Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 212 of 279
Found at i:69127112 original size:44 final size:43
Alignment explanation
Indices: 69127063--69127220 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
69127053 GCAAAAATTT
* *
69127063 GTGGCGTTTATTTAAAAAAACGCGGCTAAAGACCATGACTTTTA
1 GTGGCGTTT-TTTAAAAAAACGCCGCTAAAGACCATGACCTTTA
** *
69127107 GTGGCGTTTTTTTTACAAACGCCGCTAAAGACCATGACCTTTA
1 GTGGCGTTTTTTAAAAAAACGCCGCTAAAGACCATGACCTTTA
* ** * * * * * *
69127150 GCGGCACTTTTCACACAAACACCACTAAAGA-CATGACTTTTA
1 GTGGCGTTTTTTAAAAAAACGCCGCTAAAGACCATGACCTTTA
* * * *
69127192 GCGGCGCTTTTCT-CACAAACGCCGCTAAA
1 GTGGCG-TTTTTTAAAAAAACGCCGCTAAA
69127221 AATCATAAAC
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 29 0.31
43 55 0.59
44 9 0.10
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GTGGCGTTTTTTAAAAAAACGCCGCTAAAGACCATGACCTTTA
Found at i:69127195 original size:42 final size:43
Alignment explanation
Indices: 69127080--69127220 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 43
69127070 TTATTTAAAA
* * * * *
69127080 AAACGCGGCTAAAGACCATGACTTTTAGTGGCGTTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCTCAC
* * *
69127123 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTCACAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCTCAC
* *
69127166 AAACACCACTAAAGA-CATGACTTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCTCAC
69127208 AAACGCCGCTAAA
1 AAACGCCGCTAAA
69127221 AATCATAAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 35 0.42
43 48 0.58
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCTCAC
Found at i:69128848 original size:22 final size:23
Alignment explanation
Indices: 69128821--69128863 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
69128811 AGCTGGTCAT
69128821 AAAACAACCAAAACCC-AAATAA
1 AAAACAACCAAAACCCTAAATAA
* *
69128843 AAAACAATCAGAACCCTAAAT
1 AAAACAACCAAAACCCTAAAT
69128864 TGGCAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.63, C:0.26, G:0.02, T:0.09
Consensus pattern (23 bp):
AAAACAACCAAAACCCTAAATAA
Found at i:69131924 original size:13 final size:13
Alignment explanation
Indices: 69131906--69131932 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69131896 TTACATCAAA
69131906 TATATTAATTCAG
1 TATATTAATTCAG
69131919 TATATTAATTCAG
1 TATATTAATTCAG
69131932 T
1 T
69131933 TGTGAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATTAATTCAG
Found at i:69132724 original size:41 final size:41
Alignment explanation
Indices: 69132662--69132845 Score: 280
Period size: 41 Copynumber: 4.5 Consensus size: 41
69132652 TTATATGACT
* * * *
69132662 TTTAGTGGCGTTTTACTAAAAGCGCCGCAAATGTTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
69132703 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
69132744 TTTCGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
69132785 TTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCT-ATT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
69132825 TTTAGCGGCGTTTTAACAAAA
1 TTTAGCGGCGTTTTACCAAAA
69132846 AACGCTGCTA
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 21 0.16
41 112 0.84
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:69132868 original size:41 final size:41
Alignment explanation
Indices: 69132662--69132873 Score: 266
Period size: 41 Copynumber: 5.2 Consensus size: 41
69132652 TTATATGACT
* * * * *
69132662 TTTAGTGGCGTTTTACTAAAAGCGCCGCAAATGTTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTC
*
69132703 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTC
* *
69132744 TTTCGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTC
* *
69132785 TTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTA-TT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTC
* * * * *
69132825 TTTAGCGGCGTTTTAACAAAAAACGCTGCTATTGCTC-AGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTAGTC
69132866 TTTAGCGG
1 TTTAGCGG
69132874 AACGCCGCTA
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 16 0.10
41 141 0.90
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGTC
Found at i:69134642 original size:5 final size:5
Alignment explanation
Indices: 69134632--69134658 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69134622 CACATGTAAT
69134632 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
69134659 CGAAAAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:69136477 original size:55 final size:53
Alignment explanation
Indices: 69136357--69136544 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
69136347 TAAGGATACC
* * ***
69136357 ATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCT
* *
69136410 CATGTAAGACCATGTCAAGACATGACATTGACGAGTTACTATAAGGCAAAGGTCCT
1 -ATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGTCCT
* *
69136466 ATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACC-
1 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-T-CCT
*
69136519 ACGTAAGACCATGTCAAGACATGGCA
1 ATGTAAGACCATGTCAAGACATGGCA
69136545 ATGGTAAGTT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 35 0.30
55 41 0.35
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTCCT
Found at i:69136679 original size:16 final size:16
