235905 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
27235964 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27235978 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:27239909 original size:12 final size:12
Alignment explanation
Indices: 27239892--27239916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27239882 TGTGAAAAAT
27239892 AAAATAAAATAA
1 AAAATAAAATAA
27239904 AAAATAAAATAA
1 AAAATAAAATAA
27239916 A
1 A
27239917 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:27242867 original size:40 final size:40
Alignment explanation
Indices: 27242812--27243019 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
27242802 TGAATGATAC
* *
27242812 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
27242852 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
27242892 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
27242932 CCGGGCTAAGGCCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
27242972 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
27243012 CC-GGCTAA
1 CCGGGCTAA
27243020 ATTTCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:27244437 original size:3 final size:3
Alignment explanation
Indices: 27244425--27244495 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
27244415 AAATATACAT
27244425 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27244472 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
27244496 GGGAGAAAGG
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27245345 original size:21 final size:21
Alignment explanation
Indices: 27245296--27245344 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
27245286 ATTATATATC
*
27245296 TAAAAAAATAAAATAAGAAAC
1 TAAAAAAATAAAATAAGAAAA
* *
27245317 TCAAAAAATAAGA-AAGAAAA
1 TAAAAAAATAAAATAAGAAAA
27245337 TAAAAAAA
1 TAAAAAAA
27245345 AATGAAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (21 bp):
TAAAAAAATAAAATAAGAAAA
Found at i:27246327 original size:177 final size:176
Alignment explanation
Indices: 27246072--27246709 Score: 873
Period size: 177 Copynumber: 3.6 Consensus size: 176
27246062 TCTCTTGCTG
* * * *
27246072 CCTCAGAGAGAGAAGGCTGATGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGC
1 CCTCAG-GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
* * *
27246137 CGTCTTCGATCTGCTCCACTATTG-TTTGAGGAGATAAGATCTGCAATTTTCAATCTGCTCCACT
65 CGTCTTCGATCTGCTCCACTACTGCTTAG-GGAGATAAGATCTGTAATTTTCAATCTGCTCCACT
* * * * *
27246201 GTAACTTCAAGGAGATAAAACTTGTATCTTGATCCTACTCCACTACAA
129 GCAACTTCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAA
* * * *
27246249 CCTCAGTGAGATAAGGCTGGTGACTTAAATTTGCTCCATTGCTGATACATGGAGATAAGATTCAC
1 CCTCAG-GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
* * * *
27246314 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTATAATTTTCAATCTGGTCCACTA
65 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTCCACTG
** *
27246379 CAACTTCAGGGAGATAAGGCTTGTATCTTGAGCTTGCTCCACTGCAA
130 CAACTTCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAA
* * * *
27246426 CCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCTATTGTCGATACATGGAGATAAGATTTGC
1 CCTC-AGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
* * * * *
27246491 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTTTGCACCATTG
65 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTCCACTG
*
27246556 GAACTTCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAA
130 CAACTTCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAA
* *
27246603 CCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGT
1 CCTCA-GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
* * **
27246668 TGTTTTCGATCTGCTCCACTACTATTTAGGGAGATAAGATCT
65 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
27246710 ATGAATTTAC
Statistics
Matches: 403, Mismatches: 55, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
176 1 0.00
177 397 0.99
178 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (176 bp):
CCTCAGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTCCACTGC
AACTTCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAA
Found at i:27246461 original size:44 final size:43
Alignment explanation
Indices: 27246365--27246461 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
27246355 TATAATTTTC
* * * *
27246365 AATCTGGTCCACTACAACTTCAGGGAGATAAGGCTTGTATCTT
1 AATCTGCTCCACTACAACCTCAAGGAGATAAGGCTTGTAGCTT
* * * *
27246408 GAGCTTGCTCCACTGCAACCTCAAGGAGATAAGGCTTGTGGCTT
1 AATC-TGCTCCACTACAACCTCAAGGAGATAAGGCTTGTAGCTT
27246452 AAATCTGCTC
1 -AATCTGCTC
27246462 TATTGTCGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
43 2 0.05
44 38 0.90
45 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTGCTCCACTACAACCTCAAGGAGATAAGGCTTGTAGCTT
Found at i:27246480 original size:88 final size:86
Alignment explanation
Indices: 27246211--27246662 Score: 245
Period size: 88 Copynumber: 5.1 Consensus size: 86
27246201 GTAACTTCAA
* * * * * * *
27246211 GGAGATAAAACTTGTATCTTGATCCTACTCCACTACAACCTCAGTGAGATAAGGCTGGTGACTTA
1 GGAGATAAGACTTGTATCTTGA-GCTGCTCCACTGCAACCTCAGGGAGATAAGGCTTGTGGCTTA
*
27246276 AATTTGCTCCATTGCTGATACAT
65 AATCTGCTCCATTGC-GATACAT
* * * ** * ** *
27246299 GGAGATAAGA-TT-CACCGTCTTCGATCTGCTCCACTAC-TGCTTAGGGAGATAATATCTATAAT
1 GGAGATAAGACTTGTA---TCTT-GAGCTGCTCCACTGCAACCTCAGGGAGATAA-GGCT-T-GT
* * * * * * * *
27246361 --TTTCAATCTGGTCCACTACAACTTCAG
59 GGCTTAAATCTGCTCCATTGCGA-TACAT
* *
27246388 GGAGATAAGGCTTGTATCTTGAGCTTGCTCCACTGCAACCTCAAGGAGATAAGGCTTGTGGCTTA
1 GGAGATAAGACTTGTATCTTGAGC-TGCTCCACTGCAACCTCAGGGAGATAAGGCTTGTGGCTTA
*
27246453 AATCTGCTCTATTGTCGATACAT
65 AATCTGCTCCATTG-CGATACAT
* * * * ** * * ***
27246476 GGAGATAAGATTTGCCATCTTCGATCTGCTCCACTAC-TGCTTAGGGAGATAA-GATCTGTAATT
1 GGAGATAAGACTTG-TATCTT-GAGCTGCTCCACTGCAACCTCAGGGAGATAAGGCT-TGT-GGC
* * * * * *
27246539 TTCAGTTTGCACCATTG-GAACTTCAG
62 TTAAATCTGCTCCATTGCG-A-TACAT
* *
27246565 GGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGGCTTA
1 GGAGATAAGACTTGTATCTTGAG-CTGCTCCACTGCAACCTCAGGGAGATAAGGCTTGTGGCTTA
27246630 AATCTGCTCCATTGCCGATACAT
65 AATCTGCTCCATTG-CGATACAT
27246653 GGAGATAAGA
1 GGAGATAAGA
27246663 TTCGTTGTTT
Statistics
Matches: 257, Mismatches: 81, Indels: 52
0.66 0.21 0.13
Matches are distributed among these distances:
86 2 0.01
87 11 0.04
88 120 0.47
89 112 0.44
90 10 0.04
91 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (86 bp):
GGAGATAAGACTTGTATCTTGAGCTGCTCCACTGCAACCTCAGGGAGATAAGGCTTGTGGCTTAA
ATCTGCTCCATTGCGATACAT
Found at i:27246598 original size:354 final size:355
Alignment explanation
Indices: 27246079--27246717 Score: 978
Period size: 354 Copynumber: 1.8 Consensus size: 355
27246069 CTGCCTCAGA
*
27246079 GAGAGAAGGCTGATGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCGTCTTC
1 GAGAGAAGGCTGATGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTC
* * * *
27246144 GATCTGCTCCACTATTGTTTGAGGAGATAAGATCTGCAATTTTCAATCTGCTCCACTGTAACTTC
66 GATCTGCTCCACTACTGTTAGAGGAGATAAGATCTGCAATTTTCAATCTGCACCACTGGAACTTC
