Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 55 of 85
Found at i:19323037 original size:53 final size:53
Alignment explanation
Indices: 19322924--19323072 Score: 183
Period size: 53 Copynumber: 2.8 Consensus size: 53
19322914 TTTTCGTATG
* * * * *
19322924 ATGCGATAACCCACCAGTTACGGTCTTACACTATATGATCTTCTTCCCATATG
1 ATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTCTTACCATATA
* * * *
19322977 ATTCCATATA-TCACCAATTACGGTCTTACACGATATGGTCTTCTTACTATATA
1 ATGCCATA-ACCCACCAGTTACGGTCTTACACGATATGGTCTTCTTACCATATA
* *
19323030 ATGCCATAACCCACCAGTTATGGTTTTACACGATATGGTCTTC
1 ATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTC
19323073 AATCCCATGG
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 78 0.98
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (53 bp):
ATGCCATAACCCACCAGTTACGGTCTTACACGATATGGTCTTCTTACCATATA
Found at i:19337802 original size:21 final size:20
Alignment explanation
Indices: 19337777--19337816 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19337767 AATTCTAGTG
19337777 GTATATCCACATATTTTGGTA
1 GTATATCCACA-ATTTTGGTA
**
19337798 GTATATGTACAATTTTGGT
1 GTATATCCACAATTTTGGT
19337817 GGCTTGTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (20 bp):
GTATATCCACAATTTTGGTA
Found at i:19343974 original size:25 final size:25
Alignment explanation
Indices: 19343944--19344008 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
19343934 CCAATACTCT
19343944 GCTCGCATGAGCTTCCAGTTATTCA
1 GCTCGCATGAGCTTCCAGTTATTCA
* * * *
19343969 GTTCGCCTGAGCTTCCCGTTATTTA
1 GCTCGCATGAGCTTCCAGTTATTCA
*
19343994 GCTCACA-GAGCTTCC
1 GCTCGCATGAGCTTCC
19344009 CATTTACAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCGCATGAGCTTCCAGTTATTCA
Found at i:19354930 original size:22 final size:23
Alignment explanation
Indices: 19354853--19354950 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
19354843 CTAGCCACTT
*
19354853 AGGCATCATAAAATACGCCACAA
1 AGGCATCACAAAATACGCCACAA
*
19354876 AGGCATCACAAAATATGCCACAA
1 AGGCATCACAAAATACGCCACAA
* * *
19354899 AGACATCACAGAATACACCAC-A
1 AGGCATCACAAAATACGCCACAA
*
19354921 AGGCATCACAGAATACGCCACAA
1 AGGCATCACAAAATACGCCACAA
*
19354944 AGACATC
1 AGGCATC
19354951 GCAGAGTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
22 20 0.31
23 45 0.69
ACGTcount: A:0.47, C:0.29, G:0.13, T:0.11
Consensus pattern (23 bp):
AGGCATCACAAAATACGCCACAA
Found at i:19354941 original size:45 final size:46
Alignment explanation
Indices: 19354864--19354955 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
19354854 GGCATCATAA
* *
19354864 AATACGCCACAAAGGCATCACAAAATATGCCACAAAGACATCACAG
1 AATACACCACAAAGGCATCACAAAATACGCCACAAAGACATCACAG
* *
19354910 AATACACCAC-AAGGCATCACAGAATACGCCACAAAGACATCGCAG
1 AATACACCACAAAGGCATCACAAAATACGCCACAAAGACATCACAG
19354955 A
1 A
19354956 GTACTAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 33 0.79
46 9 0.21
ACGTcount: A:0.47, C:0.29, G:0.14, T:0.10
Consensus pattern (46 bp):
AATACACCACAAAGGCATCACAAAATACGCCACAAAGACATCACAG
Found at i:19367367 original size:29 final size:29
Alignment explanation
Indices: 19367335--19367470 Score: 96
Period size: 29 Copynumber: 4.7 Consensus size: 29
19367325 GGTTGCCACC
19367335 ATCCCTTTTCATAATTGATGGCCGAACCT
1 ATCCCTTTTCATAATTGATGGCCGAACCT
** ** *
19367364 ATCCCTTTTCATAATCCATAACCGAAGCT
1 ATCCCTTTTCATAATTGATGGCCGAACCT
* * * *
19367393 ATCCCTTTTTAT-TTTCGATGGTCGTCACCT
1 ATCCCTTTTCATAATT-GATGGCCG-AACCT
** * * * *
19367423 -TCTTTTTTCTTAATTGATAGCCAAAGCT
1 ATCCCTTTTCATAATTGATGGCCGAACCT
*
19367451 ATCCCTTTTCATAATCGATG
1 ATCCCTTTTCATAATTGATG
19367471 ATCACCGATA
Statistics
Matches: 74, Mismatches: 29, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
28 4 0.05
29 65 0.88
30 5 0.07
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATGGCCGAACCT
Found at i:19367469 original size:58 final size:58
Alignment explanation
Indices: 19367335--19367470 Score: 139
Period size: 58 Copynumber: 2.3 Consensus size: 58
19367325 GGTTGCCACC
* *
19367335 ATCCCTTTTCATAATTGATGGCCGAACCTATCCCTTTTCATAATCCATAACCGAAGCT
1 ATCCCTTTTCATAATCGATGGCCGAACCTATCCCTTTTCATAATCCATAACCAAAGCT
* ** * * ** * ** *
19367393 ATCCCTTTTTATTTTCGATGGTCGTCACCT-TCTTTTTTCTTAATTGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATGGCCG-AACCTATCCCTTTTCATAATCCATAACCAAAGCT
19367451 ATCCCTTTTCATAATCGATG
1 ATCCCTTTTCATAATCGATG
19367471 ATCACCGATA
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
58 57 0.93
59 4 0.07
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (58 bp):
ATCCCTTTTCATAATCGATGGCCGAACCTATCCCTTTTCATAATCCATAACCAAAGCT
Found at i:19369870 original size:30 final size:30
Alignment explanation
Indices: 19369799--19369871 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
19369789 CTACAAGGGT
*
19369799 CACACGGCCATGTGACTCACATGGCTAAGA
1 CACACGGCCGTGTGACTCACATGGCTAAGA
19369829 CACACGGCCGTGTGACTCACATGGCTAAGA
1 CACACGGCCGTGTGACTCACATGGCTAAGA
*
19369859 CACACGCCCGTGT
1 CACACGGCCGTGT
19369872 CTCAGGTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.26, C:0.33, G:0.25, T:0.16
Consensus pattern (30 bp):
CACACGGCCGTGTGACTCACATGGCTAAGA
Found at i:19371869 original size:87 final size:88
Alignment explanation
Indices: 19371695--19371916 Score: 283
Period size: 87 Copynumber: 2.5 Consensus size: 88
19371685 TCATAACCGC
* *
19371695 CCCTTTTCAT-ATTCGATGGTCGAAAAC-ATCCCTTTTCATTAATCGATGGTCGTCACCATCCCA
1 CCCTTTTCATAATT-GATAGTCG-AAACTATCCCTTTTCATTAATCGATGGTCGTCACCATACCA
* *
19371758 TTTCATAGTTGATGGTTGTTACCAT
64 TTTCATAGTTGATGGTCGTCACCAT
* * * **
19371783 CCCTTTTCATAATTGATAGTCGAATCTATCCCTCTTCATT-TTCGATGGTCGTCACCATACGTTT
1 CCCTTTTCATAATTGATAGTCGAAACTATCCCTTTTCATTAATCGATGGTCGTCACCATACCATT
19371847 TCATAGTTGATGGTCGTCACCAT
66 TCATAGTTGATGGTCGTCACCAT
* *
19371870 CCATTTTCATAATTGATAG-CTGAAGCTATCCCTTTTCA-TAATCGATG
1 CCCTTTTCATAATTGATAGTC-GAAACTATCCCTTTTCATTAATCGATG
19371917 ATCATCGAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
86 2 0.02
87 83 0.71
88 29 0.25
89 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (88 bp):
CCCTTTTCATAATTGATAGTCGAAACTATCCCTTTTCATTAATCGATGGTCGTCACCATACCATT
TCATAGTTGATGGTCGTCACCAT
Found at i:19371885 original size:29 final size:29
Alignment explanation
Indices: 19371695--19371886 Score: 174
Period size: 29 Copynumber: 6.6 Consensus size: 29
19371685 TCATAACCGC
** *
19371695 CCCTTTTCAT-ATTCGATGGTCGAAAACAT
1 CCCTTTTCATAATT-GATGGTCGTCACCAT
*
19371724 CCCTTTTCATTAATCGATGGTCGTCACCAT
1 CCCTTTTCA-TAATTGATGGTCGTCACCAT
* * * *
19371754 CCCATTTCATAGTTGATGGTTGTTACCAT
1 CCCTTTTCATAATTGATGGTCGTCACCAT
* * *
19371783 CCCTTTTCATAATTGATAGTCG-AATCTAT
1 CCCTTTTCATAATTGATGGTCGTCA-CCAT
* *
19371812 CCCTCTTCAT-TTTCGATGGTCGTCACCAT
1 CCCTTTTCATAATT-GATGGTCGTCACCAT
* * *
19371841 ACGTTTTCATAGTTGATGGTCGTCACCAT
1 CCCTTTTCATAATTGATGGTCGTCACCAT
*
19371870 CCATTTTCATAATTGAT
1 CCCTTTTCATAATTGAT
19371887 AGCTGAAGCT
Statistics
Matches: 130, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.02
29 101 0.78
30 24 0.18
31 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
CCCTTTTCATAATTGATGGTCGTCACCAT
Found at i:19373848 original size:35 final size:35
Alignment explanation
Indices: 19373799--19374151 Score: 214
Period size: 35 Copynumber: 9.8 Consensus size: 35
19373789 CCAACATTTA
* * * *
19373799 AAAAAGGTTTGGATAAACCCGTTTGAGACAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGACAACCTT
* *
19373834 AAAAAGGTTGGGATAGACCTGTCTAAGACAATCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGACAACCTT
* * *
19373869 AATAAA-GTTGGAATAGACCTTGTCTAAGGCAACCTTT
1 AA-AAAGGTTGGGATAGACC-CGTCTAAGACAACC-TT
* *
19373906 AAAAACGATTGGGATAGACCCGCCTAA-AGCAACCTT
1 AAAAA-GGTTGGGATAGACCCGTCTAAGA-CAACCTT
* * * **
19373942 AGAAAGATTGGGATAAACCTTATCTAA-AGCAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGA-CAACC-TT
* *
19373979 AAAAAAGGTTAGGG-TAGACCTTGTCTAA-AGCAGCCTT
1 -AAAAAGGTT-GGGATAGACC-CGTCTAAGA-CAACCTT
** * * *
19374016 AAAAAGGTTAAGATAGACACATCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGACAACCTT
* *
19374051 AAAAAGGTTGAGATAGACCTTGTCTAA-AGCAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGA-CAACC-TT
** ** * *
19374088 AAAAAAGGTTAAGATAGACTTGCCTAAAACAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGACAACCTT
* **
19374124 AAAAATGTTGGGATAGACAGGTCTAAGA
1 AAAAAGGTTGGGATAGACCCGTCTAAGA
19374152 AAATTTTTTC
Statistics
Matches: 255, Mismatches: 46, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
35 106 0.42
36 61 0.24
37 31 0.12
38 54 0.21
39 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGACAACCTT
Found at i:19374047 original size:109 final size:109
Alignment explanation
Indices: 19373881--19374142 Score: 328
Period size: 109 Copynumber: 2.4 Consensus size: 109
19373871 TAAAGTTGGA
* * * * *
19373881 ATAGACCTTGTCTAAGGCAACCTTTAAAAACGATTGGGATAGACCCGCCTAAAGCAACCTTAGAA
1 ATAGACCTTGTCTAAAGCAACC-TTAAAAA-GGTTGGGATAGACACACCTAAAGCAACCTTAAAA
* *
19373946 AGATTGGGATAAACCTTATCTAAAGCAACCTTTAAAAAAGGTTAGG
64 AGATTGAGATAAACCTTATCTAAAGCAACCTTTAAAAAAGGTTAAG
* * ** * *
19373992 GTAGACCTTGTCTAAAGCAGCCTTAAAAAGGTTAAGATAGACACATCTAAGGCAACCTTAAAAAG
1 ATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACACACCTAAAGCAACCTTAAAAAG
* * *
19374057 GTTGAGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTAAG
66 ATTGAGATAAACCTTATCTAAAGCAACCTTTAAAAAAGGTTAAG
* * *
19374101 ATAGA-CTTGCCTAAAACAACCTTAAAAATGTTGGGATAGACA
1 ATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACA
19374143 GGTCTAAGAA
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
108 31 0.24
109 71 0.55
110 7 0.05
111 19 0.15
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (109 bp):
ATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACACACCTAAAGCAACCTTAAAAAG
ATTGAGATAAACCTTATCTAAAGCAACCTTTAAAAAAGGTTAAG
Found at i:19374099 original size:73 final size:71
Alignment explanation
Indices: 19373827--19374141 Score: 250
Period size: 73 Copynumber: 4.4 Consensus size: 71
19373817 CCGTTTGAGA
* * *
19373827 CAACC-TTAAAAAGGTTGGGATAGACCTGTCT-AAGACAATCTTAATAAA-GTT-GGAATAGACC
1 CAACCTTTAAAAAGGTTGAGATAGACCTGTCTAAAG-CAACCTTAA-AAAGGTTAAG-ATAGACC
*
19373888 TTGTCTAAGG
63 -TATCTAAGG
* * * * * * ** *
19373898 CAACCTTTAAAAACGATTGGGATAGACCCGCCTAAAGCAACCTTAGAAAGATTGGGATAAACCTT
1 CAACCTTTAAAAA-GGTTGAGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAAGATAGACC-T
*
19373963 ATCTAAAG
64 ATCTAAGG
* *
19373971 CAACCTTTAAAAAAGGTT-AGGGTAGACCTTGTCTAAAGCAGCCTTAAAAAGGTTAAGATAGACA
1 CAACCTTT-AAAAAGGTTGA-GATAGACC-TGTCTAAAGCAACCTTAAAAAGGTTAAGATAGAC-
19374035 C-ATCTAAGG
62 CTATCTAAGG
*
19374044 CAACC-TTAAAAAGGTTGAGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTAAGATAGACT
1 CAACCTTTAAAAAGGTTGAGATAGACC-TGTCTAAAGCAACC-TT-AAAAAGGTTAAGATAGACC
** **
19374108 TGCCTAAAA
63 TATCTAAGG
* *
19374117 CAACC-TTAAAAATGTTGGGATAGAC
1 CAACCTTTAAAAAGGTTGAGATAGAC
19374142 AGGTCTAAGA
Statistics
Matches: 201, Mismatches: 30, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
71 35 0.17
72 15 0.07
73 114 0.57
74 36 0.18