Alignment explanation
Indices: 69136657--69136695 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
69136647 GCTTATTTAA
*
69136657 TATTGAGATTGT-AAG
1 TATTGAGATTATCAAG
69136672 TAATTGAGATTATCAAG
1 T-ATTGAGATTATCAAG
69136689 TATTGAG
1 TATTGAG
69136696 TAAGTGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (16 bp):
TATTGAGATTATCAAG
Found at i:69143834 original size:123 final size:123
Alignment explanation
Indices: 69143615--69143846 Score: 401
Period size: 123 Copynumber: 1.9 Consensus size: 123
69143605 AATATATCAT
* * * * *
69143615 ATCTAACAGGGTTTAGTGACGTTAGATATCTATATTTCAAACTCAAACTTCTTCTCTAGCTTGAA
1 ATCTAACAAGGTTCAATGACGTTAGATATCTATATTTCAAACTCAAAATTCTTCTCCAGCTTGAA
69143680 CTCACCACTTTCCTTCTAATTTTTTACTGAAGCTCGTGCAATTTTATGTTCCGATTAA
66 CTCACCACTTTCCTTCTAATTTTTTACTGAAGCTCGTGCAATTTTATGTTCCGATTAA
69143738 ATCTAACAAGGTTCAATGACGTTAGATATCTATATTTCAAACTCAAAATTCTTCTCCAGCTTGAA
1 ATCTAACAAGGTTCAATGACGTTAGATATCTATATTTCAAACTCAAAATTCTTCTCCAGCTTGAA
* *
69143803 CTCACCATTTTCCTTCTAATTTTTTATTGAAGCTCGTGCAATTT
66 CTCACCACTTTCCTTCTAATTTTTTACTGAAGCTCGTGCAATTT
69143847 CATGCTCCAG
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 102 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (123 bp):
ATCTAACAAGGTTCAATGACGTTAGATATCTATATTTCAAACTCAAAATTCTTCTCCAGCTTGAA
CTCACCACTTTCCTTCTAATTTTTTACTGAAGCTCGTGCAATTTTATGTTCCGATTAA
Found at i:69155707 original size:29 final size:29
Alignment explanation
Indices: 69155652--69155717 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
69155642 ATAATTTCCA
* *
69155652 TTATTATTTATGATTTATATTATATTATT
1 TTATTTTTTATGATTTATATTATATTAAT
69155681 TTATTTTTTA-GACTTTATATT-TCATTAAT
1 TTATTTTTTATGA-TTTATATTAT-ATTAAT
*
69155710 ATATTTTT
1 TTATTTTT
69155718 ACCTAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATTTTTTATGATTTATATTATATTAAT
Found at i:69157336 original size:30 final size:31
Alignment explanation
Indices: 69157263--69157336 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 31
69157253 CTATGATCTC
69157263 AGTCCCTAC-ACTTTTTGGATTTCTAAAATTT
1 AGTCCCT-CTACTTTTTGGATTTCTAAAATTT
* *
69157294 AGTCTCTTTACTTTTT-GATTT-TAAAAATTT
1 AGTCCCTCTACTTTTTGGATTTCT-AAAATTT
69157324 -GATCCCTCTACTT
1 AG-TCCCTCTACTT
69157337 GTCAGTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 2 0.06
30 21 0.58
31 13 0.36
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (31 bp):
AGTCCCTCTACTTTTTGGATTTCTAAAATTT
Found at i:69160102 original size:27 final size:27
Alignment explanation
Indices: 69160049--69160102 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
69160039 GTTGGAATGT
*
69160049 TTCCATGTAATATGGTTGTTCTTTTTA
1 TTCCATGTAATATGGTTGTACTTTTTA
*
69160076 TTCCATGTAATTTGGTT-TACTTATTTA
1 TTCCATGTAATATGGTTGTACTT-TTTA
69160103 GCCTTGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCCATGTAATATGGTTGTACTTTTTA
Found at i:69167038 original size:16 final size:16
Alignment explanation
Indices: 69167017--69167049 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
69167007 GTCAAAACAC
*
69167017 TTAGTGACGTATGACA
1 TTAGTGACGTACGACA
69167033 TTAGTGACGTACGACA
1 TTAGTGACGTACGACA
69167049 T
1 T
69167050 GTTCCAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (16 bp):
TTAGTGACGTACGACA
Found at i:69190655 original size:27 final size:27
Alignment explanation
Indices: 69190625--69190691 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
69190615 TAAATCAGGG
69190625 AGCTCATGAAGAGCCATATAATCGAGA
1 AGCTCATGAAGAGCCATATAATCGAGA
69190652 AGCTCATGAAGAGCCATATAATCGAGA
1 AGCTCATGAAGAGCCATATAATCGAGA
69190679 AGCTCAT-AAGAGC
1 AGCTCATGAAGAGC
69190692 TTAAGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (27 bp):
AGCTCATGAAGAGCCATATAATCGAGA
Found at i:69199003 original size:23 final size:22
Alignment explanation
Indices: 69198961--69199026 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
69198951 AGGTATCTAC
69198961 AAATCAAATCTCTAAGATTACA
1 AAATCAAATCTCTAAGATTACA
* *
69198983 AAATCATATCTTCTAATATTAC-
1 AAATCAAATC-TCTAAGATTACA
*
69199005 ATATCAAA--TCTAAGATTACA
1 AAATCAAATCTCTAAGATTACA
69199025 AA
1 AA
69199027 TCTTTGAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 10 0.28
20 1 0.03
22 15 0.42
23 10 0.28
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (22 bp):
AAATCAAATCTCTAAGATTACA
Found at i:69206880 original size:3 final size:3
Alignment explanation
Indices: 69206872--69206897 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
69206862 TATGAACATA
69206872 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
69206898 AGTCATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:69217206 original size:102 final size:103
Alignment explanation
Indices: 69217030--69217311 Score: 306
Period size: 102 Copynumber: 2.7 Consensus size: 103
69217020 TTTTGGGGGG
* * * * * *
69217030 TTGACAAAAAAAAGAAAGAATAAATTTTCATGGTGATTGGATAGTGAGAAAGTGA-AGGAAAATT
1 TTGAC-AAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATGGTAAGAAAATGAGA-GAAAATT
** *
69217094 TTTGGGGTTTT-G-GACAGAAGAAAGATTTAGTGTATAAT
64 TAGGGGGTTTTAGAGAAAGAAGAAAGATTTAGTGTATAAT
* *
69217132 TTGACAGAAGAAAGAAAGAAGAAATTTTGGTGGTGATTGGATGGCAAGAAAATGAGAGAAAATTT
1 TTGACA-AAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATGGTAAGAAAATGAGAGAAAATTT