* * *
27246209 AAGGAGATAAAACTTGTATCTTGATCCTACTCCACTACAACCTCAGTGAGATAAGGCTGGTGACT
131 AAGGAGATAAAACTTGTATCTTGAGCCTACTCCACTACAACCTCAGGGAGATAAGGCTAGTGACT
* * *
27246274 TAAATTTGCTCCATTGCTGATACATGGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGC
196 TAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTAC
*
27246339 TTAGGGAGATAATATCTAT-AATTTTCAATCTGGTCCACTACAACTTCAGGGAGATAAGGCTTGT
261 TTAGGGAGATAAGATCTATGAATTTTCAATCTGGTCCACTACAACTTCAGGGAGATAAGGCTTGT
27246403 ATCTTGAGCTTGCTCCACTGCAACCTCAAG
326 ATCTTGAGCTTGCTCCACTGCAACCTCAAG
* * * *
27246433 GAGATAAGGCTTG-TGGCTTAAATCTGCTCTATTGTCGATACATGGAGATAAGATTTGCCATCTT
1 GAGAGAAGGC-TGATGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTT
* * * *
27246497 CGATCTGCTCCACTACTGCTTAG-GGAGATAAGATCTGTAATTTTCAGTTTGCACCATTGGAACT
65 CGATCTGCTCCACTACTG-TTAGAGGAGATAAGATCTGCAATTTTCAATCTGCACCACTGGAACT
* * * *
27246561 TCAGGGAGATAAAACTTGTATCTTGAGCCTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGG
129 TCAAGGAGATAAAACTTGTATCTTGAGCCTACTCCACTACAACCTCAGGGAGATAAGGCTAGTGA
*** *
27246626 CTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTTGTTTTCGATCTGCTCCACTACT
194 CTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACT
*
27246691 ATTTAGGGAGATAAGATCTATGAATTT
259 ACTTAGGGAGATAAGATCTATGAATTT
27246718 ACTGATATTA
Statistics
Matches: 253, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
354 243 0.96
355 10 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (355 bp):
GAGAGAAGGCTGATGGCTAAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTGTTAGAGGAGATAAGATCTGCAATTTTCAATCTGCACCACTGGAACTTC
AAGGAGATAAAACTTGTATCTTGAGCCTACTCCACTACAACCTCAGGGAGATAAGGCTAGTGACT
TAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTAC
TTAGGGAGATAAGATCTATGAATTTTCAATCTGGTCCACTACAACTTCAGGGAGATAAGGCTTGT
ATCTTGAGCTTGCTCCACTGCAACCTCAAG
Found at i:27251380 original size:12 final size:12
Alignment explanation
Indices: 27251349--27251392 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
27251339 TTGGCCTTTC
27251349 TTTTTATTTT--
1 TTTTTATTTTGA
27251359 TTCTTT-TTTTGA
1 TT-TTTATTTTGA
27251371 TTTTTATTTTGA
1 TTTTTATTTTGA
27251383 TTTTTATTTT
1 TTTTTATTTT
27251393 TTGATTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.20
11 6 0.20
12 18 0.60
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:27251386 original size:20 final size:19
Alignment explanation
Indices: 27251363--27251419 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
27251353 TATTTTTTCT
27251363 TTTTTTGATTTTTATTTTGA
1 TTTTTT-ATTTTTATTTTGA
*
27251383 -TTTTTATTTTT-TGATTGA
1 TTTTTTATTTTTAT-TTTGA
27251401 TTTTTTTATTTATTATTTT
1 -TTTTTTATTT-TTATTTT
27251420 TTTTGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 5 0.17
20 9 0.30
21 4 0.13
22 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTATTTTGA
Found at i:27251392 original size:27 final size:26
Alignment explanation
Indices: 27251349--27251422 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 26
27251339 TTGGCCTTTC
*
27251349 TTTTTATTTTTTCTTTTTTTGATT-TT
1 TTTTTA-TTTTTATTTTTTTGATTATT
27251375 TATTTTGATTTTTA-TTTTTTGATTGATT
1 T-TTTT-ATTTTTATTTTTTTGATT-ATT
27251403 TTTTTATTTATTATTTTTTT
1 TTTTTATTT-TTATTTTTTT
27251423 TGGTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
26 15 0.37
27 16 0.39
28 10 0.24
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTTATTTTTATTTTTTTGATTATT
Found at i:27251406 original size:26 final size:27
Alignment explanation
Indices: 27251363--27251421 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
27251353 TATTTTTTCT
*
27251363 TTTTTTGATTTTTATTTTGATTT-TTA
1 TTTTTTGATTATTATTTTGATTTATTA
*
27251389 TTTTTTGATTGATT-TTTTTATTTATTA
1 TTTTTTGATT-ATTATTTTGATTTATTA
27251416 TTTTTT
1 TTTTTT
27251422 TTGGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (27 bp):
TTTTTTGATTATTATTTTGATTTATTA
Found at i:27251419 original size:12 final size:12
Alignment explanation
Indices: 27251363--27251419 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
27251353 TATTTTTTCT
27251363 TTTTTTGATTT-
1 TTTTTTGATTTA
27251374 TTATTTTGATTTTTA
1 TT-TTTTGA--TTTA
*
27251389 TTTTTTGATTGA
1 TTTTTTGATTTA
*
27251401 TTTTTTTATTTA
1 TTTTTTGATTTA
27251413 TTATTTT
1 TT-TTTT
27251420 TTTTGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 2 0.05
12 21 0.55
13 4 0.11
14 9 0.24
15 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTGATTTA
Found at i:27256768 original size:40 final size:40
Alignment explanation
Indices: 27256723--27256890 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
27256713 CGGAATATAA
27256723 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
27256763 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
27256803 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
27256843 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
27256883 CCGGATAT
1 CCGGATAT
27256891 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27269188 original size:7 final size:7
Alignment explanation
Indices: 27269176--27269205 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
27269166 AAATAAATAG
27269176 AAAAAAT
1 AAAAAAT
27269183 AAAAAAAT
1 -AAAAAAT
27269191 AAAAAAT
1 AAAAAAT
27269198 AAAAAAT
1 AAAAAAT
27269205 A
1 A
27269206 TATTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:27269189 original size:8 final size:8
Alignment explanation
Indices: 27269165--27269203 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
27269155 TAAGAATTTA
27269165 AAAATAAAT
1 AAAA-AAAT
27269174 AGAAAAAAT
1 A-AAAAAAT
27269183 AAAAAAAT
1 AAAAAAAT
27269191 -AAAAAAT
1 AAAAAAAT
27269198 AAAAAA
1 AAAAAA
27269204 TATATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 12 0.43
9 6 0.21
10 3 0.11
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:27269464 original size:14 final size:15
Alignment explanation
Indices: 27269445--27269478 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27269435 ATAAATATAA
27269445 AATAATATA-ACATC
1 AATAATATATACATC
*
27269459 AATAATATATACATT
1 AATAATATATACATC
27269474 AATAA
1 AATAA
27269479 GAATAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAATATATACATC
Found at i:27270415 original size:24 final size:23
Alignment explanation
Indices: 27270384--27270428 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
27270374 CGCTCCTTGC
*
27270384 TTTGGTGT-TTTCTTTTGTATTAA
1 TTTGGTGTATTT-TCTTGTATTAA
27270407 TTTGAGTGTATTTTCTTGTATT
1 TTTG-GTGTATTTTCTTGTATT
27270429 CTCCGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.13, C:0.04, G:0.18, T:0.64
Consensus pattern (23 bp):
TTTGGTGTATTTTCTTGTATTAA
Found at i:27270659 original size:16 final size:16
Alignment explanation
Indices: 27270640--27270671 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27270630 ATTTTGGGCT
27270640 GGACAAAATTTGGACC
1 GGACAAAATTTGGACC
27270656 GGACAAAATTTGGACC
1 GGACAAAATTTGGACC
27270672 CTACAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
GGACAAAATTTGGACC