75 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (71 bp):
CAACCTTTAAAAAGGTTGAGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTAAGATAGACCTAT
CTAAGG
Found at i:19376364 original size:28 final size:28
Alignment explanation
Indices: 19376327--19376381 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
19376317 GGTTTATGTA
19376327 CCACTTTTTTATTTAAACCTAAAATTAC
1 CCACTTTTTTATTTAAACCTAAAATTAC
19376355 CCACTTTTTTATTTAAACCTAAAATTA
1 CCACTTTTTTATTTAAACCTAAAATTA
19376382 AGCTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (28 bp):
CCACTTTTTTATTTAAACCTAAAATTAC
Found at i:19379282 original size:51 final size:51
Alignment explanation
Indices: 19379082--19379276 Score: 225
Period size: 51 Copynumber: 3.8 Consensus size: 51
19379072 TGAAAGTGAA
** * * *
19379082 AGTGATGGTCATGTTTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * *
19379132 A-TAATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * * * * *
19379183 AGCT-TTGATCACGTATGTAGTAATATGTGCAGGCTACTATGTGTATCGGAT
1 AG-TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
19379234 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
19379277 AATCGGTATC
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.03
50 39 0.33
51 75 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
Found at i:19379369 original size:46 final size:44
Alignment explanation
Indices: 19379283--19379370 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
19379273 TGTGAATCGG
* *
19379283 TATCATTAATTATAAGGTGGTTGCTATGTGTTGATCCCACCGGA
1 TATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCCACCGGA
*
19379327 TATCATTAATTACAAAGGGTGGTTGCTGTGTGCTGAAT-CCACCG
1 TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTG-ATCCCACCG
19379371 TGTATCTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.32
45 2 0.05
46 22 0.58
47 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCCACCGGA
Found at i:19379891 original size:16 final size:16
Alignment explanation
Indices: 19379870--19379901 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19379860 TGATTGAAAG
*
19379870 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19379886 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19379902 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19382255 original size:140 final size:140
Alignment explanation
Indices: 19381901--19382326 Score: 527
Period size: 139 Copynumber: 3.1 Consensus size: 140
19381891 AAAGGTATAA
* * * * * ** * *
19381901 CAAAAGT-T-GGCATAGTGTTGGATAATGCTGACTCTTAGTTAAATGTTGTCTTAGGCATGCATA
1 CAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACCCTTATTTAAGGGCTGCCTTAGGCATGCATA
* * * *
19381964 TCCCAACCCTTATACAAAGAGTTGGCCAAAGCGCATGTCGGTAAGTCTATCTCAACACTTAGGAA
66 TCCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTCGGCAAGTCTATCCCAACACTTAGGAA
**
19382029 AGTG-AAACC
131 AGTGTCGACC
* * * *
19382038 CAAAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATA
1 CAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACCCTTATTTAAGGGCTGCCTTAGGCATGCATA
* * * * *
19382103 TCCCAACCCTTATACAAAAAGTTGGCGAAAGTGTATGTCAGCAAGTCTATCCCAATACTTAGGAA
66 TCCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTCGGCAAGTCTATCCCAACACTTAGGAA
19382168 AGTGTCGACC
131 AGTGTCGACC
*
19382178 CAAAAGTGTCGGCATGGTGTTGGACAAAGCCGACCCTTATTTAAGGGCTGCCTTAGGCATGCATA
1 CAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACCCTTATTTAAGGGCTGCCTTAGGCATGCATA
* * * * * * *
19382243 TCCCGACTCTTAT-TAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCGACAGTTAAGAA
66 TCCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTCGGCAAGTCTATCCCAACACTTAGGAA
*
19382307 AGTGTCGGCC
131 AGTGTCGACC
19382317 CAAAAGTGTC
1 CAAAAGTGTC
19382327 ATCATAAACC
Statistics
Matches: 251, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
137 7 0.03
138 1 0.00
139 169 0.67
140 74 0.29
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (140 bp):
CAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACCCTTATTTAAGGGCTGCCTTAGGCATGCATA
TCCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTCGGCAAGTCTATCCCAACACTTAGGAA
AGTGTCGACC
Found at i:19385662 original size:35 final size:35
Alignment explanation
Indices: 19385581--19385670 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 35
19385571 AACACAGTGG
* * * * *
19385581 CATGCTTAAAATGTGATTCAGAATCAGAATAATAG
1 CATGCTTAACATGCGAATCAGAATCAAAATAATAA
* * * *
19385616 CTTGCTCAACATGCGAATCATAATTAAAATAATAA
1 CATGCTTAACATGCGAATCAGAATCAAAATAATAA
*
19385651 CATGCTTAACATGCAAATCA
1 CATGCTTAACATGCGAATCA
19385671 AAGTATCAGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAATCAAAATAATAA
Found at i:19394693 original size:34 final size:35
Alignment explanation
Indices: 19394650--19394723 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
19394640 TATTTTGGAT
* *
19394650 CAGAGTATCATATTTTCATAA-ACATATATCAGAC
1 CAGAATATCATATTTTCAGAAGACATATATCAGAC
* *
19394684 CAGAATATCATGTTTTCAGAAGTACATATATCATAC
1 CAGAATATCATATTTTCAGAAG-ACATATATCAGAC
19394720 CAGA
1 CAGA
19394724 CCATAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 18 0.53
36 16 0.47
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (35 bp):
CAGAATATCATATTTTCAGAAGACATATATCAGAC
Found at i:19404276 original size:32 final size:31
Alignment explanation
Indices: 19404238--19404330 Score: 127
Period size: 32 Copynumber: 3.0 Consensus size: 31
19404228 AATCCAATAA
19404238 AGTATCGATGCCCATCGAATATGAAAATGGAT
1 AGTATCGA-GCCCATCGAATATGAAAATGGAT
19404270 AGTATCGACGCCCATCGAATATGAAAATGGAT
1 AGTATCGA-GCCCATCGAATATGAAAATGGAT
* * *
19404302 GGTTTCGA--CCATCGAATATGAAAAGGGAT
1 AGTATCGAGCCCATCGAATATGAAAATGGAT
19404331 GGTGACGACA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 20 0.35
32 37 0.65
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AGTATCGAGCCCATCGAATATGAAAATGGAT
Found at i:19404323 original size:29 final size:29
Alignment explanation
Indices: 19404249--19404372 Score: 151
Period size: 29 Copynumber: 4.2 Consensus size: 29
19404239 GTATCGATGC
* *
19404249 CCATCGAATATGAAAATGGATAGTATCGA
1 CCATCGAATATGAAAATGGATGGTTTCGA
19404278 CGCCCATCGAATATGAAAATGGATGGTTTCGA
1 ---CCATCGAATATGAAAATGGATGGTTTCGA
* **
19404310 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAATGGATGGTTTCGA
* *
19404339 CAATCAAATATGAAAA-GGATGGTTTCGA
1 CCATCGAATATGAAAATGGATGGTTTCGA
19404367 CCATCG
1 CCATCG
19404373 TTTAGCACAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
28 14 0.17
29 40 0.49
32 27 0.33
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
CCATCGAATATGAAAATGGATGGTTTCGA
Found at i:19408886 original size:23 final size:24
Alignment explanation
Indices: 19408855--19408901 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
19408845 TGCATGTTTA
19408855 TTTCTTATTTTTAGTTTGTTTTTT
1 TTTCTTATTTTTAGTTTGTTTTTT
*
19408879 TTTC-TATTTTTATTTTGTTTTTT
1 TTTCTTATTTTTAGTTTGTTTTTT
19408902 GTTTAGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTCTTATTTTTAGTTTGTTTTTT
Found at i:19413960 original size:23 final size:23
Alignment explanation
Indices: 19413930--19413978 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
19413920 AAAGAAAAAG
19413930 AAAAAAAAAAGAAAGAGATGGTA
1 AAAAAAAAAAGAAAGAGATGGTA
19413953 AAAAAAAAAAGAAAGAGATGGTA
1 AAAAAAAAAAGAAAGAGATGGTA
19413976 AAA
1 AAA
19413979 CTAGGTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.08
Consensus pattern (23 bp):
AAAAAAAAAAGAAAGAGATGGTA
Found at i:19418255 original size:16 final size:15
Alignment explanation
Indices: 19418234--19418288 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
19418224 GTTTGGTTCA
19418234 CTGTAATGAAATAGAG
1 CTGTAATG-AATAGAG
19418250 CTGTAATTGAATAGAG
1 CTGTAA-TGAATAGAG
* *
19418266 CTGTAATGGAATATAA
1 CTGTAAT-GAATAGAG
19418282 CTGTAAT
1 CTGTAAT
19418289 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.91
17 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (15 bp):
CTGTAATGAATAGAG
Found at i:19418329 original size:45 final size:44
Alignment explanation
Indices: 19418270--19418362 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
19418260 ATAGAGCTGT
*
19418270 AATGGAATATAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
19418315 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
19418359 AATG
1 AATG
19418363 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:19428507 original size:14 final size:14
Alignment explanation
Indices: 19428488--19428517 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19428478 AATCACTATA
19428488 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
19428502 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
19428516 AA
1 AA
19428518 TGTGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:19428633 original size:14 final size:14
Alignment explanation
Indices: 19428614--19428643 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19428604 AATCACCCTA
19428614 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
19428628 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
19428642 AA
1 AA
19428644 TGTGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:19428675 original size:126 final size:127
Alignment explanation
Indices: 19428443--19428704 Score: 476
Period size: 126 Copynumber: 2.1 Consensus size: 127
19428433 TATAATATAT
*
19428443 AATA-CTA-TAAAAAACTTGAAATTCATTTCTTTATCAATCACTATAAAAAGAAAAAAAAGAAAA
1 AATACCTATTAAAAAACTTGAAATTCATTTCTTTATCAATCACCATAAAAAGAAAAAAAAGAAAA
19428506 GAAAAAAAAGAATGTGTTTTTGTGGATTTGATTAATTGATGATTTAATAATTATTTTTT-AA
66 GAAAAAAAAGAATGTGTTTTTGTGGATTTGATTAATTGATGATTTAATAATTATTTTTTAAA
*
19428567 AATACCTATTAAAAAACTTGAAATTCATTTCTTTATCAATCACCCTAAAAAGAAAAAAAAGAAAA
1 AATACCTATTAAAAAACTTGAAATTCATTTCTTTATCAATCACCATAAAAAGAAAAAAAAGAAAA
19428632 GAAAAAAAAGAATGTGTTTTTGTGGATTTGATTAATTGATGATTTAATAATTATTTTTTAAAA
66 GAAAAAAAAGAATGTGTTTTTGTGGATTTGATTAATTGATGATTTAATAATTATTTTTT-AAA
19428695 AATACCTATT
1 AATACCTATT
19428705 TGATTAATAT
Statistics
Matches: 132, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
124 4 0.03
125 3 0.02
126 113 0.86
128 12 0.09
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (127 bp):
AATACCTATTAAAAAACTTGAAATTCATTTCTTTATCAATCACCATAAAAAGAAAAAAAAGAAAA
GAAAAAAAAGAATGTGTTTTTGTGGATTTGATTAATTGATGATTTAATAATTATTTTTTAAA
Found at i:19430316 original size:68 final size:69
Alignment explanation
Indices: 19430239--19430377 Score: 271
Period size: 68 Copynumber: 2.0 Consensus size: 69
19430229 ACCCTGAACT
19430239 GAAAAGAAACATATTATTTCTACTAATTTAACAAAAAAATTAGAACAAAAGGAAATC-AAATGGG
1 GAAAAGAAACATATTATTTCTACTAATTTAACAAAAAAATTAGAACAAAAGGAAATCAAAATGGG
19430303 AGTA
66 AGTA
19430307 GAAAAGAAACATATTATTTCTACTAATTTAACAAAAAAATTAGAACAAAAGGAAATCAAAATGGG
1 GAAAAGAAACATATTATTTCTACTAATTTAACAAAAAAATTAGAACAAAAGGAAATCAAAATGGG
19430372 AGTA
66 AGTA
19430376 GA
1 GA
19430378 GTTACCTTAG
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 57 0.81
69 13 0.19
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.23
Consensus pattern (69 bp):
GAAAAGAAACATATTATTTCTACTAATTTAACAAAAAAATTAGAACAAAAGGAAATCAAAATGGG