69217197 AGGGGGTTTTTAACGAAAGAAAGAAGAAAGATTTAGTGTATAAT
65 AGGGGG-TTTT-A-G--AGAAAGAAGAAAGATTTAGTGTATAAT
* * * *
69217241 TTG--ATAG-AATAAAGAAGAAATTTTGATGGTGATTGGATGGTAAGCAAATGAGAGAAATTTTG
1 TTGACAAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATGGTAAGAAAATGAGAGAAAATTT-
69217303 AGGGGGTTT
65 AGGGGGTTT
69217312 GATGGAAGAA
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
101 1 0.01
102 57 0.37
103 5 0.03
105 52 0.34
106 9 0.06
107 1 0.01
109 28 0.18
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.28
Consensus pattern (103 bp):
TTGACAAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATGGTAAGAAAATGAGAGAAAATTTA
GGGGGTTTTAGAGAAAGAAGAAAGATTTAGTGTATAAT
Found at i:69217290 original size:105 final size:109
Alignment explanation
Indices: 69217109--69217311 Score: 315
Period size: 105 Copynumber: 1.9 Consensus size: 109
69217099 GGTTTTGGAC
*
69217109 AGAAGAAAGATTTAGTGTATAATTTGACAGAAGAAAGAAAGAAGAAATTTTGGTGGTGATTGGAT
1 AGAAGAAAGATTTAGTGTATAATTTGA-AGAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGAT
69217174 GGCAAGAAAATGAGAGAAAATTT-AGGGGGTTTTTAACGAAAGAA
65 GGCAAGAAAATGAGAGAAAATTTGAGGGGGTTTTTAACGAAAGAA
* *
69217218 AGAAGAAAGATTTAGTGTATAATTTG-A-TAG-AATAAAGAAGAAATTTTGATGGTGATTGGATG
1 AGAAGAAAGATTTAGTGTATAATTTGAAGAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATG
* * *
69217280 GTAAGCAAATGAGAGAAATTTTGAGGGGGTTT
66 GCAAGAAAATGAGAGAAAATTTGAGGGGGTTT
69217312 GATGGAAGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
105 49 0.56
106 11 0.13
107 1 0.01
109 26 0.30
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.28
Consensus pattern (109 bp):
AGAAGAAAGATTTAGTGTATAATTTGAAGAAGAAAGAAAGAAGAAATTTTGATGGTGATTGGATG
GCAAGAAAATGAGAGAAAATTTGAGGGGGTTTTTAACGAAAGAA
Found at i:69217340 original size:14 final size:14
Alignment explanation
Indices: 69217317--69217347 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
69217307 GGTTTGATGG
69217317 AAGAAAGAAAGTAA
1 AAGAAAGAAAGTAA
*
69217331 AAGAATGAAAGTAA
1 AAGAAAGAAAGTAA
69217345 AAG
1 AAG
69217348 CATGCCCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (14 bp):
AAGAAAGAAAGTAA
Found at i:69220225 original size:18 final size:17
Alignment explanation
Indices: 69220180--69220234 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
69220170 AATTGAGAGA
* *
69220180 AAAAAAGAGTGAAGAAG
1 AAAAAAGAATGAAAAAG
69220197 AAAAAAGAATGAAAAAG
1 AAAAAAGAATGAAAAAG
*
69220214 AAAAGGAGAATGAAAAAG
1 AAAA-AAGAATGAAAAAG
69220232 AAA
1 AAA
69220235 GTGAAACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (17 bp):
AAAAAAGAATGAAAAAG
Found at i:69226317 original size:14 final size:14
Alignment explanation
Indices: 69226298--69226327 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69226288 CATTCCGAAG
*
69226298 TATATATATATACA
1 TATATACATATACA
69226312 TATATACATATACA
1 TATATACATATACA
69226326 TA
1 TA
69226328 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:69226844 original size:28 final size:28
Alignment explanation
Indices: 69226776--69227041 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
69226766 CATGAGATTG
* * * *
69226776 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
69226805 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69226833 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69226861 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69226889 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69226917 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
69226945 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69226973 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
69227001 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
69227028 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
69227042 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:69243361 original size:31 final size:29
Alignment explanation
Indices: 69243326--69243383 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 29
69243316 ATATAAATAT
69243326 AATTTTTTTAAAAAATATTATATAAAAATTG
1 AATTTTTTT-AAAAA-ATTATATAAAAATTG
69243357 AATTTTTTTAAAAAATTATATAAAAAT
1 AATTTTTTTAAAAAATTATATAAAAAT
69243384 CAAAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
AATTTTTTTAAAAAATTATATAAAAATTG
Found at i:69246475 original size:15 final size:15
Alignment explanation
Indices: 69246440--69246481 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
69246430 TTAAGAATTT
*
69246440 TATTAAATTAT-ATA
1 TATTTAATTATAATA
69246454 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
69246468 TATTTAATAATAAT
1 TATTTAATTATAAT
69246482 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:69246715 original size:45 final size:44
Alignment explanation
Indices: 69246615--69246724 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
69246605 TTTTCCATTA
69246615 TACTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
* * ***
69246654 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGA-T
*
69246699 TGCTATTACACCTCTATTCCAATACA
1 TACTATTACACCTCTATTCCAATACA
69246725 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 17 0.29
40 1 0.02
44 16 0.28
45 24 0.41