Found at i:27270677 original size:16 final size:16
Alignment explanation
Indices: 27270641--27270679 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
27270631 TTTTGGGCTG
*
27270641 GACAAAATTTGGACCG
1 GACAAAATTTGGACCC
27270657 GACAAAATTTGGACCC
1 GACAAAATTTGGACCC
*
27270673 TACAAAA
1 GACAAAA
27270680 ACCTTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (16 bp):
GACAAAATTTGGACCC
Found at i:27279560 original size:40 final size:40
Alignment explanation
Indices: 27279492--27279567 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
27279482 CGGTACTCTA
* *
27279492 TGGTGTGTAGGGTTGGATGAGTCAATTTTATCCCCATATT
1 TGGTGTGCAGGGATGGATGAGTCAATTTTATCCCCATATT
* * *
27279532 TGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGATGAGTCAATTTTATCCCCA
27279568 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGAGTCAATTTTATCCCCATATT
Found at i:27287866 original size:13 final size:13
Alignment explanation
Indices: 27287848--27287874 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27287838 GAAGCAATTG
27287848 CACACGGGCGTGT
1 CACACGGGCGTGT
27287861 CACACGGGCGTGT
1 CACACGGGCGTGT
27287874 C
1 C
27287875 CCTGTCGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27300874 original size:22 final size:22
Alignment explanation
Indices: 27300834--27300875 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27300824 GGTATCGCAC
*
27300834 ACTTAGTGCCTCAAGTAGTTAG
1 ACTTAGTGCCTAAAGTAGTTAG
27300856 ACTTAGTGCC-AAAGCTAGTT
1 ACTTAGTGCCTAAAG-TAGTT
27300876 TAAATCGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (22 bp):
ACTTAGTGCCTAAAGTAGTTAG
Found at i:27304155 original size:30 final size:30
Alignment explanation
Indices: 27304119--27304219 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
27304109 GACAAGATTG
* * *
27304119 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
27304149 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
27304177 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
27304206 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27304220 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:27304231 original size:29 final size:28
Alignment explanation
Indices: 27304148--27304223 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
27304138 AAAATTGTAC
* *
27304148 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
27304176 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
27304205 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
27304224 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:27311974 original size:30 final size:30
Alignment explanation
Indices: 27311938--27312038 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
27311928 GACAAGATTG
* * *
27311938 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
27311968 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
27311996 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
27312025 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27312039 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:27312050 original size:29 final size:28
Alignment explanation
Indices: 27311967--27312042 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
27311957 AAAATTGTAC
* *
27311967 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
27311995 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
27312024 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
27312043 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:27320994 original size:16 final size:17
Alignment explanation
Indices: 27320973--27321006 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
27320963 ATTCCTTATT
27320973 TCAGTTTT-TCTTTTGG
1 TCAGTTTTCTCTTTTGG
27320989 TCAGTTTTCGTCTTTTGG
1 TCAGTTTTC-TCTTTTGG
27321007 AATTTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.15, G:0.21, T:0.59
Consensus pattern (17 bp):
TCAGTTTTCTCTTTTGG
Found at i:27322491 original size:26 final size:26
Alignment explanation
Indices: 27322455--27322504 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
27322445 TTATCACATA
*
27322455 TACTGATACTGGCAGCTTTGCTGCAT
1 TACTGATACTGGCAGCCTTGCTGCAT
*
27322481 TACTGTTACTGGCAGCCTTGCTGC
1 TACTGATACTGGCAGCCTTGCTGC
27322505 GATATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (26 bp):
TACTGATACTGGCAGCCTTGCTGCAT
Found at i:27322515 original size:26 final size:26
Alignment explanation
Indices: 27322461--27322517 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27322451 CATATACTGA
* *
27322461 TACTGGCAGCTTTGCTGCATTACTGT
1 TACTGGCAGCCTTGCTGCATTACTAT
*
27322487 TACTGGCAGCCTTGCTGCGA-TATTAT
1 TACTGGCAGCCTTGCTGC-ATTACTAT
27322513 TACTG
1 TACTG
27322518 AAAGCTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCCTTGCTGCATTACTAT
Found at i:27325542 original size:40 final size:40
Alignment explanation
Indices: 27325451--27325601 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
27325441 ATAACCACGT
* *
27325451 GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
27325491 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
27325531 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
** * *
27325571 GCATAAATGTCTTCGGGACTTAGCCCGGATA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATA
27325602 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.91
41 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:27339673 original size:27 final size:26
Alignment explanation
Indices: 27339634--27339704 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
27339624 GGTCGTTAAA
* *
27339634 ACCCCAGTTTGTAAAATCACCAAAAT
1 ACCCCTGTATGTAAAATCACCAAAAT
* * **
27339660 ACCCTTGTAGTGTAAAATGACCGTAAT
1 ACCCCTGTA-TGTAAAATCACCAAAAT
27339687 ACCCCTGTATGGTAAAAT
1 ACCCCTGTAT-GTAAAAT
27339705 GACGATTATG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.19
27 29 0.81
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (26 bp):
ACCCCTGTATGTAAAATCACCAAAAT
Found at i:27342970 original size:48 final size:48
Alignment explanation
Indices: 27342893--27342984 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
27342883 ATTTGTTCTG
* *
27342893 ACCCTCTTTGGAAGCCTACAATCGAATGACTTATATCCCATCTTTTTT
1 ACCCTCTTTGAAAACCTACAATCGAATGACTTATATCCCATCTTTTTT
* * * * *
27342941 ACCCTCTTTGAAAACCTATAATTGGATGACTTGTGTCCCATCTT
1 ACCCTCTTTGAAAACCTACAATCGAATGACTTATATCCCATCTT
27342985 ATTGCAATTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (48 bp):
ACCCTCTTTGAAAACCTACAATCGAATGACTTATATCCCATCTTTTTT
Found at i:27346987 original size:19 final size:21
Alignment explanation
Indices: 27346932--27346997 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 21
27346922 CTTTTCCTAC
27346932 TAAGTTTTACTTATATACTTAGAT
1 TAAG-TTTACTTA-AT-CTTAGAT
* *
27346956 TAATTTTAGTTAATCTTA-AT
1 TAAGTTTACTTAATCTTAGAT
*
27346976 T-AGTTTACTTAATCAT-GAT
1 TAAGTTTACTTAATCTTAGAT
27346995 TAA
1 TAA
27346998 TTAAACTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 15 0.43
20 4 0.11
21 4 0.11
22 2 0.06
23 7 0.20
24 3 0.09