AGTA
Found at i:19435738 original size:13 final size:14
Alignment explanation
Indices: 19435713--19435745 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19435703 CATTACCATG
19435713 TTTTATGATATAAA
1 TTTTATGATATAAA
19435727 TTTTAT-ATATAAA
1 TTTTATGATATAAA
*
19435740 GTTTAT
1 TTTTAT
19435746 TTTAATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTTATGATATAAA
Found at i:19438925 original size:30 final size:30
Alignment explanation
Indices: 19438905--19439056 Score: 153
Period size: 30 Copynumber: 5.1 Consensus size: 30
19438895 TCATAGCTCA
**
19438905 ATAGCCAAAGCTATCCCTTTTCATAGCTTG
1 ATAGCCAAAGCTATCCCTTTTCATAATTTG
** *
19438935 ATAGCTGAAGCTATCCCTTTTCATTATTTG
1 ATAGCCAAAGCTATCCCTTTTCATAATTTG
* *** *
19438965 ATGGTCGTCA-CCATCCCTTTTCATAATTTG
1 ATAG-CCAAAGCTATCCCTTTTCATAATTTG
* * **
19438995 ATAGTCAAAGCTACCCCTTTTCATAATTCA
1 ATAGCCAAAGCTATCCCTTTTCATAATTTG
*
19439025 ATAGCCAAAGCTATCCCTTTTCATTATTTG
1 ATAGCCAAAGCTATCCCTTTTCATAATTTG
19439055 AT
1 AT
19439057 GGTCGTCACC
Statistics
Matches: 95, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
29 1 0.01
30 92 0.97
31 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.38
Consensus pattern (30 bp):
ATAGCCAAAGCTATCCCTTTTCATAATTTG
Found at i:19439013 original size:90 final size:90
Alignment explanation
Indices: 19438905--19439086 Score: 269
Period size: 90 Copynumber: 2.0 Consensus size: 90
19438895 TCATAGCTCA
* * * **
19438905 ATAGCCAAAGCTATCCCTTTTCATAGCTT-GATAGCTGAAGCTATCCCTTTTCATTATTTGATGG
1 ATAGCCAAAGCTACCCCTTTTCATA-ATTCAATAGCCAAAGCTATCCCTTTTCATTATTTGATGG
19438969 TCGTCACCATCCCTTTT-CATAATTTG
65 TCGTCACCAT-CCTTTTACATAATTTG
*
19438995 ATAGTCAAAGCTACCCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATTATTTGATGGT
1 ATAGCCAAAGCTACCCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATTATTTGATGGT
*
19439060 CGTCACCATCCTTTTACATTATTTG
66 CGTCACCATCCTTTTACATAATTTG
19439085 AT
1 AT
19439087 GGTCGTCACC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
89 8 0.10
90 75 0.90
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (90 bp):
ATAGCCAAAGCTACCCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATTATTTGATGGT
CGTCACCATCCTTTTACATAATTTG
Found at i:19439041 original size:60 final size:60
Alignment explanation
Indices: 19438889--19439056 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 60
19438879 GTTGTCCCAA
** ** * *
19438889 CCCTTTTCATAGCTCAATAGCCAAAGCTATCCCTTTTCATAGCTTGATAGCTGAAGCTAT
1 CCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATAATTTGATAGCTAAAGCTAC
* ** * *** *
19438949 CCCTTTTCATTATTTGATGGTCGTCA-CCATCCCTTTTCATAATTTGATAG-TCAAAGCTAC
1 CCCTTTTCATAATTCAATAG-CCAAAGCTATCCCTTTTCATAATTTGATAGCT-AAAGCTAC
*
19439009 CCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATTATTTGAT
1 CCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATAATTTGAT
19439057 GGTCGTCACC
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
59 3 0.04
60 77 0.94
61 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (60 bp):
CCCTTTTCATAATTCAATAGCCAAAGCTATCCCTTTTCATAATTTGATAGCTAAAGCTAC
Found at i:19439128 original size:29 final size:30
Alignment explanation
Indices: 19438947--19439145 Score: 172
Period size: 30 Copynumber: 6.7 Consensus size: 30
19438937 AGCTGAAGCT
19438947 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * ** *
19438977 ATCCCTTTTCATAATTTGATAGTC-AAAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * ** * *** *
19439007 ACCCCTTTTCATAATTCAATAG-CCAAAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
19439037 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
19439067 AT-CCTTTTACATTATTTGATGGTCGTCACC
1 ATCCCTTTT-CATTATTTGATGGTCGTCACC
* * *
19439097 ATCCCTTTTCATT-GTTGATGGTCATCATC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* *
19439126 ATCCCTTTTTATAATTTGAT
1 ATCCCTTTTCATTATTTGAT
19439146 AGCCGATACG
Statistics
Matches: 140, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
29 32 0.23
30 100 0.71
31 8 0.06
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:19441849 original size:10 final size:10
Alignment explanation
Indices: 19441831--19441870 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
19441821 ATATTTATTC
19441831 TCCTTTTTTT
1 TCCTTTTTTT
19441841 T-CTTTTTTT
1 TCCTTTTTTT
*
19441850 TCCTTTTTTG
1 TCCTTTTTTT
*
19441860 TCCTTATTTT
1 TCCTTTTTTT
19441870 T
1 T
19441871 AATAGAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (10 bp):
TCCTTTTTTT
Found at i:19441869 original size:19 final size:19
Alignment explanation
Indices: 19441825--19441869 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
19441815 TTTCATATAT
* * *
19441825 TTATTCTCCTTTTTTTTCT
1 TTATTTTCCTTTTTTGTCC
*
19441844 TTTTTTTCCTTTTTTGTCC
1 TTATTTTCCTTTTTTGTCC
19441863 TTATTTT
1 TTATTTT
19441870 TAATAGAAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTCCTTTTTTGTCC
Found at i:19444007 original size:45 final size:45
Alignment explanation
Indices: 19443956--19444043 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
19443946 TCGAGGAGAT
**
19443956 TGATTCATCGTACCCCATGTGAGGTTCATTTTTCAATAAAAATAC
1 TGATTCATCGTACCCCATGTGAGGTTCATCCTTCAATAAAAATAC
19444001 TGATTCATCGTACCCCATGTGAGGTTCATCCTTCAATAAAAAT
1 TGATTCATCGTACCCCATGTGAGGTTCATCCTTCAATAAAAAT
19444044 CCTTGTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
TGATTCATCGTACCCCATGTGAGGTTCATCCTTCAATAAAAATAC
Found at i:19455853 original size:20 final size:22
Alignment explanation
Indices: 19455815--19455854 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19455805 ATGCAATATT
19455815 TAAAATGCTAACTAAAATGTCC
1 TAAAATGCTAACTAAAATGTCC
19455837 TAAAATGC-AAC-AAAATGT
1 TAAAATGCTAACTAAAATGT
19455855 ATTCAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAAATGCTAACTAAAATGTCC
Found at i:19457164 original size:22 final size:21
Alignment explanation
Indices: 19457122--19457170 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
19457112 AAAATGATTG
* *
19457122 TAACAAATATATGTTTCATAA
1 TAACAAATATATATATCATAA
19457143 TTAACAAATATATAATAT-ATAA
1 -TAACAAATATAT-ATATCATAA
19457165 TAACAA
1 TAACAA
19457171 GTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 16 0.67
23 2 0.08
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (21 bp):
TAACAAATATATATATCATAA
Found at i:19461507 original size:349 final size:350
Alignment explanation
Indices: 19460868--19461566 Score: 1391
Period size: 349 Copynumber: 2.0 Consensus size: 350
19460858 AGAAACCTAT
19460868 TTTCTTAGTGAAGCATTTGAAGGAGTAGGTCTAAAGAAGAAACATTTTCTTCGTTTTATTTCCTT
1 TTTCTTAGTGAAGCATTTGAAGGAGTAGGTCTAAAGAAGAAACATTTTCTTCGTTTTATTTCCTT
19460933 TAATTTTTTGCTCCCTTCCAATATTCCTCTGAAAACCACATTAACCATGGCAGGAGCGACTTCGA
66 TAATTTTTTGCTCCCTTCCAATATTCCTCTGAAAACCACATTAACCATGGCAGGAGCGACTTCGA
19460998 AGGGGGCTGGCAGCGGCCTCGGCTCCCTAATTTTTTTAAAATTTCTTTTTCGATGCTTTGTGTTT
131 AGGGGGCTGGCAGCGGCCTCGGCTCCCTAATTTTTTTAAAATTTCTTTTTCGATGCTTTGTGTTT
19461063 TGAATTTTTTATTTTAATATTATAATTAGTATTTAAAAAGGGATAAATTTCTGTTTCACCTTCCA
196 TGAATTTTTTATTTTAATATTATAATTAGTATTTAAAAAGGGATAAATTTCTGTTTCACCTTCCA
19461128 AAATTTTTCAAAAATTTTTAAATTTGATACTTTTATCAGATTTATAATTTTTTAATATAAATTTA
261 AAATTTTTCAAAAATTTTTAAATTTGATACTTTTATCAGATTTATAATTTTTTAATATAAATTTA
19461193 GTAATATTTTTAG-TTAATTTGATA
326 GTAATATTTTTAGTTTAATTTGATA
19461217 TTTCTTAGTGAAGCATTTGAAGGAGTAGGTCTAAAGAAGAAACATTTTCTTCGTTTTATTTCCTT
1 TTTCTTAGTGAAGCATTTGAAGGAGTAGGTCTAAAGAAGAAACATTTTCTTCGTTTTATTTCCTT
19461282 TAATTTTTTGCTCCCTTCCAATATTCCTCTGAAAACCACATTAACCATGGCAGGAGCGACTTCGA
66 TAATTTTTTGCTCCCTTCCAATATTCCTCTGAAAACCACATTAACCATGGCAGGAGCGACTTCGA
19461347 AGGGGGCTGGCAGCGGCCTCGGCTCCCTAATTTTTTTAAAATTTCTTTTTCGATGCTTTGTGTTT
131 AGGGGGCTGGCAGCGGCCTCGGCTCCCTAATTTTTTTAAAATTTCTTTTTCGATGCTTTGTGTTT
19461412 TGAATTTTTTATTTTAATATTATAATTAGTATTTAAAAAGGGATAAATTTCTGTTTCACCTTCCA
196 TGAATTTTTTATTTTAATATTATAATTAGTATTTAAAAAGGGATAAATTTCTGTTTCACCTTCCA
19461477 AAATTTTTCAAAAATTTTTAAATTTGATACTTTTATCAGATTTATAATTTTTTAATATAAATTTA
261 AAATTTTTCAAAAATTTTTAAATTTGATACTTTTATCAGATTTATAATTTTTTAATATAAATTTA
19461542 GTAATATTTTTAGTTTAATTTGATA
326 GTAATATTTTTAGTTTAATTTGATA
19461567 AACTAATACA
Statistics
Matches: 349, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
349 338 0.97
350 11 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (350 bp):
TTTCTTAGTGAAGCATTTGAAGGAGTAGGTCTAAAGAAGAAACATTTTCTTCGTTTTATTTCCTT
TAATTTTTTGCTCCCTTCCAATATTCCTCTGAAAACCACATTAACCATGGCAGGAGCGACTTCGA
AGGGGGCTGGCAGCGGCCTCGGCTCCCTAATTTTTTTAAAATTTCTTTTTCGATGCTTTGTGTTT
TGAATTTTTTATTTTAATATTATAATTAGTATTTAAAAAGGGATAAATTTCTGTTTCACCTTCCA
AAATTTTTCAAAAATTTTTAAATTTGATACTTTTATCAGATTTATAATTTTTTAATATAAATTTA
GTAATATTTTTAGTTTAATTTGATA
Found at i:19469339 original size:74 final size:74
Alignment explanation
Indices: 19469118--19469351 Score: 244
Period size: 74 Copynumber: 3.2 Consensus size: 74
19469108 TTGACGGAGG
* *
19469118 TTGCGCCCAGCGCTAGTCAAATAAACCGATGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCAATGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
*
19469183 CAACAATAT
66 CAACGATAT
* * * * * * * * ***
19469192 TTGCACCCAGCACTAGTCGGATAAACCAACG---AA-T-GTGTGTCCATCACTAGTCAAATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCAATGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
** * *
19469252 TGACGAAAG
66 CAACGATAT
* *
19469261 TTGCGCCCAGTGCTAGTCAGATAAACCAATGAATAATTAATGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCAGATAAACCAATGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
19469326 CAACGATAT
66 CAACGATAT
*
19469335 TTGCGCCCAGTGCTAGT
1 TTGCGCCCAGCGCTAGT
19469352 TGAACGAATC
Statistics
Matches: 120, Mismatches: 35, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
69 49 0.41
70 1 0.01
71 2 0.02
72 2 0.02
73 1 0.01
74 65 0.54
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCAATGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
CAACGATAT
Found at i:19469351 original size:143 final size:143
Alignment explanation
Indices: 19469048--19469351 Score: 446
Period size: 143 Copynumber: 2.1 Consensus size: 143
19469038 CGCGAAAGAG
* * * * *
19469048 TTTGCACCCACTGCTAGTCGGATATACCGACAAATGTGTGCCCAACACTAGTCAGATAAATTGAC
1 TTTGCACCCAGTGCTAGTCGGATAAACCAACAAATGTGTGCCCAACACTAGTCAAATAAACTGAC
* * * *
19469113 GGAGGTTGCGCCCAGCGCTAGTCAAATAAACCGATGAATAATTAGTGAGCCCAGCTCTAGTTGGA
66 GAAAGTTGCGCCCAGCGCTAGTCAAATAAACCAATGAATAATTAATGAGCCCAGCTCTAGTTGGA
19469178 TAAACCAACAATA
131 TAAACCAACAATA
** * * *
19469191 TTTGCACCCAGCACTAGTCGGATAAACCAACGAATGTGTGTCCATCACTAGTCAAATAAACTGAC
1 TTTGCACCCAGTGCTAGTCGGATAAACCAACAAATGTGTGCCCAACACTAGTCAAATAAACTGAC
* *
19469256 GAAAGTTGCGCCCAGTGCTAGTCAGATAAACCAATGAATAATTAATGAGCCCAGCTCTAGTTGGA
66 GAAAGTTGCGCCCAGCGCTAGTCAAATAAACCAATGAATAATTAATGAGCCCAGCTCTAGTTGGA
*
19469321 TAAACCAACGATA
131 TAAACCAACAATA
*
19469334 TTTGCGCCCAGTGCTAGT
1 TTTGCACCCAGTGCTAGT
19469352 TGAACGAATC
Statistics
Matches: 141, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (143 bp):
TTTGCACCCAGTGCTAGTCGGATAAACCAACAAATGTGTGCCCAACACTAGTCAAATAAACTGAC
GAAAGTTGCGCCCAGCGCTAGTCAAATAAACCAATGAATAATTAATGAGCCCAGCTCTAGTTGGA