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (44 bp):
TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
Found at i:69246726 original size:16 final size:16
Alignment explanation
Indices: 69246705--69246772 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
69246695 GATTTGCTAT
*
69246705 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
69246721 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
69246737 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
69246753 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
69246769 TACA
1 TACA
69246773 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:69246746 original size:32 final size:32
Alignment explanation
Indices: 69246705--69246772 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
69246695 GATTTGCTAT
69246705 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
69246737 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
69246769 TACA
1 TACA
69246773 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACCTCTATTCCAATACACCTCTAATCCAA
Found at i:69250028 original size:17 final size:17
Alignment explanation
Indices: 69249974--69250028 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
69249964 TAAATTTGTT
* *
69249974 AATATTATAATATATAA
1 AATATAATAAAATATAA
* *
69249991 AATAT-AT-CAATTTAA
1 AATATAATAAAATATAA
*
69250006 ATTATAATAAAATATAA
1 AATATAATAAAATATAA
69250023 AATATA
1 AATATA
69250029 TTTTATTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 9 0.31
16 4 0.14
17 16 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAATAAAATATAA
Found at i:69250756 original size:161 final size:162
Alignment explanation
Indices: 69250491--69250814 Score: 632
Period size: 161 Copynumber: 2.0 Consensus size: 162
69250481 AACAAAACCA
69250491 TCCCTAAAATCACTTTTAAAATTAAGATTACATACATAAGCAAGACTAAAAATTGTGTTACAAGA
1 TCCCTAAAATCACTTTTAAAATTAAGATTACATACATAAGCAAGACTAAAAATTGTGTTACAAGA
*
69250556 GTAGACAAAAACTTTTAAAACTGAAGACTTAATAAACAATGGAAAAACAAAT-AAAAAAACATAT
66 GGAGACAAAAACTTTTAAAACTGAAGACTTAATAAACAATGGAAAAACAAATAAAAAAAACATAT
69250620 AAAACTTAAGACAACATAGATCCAAATCGACT
131 AAAACTTAAGACAACATAGATCCAAATCGACT
69250652 TCCCTAAAATCACTTTTAAAATTAAGATTACATACATAAGCAAGACTAAAAATTGTGTTACAAGA
1 TCCCTAAAATCACTTTTAAAATTAAGATTACATACATAAGCAAGACTAAAAATTGTGTTACAAGA
69250717 GGAGACAAAAACTTTTAAAACTGAAGACTTAATAAACAATGGAAAAACAAATAAAAAAAACATAT
66 GGAGACAAAAACTTTTAAAACTGAAGACTTAATAAACAATGGAAAAACAAATAAAAAAAACATAT
69250782 AAAACTTAAGACAACATAGATCCAAATCGACT
131 AAAACTTAAGACAACATAGATCCAAATCGACT
69250814 T
1 T
69250815 GTGAAATCAT
Statistics
Matches: 161, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 116 0.72
162 45 0.28
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (162 bp):
TCCCTAAAATCACTTTTAAAATTAAGATTACATACATAAGCAAGACTAAAAATTGTGTTACAAGA
GGAGACAAAAACTTTTAAAACTGAAGACTTAATAAACAATGGAAAAACAAATAAAAAAAACATAT
AAAACTTAAGACAACATAGATCCAAATCGACT
Found at i:69255484 original size:3 final size:3
Alignment explanation
Indices: 69255476--69255502 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
69255466 AATTTAAAAT
69255476 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
69255503 GGGGATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:69256227 original size:15 final size:17
Alignment explanation
Indices: 69256190--69256233 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
69256180 AAAATAAAAT
69256190 AAAAAGAATAAAGAAGATC
1 AAAAAGAA-AAAGAAGA-C
69256209 AAAAAGAAAAAGAA-A-
1 AAAAAGAAAAAGAAGAC
69256224 AAAAAGAAAA
1 AAAAAGAAAA
69256234 CACCTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
17 1 0.04
18 6 0.24
19 8 0.32
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAAGAAGAC
Found at i:69257504 original size:46 final size:46
Alignment explanation
Indices: 69257448--69257548 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
69257438 ATTTTTGCCT
*
69257448 TCTTCTATCCAACCCACTACAACTCA-AGGGTATAGGATTTGTATCA
1 TCTTCAATCCAACCCACTACAACTCAGA-GGTATAGGATTTGTATCA
* ** * *
69257494 TCTTCAATCCATCTTACTGCAACTCAGAGGTATAGGATTTGTATCT
1 TCTTCAATCCAACCCACTACAACTCAGAGGTATAGGATTTGTATCA
69257540 TCTTCAATC
1 TCTTCAATC
69257549 AATTGATCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 47 0.98
47 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCAACCCACTACAACTCAGAGGTATAGGATTTGTATCA
Found at i:69258004 original size:53 final size:53
Alignment explanation
Indices: 69257947--69258050 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
69257937 AAGAGCATAG
*
69257947 CTCGAAATGAATAAATTAATCAAAGATAGAAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGAAAATACAATAAGAAGGAAATTAA
* * *
69258000 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATATAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGAAAATACAATAAGAAGGAAATT
69258051 GATTGGGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGAAAATACAATAAGAAGGAAATTAA
Found at i:69263574 original size:3 final size:3
Alignment explanation
Indices: 69263566--69263615 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
69263556 TAATATAGGG
*
69263566 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
69263614 AA
1 AA