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (21 bp):
TAAGTTTACTTAATCTTAGAT
Found at i:27347596 original size:21 final size:21
Alignment explanation
Indices: 27347566--27347613 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
27347556 TTTTAGATGT
* *
27347566 ATTATATATATATATATTTAAAA
1 ATTATATA-AAATA-ATATAAAA
27347589 ATTATATAAAATAATATAAAA
1 ATTATATAAAATAATATAAAA
27347610 ATTA
1 ATTA
27347614 ATACGGGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTATATAAAATAATATAAAA
Found at i:27355427 original size:2 final size:2
Alignment explanation
Indices: 27355420--27355454 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
27355410 CTTAATTAGC
27355420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27355455 GGGCTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27355789 original size:41 final size:41
Alignment explanation
Indices: 27355738--27355819 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
27355728 ATATTTATAT
27355738 TTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
27355779 TTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
27355820 CCAATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (41 bp):
TTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
Found at i:27359606 original size:19 final size:19
Alignment explanation
Indices: 27359582--27359624 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
27359572 TATTTTAATT
*
27359582 TTATTTAGGTAGATAAATC
1 TTATTTAGGAAGATAAATC
*
27359601 TTATTTAGGAAGATAAATT
1 TTATTTAGGAAGATAAATC
27359620 TTATT
1 TTATT
27359625 CACATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (19 bp):
TTATTTAGGAAGATAAATC
Found at i:27361024 original size:23 final size:23
Alignment explanation
Indices: 27360997--27361046 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
27360987 TGTTTAGGCA
27360997 TGTACATATAATTATA-TTGTACT
1 TGTACATA-AATTATATTTGTACT
*
27361020 TGTACTTAAATTATATTTGTACT
1 TGTACATAAATTATATTTGTACT
27361043 TGTA
1 TGTA
27361047 AAAGTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (23 bp):
TGTACATAAATTATATTTGTACT
Found at i:27361892 original size:2 final size:2
Alignment explanation
Indices: 27361885--27361910 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27361875 TAATCAGGGA
27361885 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27361911 TTATGATGGA
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):
AT
Found at i:27364657 original size:70 final size:71
Alignment explanation
Indices: 27364506--27364668 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
27364496 GAGATGTATC
27364506 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27364571 AGGACA
66 AGGACA
27364577 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
27364641 CGGACA
66 AGGACA
27364647 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27364669 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:27372123 original size:41 final size:41
Alignment explanation
Indices: 27372078--27372195 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
27372068 TGAAAGATAA
27372078 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
27372119 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27372149 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27372190 ATGTAG
1 ATGTAG
27372196 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:27372134 original size:71 final size:71
Alignment explanation
Indices: 27372046--27372209 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27372036 GAGATGTATC
27372046 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27372111 AGGACA
66 AGGACA
27372117 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27372182 AGGACA
66 AGGACA
27372188 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27372210 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:27379152 original size:41 final size:41
Alignment explanation
Indices: 27379107--27379224 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
27379097 TGAAAGATAA
27379107 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
27379148 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27379178 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27379219 ATGTAG
1 ATGTAG
27379225 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:27379163 original size:71 final size:71
Alignment explanation
Indices: 27379075--27379238 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27379065 GAGATGTATC
27379075 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27379140 AGGACA
66 AGGACA
27379146 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27379211 AGGACA
66 AGGACA
27379217 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27379239 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:27391284 original size:50 final size:49
Alignment explanation
Indices: 27391166--27391395 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 49
27391156 CTGATACGCA
* * * ***
27391166 TAGTAGCCTGCACTTAGTACTACACATGCGA-TCAAAAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-AACATCTAATACACG
*
27391215 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACATCTAATACACG
* * *
27391265 TAGTAGCCTGCACTTAGTACTACACACTTGA-TCGAAGTCAT-TGAGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTC-AA--CATCT-AATACACG
* * * *
27391315 ATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGATACACG
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACA-TCTAATACACG
*
27391366 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
27391396 TATTCACAAT
Statistics
Matches: 151, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
48 2 0.01
49 32 0.21
50 74 0.49
51 42 0.28
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTCAACATCTAATACACG
Found at i:27398637 original size:50 final size:48
Alignment explanation
Indices: 27398573--27398750 Score: 205
Period size: 50 Copynumber: 3.6 Consensus size: 48
27398563 CTGATATGCA
*
27398573 TAGTAGCCTACACTTAGTACTACACACGTGACCTCATCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CTAATCAT-TGATACACG
* * * *
27398623 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CTAA-TCATTGA-TACACG
* * *
27398674 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAATATGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGAC-TAATC-AT-TGATACACG
27398724 TAGTAGCCTACACTTAGTACTACACAC
1 TAGTAGCCTACACTTAGTACTACACAC
27398751 ATGTATTCAC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
49 1 0.01
50 67 0.61
51 42 0.38
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACTAATCATTGATACACG
Found at i:27401989 original size:27 final size:28
Alignment explanation
Indices: 27401928--27401997 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
27401918 AAATTTGTAC
* *
27401928 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
27401956 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
27401983 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
27401998 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:27402036 original size:55 final size:55