TAAACCAACAATA
Found at i:19469353 original size:35 final size:34
Alignment explanation
Indices: 19469161--19469351 Score: 116
Period size: 35 Copynumber: 5.4 Consensus size: 34
19469151 TAATTAGTGA
* *
19469161 GCCCAGCTCTAGTTGGATAAACCAACAATATTTGC
1 GCCCAG-TCTAGTCGGATAAACCAACGATATTTGC
* * * *
19469196 ACCCAGCACTAGTCGGATAAACCAACGA-ATGTGT
1 GCCCAG-TCTAGTCGGATAAACCAACGATATTTGC
* ** ** * *
19469230 GTCCA-TCACTAGTCAAATAAACTGACGAAAGTTGC
1 GCCCAGT--CTAGTCGGATAAACCAACGATATTTGC
* * *
19469265 GCCCAGTGCTAGTCAGATAAACCAATGAATAATTAATGA
1 GCCCAGT-CTAGTCGGATAAACCAACG-AT-ATT--TGC
*
19469304 GCCCAGCTCTAGTTGGATAAACCAACGATATTTGC
1 GCCCAG-TCTAGTCGGATAAACCAACGATATTTGC
19469339 GCCCAGTGCTAGT
1 GCCCAGT-CTAGT
19469352 TGAACGAATC
Statistics
Matches: 117, Mismatches: 29, Indels: 20
0.70 0.17 0.12
Matches are distributed among these distances:
34 24 0.21
35 59 0.50
36 2 0.02
37 5 0.04
38 2 0.02
39 24 0.21
40 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (34 bp):
GCCCAGTCTAGTCGGATAAACCAACGATATTTGC
Found at i:19469548 original size:36 final size:35
Alignment explanation
Indices: 19469494--19469562 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
19469484 CTATAATGTC
19469494 ATATTCCATAAACCTCCATTCAATTGAATTAACTT
1 ATATTCCATAAACCTCCATTCAATTGAATTAACTT
* *
19469529 ATATCTCCATAAACTTCCATTCAATTTAATTAAC
1 ATAT-TCCATAAACCTCCATTCAATTGAATTAAC
19469563 AATTACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.13
36 27 0.87
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (35 bp):
ATATTCCATAAACCTCCATTCAATTGAATTAACTT
Found at i:19474409 original size:13 final size:13
Alignment explanation
Indices: 19474391--19474415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19474381 TCCAAACATT
19474391 GAAATTTTCAAAC
1 GAAATTTTCAAAC
19474404 GAAATTTTCAAA
1 GAAATTTTCAAA
19474416 AAATCATTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
GAAATTTTCAAAC
Found at i:19477176 original size:20 final size:20
Alignment explanation
Indices: 19477151--19477191 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19477141 GCGCTTGTGG
*
19477151 GTTTGCACTTCGATGCCTCT
1 GTTTGCACTTCAATGCCTCT
19477171 GTTTGCACTTCAATGCCTCT
1 GTTTGCACTTCAATGCCTCT
19477191 G
1 G
19477192 ATCACAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (20 bp):
GTTTGCACTTCAATGCCTCT
Found at i:19480774 original size:31 final size:31
Alignment explanation
Indices: 19480739--19480803 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
19480729 CATTGATGAG
*
19480739 TTAAATGATGTGTTTTTACATAGAAATCTAC
1 TTAAATGATGTGTTTATACATAGAAATCTAC
*
19480770 TTAAATGATGTGTTTATACATGGAAATCTAC
1 TTAAATGATGTGTTTATACATAGAAATCTAC
19480801 TTA
1 TTA
19480804 TCTTATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (31 bp):
TTAAATGATGTGTTTATACATAGAAATCTAC
Found at i:19483231 original size:24 final size:24
Alignment explanation
Indices: 19483204--19483278 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 24
19483194 ATGGAAAATT
19483204 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGTGTTTCA
** ** *
19483228 GTGAAGAA--AGCCATACTGAGTT--
1 GTGAA-AAGTAGGTATGGTG-TTTCA
19483250 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGTGTTTCA
19483274 GTGAA
1 GTGAA
19483279 GAAAGCCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 2 0.06
22 7 0.20
23 12 0.34
24 12 0.34
25 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGTGTTTCA
Found at i:19483255 original size:46 final size:46
Alignment explanation
Indices: 19483202--19483433 Score: 392
Period size: 46 Copynumber: 5.0 Consensus size: 46
19483192 CCATGGAAAA
*
19483202 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
19483248 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
19483294 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
19483340 TTGTTAAAAGTAGGTATGGTGTTTTAGTGAAGAAAACTATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
19483386 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
19483432 TT
1 TT
19483434 ATAGCATTGT
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 175 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:19487736 original size:60 final size:60
Alignment explanation
Indices: 19487664--19487786 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
19487654 AACTATCACT
*
19487664 TTGATAAAGAAAATATATATGTATCAAACTAAGAAAAGCTATTTAAGTTCTGATATTAAA
1 TTGATAAAGAAAATATATATGTATCAAACTAAGAAAACCTATTTAAGTTCTGATATTAAA
19487724 TTGATAAAGAAAATATATATGTATCAAACTAAGAAAACCTATTTAAGTTCTGATATTAAA
1 TTGATAAAGAAAATATATATGTATCAAACTAAGAAAACCTATTTAAGTTCTGATATTAAA
19487784 TTG
1 TTG
19487787 TATATTACTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.34
Consensus pattern (60 bp):
TTGATAAAGAAAATATATATGTATCAAACTAAGAAAACCTATTTAAGTTCTGATATTAAA
Found at i:19493058 original size:6 final size:6
Alignment explanation
Indices: 19493047--19493079 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
19493037 TGGTGCTTTT
19493047 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
19493080 GAAAGGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:19493421 original size:20 final size:21
Alignment explanation
Indices: 19493376--19493429 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
19493366 AATAACTTAT
19493376 CCTTTTGAAAAACGTAAGTCA
1 CCTTTTGAAAAACGTAAGTCA
19493397 CCTTTTGAAAAACGTAAGTCA
1 CCTTTTGAAAAACGTAAGTCA
19493418 -CTTTTCGAAAAA
1 CCTTTT-GAAAAA
19493430 GAGTTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (21 bp):
CCTTTTGAAAAACGTAAGTCA
Found at i:19493556 original size:15 final size:15
Alignment explanation
Indices: 19493536--19493592 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
19493526 ATTCAATATT
19493536 AATATTTTAATAATA
1 AATATTTTAATAATA
*
19493551 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
19493570 AATATATTAATAATA
1 AATATTTTAATAATA
*
19493585 AATGTTTT
1 AATATTTT
19493593 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:19496872 original size:27 final size:28
Alignment explanation
Indices: 19496842--19496905 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
19496832 GGCAATTTGG
*
19496842 CTTTTTTTTTTTTTTTTTTTTT-TTTTC
1 CTTTTTTTTTTTTTTTTTTTTTACTTTC
19496869 CTTTTTTTTTTTTTTTTTTTTTACTTTC
1 CTTTTTTTTTTTTTTTTTTTTTACTTTC
*
19496897 CATTTTTTT
1 CTTTTTTTT
19496906 ATCTTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (28 bp):
CTTTTTTTTTTTTTTTTTTTTTACTTTC
Found at i:19496875 original size:28 final size:28
Alignment explanation
Indices: 19496849--19496905 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
19496839 TGGCTTTTTT
*
19496849 TTTTTTTTTTTTTTTT--TTTCCTTTTT
1 TTTTTTTTTTTTTTTTACTTTCCATTTT
19496875 TTTTTTTTTTTTTTTTACTTTCCATTTT
1 TTTTTTTTTTTTTTTTACTTTCCATTTT
19496903 TTT
1 TTT
19496906 ATCTTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 16 0.57
28 12 0.43
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.88
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTTACTTTCCATTTT
Found at i:19496877 original size:23 final size:23
Alignment explanation
Indices: 19496847--19496895 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
19496837 TTTGGCTTTT
*
19496847 TTTTTTTTTTTTTTTTTTTTTCC
1 TTTTTTTTTTTTTTTTTTTTTAC
19496870 TTTTTTTTTTTTTTTTTTTTTAC
1 TTTTTTTTTTTTTTTTTTTTTAC
19496893 TTT
1 TTT
19496896 CCATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.02, C:0.06, G:0.00, T:0.92
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTTTTTAC
Found at i:19496902 original size:23 final size:23
Alignment explanation
Indices: 19496853--19496905 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
19496843 TTTTTTTTTT
* ***
19496853 TTTTTTTTTTTTTTTCCTTTTTT
1 TTTTTTTTTTTTTTTACTTTCCA
19496876 TTTTTTTTTTTTTTTACTTTCCA
1 TTTTTTTTTTTTTTTACTTTCCA
19496899 TTTTTTT
1 TTTTTTT
19496906 ATCTTGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTACTTTCCA
Found at i:19496905 original size:1 final size:1
Alignment explanation
Indices: 19496843--19496890 Score: 78
Period size: 1 Copynumber: 48.0 Consensus size: 1
19496833 GCAATTTGGC
**
19496843 TTTTTTTTTTTTTTTTTTTTTTTTTCCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19496891 ACTTTCCATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:19498164 original size:21 final size:21
Alignment explanation
Indices: 19498138--19498178 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19498128 CAACGTGGCA
19498138 AGTTAAC-TGACCACATCAGCT
1 AGTTAACTTG-CCACATCAGCT
19498159 AGTTAACTTGCCACATCAGC
1 AGTTAACTTGCCACATCAGC
19498179 AATCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGCT
Found at i:19498860 original size:22 final size:22
Alignment explanation
Indices: 19498832--19498873 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19498822 CCACATCAAC
19498832 AAAAAATAAAAAATAAATATTT
1 AAAAAATAAAAAATAAATATTT
* *
19498854 AAAAAATAATAAATATATAT
1 AAAAAATAAAAAATAAATAT
19498874 ACATCTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAATAAAAAATAAATATTT
Found at i:19498990 original size:10 final size:9
Alignment explanation
Indices: 19498971--19499013 Score: 59
Period size: 10 Copynumber: 4.4 Consensus size: 9
19498961 AAACTATAAT
19498971 ATTATAAAA
1 ATTATAAAA
19498980 ATTACTAAAA
1 ATTA-TAAAA
19498990 ATTATAAAAA
1 ATTAT-AAAA
19499000 ATTTATAAAA
1 A-TTATAAAA
19499010 ATTA
1 ATTA
19499014 AATATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.26
10 19 0.61
11 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:19499762 original size:62 final size:59
Alignment explanation
Indices: 19499654--19499855 Score: 167
Period size: 62 Copynumber: 3.2 Consensus size: 59
19499644 ATCACTTTAA
* * *
19499654 TATTAAATTAATATAATACTTATCAAGATAAATATTATATTAAATTTAATATTAAATCT
1 TATTAAATTAATAAAATACTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
19499713 TATTAAATTAATAAAATATTTAGCTACAAGATAAACATTAAACTT-AATTTAATATTAAGATAAT
1 TATTAAATTAATAAAATACTTA--T-CAAGATAAACATTAAA-TTAAATTTAATATT---A-AAT
19499777 CACTT
58 --C-T
* * * *
19499782 TAATATCGAATTAATAAAATACTAAT-AAGATAAATTATTAAATTTAATTTAATATTAAATC-
1 T-AT-T-AAATTAATAAAATACTTATCAAGATAAA-CATTAAATTAAATTTAATATTAAATCT
*
19499843 TATTAAAATAATA
1 TATTAAATTAATA
19499856 TTATTTTTAA
Statistics
Matches: 117, Mismatches: 10, Indels: 33
0.73 0.06 0.21
Matches are distributed among these distances:
58 7 0.06
59 21 0.18
60 2 0.02
61 2 0.02
62 25 0.21
63 3 0.03
65 4 0.03
66 4 0.03
68 11 0.09
69 19 0.16
70 3 0.03
71 1 0.01
72 15 0.13
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (59 bp):
TATTAAATTAATAAAATACTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:19500054 original size:136 final size:139
Alignment explanation
Indices: 19499790--19500057 Score: 389
Period size: 136 Copynumber: 1.9 Consensus size: 139
19499780 TTTAATATCG
* * *
19499790 AATTAATAAAATACTAATAAGATAAATTATTAAATTTAATTTAATATTAAATCTATTAAAATAAT
1 AATTAATAAAATACTAATAAGATAAAGTATTAAATTAAATTTAATATTAAATATATTAAAATAAT
* * * *
19499855 ATTATTTTTAAAATATTTTATCTCAAATCAAATTCTCTGTTAGAGTCCCAGTACGAGTATAATTC