69263616 CATAAGTAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:69264060 original size:3 final size:3
Alignment explanation
Indices: 69264052--69264077 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
69264042 ACAATTTAAA
69264052 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
69264078 GAGGATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:69278019 original size:19 final size:19
Alignment explanation
Indices: 69277995--69278033 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
69277985 TGATCATCCC
69277995 ATCACACCATGTGGGGTTA
1 ATCACACCATGTGGGGTTA
69278014 ATCACACCATGTGGGGTTA
1 ATCACACCATGTGGGGTTA
69278033 A
1 A
69278034 AAACACTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (19 bp):
ATCACACCATGTGGGGTTA
Found at i:69278039 original size:19 final size:19
Alignment explanation
Indices: 69277998--69278039 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
69277988 TCATCCCATC
**
69277998 ACACCATGTGGGGTTAATC
1 ACACCATGTGGGGTTAAAA
69278017 ACACCATGTGGGGTTAAAA
1 ACACCATGTGGGGTTAAAA
69278036 ACAC
1 ACAC
69278040 TTACCTAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (19 bp):
ACACCATGTGGGGTTAAAA
Found at i:69280736 original size:21 final size:21
Alignment explanation
Indices: 69280706--69280767 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
69280696 TTATAGGAGC
* *
69280706 TAAACGGAAACCCATGAGGGT
1 TAAACTGAAACCCATAAGGGT
* * *
69280727 TAAACTGAAACTCGTAAGAGT
1 TAAACTGAAACCCATAAGGGT
* *
69280748 TTAACTGAAACCCATTAGGG
1 TAAACTGAAACCCATAAGGG
69280768 CTAACTAAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
TAAACTGAAACCCATAAGGGT
Found at i:69280789 original size:41 final size:41
Alignment explanation
Indices: 69280712--69280812 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 41
69280702 GAGCTAAACG
* * *
69280712 GAAACCCATGAGGGTTAAACTGAAACTCGTAAGAGTTTAACT
1 GAAACCCATGAGGGCTAAACTAAAACTCATAAGAG-TTAACT
* *
69280754 GAAACCCATTAGGGCT-AACTAAAACTCATATGAGTTAACT
1 GAAACCCATGAGGGCTAAACTAAAACTCATAAGAGTTAACT
* * *
69280794 GAAGCTCATGAGAGCTAAA
1 GAAACCCATGAGGGCTAAA
69280813 TGGAAAGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 18 0.37
41 17 0.35
42 14 0.29
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (41 bp):
GAAACCCATGAGGGCTAAACTAAAACTCATAAGAGTTAACT
Found at i:69293801 original size:79 final size:79
Alignment explanation
Indices: 69293681--69293839 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
69293671 TATAATCTCG
*
69293681 ATTAGCCACTCCAATAGCTAATCATTCTCAAACATTTCCATGCCATGCATGAGCTATATCATAAG
1 ATTAGCCACTCCAATAGCTAATCATTCTCAAACATTTCCATGCCATCCATGAGCTATATCATAAG
69293746 ATTATATACACAAA
66 ATTATATACACAAA
*
69293760 ATTAGCCACTCTAATAGCTAATCATTCTCAAACATTTCCATGCCATCCATGAGCTATATCATAAG
1 ATTAGCCACTCCAATAGCTAATCATTCTCAAACATTTCCATGCCATCCATGAGCTATATCATAAG
69293825 ATTATATACACAAA
66 ATTATATACACAAA
69293839 A
1 A
69293840 GGATTATAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (79 bp):
ATTAGCCACTCCAATAGCTAATCATTCTCAAACATTTCCATGCCATCCATGAGCTATATCATAAG
ATTATATACACAAA
Found at i:69296620 original size:20 final size:20
Alignment explanation
Indices: 69296595--69296643 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
69296585 ATGCTTAGGG
69296595 AATTTTTCTAAAAATCTTAA
1 AATTTTTCTAAAAATCTTAA
**
69296615 AATTTTTCCCAAAATCTTAA
1 AATTTTTCTAAAAATCTTAA
69296635 AATTTTTCT
1 AATTTTTCT
69296644 TAAGAACAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTTTCTAAAAATCTTAA
Found at i:69299642 original size:17 final size:18
Alignment explanation
Indices: 69299620--69299655 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
69299610 TTTGTTAAAG
*
69299620 TGGGGCTTAACCT-CTTT
1 TGGGGCTCAACCTCCTTT
69299637 TGGGGCTCAACCTCCTTT
1 TGGGGCTCAACCTCCTTT
69299655 T
1 T
69299656 TGAGATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.39
Consensus pattern (18 bp):
TGGGGCTCAACCTCCTTT
Found at i:69301645 original size:84 final size:83
Alignment explanation
Indices: 69301395--69301649 Score: 386
Period size: 85 Copynumber: 3.0 Consensus size: 83
69301385 TTTGCACCTT
*
69301395 CCATCAAGGGTTGCACTTATGTTTTTTTTTAAGCATCTTCACTTGAAAGT-TTCATTATTCTTCT
1 CCATCAAGGGTTGCACTTATGTTTTTTTTT-AGCACCTTCACTTGAAAGTCTTCATTATTCTTCT
* *
69301459 CCATATATGTAGATATATA
65 CCACAGATGTAGATATATA
* * *
69301478 CCATCAAGGGTTGCACTTATGTTTCTTTTTTAGAACCTTCACTCGAAAGTCTTCTTTTATTCTTC
1 CCATCAAGGGTTGCACTTATGTTT-TTTTTTAGCACCTTCACTTGAAAGTCTTC-ATTATTCTTC
69301543 TCCACAGATGTAGATATATA
64 TCCACAGATGTAGATATATA
* *
69301563 CCATAAAGGGTTGCATTTATGTTTGTTTTTTAGCACCTTCACTTGAAAGTCTTCATTATTCTTCT
1 CCATCAAGGGTTGCACTTATGTTT-TTTTTTAGCACCTTCACTTGAAAGTCTTCATTATTCTTCT
*
69301628 CTACAGATGTAGATATATA
65 CCACAGATGTAGATATATA
69301647 CCA
1 CCA
69301650 CTTACATTTT
Statistics
Matches: 156, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
83 40 0.26
84 40 0.26
85 76 0.49
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (83 bp):
CCATCAAGGGTTGCACTTATGTTTTTTTTTAGCACCTTCACTTGAAAGTCTTCATTATTCTTCTC
CACAGATGTAGATATATA
Found at i:69306192 original size:17 final size:17
Alignment explanation
Indices: 69306167--69306215 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
69306157 GTTTTATTGC
*
69306167 ATTACAATTTAATATTA
1 ATTAAAATTTAATATTA