Alignment explanation
Indices: 27401929--27402037 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
27401919 AATTTGTACA
* * * * *
27401929 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAATATATG
1 GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTCAATATATG
* * *
27401984 GCACTAAGTGTGCGTGATCGAGTAT-TAAGCACTATGTGTGCGAACTCTATATAT
1 GCACTAAGTGTGCGAGATCGAGTATAT-AGCACTAAGTGTGCGAACTCAATATAT
27402038 ATATTTCCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGATCGAGTATATAGCACTAAGTGTGCGAACTCAATATATG
Found at i:27417634 original size:2 final size:2
Alignment explanation
Indices: 27417627--27417652 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27417617 CATTTTAACT
27417627 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
27417653 GCACAATCAT
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:27420549 original size:2 final size:2
Alignment explanation
Indices: 27420531--27420572 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
27420521 ACCCTCAAAC
* *
27420531 AT AT GT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27420573 CATTCATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:27421208 original size:24 final size:26
Alignment explanation
Indices: 27421177--27421241 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 26
27421167 CTCAACCGAT
27421177 TTCGCACACATAGTGCTAAT-C-AAA
1 TTCGCACACATAGTGCTAATGCTAAA
*
27421201 TTCGCACACATAGTGC-CATGCTAAA
1 TTCGCACACATAGTGCTAATGCTAAA
*
27421226 -CCGCACACATAGTGCT
1 TTCGCACACATAGTGCT
27421242 TTGGAAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 31 0.86
25 3 0.08
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (26 bp):
TTCGCACACATAGTGCTAATGCTAAA
Found at i:27421326 original size:24 final size:24
Alignment explanation
Indices: 27421179--27421338 Score: 83
Period size: 24 Copynumber: 6.7 Consensus size: 24
27421169 CAACCGATTT
* * *
27421179 CGCACACATAGTGCTAATCAAATT
1 CGCACACATAGTGCCATTCAAATC
*
27421203 CGCACACATAGTGCCATGCTAAA-C
1 CGCACACATAGTGCCATTC-AAATC
* * *
27421227 CGCACACATAGTG-CTTTGGAAATT
1 CGCACACATAGTGCCATT-CAAATC
* * ** * *
27421251 CACTCATTTATTGACATTCAAA-C
1 CGCACACATAGTGCCATTCAAATC
* * * * * *
27421274 CAACATACATAGTGCCAATCGATTT
1 C-GCACACATAGTGCCATTCAAATC
27421299 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
27421323 CGCACACTTAGAGCCA
1 CGCACACATAGTGCCA
27421339 ATGTTGGCTC
Statistics
Matches: 96, Mismatches: 34, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
23 6 0.06
24 83 0.86
25 7 0.07
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:27423260 original size:15 final size:15
Alignment explanation
Indices: 27423240--27423271 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27423230 CCACCAGCCA
27423240 TGGTACTCCTTTAGT
1 TGGTACTCCTTTAGT
27423255 TGGTACTCCTTTAGT
1 TGGTACTCCTTTAGT
27423270 TG
1 TG
27423272 AGTTTTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (15 bp):
TGGTACTCCTTTAGT
Found at i:27430686 original size:39 final size:40
Alignment explanation
Indices: 27430639--27430782 Score: 202
Period size: 39 Copynumber: 3.6 Consensus size: 40
27430629 AATGTTCGAG
27430639 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
*
27430678 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
27430717 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
27430757 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
27430783 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 53 0.56
40 41 0.44
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:27430818 original size:79 final size:79
Alignment explanation
Indices: 27430655--27430820 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
27430645 CCGGGCTAAG
** * ** *
27430655 CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGA
1 CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGA
* * *
27430720 TATCCGGGTTAAGT
66 TATCCGGATAAACT
* * * **
27430734 CCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT
1 CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-T
27430799 -ATATCCGGATAAACT
64 GATATCCGGATAAACT
27430814 -CCGAAGG
1 CCCGAAGG
27430821 TATGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 40 0.56
80 30 0.42
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGA
TATCCGGATAAACT
Found at i:27432157 original size:4 final size:4
Alignment explanation
Indices: 27432148--27432176 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27432138 TTCGGGGTGT
27432148 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
27432177 TTAATTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:27434898 original size:28 final size:28
Alignment explanation
Indices: 27434833--27434931 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
27434823 CATGAGATTG
* * *
27434833 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
27434862 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
27434890 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
27434918 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27434932 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:27442907 original size:28 final size:28
Alignment explanation
Indices: 27442842--27442940 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
27442832 CATGAGATTG
* * *
27442842 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
27442871 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
27442899 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
27442927 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27442941 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:27451745 original size:10 final size:10
Alignment explanation
Indices: 27451730--27451757 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
27451720 ATCCAAAACA
27451730 CACATTTAAG
1 CACATTTAAG
27451740 CACATTTAAG
1 CACATTTAAG
27451750 CACATTTA
1 CACATTTA
27451758 CCCCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32
Consensus pattern (10 bp):
CACATTTAAG
Found at i:27454436 original size:6 final size:6
Alignment explanation
Indices: 27454425--27454475 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
27454415 AGTTTATTTG
* * * * *
27454425 TTTTAT TTTTAT ATTTAT TTCTAT TTTTAT GTTTAT GTTTAT TGTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
27454473 TTT
1 TTT
27454476 CTTAGACTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:27454451 original size:18 final size:17
Alignment explanation
Indices: 27454419--27454472 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
27454409 CCATTAAGTT
*
27454419 TATTTGTTTTATTTTTA
1 TATTTATTTTATTTTTA
27454436 TATTTATTTCTATTTTTA
1 TATTTATTT-TATTTTTA
* *
27454454 TGTTTATGTTTATTGTTA
1 TATTTAT-TTTATTTTTA
27454472 T
1 T
27454473 TTTCTTAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.25
18 22 0.69
19 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (17 bp):
TATTTATTTTATTTTTA
Found at i:27454459 original size:24 final size:24