66 ATTATTTTTAAAATAGTTAATCTCAAATCAAATTCTCTGGTACAGTCCCAGTACGAGTATAATTC
19499920 TTTTTATTA
131 TTTTTATTA
* *
19499929 AATTAATAAAATATTATTAAGAT-AAGTATTAAATTAAATTTAATATTAAATATATTAAAAT-A-
1 AATTAATAAAATACTAATAAGATAAAGTATTAAATTAAATTTAATATTAAATATATTAAAATAAT
* * * * *
19499991 ATTATTTTTGAAATAGTTAATCTGAAATCAAATTCTCTGGTACAGTTCCAGTAGGAGTGTAATTC
66 ATTATTTTTAAAATAGTTAATCTCAAATCAAATTCTCTGGTACAGTCCCAGTACGAGTATAATTC
19500056 TT
131 TT
19500058 CCACTTCTCA
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
136 58 0.50
137 1 0.01
138 35 0.30
139 21 0.18
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (139 bp):
AATTAATAAAATACTAATAAGATAAAGTATTAAATTAAATTTAATATTAAATATATTAAAATAAT
ATTATTTTTAAAATAGTTAATCTCAAATCAAATTCTCTGGTACAGTCCCAGTACGAGTATAATTC
TTTTTATTA
Found at i:19500954 original size:15 final size:15
Alignment explanation
Indices: 19500934--19500965 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19500924 CATTTCACTA
*
19500934 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
19500949 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
19500964 TT
1 TT
19500966 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:19507279 original size:8 final size:8
Alignment explanation
Indices: 19507266--19507290 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19507256 GTTACTAAGT
19507266 TTTGGTAC
1 TTTGGTAC
19507274 TTTGGTAC
1 TTTGGTAC
19507282 TTTGGTAC
1 TTTGGTAC
19507290 T
1 T
19507291 CCTGATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (8 bp):
TTTGGTAC
Found at i:19510243 original size:21 final size:22
Alignment explanation
Indices: 19510197--19510261 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
19510187 TCTTATTTTA
* *
19510197 AAAAAAATTAAAAATTATATAT
1 AAAAAAATTAAAAAATATATAC
19510219 AAAAAAA-TAAAAGAATA-ATAC
1 AAAAAAATTAAAA-AATATATAC
**
19510240 AAAAATGTTAAATAAA-ATATAC
1 AAAAAAATTAAA-AAATATATAC
19510262 TTTTTTATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 14 0.40
22 20 0.57
23 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAAAATTAAAAAATATATAC
Found at i:19511184 original size:31 final size:29
Alignment explanation
Indices: 19511149--19511211 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 29
19511139 AAGTCACCTT
*
19511149 ACTATTATCATTTTTTGTTTTTGGTCACCCA
1 ACTATTATCA-ATTTT-TTTTTGGTCACCCA
*
19511180 AC---TATCAATTTTTTTTTGGTCACCTA
1 ACTATTATCAATTTTTTTTTGGTCACCCA
19511206 ACTATT
1 ACTATT
19511212 GCCCCTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
26 15 0.56
27 4 0.15
28 5 0.19
29 1 0.04
31 2 0.07
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (29 bp):
ACTATTATCAATTTTTTTTTGGTCACCCA
Found at i:19511493 original size:9 final size:9
Alignment explanation
Indices: 19511479--19511518 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
19511469 CTATCCCCCC
19511479 AAAAAAAAG
1 AAAAAAAAG
19511488 AAAAAAAAG
1 AAAAAAAAG
19511497 AAAAAAAA-
1 AAAAAAAAG
19511505 AAAGAAAAAG
1 AAA-AAAAAG
19511515 AAAA
1 AAAA
19511519 CTTGCTACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.10
9 23 0.79
10 3 0.10
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:19511503 original size:12 final size:12
Alignment explanation
Indices: 19511479--19511518 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
19511469 CTATCCCCCC
*
19511479 AAAAAA-AAGAA
1 AAAAAAGAAAAA
19511490 AAAAAAGAAAAA
1 AAAAAAGAAAAA
19511502 AAAAAAGAAAAA
1 AAAAAAGAAAAA
19511514 GAAAA
1 -AAAA
19511519 CTTGCTACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 6 0.23
12 16 0.62
13 4 0.15
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:19515186 original size:13 final size:13
Alignment explanation
Indices: 19515170--19515194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19515160 NATATATAAA
19515170 TAAGTTATAAAAG
1 TAAGTTATAAAAG
19515183 TAAGTTATAAAA
1 TAAGTTATAAAA
19515195 AAGGTGTACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
TAAGTTATAAAAG
Found at i:19515383 original size:3 final size:3
Alignment explanation
Indices: 19515356--19515425 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
19515346 AATGGAAATG
* * * * * * *
19515356 TAA TGA TAA TAA CAG TAA TAT TAA TAA TAA TAC TAA TAC TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19515404 TACGA TAA TAA TAG TAA TAA TA
1 TA--A TAA TAA TAA TAA TAA TA
19515426 TTATTATTAT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
3 46 0.94
5 3 0.06
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19515392 original size:12 final size:12
Alignment explanation
Indices: 19515371--19515425 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
19515361 ATAATAACAG
*
19515371 TAATATTAATAA
1 TAATACTAATAA
*
19515383 TAATACTAATAC
1 TAATACTAATAA
19515395 TAATACTAATACGA
1 TAATACTAATA--A
* *
19515409 TAATAATAGTAA
1 TAATACTAATAA
19515421 TAATA
1 TAATA
19515426 TTATTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 27 0.75
14 9 0.25
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (12 bp):
TAATACTAATAA
Found at i:19515404 original size:18 final size:18
Alignment explanation
Indices: 19515361--19515425 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
19515351 AAATGTAATG
* * *
19515361 ATAATAACAGTAATATTA
1 ATAATAATACTAATACTA
19515379 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
* *
19515397 ATACTAATACGATAATAATA
1 ATAATAATAC--TAATACTA
*
19515417 GTAATAATA
1 ATAATAATA
19515426 TTATTATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 24 0.63
20 14 0.37
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:19532023 original size:94 final size:96
Alignment explanation
Indices: 19531855--19532053 Score: 294
Period size: 94 Copynumber: 2.1 Consensus size: 96
19531845 ATATGAAATT
* *
19531855 ATCACAGACAAGGCGAATATCCCAAAGTTCATGACAAGTAAGTATTTTTACTCGTATTTTGTAAT
1 ATCA-AGACAAGGCGAATATCCCAAAGTTCATGAC-A--AAGTATTTTGACTCATATTTTGTAAT
*
19531920 AATCTTATATCTTAATCAAAATCAAAATTAAA-CA
62 AATCATATATCTTAATCAAAATCAAAATTAAACCA
* **
19531954 ATCAAGACAAGGTGAATATCTGAAAGTTCATGAC-AAGTATTTTGACTCATATTTTGTAATAATC
1 ATCAAGACAAGGCGAATATCCCAAAGTTCATGACAAAGTATTTTGACTCATATTTTGTAATAATC
19532018 ATATATCTTAATCAAAATCAAAATTAAACCA
66 ATATATCTTAATCAAAATCAAAATTAAACCA
19532049 ATCAA
1 ATCAA
19532054 TTCTATTAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
94 55 0.59
95 7 0.08
98 27 0.29
99 4 0.04
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (96 bp):
ATCAAGACAAGGCGAATATCCCAAAGTTCATGACAAAGTATTTTGACTCATATTTTGTAATAATC
ATATATCTTAATCAAAATCAAAATTAAACCA
Found at i:19532934 original size:17 final size:17
Alignment explanation
Indices: 19532914--19532946 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19532904 TATAGGATAA
19532914 TAAAATA-AATAGAACAC
1 TAAAATATAA-AGAACAC
19532931 TAAAATATAAAGAACA
1 TAAAATATAAAGAACA
19532947 AATGGTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAATATAAAGAACAC
Found at i:19537331 original size:49 final size:49
Alignment explanation
Indices: 19537254--19537354 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
19537244 TTCTATAGAG
* * *
19537254 AACATATGAAAAGCATTAAACAAGTTATATTATTTCTAAAATGAATTAT
1 AACATATGAAAAGCATTAAACAAATTATATTATTTCCAAAAAGAATTAT
* * *
19537303 AACATATGGAAAGTATTAAA-AACATTATATTCTTTCCAAAAAGAATTAT
1 AACATATGAAAAGCATTAAACAA-ATTATATTATTTCCAAAAAGAATTAT
19537352 AAC
1 AAC
19537355 TACCTTGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (49 bp):
AACATATGAAAAGCATTAAACAAATTATATTATTTCCAAAAAGAATTAT
Found at i:19540952 original size:14 final size:15
Alignment explanation
Indices: 19540933--19540961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19540923 CCACCATAGA
19540933 CATA-TTTCACATAT
1 CATATTTTCACATAT
19540947 CATATTTTCACATAT
1 CATATTTTCACATAT
19540962 TAATACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (15 bp):
CATATTTTCACATAT
Found at i:19542946 original size:27 final size:26
Alignment explanation
Indices: 19542916--19543268 Score: 314
Period size: 27 Copynumber: 13.2 Consensus size: 26
19542906 GGTATAACAA
* *
19542916 TCATTTTAACCTATGGAAGTATTTCGG
1 TCATTTTACCCTATGG-GGTATTTCGG
* *
19542943 TCATTCTACCGTATAGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGG
* * * *
19542970 TCATTCTACCCTGTGGGGTATGTCGT
1 TCATTTTACCCTATGGGGTATTTCGG
* **
19542996 TTATTTTACCCTATGGGGTATTTCTA
1 TCATTTTACCCTATGGGGTATTTCGG
** *
19543022 TCATTTTACCAAATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGG
* **
19543049 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTAT-GGGGTATTTCGG
* * *
19543076 TCATTCTACCCTATGACGGTATTTCACG
1 TCATTTTACCCTATG-GGGTATTTC-GG
19543104 -CATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGG
* *
19543130 TCATTCTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATG-GGGTATTTCGG
* * *
19543157 TCATTTTACCCCATAGGGTATTTCTG
1 TCATTTTACCCTATGGGGTATTTCGG
* *
19543183 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGG
*
19543210 TCATTTTACCCTATGGCAGTA-TTCTGG
1 TCATTTTACCCTATGG-GGTATTTC-GG
* *
19543237 TCATTTTACGCTATGGAGGCATTTCGG
1 TCATTTTACCCTATGG-GGTATTTCGG
19543264 TCATT
1 TCATT
19543269 CAGTCATTCT
Statistics
Matches: 268, Mismatches: 47, Indels: 22
0.80 0.14 0.07
Matches are distributed among these distances:
26 70 0.26
27 192 0.72
28 6 0.02
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGG
Found at i:19543064 original size:53 final size:54
Alignment explanation
Indices: 19542916--19543362 Score: 373
Period size: 54 Copynumber: 8.2 Consensus size: 54
19542906 GGTATAACAA
* * ** * * * *
19542916 TCATTTTAACCTATGGAAGTATTTCGGTCATTCTACCGTATAGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
* * * * **
19542970 TCATTCTACCCTGT-GGGGTATGTCGTTTATTTTACCCTAT-GGGGTATTTCTA
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
* ** * **
19543022 TCATTTTACCAAATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
** *
19543076 TCATTCTACCCTATGACGGTATTTC-ACGCATTTTACCCTATGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCGG
* * * *
19543130 TCATTCTACCCTATGAGGGTATTTCGATCATTTTACCCCAT-AGGGTATTTCTG
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
**
19543183 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGCAGTA-TTCTGG
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTC-GG
* * * * * ** *
19543237 TCATTTTACGCTATGGAGGCATTTCGGTCATTCAGTCATTCTACCTTATGTAGGTATTTCAG
1 TCATTCTACCCTATGGGGGTATTTC-G--A-TCA-T--TT-TACCCTATGGGGGTATTTCGG
** * * * *
19543299 TCATTCTACCCTATTAGGGTATTTCGGTCATTTTACCCTATGGGGCTGTTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
*
19543353 TCATTTTACC
1 TCATTCTACC
19543363 TATTTTGGGG
Statistics
Matches: 313, Mismatches: 65, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
52 20 0.06
53 94 0.30
54 149 0.48
55 4 0.01
57 2 0.01
58 6 0.02
59 1 0.00
61 3 0.01
62 31 0.10
63 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (54 bp):
TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGG
Found at i:19543197 original size:134 final size:132
Alignment explanation
Indices: 19542969--19543362 Score: 391
Period size: 134 Copynumber: 2.9 Consensus size: 132
19542959 GGGTATTTCG