69306184 ATTAAAATTTAA-A-TA
1 ATTAAAATTTAATATTA
*
69306199 ATTAATAAATTAATATT
1 ATTAA-AATTTAATATT
69306216 TATTTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.26
16 7 0.26
17 12 0.44
18 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATTTAATATTA
Found at i:69306668 original size:19 final size:17
Alignment explanation
Indices: 69306644--69306687 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
69306634 CCGTAGCAGT
69306644 AAAAAAAACATTGAAAAAG
1 AAAAAAAAC--TGAAAAAG
*
69306663 AAAAAAAACTGAAAACG
1 AAAAAAAACTGAAAAAG
69306680 AAAAAAAA
1 AAAAAAAA
69306688 TGGGTCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 15 0.62
19 9 0.38
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (17 bp):
AAAAAAAACTGAAAAAG
Found at i:69307145 original size:212 final size:213
Alignment explanation
Indices: 69306769--69307226 Score: 814
Period size: 212 Copynumber: 2.2 Consensus size: 213
69306759 AAAATAAAAT
69306769 TAAAATATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATG
1 TAAAATATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATG
69306834 TTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTT
66 TTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTT
69306899 TTGTTTTTGTAATGTGATACATGCGAAAATC-TATATATATATAATCATATTAGTGAATCTACTA
131 TTGTTTTTGTAATGTGATACATGCGAAAATCATATATATATATAATCATATTAGTGAATCTACTA
*
69306963 ATACATACTTTATCCGGA
196 ATACATACTTTATCCAGA
*
69306981 TAAAATATGCATTATTAAAATTAAACTAAAATATTAAATAAGAAATAAAATTATAAAACAATATG
1 TAAAATATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATG
69307046 TTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTT-AATTT
66 TTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTT
* * *
69307110 TT-TTTTTGTAATGTGATACATGCTTAAATATCTATATATATATATAATCATATTAGTGAATTTG
131 TTGTTTTTGTAATGTGATACATGC-GAAA-ATC-ATATATATATATAATCATATTAGTGAATCTA
69307174 CTAATACATACTTTATCCAGA
193 CTAATACATACTTTATCCAGA
*
69307195 TAAAGTATGCATTATTAAAATTAAATTAAAAT
1 TAAAATATGCATTATTAAAATTAAATTAAAAT
69307227 GTGCATATAG
Statistics
Matches: 235, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
210 21 0.09
211 10 0.04
212 126 0.54
214 78 0.33
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (213 bp):
TAAAATATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATG
TTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTT
TTGTTTTTGTAATGTGATACATGCGAAAATCATATATATATATAATCATATTAGTGAATCTACTA
ATACATACTTTATCCAGA
Found at i:69307313 original size:12 final size:13
Alignment explanation
Indices: 69307290--69307319 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
69307280 AAAAAAATGT
69307290 TTTTATTTTAATA
1 TTTTATTTTAATA
69307303 TTTTA-TTTAATA
1 TTTTATTTTAATA
69307315 TTTTA
1 TTTTA
69307320 ATAATTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTTAATA
Found at i:69307408 original size:12 final size:12
Alignment explanation
Indices: 69307391--69307423 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
69307381 ATGACCCATT
69307391 TTTTATTTTTAG
1 TTTTATTTTTAG
69307403 TTTTATTTTTAG
1 TTTTATTTTTAG
69307415 TTTT-TTTTT
1 TTTTATTTTT
69307424 TCTTTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:69307821 original size:29 final size:30
Alignment explanation
Indices: 69307729--69307821 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
69307719 GTTAATTTAC
* *
69307729 TATTTGGT-TTTGAAGTATATTTATTGTTT
1 TATTTGGTATTTAAAGTATATTTATTGTTA
* *
69307758 TATTTTGGTATTTAAA--AAATTTATGGGTTCA
1 TA-TTTGGTATTTAAAGTATATTTAT-TGTT-A
69307789 -ATTTGGTATTTAAAGTATATTT-TTGTTA
1 TATTTGGTATTTAAAGTATATTTATTGTTA
69307817 TATTT
1 TATTT
69307822 TTAGTTCTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
28 1 0.02
29 29 0.57
30 11 0.22
31 10 0.20
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (30 bp):
TATTTGGTATTTAAAGTATATTTATTGTTA
Found at i:69308027 original size:15 final size:16
Alignment explanation
Indices: 69307990--69308027 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
69307980 ATATAGAAAA
*
69307990 AAAAAT-ATACATTAT
1 AAAAATAATACATTAC
69308005 AAAAATAATA-ATTAC
1 AAAAATAATACATTAC
69308020 AAAAATAA
1 AAAAATAA
69308028 AATAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAATACATTAC
Found at i:69308114 original size:30 final size:30
Alignment explanation
Indices: 69308079--69308135 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
69308069 TAAAAATGTA
*
69308079 AAAATTATAAAAATATATTTAA-AATTTATT
1 AAAATTATAAAAA-ACATTTAATAATTTATT
69308109 AAAATTATAAAAAACATTTAATAATTT
1 AAAATTATAAAAAACATTTAATAATTT
69308136 GTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
AAAATTATAAAAAACATTTAATAATTTATT
Found at i:69308264 original size:20 final size:20
Alignment explanation
Indices: 69308231--69308274 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
69308221 ATACTTATGA
69308231 TTTT-AATATATTTTAAAAT
1 TTTTAAATATATTTTAAAAT
* * *
69308250 TTTTAAATATTTTTTTACAT
1 TTTTAAATATATTTTAAAAT
69308270 TTTTA
1 TTTTA
69308275 TAATTTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAAATATATTTTAAAAT
Found at i:69308326 original size:19 final size:20
Alignment explanation
Indices: 69308302--69308346 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