Alignment explanation
Indices: 27454425--27454475 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
27454415 AGTTTATTTG
*
27454425 TTTTATTTTTATATTTATT-TCTAT
1 TTTTATGTTTATATTTATTGT-TAT
*
27454449 TTTTATGTTTATGTTTATTGTTAT
1 TTTTATGTTTATATTTATTGTTAT
27454473 TTT
1 TTT
27454476 CTTAGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTATGTTTATATTTATTGTTAT
Found at i:27459505 original size:30 final size:29
Alignment explanation
Indices: 27459469--27459607 Score: 129
Period size: 30 Copynumber: 4.7 Consensus size: 29
27459459 TTCAGCTTTC
*
27459469 AATTATGAAAAGGGATGGTGACGACTATCA
1 AATTATGAAAAGGGATGGT-TCGACTATCA
* *
27459499 AATTATGAAAAGAGATGGTTTCGACTATCG
1 AATTATGAAAAGGGATGG-TTCGACTATCA
* * *
27459529 TACTATGAAAAGGGATGGCTTCGGCTATC-
1 AATTATGAAAAGGGATGG-TTCGACTATCA
* *
27459558 GATCTAT-AAGAAGGGATGGCTTCGGCTATCA
1 AAT-TATGAA-AAGGGATGG-TTCGACTATCA
*
27459589 ACTTATGAAAAGGGATGGT
1 AATTATGAAAAGGGATGGT
27459608 GAAGTAATAG
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.04
30 84 0.91
31 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (29 bp):
AATTATGAAAAGGGATGGTTCGACTATCA
Found at i:27459557 original size:60 final size:60
Alignment explanation
Indices: 27459467--27459609 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 60
27459457 ACTTCAGCTT
*
27459467 TCAA-TTATGAAAAGGGATGGTGACGACTATCAAAT-TATGAA-AAGAGATGGTTTCGACTA
1 TCAACTTATGAAAAGGGATGGTGACGACTATC-AATCTAT-AAGAAGAGATGGCTTCGACTA
* * * * * *
27459526 TCGTAC-TATGAAAAGGGATGGCT-TCGGCTATCGATCTATAAGAAGGGATGGCTTCGGCTA
1 TC-AACTTATGAAAAGGGATGG-TGACGACTATCAATCTATAAGAAGAGATGGCTTCGACTA
27459586 TCAACTTATGAAAAGGGATGGTGA
1 TCAACTTATGAAAAGGGATGGTGA
27459610 AGTAATAGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
59 9 0.13
60 58 0.85
61 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (60 bp):
TCAACTTATGAAAAGGGATGGTGACGACTATCAATCTATAAGAAGAGATGGCTTCGACTA
Found at i:27462353 original size:42 final size:42
Alignment explanation
Indices: 27462248--27462342 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
27462238 CCTAGCACAA
* * * * *
27462248 GGCCTGGCACACGGGCGTGTAGGGTTCTTTCGAATGGTATAC
1 GGCCTGGCACACGGGCGTGTGGGGTTATTTCAAAGGGTACAC
*
27462290 GGCCTGGCCCACGGGCGTGTGGGGTTATTTCAAAGGGTACAC
1 GGCCTGGCACACGGGCGTGTGGGGTTATTTCAAAGGGTACAC
27462332 GGCCTGGCACA
1 GGCCTGGCACA
27462343 TCAGCGTGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.17, C:0.24, G:0.37, T:0.22
Consensus pattern (42 bp):
GGCCTGGCACACGGGCGTGTGGGGTTATTTCAAAGGGTACAC
Found at i:27463155 original size:18 final size:19
Alignment explanation
Indices: 27463128--27463170 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
27463118 GCTGCCAAAA
*
27463128 TTTT-TTTCTTTTCT-TTT
1 TTTTCTTTCTTCTCTGTTT
27463145 TTTTCTTTCTTCTCTGTTT
1 TTTTCTTTCTTCTCTGTTT
27463164 TTCTTCT
1 TT-TTCT
27463171 CCTTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 5 0.23
20 4 0.18
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTCTTTCTTCTCTGTTT
Found at i:27464271 original size:40 final size:40
Alignment explanation
Indices: 27464216--27464292 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
27464206 ACGATACCTT
*
27464216 TTGGTGTGTAGGGTTGGATGGGTTAATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATAC
* * *
27464256 TTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCA
27464293 CATAGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATAC
Found at i:27476700 original size:43 final size:43
Alignment explanation
Indices: 27476639--27476721 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
27476629 ACATGAATCC
* *
27476639 CATCCATTATGAACTCGGACCT-CTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGGACCTCCT-AACGAGCTCAGATGCTCG
27476682 CATCCATAATGAACTCGGACCTCCTAACGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCTCCTAACGAGCTCAGATGC
27476722 CACATATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCTCCTAACGAGCTCAGATGCTCG
Found at i:27480708 original size:43 final size:43
Alignment explanation
Indices: 27480644--27480798 Score: 258
Period size: 43 Copynumber: 3.6 Consensus size: 43
27480634 CCGGCATTAC
*
27480644 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
27480687 GCCTGCTAGGCACAAATGCCCGAATACACATCA-TCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAA
*
27480730 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
27480773 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
27480799 TAATACCAGC
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:27480893 original size:37 final size:38
Alignment explanation
Indices: 27480791--27481010 Score: 313
Period size: 38 Copynumber: 5.8 Consensus size: 38
27480781 GGCACGAAGG
* * * *
27480791 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27480829 CCCGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27480867 CCCGGATATATTA-CAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27480904 CCCGGATATATTACCAGCACGAAGCCTGCGGAATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27480942 -CCGGATATATTACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
27480979 CCCGGATATAATT-CCAGCA-TATAGCCTGCGGG
1 CCCGGATAT-ATTACCAGCACGA-AGCCTGCGGG
27481011 TCTTTAGGCC
Statistics
Matches: 166, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
37 71 0.43
38 92 0.55
39 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:27481009 original size:75 final size:76
Alignment explanation
Indices: 27480791--27480997 Score: 312
Period size: 75 Copynumber: 2.8 Consensus size: 76
27480781 GGCACGAAGG
* * * *
27480791 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
* *
27480856 GTGGGATTTAA
66 GCGGAATTTAA
* *
27480867 CCCGGATATATTA-CAGCACGAAGCCTGCAGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
27480931 GCGGAATTTAA
66 GCGGAATTTAA
27480942 -CCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATT-CCAGCA
1 CCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATAT-ATTACCAGCA
27480998 TATAGCCTGC
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
74 12 0.10
75 94 0.78
76 14 0.12
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (76 bp):
CCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
GCGGAATTTAA
Found at i:27494362 original size:38 final size:38
Alignment explanation
Indices: 27494320--27494396 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
27494310 TTCACGTTTC
*
27494320 TATGTTACGTCGGTACCGATCTGATCCTTCACATATTA
1 TATGTTACGTAGGTACCGATCTGATCCTTCACATATTA
* *
27494358 TATGTTACGTATGTACCGATCTGATCCTTCACATGTTA
1 TATGTTACGTAGGTACCGATCTGATCCTTCACATATTA
27494396 T
1 T
27494397 CTCCCTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (38 bp):
TATGTTACGTAGGTACCGATCTGATCCTTCACATATTA
Found at i:27495820 original size:30 final size:30
Alignment explanation
Indices: 27495786--27495981 Score: 189
Period size: 30 Copynumber: 6.5 Consensus size: 30
27495776 TTCGGCTATC
*
27495786 AATTATGAAAAAGGATGGTGATGACCATCA
1 AATTATGAAAAAGGATGGTGACGACCATCA
* *
27495816 AATTATGAAAAAGAATGGTGACGACCATAA