* * * * * *
19542969 GTCATTCTACCCTGT-GGGGTATGTCGTTTATTTTACCCTATG-GGGTATTTCTATCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTC-ATCATTTTACC
* * * * *
19543032 AAATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCAATCATTCTACCCTATGACGGTA
65 CAAT-AGGGTATTTCG-TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGACAGTA
19543097 TTTCAC
128 -TTCAC
19543103 G-CATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTC-ATCATTTTACC
* *
19543167 CCATAGGGTATTTCTGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGCAGTAT
65 CAATAGGGTATTTC-GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGACAGTAT
**
19543232 TCTG
129 TCAC
* * *
19543236 GTCATTTTACGCTATGGAGGCATTTCGGTCATTCAGTCATTCTACCTTATGTA-GGTATTTCAGT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTC--T-A--C--CC-TATG-AGGGTATTTCA-T
* * * * *
19543300 CATTCTACCCTATTAGGGTATTTCGGTCATTTTACCCTATGGGGCTGTTTCGATCATTTTACC
56 CATTTTACCC-AATAGGGTATTTC-GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACC
19543363 TATTTTGGGG
Statistics
Matches: 219, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
133 15 0.07
134 106 0.48
135 23 0.11
136 1 0.00
137 1 0.00
139 1 0.00
141 3 0.01
142 22 0.10
143 47 0.21
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (132 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCATCATTTTACCC
AATAGGGTATTTCGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGACAGTATTC
AC
Found at i:19543305 original size:27 final size:28
Alignment explanation
Indices: 19543267--19543340 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
19543257 ATTTCGGTCA
*
19543267 TTCAGTCATTCTACCTTATGTA-GGTAT
1 TTCAGTCATTCTACCCTATGTAGGGTAT
19543294 TTCAGTCATTCTACCCTAT-TAGGGTAT
1 TTCAGTCATTCTACCCTATGTAGGGTAT
* *
19543321 TTCGGTCATTTTACCCTATG
1 TTCAGTCATTCTACCCTATG
19543341 GGGCTGTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (28 bp):
TTCAGTCATTCTACCCTATGTAGGGTAT
Found at i:19543350 original size:27 final size:27
Alignment explanation
Indices: 19543271--19543366 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
19543261 CGGTCATTCA
* * *
19543271 GTCATTCTACCTTATGTA-GGTATTTCA
1 GTCATTTTACCCTAT-TAGGGTATTTCG
*
19543298 GTCATTCTACCCTATTAGGGTATTTCG
1 GTCATTTTACCCTATTAGGGTATTTCG
* *
19543325 GTCATTTTACCCTA-TGGGGCTGTTTCG
1 GTCATTTTACCCTATTAGGG-TATTTCG
*
19543352 ATCATTTTA-CCTATT
1 GTCATTTTACCCTATT
19543367 TTGGGGTCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.17
27 50 0.83
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATTAGGGTATTTCG
Found at i:19543351 original size:89 final size:88
Alignment explanation
Indices: 19543182--19543357 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 88
19543172 GGGTATTTCT
* * *
19543182 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGCAGTATTCTGGTCATTTTACG
1 GTCATTCTACCCTATGGAGGTATTTCGATCATTCTACCCTATGG-AGTATTCTGGTCATTTTACC
*
19543247 CTATGGAGGCATTTCGGTCATTCA
65 CTATGGAGGCATTTCGATCATTCA
* *
19543271 GTCATTCTACCTTATGTAGGTATTTC-AGTCATTCTACCCTATTAGG-GTATT-TCGGTCATTTT
1 GTCATTCTACCCTATGGAGGTATTTCGA-TCATTCTACCCTA-T-GGAGTATTCT-GGTCATTTT
*
19543333 ACCCTATGG-GGCTGTTTCGATCATT
62 ACCCTATGGAGGC-ATTTCGATCATT
19543358 TTACCTATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
88 5 0.07
89 67 0.89
90 1 0.01
91 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (88 bp):
GTCATTCTACCCTATGGAGGTATTTCGATCATTCTACCCTATGGAGTATTCTGGTCATTTTACCC
TATGGAGGCATTTCGATCATTCA
Found at i:19543735 original size:152 final size:152
Alignment explanation
Indices: 19543491--19544244 Score: 981
Period size: 152 Copynumber: 5.0 Consensus size: 152
19543481 CAGGTGGGCA
* * * *
19543491 CACACGCTCGTGCGGCCCGTTCAGCCTAGGTTTTGCCACGGCTATGAGATCTACATAGCC-ATGT
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTA-GT
*
19543555 CCAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACG
65 CCAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACG
* *
19543620 GTCCATTTC-AGTCCAACGTGGCC
130 GCCCATTTCGA-CCCAACGTGGCC
* * ** *
19543643 CACACGCTCGTGTGGCCCATTCAGCCCAGATTTTGCTACGGCTATGAGATTTGTATAGCCCAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTAGTC
* * * * * *
19543708 CAGTATTTGGCACAAATCATTGATTTCATCCGTGTGAGGCCCATGAGCCCATTGAGCCCACACGA
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
19543773 CCCATTTCGACCCAACGTGGCC
131 CCCATTTCGACCCAACGTGGCC
* * * * * * *
19543795 CACATGCTCGTGCGGCCTATTCAGACAAGATTTTACCACGGCTATGAGATCTACATAACCTAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTAGTC
* * * * * *
19543860 CAATATTTGCCACAAATTGTGGATTTCATCCGTGTGGGGCTCATGAGCCCATTGTGCCTACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
**
19543925 CCCATTTCGGTCCAACGTGGCC
131 CCCATTTCGACCCAACGTGGCC
* * * ** **
19543947 CACACGCTCGTGTGGCCCATTCCGCCCAGAGTTCACCACGGCTATGAGATTTGTATAGCCTAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTAGTC
* *
19544012 CAGTATTTGGCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTAAGCCCACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
19544077 CCCATTTCGACCCAACGTGGCC
131 CCCATTTCGACCCAACGTGGCC
* * * *
19544099 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATTTACATAACCTAGTC
1 CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTAGTC
* * ** * * * *
19544164 CAATATTTGCCACAAATCCTCAATTTTATCCGTGTGGGGCCCACTAGCCCAATAAGCCCACACGG
66 CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
*
19544229 CCCATTTCGGCCCAAC
131 CCCATTTCGACCCAAC
19544245 AAGGTCCATT
Statistics
Matches: 517, Mismatches: 83, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
152 515 1.00
153 2 0.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (152 bp):
CACACGCTCGTGCGGCCCATTCAGCCCAGATTTTGCCACGGCTATGAGATTTACATAGCCTAGTC
CAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCCCACGAGCCCATTGAGCCCACACGG
CCCATTTCGACCCAACGTGGCC
Found at i:19544045 original size:304 final size:304
Alignment explanation
Indices: 19543491--19544244 Score: 1152
Period size: 304 Copynumber: 2.5 Consensus size: 304
19543481 CAGGTGGGCA
* ** * *
19543491 CACACGCTCGTGCGGCCCGTTCAGCCTAGGTTTTGCCACGGCTATGAGATCTACATAGCC-ATGT
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACCTA-GT
* *
19543555 CCAGTATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCACGAGCCCATTGAGCCCACACG
65 CCAATATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCATGAGCCCATTGAGCCCACACG
* * * ** *
19543620 GTCCATTTCAGTCCAACGTGGCCCACACGCTCGTGTGGCCCATTCAGCCCAGATTTTGCTACGGC
130 GCCCATTTCGGTCCAACGTGGCCCACACGCTCGTGTGGCCCATTCAGCCCAGAGTTCACCACGGC
*
19543685 TATGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCATTGATTTCATCCGTGTGAGGCCC
195 TATGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCATGGATTTCATCCGTGTGAGGCCC
* *
19543750 ATGAGCCCATTGAGCCCACACGACCCATTTCGACCCAACGTGGCC
260 ACGAGCCCATTAAGCCCACACGACCCATTTCGACCCAACGTGGCC
* * *
19543795 CACATGCTCGTGCGGCCTATTCAGACAAGATTTTACCACGGCTATGAGATCTACATAACCTAGTC
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACCTAGTC
* * *
19543860 CAATATTTGCCACAAATTGTGGATTTCATCCGTGTGGGGCTCATGAGCCCATTGTGCCTACACGG
66 CAATATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCATGAGCCCATTGAGCCCACACGG
*
19543925 CCCATTTCGGTCCAACGTGGCCCACACGCTCGTGTGGCCCATTCCGCCCAGAGTTCACCACGGCT
131 CCCATTTCGGTCCAACGTGGCCCACACGCTCGTGTGGCCCATTCAGCCCAGAGTTCACCACGGCT
* * *
19543990 ATGAGATTTGTATAGCCTAGTCCAGTATTTGGCACAAATCGTGGATTTCATCCGTGTGGGGCCCA
196 ATGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCATGGATTTCATCCGTGTGAGGCCCA
*
19544055 CGAGCCCATTAAGCCCACACGGCCCATTTCGACCCAACGTGGCC
261 CGAGCCCATTAAGCCCACACGACCCATTTCGACCCAACGTGGCC
*
19544099 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATTTACATAACCTAGTC
1 CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACCTAGTC
* ** * * * *
19544164 CAATATTTGCCACAAATCCTCAATTTTATCCGTGTGGGGCCCACT-AGCCCAATAAGCCCACACG
66 CAATATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCA-TGAGCCCATTGAGCCCACACG
*
19544228 GCCCATTTCGGCCCAAC
130 GCCCATTTCGGTCCAAC
19544245 AAGGTCCATT
Statistics
Matches: 406, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
304 404 1.00
305 2 0.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (304 bp):
CACATGCTCGTGCGGCCTATTCAGCCTAGATTTTGCCACGGCTATGAGATCTACATAACCTAGTC
CAATATTTGCCACAAATCGTGGATTTCATCCGTGTGGGGCTCATGAGCCCATTGAGCCCACACGG
CCCATTTCGGTCCAACGTGGCCCACACGCTCGTGTGGCCCATTCAGCCCAGAGTTCACCACGGCT
ATGAGATTTGTATAGCCCAGTCCAGTATTTGGCACAAATCATGGATTTCATCCGTGTGAGGCCCA
CGAGCCCATTAAGCCCACACGACCCATTTCGACCCAACGTGGCC
Found at i:19544853 original size:15 final size:15
Alignment explanation
Indices: 19544835--19544868 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19544825 CGACCAAAAA
*
19544835 CAAAGAACGTATTAT
1 CAAACAACGTATTAT
19544850 CAAACAACGTATTAT
1 CAAACAACGTATTAT
19544865 CAAA
1 CAAA
19544869 AACTATTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (15 bp):
CAAACAACGTATTAT
Found at i:19545042 original size:27 final size:27
Alignment explanation
Indices: 19545013--19545293 Score: 346
Period size: 27 Copynumber: 10.4 Consensus size: 27
19545003 GGGTATAATA
* * * * *
19545013 GTCATTTTAACCTATAGGGGCATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
19545040 GTCATTCTACCCCATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
19545067 ATCATTCTACCCTGTGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
19545094 GTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* **
19545121 GTCATTCTACTCTATGGGGAAATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
19545148 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
19545175 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* ** *
19545202 GTCATTATACCCTATAAGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
19545229 ATCATTCAACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
19545256 GTCATTTTACCCTATGGGGGTGTTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
19545283 GTCATTTTACC
1 GTCATTCTACC
19545294 TATTTTGGGG
Statistics
Matches: 217, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTCTACCCTATGGGGGTATTTCG
Found at i:19551360 original size:50 final size:50
Alignment explanation
Indices: 19551232--19551424 Score: 179
Period size: 50 Copynumber: 3.7 Consensus size: 50
19551222 ATTTGGGTAA
* * * * *
19551232 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCATGGGCA-C--CGA-G--ATG
*
19551288 AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCGTGGGCACCGAGATG
1 AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
** * *
19551338 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
** * * * * *
19551388 AGAACTCCCATGTAATACCATATCTGGGATATGGCAT
1 AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCAT
19551425 TGGCNNNNNN
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 78 0.66
52 1 0.01
53 2 0.02
55 1 0.01
56 37 0.31
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCAAGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
Found at i:19563572 original size:20 final size:20
Alignment explanation
Indices: 19563547--19563653 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