69308292 TAAATATTTC
69308302 ATATTTTAAAT-ATATTTTT
1 ATATTTTAAATGATATTTTT
* *
69308321 ATATTTTGAATGATTTTTTT
1 ATATTTTAAATGATATTTTT
69308341 A-ATTTT
1 ATATTTT
69308347 CTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATATTTTAAATGATATTTTT
Found at i:69309275 original size:21 final size:21
Alignment explanation
Indices: 69309251--69309319 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
69309241 TTTTAAAATT
*
69309251 TATTTTCAATTTGTTGGAAAA
1 TATTTTCAATTTGTTGAAAAA
* * *
69309272 TATTTACATATTT-TTTAAAATT
1 TATTTTCA-ATTTGTTGAAAA-A
69309294 TATTTTCAATTTGTTGAAAAA
1 TATTTTCAATTTGTTGAAAAA
69309315 TATTT
1 TATTT
69309320 ATTTTGATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TATTTTCAATTTGTTGAAAAA
Found at i:69309297 original size:43 final size:43
Alignment explanation
Indices: 69309236--69309320 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
69309226 TTAAGTATAA
*
69309236 ATATTTTTTAAAATTTATTTTCAATTTGTTGGAAAATATTTAC
1 ATATTTTTTAAAATTTATTTTCAATTTGTTGAAAAATATTTAC
69309279 ATATTTTTTAAAATTTATTTTCAATTTGTTGAAAAATATTTA
1 ATATTTTTTAAAATTTATTTTCAATTTGTTGAAAAATATTTA
69309321 TTTTGATGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (43 bp):
ATATTTTTTAAAATTTATTTTCAATTTGTTGAAAAATATTTAC
Found at i:69309313 original size:22 final size:22
Alignment explanation
Indices: 69309245--69309313 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
69309235 AATATTTTTT
69309245 AAAATTTATTTTCAATTTGTTGG
1 AAAATTTATTTTCAATTTGTT-G
* *
69309268 AAAA--TATTTACATATTT-TTT
1 AAAATTTATTTTCA-ATTTGTTG
69309288 AAAATTTATTTTCAATTTGTTG
1 AAAATTTATTTTCAATTTGTTG
69309310 AAAA
1 AAAA
69309314 ATATTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 4 0.11
21 13 0.34
22 17 0.45
23 4 0.11
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
AAAATTTATTTTCAATTTGTTG
Found at i:69309345 original size:18 final size:18
Alignment explanation
Indices: 69309322--69309360 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69309312 AAATATTTAT
*
69309322 TTTGATGT-TTTTAGTATA
1 TTTGATGTATTATA-TATA
69309340 TTTGATGTATTATATATA
1 TTTGATGTATTATATATA
69309358 TTT
1 TTT
69309361 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTGATGTATTATATATA
Found at i:69309774 original size:22 final size:21
Alignment explanation
Indices: 69309750--69309810 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
69309740 ATTGAAAATA
*
69309750 AAAAATTTAAATTTAAATTTT
1 AAAAATTTAAATTTAAATATT
**
69309771 AAAAATAGAAATTTATAATATT
1 AAAAATTTAAATTTA-AATATT
*
69309793 AAATATTTAAATATTAAA
1 AAAAATTTAAAT-TTAAA
69309811 AAACGCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.41
22 16 0.50
23 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAATTTAAATTTAAATATT
Found at i:69309807 original size:15 final size:15
Alignment explanation
Indices: 69309754--69309810 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
69309744 AAAATAAAAA
69309754 ATTTAAAT-TTAAAT
1 ATTTAAATATTAAAT
*
69309768 -TTTAAA-AATAGAA-
1 ATTTAAATATTA-AAT
69309781 ATTTATAATATTAAAT
1 ATTTA-AATATTAAAT
69309797 ATTTAAATATTAAA
1 ATTTAAATATTAAA
69309811 AAACGCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 8 0.23
14 6 0.17
15 13 0.37
16 8 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTTAAATATTAAAT
Found at i:69313228 original size:23 final size:22
Alignment explanation
Indices: 69313198--69313253 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
69313188 GGACAAATGG
69313198 ATTTAAATTTTAAAT-TTTTGAAA
1 ATTTAAATTTTAAATGTTTTG--A
* *
69313221 ATTTAAATTTGAATTGTTTTGA
1 ATTTAAATTTTAAATGTTTTGA
69313243 ATTTAAATTTT
1 ATTTAAATTTT
69313254 TGAAAACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.38
23 13 0.45
24 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTTAAATTTTAAATGTTTTGA
Found at i:69313619 original size:37 final size:37
Alignment explanation
Indices: 69313569--69313641 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
69313559 TGGAAGAATT
*
69313569 TTTGCAAAGAATCATTATTGTTCATCTCCATCTTTTC
1 TTTGCAAAGAATCATTACTGTTCATCTCCATCTTTTC
* * *
69313606 TTTGCAGAGAATCATTACTGTTCATCTTCGTCTTTT
1 TTTGCAAAGAATCATTACTGTTCATCTCCATCTTTT
69313642 GTCTTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.47
Consensus pattern (37 bp):
TTTGCAAAGAATCATTACTGTTCATCTCCATCTTTTC
Found at i:69315647 original size:11 final size:12
Alignment explanation
Indices: 69315630--69315663 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
69315620 ACAAAGAAGT
69315630 TTGGTGATTTGC
1 TTGGTGATTTGC
69315642 -TGGTGATTTGC
1 TTGGTGATTTGC
*
69315653 TTGTTGATTTG
1 TTGGTGATTTG
69315664 GGTAACTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.09, C:0.06, G:0.32, T:0.53
Consensus pattern (12 bp):
TTGGTGATTTGC
Found at i:69316296 original size:12 final size:14
Alignment explanation
Indices: 69316261--69316298 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
69316251 CCGTTTGTCC
69316261 ACTAGTTGTTTTAA
1 ACTAGTTGTTTTAA
69316275 ACTAGTTGTTTTAA
1 ACTAGTTGTTTTAA
69316289 A-T-GTTGTTTT
1 ACTAGTTGTTTT
69316299 GTAATCTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 1 0.04
14 15 0.62
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (14 bp):
ACTAGTTGTTTTAA