1 AATTATGAAAAAGGATGGTGACGACCATCA
* * * *
27495846 AATTATGAAAAGGGATGGCT-TCGGCTATCA
1 AATTATGAAAAAGGATGG-TGACGACCATCA
* * * * ** *
27495876 TACTATGAAAAGGGATAGCTTTC-ACTATCA
1 AATTATGAAAAAGGAT-GGTGACGACCATCA
* *
27495906 AATTATGAAAAAGGATGGTAACGACCATCG
1 AATTATGAAAAAGGATGGTGACGACCATCA
**
27495936 AACAATGAAAAAGGATGGTGACGACCATCA
1 AATTATGAAAAAGGATGGTGACGACCATCA
*
27495966 AATTATGAAAAGGGAT
1 AATTATGAAAAAGGAT
27495982 AGCTTCGACT
Statistics
Matches: 134, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
29 3 0.02
30 127 0.95
31 4 0.03
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAAGGATGGTGACGACCATCA
Found at i:27495924 original size:90 final size:89
Alignment explanation
Indices: 27495760--27496008 Score: 243
Period size: 90 Copynumber: 2.8 Consensus size: 89
27495750 ATCATCGACA
* * * * * * *
27495760 AATGCAAAGGGATAGCTTCGGCTATCAATTATGAAAAAGGAT-GGTGATGACCATCAAATTATGA
1 AATGAAAAGGGATGGCTTCGGCTATCAATTATGAAAAGGGATAGCT-TTCACTATCAAATTATGA
* *
27495824 AAAAGAATGGTGACGACCATAAAAT
65 AAAAGAATGGTAACGACCATAAAAC
* *
27495849 TATGAAAAGGGATGGCTTCGGCTATCATACTATGAAAAGGGATAGCTTTCACTATCAAATTATGA
1 AATGAAAAGGGATGGCTTCGGCTATCA-ATTATGAAAAGGGATAGCTTTCACTATCAAATTATGA
* **
27495914 AAAAGGATGGTAACGACCATCGAAC
65 AAAAGAATGGTAACGACCATAAAAC
* * * * * **
27495939 AATGAAAAAGGATGG-TGACGACCATCAAATTATGAAAAGGGATAGC-TTCGACTATCGAGCTAT
1 AATGAAAAGGGATGGCT-TCGGCTATC-AATTATGAAAAGGGATAGCTTTC-ACTATCAAATTAT
27496002 GAAAAAG
63 GAAAAAG
27496009 TATAACTTTG
Statistics
Matches: 132, Mismatches: 23, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
89 28 0.21
90 101 0.77
91 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (89 bp):
AATGAAAAGGGATGGCTTCGGCTATCAATTATGAAAAGGGATAGCTTTCACTATCAAATTATGAA
AAAGAATGGTAACGACCATAAAAC
Found at i:27495996 original size:60 final size:59
Alignment explanation
Indices: 27495819--27496008 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 59
27495809 ACCATCAAAT
* * *
27495819 TATGAAAAAGAATGGTGACGACCATAAAATTATGAAAAGGGATGGCTTCGGCTATC-ATAC
1 TATGAAAAAGGATGGTGACGACCATCAAATTATGAAAAGGGAT-GCTTCGACTATCGA-AC
* * ** * * * * *
27495879 TATGAAAAGGGATAGCTTTC-ACTATCAAATTATGAAAAAGGATGGTAACGACCATCGAAC
1 TATGAAAAAGGAT-GGTGACGACCATCAAATTATGAAAAGGGATGCT-TCGACTATCGAAC
* *
27495939 AATGAAAAAGGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGACTATCGAGC
1 TATGAAAAAGGATGGTGACGACCATCAAATTATGAAAAGGGAT-GCTTCGACTATCGAAC
27495999 TATGAAAAAG
1 TATGAAAAAG
27496009 TATAACTTTG
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
59 5 0.05
60 90 0.89
61 6 0.06
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (59 bp):
TATGAAAAAGGATGGTGACGACCATCAAATTATGAAAAGGGATGCTTCGACTATCGAAC
Found at i:27496003 original size:30 final size:29
Alignment explanation
Indices: 27495765--27496006 Score: 112
Period size: 30 Copynumber: 8.1 Consensus size: 29
27495755 CGACAAATGC
* *
27495765 AAAGGGATAGCTTCGGCTATC-AATTATGA
1 AAAGGGAT-GCTTCGACTATCAAACTATGA
* * * *
27495794 AAAAGGATGGTGAT-GACCATCAAATTATGA
1 AAAGGGATGCT--TCGACTATCAAACTATGA
* * * * * * *
27495824 AAAAGAATGGTGACGACCATAAAATTATGA
1 AAAGGGATGCT-TCGACTATCAAACTATGA
* *
27495854 AAAGGGATGGCTTCGGCTATCATACTATGA
1 AAAGGGAT-GCTTCGACTATCAAACTATGA
*
27495884 AAAGGGATAGCTTTC-ACTATCAAATTATGA
1 AAAGGGAT-GC-TTCGACTATCAAACTATGA
* * * * * *
27495914 AAAAGGATGGTAACGACCATCGAACAATGA
1 AAAGGGATGCT-TCGACTATCAAACTATGA
* * * * *
27495944 AAAAGGATGGTGACGACCATCAAATTATGA
1 AAAGGGATGCT-TCGACTATCAAACTATGA
* *
27495974 AAAGGGATAGCTTCGACTATCGAGCTATGA
1 AAAGGGAT-GCTTCGACTATCAAACTATGA
27496004 AAA
1 AAA
27496007 AGTATAACTT
Statistics
Matches: 165, Mismatches: 39, Indels: 17
0.75 0.18 0.08
Matches are distributed among these distances:
28 3 0.02
29 14 0.08
30 141 0.85
31 7 0.04
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (29 bp):
AAAGGGATGCTTCGACTATCAAACTATGA
Found at i:27496006 original size:120 final size:119
Alignment explanation
Indices: 27495765--27495994 Score: 345
Period size: 120 Copynumber: 1.9 Consensus size: 119
27495755 CGACAAATGC
* * * **
27495765 AAAGGGATAGCTTCGGCTATCAATTATGAAAAAGGATGGTGATGACCATCAAATTATGAAAAAGA
1 AAAGGGATAGCTTCGACTATCAATTATGAAAAAGGATGGTAACGACCATCAAACAATGAAAAAGA
* *
27495830 ATGGTGACGACCATAAAATTATGAAAAGGGATGGCTTCGGCTATCATACTATGA
66 ATGGTGACGACCATAAAATTATGAAAAGGGATAGCTTCGACTATCATACTATGA
*
27495884 AAAGGGATAGCTTTC-ACTATCAAATTATGAAAAAGGATGGTAACGACCATCGAACAATGAAAAA
1 AAAGGGATAGC-TTCGACTATC-AATTATGAAAAAGGATGGTAACGACCATCAAACAATGAAAAA
* *
27495948 GGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGACTATC
64 GAATGGTGACGACCATAAAATTATGAAAAGGGATAGCTTCGACTATC
27495995 GAGCTATGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 16 0.16
120 83 0.84
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (119 bp):
AAAGGGATAGCTTCGACTATCAATTATGAAAAAGGATGGTAACGACCATCAAACAATGAAAAAGA
ATGGTGACGACCATAAAATTATGAAAAGGGATAGCTTCGACTATCATACTATGA
Found at i:27498189 original size:31 final size:31
Alignment explanation
Indices: 27498151--27498209 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
27498141 AATTTGTCAA
27498151 ATTTCACTTGGAATTGTCACGGTTATGCTAG
1 ATTTCACTTGGAATTGTCACGGTTATGCTAG
*
27498182 ATTTCACTTGGAATTGTCATGGTTATGC
1 ATTTCACTTGGAATTGTCACGGTTATGC
27498210 CAGTGTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (31 bp):
ATTTCACTTGGAATTGTCACGGTTATGCTAG
Found at i:27507600 original size:16 final size:16
Alignment explanation
Indices: 27507579--27507609 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27507569 TTTTGCTTTA
*
27507579 TTTTAATATTAAATAG
1 TTTTAAAATTAAATAG
27507595 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
27507610 ATATTCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTAAAATTAAATAG
Found at i:27510593 original size:2 final size:2
Alignment explanation
Indices: 27510586--27510628 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27510576 TGACTCAACC
27510586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27510627 AT
1 AT
27510629 GCAAGTTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:27513161 original size:60 final size:60
Alignment explanation
Indices: 27513095--27513215 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
27513085 GTCGCGACTT
* * *
27513095 TGGCTTATGGATGTTATGACATCATCTCACGTAACTCACCTCTTAAAGTTGTGTTCGAAA
1 TGGCTTATAGATGTCATGACATCATCTCACATAACTCACCTCTTAAAGTTGTGTTCGAAA
* *
27513155 TGGCTTATAGATGTCATGACATCATCTCCCATAACTCACCTCTTGAAGTTGTGTTCGAAA
1 TGGCTTATAGATGTCATGACATCATCTCACATAACTCACCTCTTAAAGTTGTGTTCGAAA
27513215 T
1 T
27513216 TCTACTAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (60 bp):
TGGCTTATAGATGTCATGACATCATCTCACATAACTCACCTCTTAAAGTTGTGTTCGAAA
Found at i:27518921 original size:71 final size:71
Alignment explanation
Indices: 27518837--27519000 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27518827 CGATTTGTCT
27518837 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27518902 CTTTCA
66 CTTTCA
27518908 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27518973 CTTTCA