19563537 TTGTTCGGGA
*
19563547 TTTGCACTTCGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
* *
19563567 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTCGGTGCCCCTG
*
19563587 TTTGTACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
*
19563607 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
* * *
19563627 TCTACACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
19563647 TTATGCA
1 TT-TGCA
19563654 TCTATGATGC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 64 0.90
21 5 0.07
ACGTcount: A:0.09, C:0.30, G:0.21, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:19563601 original size:40 final size:40
Alignment explanation
Indices: 19563546--19563653 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
19563536 CTTGTTCGGG
*
19563546 ATTTGCACTTCGGTGCCCTTGTTTGCAC-TTTGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCTGTTTGCACATTT-GTGCCCCT
*
19563586 ATTTGTACTTCGGTGCCCCTGTTTGCACATTTGTGCCCCT
1 ATTTGCACTTCGGTGCCCCTGTTTGCACATTTGTGCCCCT
* * * *
19563626 GTCTACACTTTGGTGCCCCTGTTATGCA
1 ATTTGCACTTCGGTGCCCCTGTT-TGCA
19563654 TCTATGATGC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 52 0.88
41 7 0.12
ACGTcount: A:0.10, C:0.30, G:0.21, T:0.39
Consensus pattern (40 bp):
ATTTGCACTTCGGTGCCCCTGTTTGCACATTTGTGCCCCT
Found at i:19573829 original size:20 final size:20
Alignment explanation
Indices: 19573806--19573971 Score: 71
Period size: 20 Copynumber: 8.3 Consensus size: 20
19573796 TTGTCCACAA
*
19573806 TACTGGCAGTTTATCTGCAT
1 TACTGGCAGCTTATCTGCAT
* ** * *
19573826 TACTGGAAATTTATTTGCAC
1 TACTGGCAGCTTATCTGCAT
* ** * ** *
19573846 TATTGGTGGCTTGTCCACAA
1 TACTGGCAGCTTATCTGCAT
* * *
19573866 TACTGACAACTTGTCTGCAT
1 TACTGGCAGCTTATCTGCAT
* *
19573886 TACTGGCAGTTTATATGCAT
1 TACTGGCAGCTTATCTGCAT
** * ** *
19573906 TACTGGTGGCTTGTCCACAA
1 TACTGGCAGCTTATCTGCAT
* * *
19573926 TACTGACAACTTGTCTGCAT
1 TACTGGCAGCTTATCTGCAT
* *
19573946 TACTGGCAGTTTATATGCAT
1 TACTGGCAGCTTATCTGCAT
19573966 TACTGG
1 TACTGG
19573972 TGGCTTGTCC
Statistics
Matches: 99, Mismatches: 47, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TACTGGCAGCTTATCTGCAT
Found at i:19573830 original size:40 final size:40
Alignment explanation
Indices: 19573733--19573831 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
19573723 AAGTACCGAT
* * *
19573733 AGTTTACCTACACTACTAGTGGCCTGTCCACAATACTAGC
1 AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTAGC
* *
19573773 AGTTTATCTGCACTACTGGTGGCTTGTCCACAATACTGGC
1 AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTAGC
*
19573813 AGTTTATCTGCATTACTGG
1 AGTTTATCTGCACTACTGG
19573832 AAATTTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (40 bp):
AGTTTATCTGCACTACTGGTGGCCTGTCCACAATACTAGC
Found at i:19573868 original size:60 final size:60
Alignment explanation
Indices: 19573766--19573985 Score: 332
Period size: 60 Copynumber: 3.7 Consensus size: 60
19573756 CTGTCCACAA
* * * ** *
19573766 TACTAGCAGTTTATCTGCACTACTGGTGGCTTGTCCACAATACTGGCAGTTTATCTGCAT
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
* * * *
19573826 TACTGGAAATTTATTTGCACTATTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
*
19573886 TACTGGCAGTTTATATGCATTACTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
*
19573946 TACTGGCAGTTTATATGCATTACTGGTGGCTTGTCCACAA
1 TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAA
19573986 ATTGGAGTGT
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 146 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (60 bp):
TACTGGCAGTTTATATGCACTACTGGTGGCTTGTCCACAATACTGACAACTTGTCTGCAT
Found at i:19574377 original size:27 final size:27
Alignment explanation
Indices: 19574333--19574526 Score: 141
Period size: 27 Copynumber: 7.2 Consensus size: 27
19574323 GATTCCAAAA
* *
19574333 AGGGAAAAATAACCGAAAAACCCCTAT
1 AGGGTAAAATGACCGAAAAACCCCTAT
* *
19574360 AGGGTAAAATGACTGAAATAATCCC-AT
1 AGGGTAAAATGACCGAAA-AACCCCTAT
* * * *
19574387 AAGGTAAAATGATCGAAATACCCCCAT
1 AGGGTAAAATGACCGAAAAACCCCTAT
* *
19574414 AAGGTAAAATGATC-AAAATA-CCCTCAT
1 AGGGTAAAATGACCGAAAA-ACCCCT-AT
* *
19574441 AGGGTAAAATGACCGAAATA-CTCTAT
1 AGGGTAAAATGACCGAAAAACCCCTAT
* *
19574467 AGGGTAAAATTACCGAAATACCACC-AT
1 AGGGTAAAATGACCGAAAAACC-CCTAT
* *
19574494 TGGGTAAAATGAACC-AAATA-CCCTCAT
1 AGGGTAAAATG-ACCGAAAAACCCCT-AT
19574521 AGGGTA
1 AGGGTA
19574527 TGTAAAGCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
25 2 0.01
26 32 0.23
27 91 0.66
28 12 0.09
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATGACCGAAAAACCCCTAT
Found at i:19574504 original size:80 final size:81
Alignment explanation
Indices: 19574354--19574526 Score: 233
Period size: 80 Copynumber: 2.2 Consensus size: 81
19574344 ACCGAAAAAC
* * *
19574354 CCCT-ATAGGGTAAAATGACTGAAATAATCCCATAAGGTAAAATGATCGAAATACCCCCATAAGG
1 CCCTCATAGGGTAAAATGACCGAAATAATCCCATAAGGTAAAATGACCGAAATACCACCATAAGG
*
19574418 TAAAATGATCAAAATA
66 TAAAATGAACAAAATA
* * * * **
19574434 CCCTCATAGGGTAAAATGACCGAAATACT-CTATAGGGTAAAATTACCGAAATACCACCATTGGG
1 CCCTCATAGGGTAAAATGACCGAAATAATCCCATAAGGTAAAATGACCGAAATACCACCATAAGG
*
19574498 TAAAATGAACCAAATA
66 TAAAATGAACAAAATA
19574514 CCCTCATAGGGTA
1 CCCTCATAGGGTA
19574527 TGTAAAGCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 59 0.73
81 22 0.27
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (81 bp):
CCCTCATAGGGTAAAATGACCGAAATAATCCCATAAGGTAAAATGACCGAAATACCACCATAAGG
TAAAATGAACAAAATA
Found at i:19575684 original size:27 final size:27
Alignment explanation
Indices: 19575534--19575671 Score: 224
Period size: 27 Copynumber: 5.1 Consensus size: 27
19575524 TTAGAATACT
19575534 TTGGTTTACAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
19575561 TTGGTTTACAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
* *
19575588 TTGGTTTATAAAATTACTAAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
*
19575615 TTGGTTTACAAAATTACT-AAACTACCA
1 TTGGTTTACAAAATTACTGAAA-TACCC
*
19575642 TTGGCTTACAAAATTACTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCC
19575669 TTG
1 TTG
19575672 ACTTGTAAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
26 3 0.03
27 97 0.94
28 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
TTGGTTTACAAAATTACTGAAATACCC
Found at i:19575703 original size:81 final size:81
Alignment explanation
Indices: 19575537--19575721 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 81
19575527 GAATACTTTG
* * **
19575537 GTTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACTGAAATACCCTTGGTTTATAAAAT
1 GTTTACAAAATTACTGAAATACCATTGGCTTACAAAATTACTGAAATACCCTTGACTTATAAAAT
**
19575602 TACTAAAATACCCTTG
66 TACTAAAATACCCTCA
*
19575618 GTTTACAAAATTACT-AAACTACCATTGGCTTACAAAATTACTGAAATACCCTTGACTTGTAAAA
1 GTTTACAAAATTACTGAAA-TACCATTGGCTTACAAAATTACTGAAATACCCTTGACTTATAAAA
*
19575682 TTA-TCAAAGTA-CCTCCA
65 TTACT-AAAATACCCT-CA
*
19575699 GTTTATAAAATTA-TCGAAATACC
1 GTTTACAAAATTACT-GAAATACC
19575722 CTCAATTTGT
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
80 8 0.09
81 79 0.88
82 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (81 bp):
GTTTACAAAATTACTGAAATACCATTGGCTTACAAAATTACTGAAATACCCTTGACTTATAAAAT
TACTAAAATACCCTCA
Found at i:19575707 original size:27 final size:27
Alignment explanation
Indices: 19575677--19575803 Score: 109
Period size: 27 Copynumber: 4.7 Consensus size: 27
19575667 CCTTGACTTG
*
19575677 TAAAATTATCAAAGTA-CCTCCAGTTTA
1 TAAAATTATCAAAGTACCCT-CAATTTA
*
19575704 TAAAATTATCGAAA-TACCCTCAATTTG
1 TAAAATTATC-AAAGTACCCTCAATTTA
* * * *
19575731 TGAAATTACCAAAGTACCC-CGATTTG
1 TAAAATTATCAAAGTACCCTCAATTTA
* *
19575757 CAAAATTACTGAAA-TACCCTCAATTTA
1 TAAAATTA-TCAAAGTACCCTCAATTTA
* *
19575784 GAAAATTATCAAAATACCCT
1 TAAAATTATCAAAGTACCCT
19575804 TATATGGTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
26 24 0.30
27 51 0.63
28 6 0.07
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTATCAAAGTACCCTCAATTTA
Found at i:19575709 original size:54 final size:53
Alignment explanation
Indices: 19575536--19575802 Score: 216
Period size: 54 Copynumber: 5.0 Consensus size: 53
19575526 AGAATACTTT
* * *
19575536 GGTTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACTGAAA-TACCCTT
1 GGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTA-TCAAAGTACCC-C
* * * * **
19575590 GGTTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTA-CTAAACTACCATT
1 GGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATC-AAAGTACC-CC
* * **
19575644 GGCTTACAAAATTACTGAAATACCCTTGACTTGTAAAATTATCAAAGTACCTCC
1 GGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATCAAAGTACC-CC
* * ** *** *
19575698 AGTTTATAAAATTA-TCGAAATACCCTCAATTTGTGAAATTACCAAAGTACCCC
1 GGTTTACAAAATTACT-GAAATACCCTTGATTTACAAAATTATCAAAGTACCCC
* * ** * *
19575751 GATTTGCAAAATTACTGAAATACCCTCAATTTAGAAAATTATCAAAATACCC
1 GGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATCAAAGTACCC
19575803 TTATATGGTA
Statistics
Matches: 175, Mismatches: 32, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
53 47 0.27
54 127 0.73
55 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
GGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATCAAAGTACCCC
Found at i:19575802 original size:53 final size:53
Alignment explanation
Indices: 19575647--19575802 Score: 183
Period size: 53 Copynumber: 2.9 Consensus size: 53
19575637 TACCATTGGC
** *
19575647 TTACAAAATTACTGAAATACCCTTGACTTGTAAAATTATCAAAGTACCTCCAGT
1 TTACAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAGTACC-CCAGT
* * *
19575701 TTATAAAATTA-TCGAAATACCCTCAATTTGTGAAATTACCAAAGTACCCC-GAT
1 TTACAAAATTACT-GAAATACCCTCAATTTGTAAAATTATCAAAGTACCCCAG-T
* *
19575754 TTGCAAAATTACTGAAATACCCTCAATTTAG-AAAATTATCAAAATACCC
1 TTACAAAATTACTGAAATACCCTCAATTT-GTAAAATTATCAAAGTACCC
19575803 TTATATGGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 44 0.51
54 42 0.48
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
TTACAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAGTACCCCAGT
Found at i:19576312 original size:27 final size:27
Alignment explanation
Indices: 19576260--19576313 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19576250 TACTGATATG
* * *
19576260 GTATTGGGCTAAGGCCCCCTTAGTTCT
1 GTATTGGGCTAAAGCCACATTAGTTCT
19576287 GTATTGGGCTAAAGCCTACATT-GTTCT
1 GTATTGGGCTAAAGCC-ACATTAGTTCT
19576314 ATTTTGTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (27 bp):
GTATTGGGCTAAAGCCACATTAGTTCT
Found at i:19577966 original size:20 final size:20
Alignment explanation
Indices: 19577926--19577966 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
19577916 ATCGTGATTT
*
19577926 AAAAAGTTATTCCTTTTAAA
1 AAAAAGTTATTCCTTTCAAA
19577946 AAAAAGTTATTACC-TTCAAA
1 AAAAAGTTATT-CCTTTCAAA
19577966 A
1 A
19577967 CCTTGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTCCTTTCAAA
Found at i:19578590 original size:27 final size:27
Alignment explanation
Indices: 19578550--19578605 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
19578540 CAGTAACAGA
* *
19578550 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
19578577 ACAGAACAAGGTGGGCCTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
19578604 AC
1 AC
19578606 CATATCTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:19579057 original size:27 final size:28
Alignment explanation
Indices: 19579026--19579197 Score: 99
Period size: 27 Copynumber: 6.4 Consensus size: 28
19579016 AAGGGCAAAA
* *
19579026 CGGTAATTTTACCCAATA-AGGGTATTT
1 CGGTAATTTTACCAAACAGAGGGTATTT
*
19579053 TGGTAATTTT-CCAAACAGAGGGTATTT
1 CGGTAATTTTACCAAACAGAGGGTATTT
* *
19579080 CGATAATTTTA-CAAATCGGA-GGTACTTT
1 CGGTAATTTTACCAAA-CAGAGGGTA-TTT
* * *
19579108 -GGTAATTTT-TCAAACCGAGGATATTT
1 CGGTAATTTTACCAAACAGAGGGTATTT
* * * * * *
19579134 TGATAATTTT-CCATACCGGGGGTACTT
1 CGGTAATTTTACCAAACAGAGGGTATTT
* ***
19579161 CGATAATTTTA-CAAGTTGAGGGTATTT
1 CGGTAATTTTACCAAACAGAGGGTATTT
*
19579188 CAGTAATTTT
1 CGGTAATTTT
19579198 GGAAACCAAC
Statistics
Matches: 113, Mismatches: 24, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
26 11 0.10
27 96 0.85
28 6 0.05
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (28 bp):
CGGTAATTTTACCAAACAGAGGGTATTT
Found at i:19579111 original size:54 final size:54
Alignment explanation
Indices: 19579046--19579197 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
19579036 ACCCAATAAG
* * *
19579046 GGTATTTTGGTAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCGGA
1 GGTACTTTGGTAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAACCGGA
* * * * * * *
19579100 GGTACTTTGGTAATTTTTCAAACCGAGGATATTTTGATAATTTTCCATACCGGG
1 GGTACTTTGGTAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAACCGGA
* * ***
19579154 GGTACTTCGATAATTTTACAAGTTGAGGGTATTTC-AGTAATTTT
1 GGTACTTTGGTAATTTTACAAACAGAGGGTATTTCGA-TAATTTT
19579198 GGAAACCAAC
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 79 0.99
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTACTTTGGTAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAACCGGA
Found at i:19579204 original size:81 final size:81
Alignment explanation
Indices: 19579048--19579204 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
19579038 CCAATAAGGG
* * *
19579048 TATTTTGGTAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCGGAGGTACTTTGGTAA
1 TATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGAGGTACTTTAGTAA
*
19579113 TTTTTCAAACCGAGGA
66 TTTTGCAAACCGAGGA
* * * * *
19579129 TATTTTGATAATTTTCCATACCGGGGGTACTTCGATAATTTTACAAGT-TGAGGGTA-TTTCAGT
1 TATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGA-GGTACTTT-AGT
*
19579192 AATTTTGGAAACC
64 AATTTTGCAAACC
19579205 AACAGTATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.08
81 59 0.92
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (81 bp):
TATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGAGGTACTTTAGTAA
TTTTGCAAACCGAGGA
Found at i:19579212 original size:27 final size:27
Alignment explanation
Indices: 19579182--19579266 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
19579172 CAAGTTGAGG
* *
19579182 GTATTTCAGTAATTTTGGAAACCAACA
1 GTATTTCAGTAATTTTGTAAACCAAAA
* *
19579209 GTATTTCAATAATTTTGTAAA-CAAAGG
1 GTATTTCAGTAATTTTGTAAACCAAA-A
*
19579236 GTATTTCAGAAATTTTGTAAA-CAAAA
1 GTATTTCAGTAATTTTGTAAACCAAAA
19579262 GTATT
1 GTATT
19579267 CTAAACAGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.36
Consensus pattern (27 bp):
GTATTTCAGTAATTTTGTAAACCAAAA
Found at i:19579214 original size:81 final size:80
Alignment explanation
Indices: 19579047--19579251 Score: 182
Period size: 81 Copynumber: 2.5 Consensus size: 80
19579037 CCCAATAAGG
* * *
19579047 GTATTTTGGTAATTTTCCAAACAGAGGGTATTTCGATAATTTTACAAATCGGAGGTACTTTGGTA
1 GTATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGAGGTACTTTAGTA
* * *
19579112 ATTTTTCAAACCGAG
66 ATTTTGCAAACCAAA
* * * * *
19579127 GATATTTTGATAATTTTCCATACCGGGGGTACTTCGATAATTTTACAAGT-TGAGGGTA-TTTCA
1 G-TATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGA-GGTACTTT-A
*
19579190 GTAATTTTGGAAACCAACA
63 GTAATTTTGCAAACCAA-A
** ** * *
19579209 GTATTTCAATAATTTTGTAAACAAAGGGTATTTCAGA-AATTTT
1 GTATTTTGATAATTTTCCAAACAGAGGGTACTTC-GATAATTTT
19579252 GTAAACAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
80 6 0.06
81 90 0.91
82 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (80 bp):
GTATTTTGATAATTTTCCAAACAGAGGGTACTTCGATAATTTTACAAATCGGAGGTACTTTAGTA
ATTTTGCAAACCAAA
Found at i:19579429 original size:17 final size:17
Alignment explanation
Indices: 19579407--19579441 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19579397 AACTTATCTG
*
19579407 ATTGGGCCCATTGGCCC
1 ATTGGGCCCACTGGCCC
19579424 ATTGGGCCCACTGGCCC
1 ATTGGGCCCACTGGCCC
19579441 A
1 A
19579442 AATAGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.37, G:0.29, T:0.20
Consensus pattern (17 bp):
ATTGGGCCCACTGGCCC
Found at i:19582134 original size:27 final size:27
Alignment explanation
Indices: 19582094--19582149 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
19582084 CAGTAATAGA
* *
19582094 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
*
19582121 ACAGAACAAGGTGGGCCTTAGCCTAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
19582148 AC
1 AC
19582150 CATATCAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:19582735 original size:27 final size:27
Alignment explanation
Indices: 19582705--19582771 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
19582695 GGTTGTTTTG
*
19582705 GTAATTTTTTAAATTGAGGGAACTTCA
1 GTAATTTTATAAATTGAGGGAACTTCA
* * * * *
19582732 GTAATTTTACAAGTTGAGGGTATTTTA
1 GTAATTTTATAAATTGAGGGAACTTCA
*
19582759 GTAATTTTGTAAA
1 GTAATTTTATAAA
19582772 CCAAGGGTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.43
Consensus pattern (27 bp):
GTAATTTTATAAATTGAGGGAACTTCA
Found at i:19582736 original size:81 final size:81
Alignment explanation
Indices: 19582650--19582798 Score: 183
Period size: 81 Copynumber: 1.8 Consensus size: 81
19582640 AGGACATTTT
* * * * * * *
19582650 AGTAATTTTGCAAATCAG-GGGTACTTTGGTAATTTTGCAAACCGAGGTTGTTTTGGTAATTTTT
1 AGTAATTTTACAAAT-AGAGGGTACTTTAGTAATTTTGCAAACCAAGGGTATTTTAGTAATTTTG
19582714 TAAATTGAGGGAACTTC
65 TAAATTGAGGGAACTTC
* * * *
19582731 AGTAATTTTACAAGTTGAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGT
1 AGTAATTTTACAAATAGAGGGTACTTTAGTAATTTTGCAAACCAAGGGTATTTTAGTAATTTTGT
19582796 AAA
66 AAA
19582799 CCAAAGTATT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 55 0.98
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
AGTAATTTTACAAATAGAGGGTACTTTAGTAATTTTGCAAACCAAGGGTATTTTAGTAATTTTGT
AAATTGAGGGAACTTC
Found at i:19582778 original size:27 final size:27
Alignment explanation
Indices: 19582748--19582802 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19582738 TTACAAGTTG
19582748 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCA
19582775 AGGGTATTTTAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCA
19582802 A
1 A
19582803 AGTATTCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAACCA
Found at i:19582789 original size:54 final size:54
Alignment explanation
Indices: 19582612--19582793 Score: 148
Period size: 54 Copynumber: 3.4 Consensus size: 54
19582602 TTTTCCCTAT
* * * * *
19582612 AAGGGTATTTCGGTAATTTTCCAAAATGAGGACATTTTAGTAATTTTGCAAATC
1 AAGGGTACTTCAGTAATTTTACAAAATGAGGATATTTTAGTAATTTTGTAAATC
* ** * ** * * * * *
19582666 AGGGGTACTTTGGTAATTTTGCAAACCGAGGTTGTTTTGGTAATTTTTTAAATT
1 AAGGGTACTTCAGTAATTTTACAAAATGAGGATATTTTAGTAATTTTGTAAATC
* * ** * *
19582720 GAGGGAACTTCAGTAATTTTACAAGTTGAGGGTATTTTAGTAATTTTGTAAACC
1 AAGGGTACTTCAGTAATTTTACAAAATGAGGATATTTTAGTAATTTTGTAAATC
* *
19582774 AAGGGTATTTTAGTAATTTT
1 AAGGGTACTTCAGTAATTTT
19582794 GTAAACCAAA
Statistics
Matches: 96, Mismatches: 32, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
AAGGGTACTTCAGTAATTTTACAAAATGAGGATATTTTAGTAATTTTGTAAATC
Found at i:19584917 original size:27 final size:27
Alignment explanation
Indices: 19584859--19585040 Score: 120
Period size: 27 Copynumber: 6.7 Consensus size: 27
19584849 CTTAGGTTTA
* * ** * *
19584859 CAAAATTAATGAAATACCGTTGGTTTA
1 CAAAATTACTGAAATACCCTCAGCTTG
19584886 CAAAATTACTGAAATACCCTC-GACTTG
1 CAAAATTACTGAAATACCCTCAG-CTTG
* * * *
19584913 TAAAATTACCGAAGTACCGC-CAGTTTG
1 CAAAATTACTGAAATACC-CTCAGCTTG
*
19584940 CAAAATTACTGAAATACCCTCAGTTTG
1 CAAAATTACTGAAATACCCTCAGCTTG
* * *
19584967 CAAAATTAC-CAAAGTACCC-CTAGTTTA
1 CAAAATTACTGAAA-TACCCTC-AGCTTG
* * * *
19584994 CAAAGTTACCGAAATACCCTTAGTTTG
1 CAAAATTACTGAAATACCCTCAGCTTG
* *
19585021 GAAAATTACTAAAATACCCT
1 CAAAATTACTGAAATACCCT
19585041 TATATGGTAA
Statistics
Matches: 125, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.05
27 114 0.91
28 5 0.04
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
CAAAATTACTGAAATACCCTCAGCTTG
Found at i:19585039 original size:54 final size:53
Alignment explanation
Indices: 19584881--19585039 Score: 185
Period size: 54 Copynumber: 3.0 Consensus size: 53
19584871 AATACCGTTG
* * * *
19584881 GTTTACAAAATTACTGAAATACCC-TCGACTTGTAAAATTACCGAAGTACCGCCA
1 GTTTACAAAATTACTGAAATACCCTTAG-TTTGCAAAATTACCAAAGTACC-CCA
* *
19584935 GTTTGCAAAATTACTGAAATACCCTCAGTTTGCAAAATTACCAAAGTACCCCTA
1 GTTTACAAAATTACTGAAATACCCTTAGTTTGCAAAATTACCAAAGTACCCC-A
* * * * *
19584989 GTTTACAAAGTTACCGAAATACCCTTAGTTTGGAAAATTACTAAAATACCC
1 GTTTACAAAATTACTGAAATACCCTTAGTTTGCAAAATTACCAAAGTACCC
19585040 TTATATGGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 87 0.97
55 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (53 bp):
GTTTACAAAATTACTGAAATACCCTTAGTTTGCAAAATTACCAAAGTACCCCA
Found at i:19585041 original size:27 final size:27
Alignment explanation
Indices: 19584934--19585042 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
19584924 AAGTACCGCC
** *
19584934 AGTTTGCAAAATTACTGAAATACCCTC
1 AGTTTGCAAAATTACCAAAATACCCTT
* *
19584961 AGTTTGCAAAATTACCAAAGTACCCCT
1 AGTTTGCAAAATTACCAAAATACCCTT
* * *
19584988 AGTTTACAAAGTTACCGAAATACCCTT
1 AGTTTGCAAAATTACCAAAATACCCTT
* *
19585015 AGTTTGGAAAATTACTAAAATACCCTT
1 AGTTTGCAAAATTACCAAAATACCCTT
19585042 A
1 A
19585043 TATGGTAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AGTTTGCAAAATTACCAAAATACCCTT
Found at i:19585295 original size:26 final size:26
Alignment explanation
Indices: 19585257--19585324 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
19585247 GGAAGTGTTG
** *
19585257 TTACTGGTGGCTTTGCCACATATACTG
1 TTACTGGCAGCTTTGCCACAT-TACTA
** *
19585284 TT-CTGGCAGCTTTGCTGCATTATTA
1 TTACTGGCAGCTTTGCCACATTACTA
19585309 TTACTGGCAGCTTTGC
1 TTACTGGCAGCTTTGC
19585325 TGCAATATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 5 0.15
26 27 0.79
27 2 0.06
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACATTACTA
Found at i:19585523 original size:27 final size:27
Alignment explanation
Indices: 19585485--19585540 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
19585475 TACTAATATG
* *
19585485 GTATTAGGCTAAGGCCCACCTTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
*
19585512 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
19585539 GT
1 GT
19585541 TCTGTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTATTAGGCTAAAGCCCACATTGTTCT
Done.