66 CTTTCA
27518979 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27519001 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27519038 original size:71 final size:70
Alignment explanation
Indices: 27518837--27519034 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27518827 CGATTTGTCT
* * * *
27518837 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27518902 CTTTCA
65 CTTTCA
* * * *
27518908 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27518973 CTTTCA
65 CTTTCA
* *
27518979 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27519035 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27525957 original size:71 final size:71
Alignment explanation
Indices: 27525873--27526036 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27525863 CGATTTGTCT
27525873 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27525938 CTTTCA
66 CTTTCA
27525944 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27526009 CTTTCA
66 CTTTCA
27526015 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27526037 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27526074 original size:71 final size:70
Alignment explanation
Indices: 27525873--27526070 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27525863 CGATTTGTCT
* * * *
27525873 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27525938 CTTTCA
65 CTTTCA
* * * *
27525944 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27526009 CTTTCA
65 CTTTCA
* *
27526015 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27526071 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27527634 original size:80 final size:80
Alignment explanation
Indices: 27527550--27527698 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
27527540 TATGGTAACC
* * * *
27527550 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
27527614 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
27527630 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
27527695 CCGG
66 CCGG
27527699 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:27527640 original size:40 final size:38
Alignment explanation
Indices: 27527591--27527698 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
27527581 ATCACGATTT
*
27527591 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
27527631 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
27527671 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
27527699 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27532540 original size:8 final size:8
Alignment explanation
Indices: 27532529--27532571 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
27532519 TGTTTATATA
27532529 TCATACTT
1 TCATACTT
27532537 TCATACTT
1 TCATACTT
27532545 TCATA-TT
1 TCATACTT
*
27532552 TCATA-TA
1 TCATACTT
27532559 TCATCACTT
1 TCAT-ACTT
27532568 TCAT
1 TCAT
27532572 GTACTTCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 12 0.39
8 14 0.45
9 5 0.16
ACGTcount: A:0.28, C:0.23, G:0.00, T:0.49
Consensus pattern (8 bp):
TCATACTT
Found at i:27532550 original size:23 final size:23
Alignment explanation
Indices: 27532524--27532571 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27532514 TTCCATGTTT
*
27532524 ATATATCATACTTTCAT-ACTTTC
1 ATATATCATA-TATCATCACTTTC
*
27532547 ATATTTCATATATCATCACTTTC
1 ATATATCATATATCATCACTTTC
27532570 AT
1 AT
27532572 GTACTTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATCATATATCATCACTTTC
Found at i:27537581 original size:63 final size:63
Alignment explanation
Indices: 27537503--27537626 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
27537493 ACCCTTACTA
* * *
27537503 AAACGTCCTCTAAAACTCCTTTTGGGTGAAGTAGGGACCTATCAACTAGTTGAAGGGTTATCG
1 AAACATCCTCCAAAACTCCTTTTGGGTGAACTAGGGACCTATCAACTAGTTGAAGGGTTATCG
* **
27537566 AAACATCCTCCAAAACTCTTTTTGGGTGAACTAGGGACCTATCGGCTAGTTGAAGGGTTAT
1 AAACATCCTCCAAAACTCCTTTTGGGTGAACTAGGGACCTATCAACTAGTTGAAGGGTTAT
27537627 TGAAGTTTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (63 bp):
AAACATCCTCCAAAACTCCTTTTGGGTGAACTAGGGACCTATCAACTAGTTGAAGGGTTATCG
Found at i:27544440 original size:2 final size:2
Alignment explanation
Indices: 27544435--27544466 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27544425 CCATCGTTAA
27544435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27544467 TAATATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27546126 original size:17 final size:17
Alignment explanation
Indices: 27546088--27546131 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
27546078 AAAAGTACAA
*
27546088 AAAAATATTGAAGTTAT
1 AAAAATATTAAAGTTAT
*
27546105 CAAAATATTAAAGTTAT
1 AAAAATATTAAAGTTAT
*
27546122 AAAAAAATTA
1 AAAAATATTA
27546132 CTATGAGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (17 bp):
AAAAATATTAAAGTTAT
Found at i:27549368 original size:44 final size:44
Alignment explanation
Indices: 27549320--27549458 Score: 99
Period size: 44 Copynumber: 3.1 Consensus size: 44
27549310 ATCTGTTAGC
27549320 TATTATCTGCAATTATGTTGTGTATTCACAACCATCTGGCAGCG
1 TATTATCTGCAATTATGTTGTGTATTCACAACCATCTGGCAGCG
* * *
27549364 TATTAAACTGCAA--A-ATTG-GTAGTTCATCCACCCATTATCTGGCAGC-
1 TATT-ATCTGCAATTATGTTGTGTA-TTCA--CAACC---ATCTGGCAGCG
* ** * * *
27549410 TTTTATCTATATTTATGTTGTGTATTCACAACCATCTGGTAACG
1 TATTATCTGCAATTATGTTGTGTATTCACAACCATCTGGCAGCG
27549454 TATTA
1 TATTA
27549459 ACCTACAACT
Statistics
Matches: 70, Mismatches: 13, Indels: 24
0.65 0.12 0.22
Matches are distributed among these distances:
41 3 0.04
42 7 0.10
43 9 0.13
44 12 0.17
45 11 0.16
46 7 0.10
47 11 0.16
48 7 0.10
49 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (44 bp):
TATTATCTGCAATTATGTTGTGTATTCACAACCATCTGGCAGCG
Found at i:27549427 original size:90 final size:90
Alignment explanation
Indices: 27549295--27549459 Score: 240
Period size: 90 Copynumber: 1.8 Consensus size: 90
27549285 AAATCTAGTG
* ** *
27549295 GTTCATCCACATATTATCTGTTAGCTATTATCTGCAATTATGTTGTGTATTCACAACCATCTGGC
1 GTTCATCCACACATTATCTGGCAGCTATTATCTACAATTATGTTGTGTATTCACAACCATCTGGC
*
27549360 AGCGTATTAAACTGCAAAATTGGTA
66 AACGTATTAAACTGCAAAATTGGTA
* * * * *
27549385 GTTCATCCACCCATTATCTGGCAGCTTTTATCTATATTTATGTTGTGTATTCACAACCATCTGGT
1 GTTCATCCACACATTATCTGGCAGCTATTATCTACAATTATGTTGTGTATTCACAACCATCTGGC
27549450 AACGTATTAA
66 AACGTATTAA
27549460 CCTACAACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (90 bp):
GTTCATCCACACATTATCTGGCAGCTATTATCTACAATTATGTTGTGTATTCACAACCATCTGGC
AACGTATTAAACTGCAAAATTGGTA
Found at i:27550226 original size:26 final size:26
Alignment explanation
Indices: 27550197--27550280 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
27550187 TGATACAAAT
* *
27550197 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27550223 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27550249 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27550275 TGATAA
1 TGATAA
27550281 GAATTTCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Done.