Found at i:69327436 original size:25 final size:25
Alignment explanation
Indices: 69327407--69327456 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
69327397 AATAAGCTAG
69327407 GAGTAAGCTCGGTTTAGCTCAAGCA
1 GAGTAAGCTCGGTTTAGCTCAAGCA
69327432 GAGTAAGCTCGGTTTAGCTCAAGCA
1 GAGTAAGCTCGGTTTAGCTCAAGCA
69327457 ACTAGATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (25 bp):
GAGTAAGCTCGGTTTAGCTCAAGCA
Found at i:69329003 original size:18 final size:19
Alignment explanation
Indices: 69328980--69329018 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
69328970 TTTATCTCAA
*
69328980 TTTCTTTTTC-CACTCTTT
1 TTTCTTATTCACACTCTTT
*
69328998 TTTCTTATTCACATTCTTT
1 TTTCTTATTCACACTCTTT
69329017 TT
1 TT
69329019 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTTATTCACACTCTTT
Found at i:69329133 original size:5 final size:5
Alignment explanation
Indices: 69329123--69329179 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
69329113 CTTTTGCCTC
*
69329123 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
69329170 TCTTT TCTTT
1 TCTTT TCTTT
69329180 GTTTTCTCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:69329163 original size:15 final size:14
Alignment explanation
Indices: 69329123--69329179 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
69329113 CTTTTGCCTC
*
69329123 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
69329138 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
69329153 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
69329170 TCTTTTCTTT
1 TCTTTTCTTT
69329180 GTTTTCTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:69329180 original size:21 final size:21
Alignment explanation
Indices: 69329123--69329184 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
69329113 CTTTTGCCTC
* *
69329123 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
69329144 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
69329165 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
69329185 CTCGTTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 7 0.21
21 22 0.65
22 5 0.15
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:69343998 original size:27 final size:27
Alignment explanation
Indices: 69343979--69344068 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
69343969 TTGTAACGAT
69343979 CTATGAAAAGGAAACATTTGAGGCGAG
1 CTATGAAAAGGAAACATTTGAGGCGAG
69344006 CTATGAAAAGGAAACATTTGAGGCGAG
1 CTATGAAAAGGAAACATTTGAGGCGAG
* * * * *
69344033 CTATGAAAAGGAAGCTTTTGTGGCTAT
1 CTATGAAAAGGAAACATTTGAGGCGAG
69344060 CTATGAAAA
1 CTATGAAAA
69344069 AGAAGCCTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (27 bp):
CTATGAAAAGGAAACATTTGAGGCGAG
Found at i:69349944 original size:24 final size:23
Alignment explanation
Indices: 69349896--69349950 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
69349886 TTAAATACCT
* *
69349896 TTTTAGAATTTTATAATTATATA
1 TTTTAGAATTTTATAATAAAATA
*
69349919 TTTTAGAATTTTGTAATAAAATTA
1 TTTTAGAATTTTATAATAAAA-TA
*
69349943 TTTCAGAA
1 TTTTAGAA
69349951 ACTTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTTAGAATTTTATAATAAAATA
Found at i:69352223 original size:8 final size:8
Alignment explanation
Indices: 69352210--69352241 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
69352200 CACATCCTGC
69352210 CTATGCCT
1 CTATGCCT
69352218 CTATGCCT
1 CTATGCCT
69352226 CTATGCCT
1 CTATGCCT
69352234 CTATGCCT
1 CTATGCCT
69352242 ATGCCTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (8 bp):
CTATGCCT
Found at i:69352268 original size:20 final size:20
Alignment explanation
Indices: 69352207--69352261 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
69352197 CAGCACATCC
*
69352207 TGCCTATGCCTCTATG-C-C
1 TGCCTATGCCTCTATGACTA
*
69352225 T--CTATGCCTCTATGCCTA
1 TGCCTATGCCTCTATGACTA
*
69352243 TGCCTATGCCTCTCTGACT
1 TGCCTATGCCTCTATGACT
69352262 CTTCCTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 13 0.43
17 1 0.03
18 2 0.07
20 14 0.47
ACGTcount: A:0.13, C:0.36, G:0.15, T:0.36
Consensus pattern (20 bp):
TGCCTATGCCTCTATGACTA
Found at i:69359404 original size:75 final size:75
Alignment explanation
Indices: 69359291--69359479 Score: 315
Period size: 75 Copynumber: 2.5 Consensus size: 75
69359281 TAATAGGCTT
* * * * * *
69359291 TCATGAGCTTCCCGTTATTTAGCTTTCATGAGCATCCCGTTATATGACTCTTACGAGCTTCTCGT
1 TCATGAGCATCCCGTTATATGGCTCTCACGAGCTTCCCGTTATATGACTCTTACGAGCTTCTCGT
69359356 TATTTAGCTC
66 TATTTAGCTC
69359366 TCATGAGCATCCCGTTATATGGCTCTCACGAGCTTCCCGTTATATGACTCTTACGAGCTTCTCGT
1 TCATGAGCATCCCGTTATATGGCTCTCACGAGCTTCCCGTTATATGACTCTTACGAGCTTCTCGT
69359431 TATTTAGCTC
66 TATTTAGCTC
*
69359441 TCATGAGTATCCCGTTATATGGCTCTCACGAGCTTCCCG
1 TCATGAGCATCCCGTTATATGGCTCTCACGAGCTTCCCG
69359480 ATTAATGGCT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 107 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.37
Consensus pattern (75 bp):
TCATGAGCATCCCGTTATATGGCTCTCACGAGCTTCCCGTTATATGACTCTTACGAGCTTCTCGT
TATTTAGCTC
Found at i:69359487 original size:25 final size:25
Alignment explanation
Indices: 69359263--69359728 Score: 245
Period size: 25 Copynumber: 18.6 Consensus size: 25
69359253 TACACCACAA
* * *
69359263 CTCTTATGAGCGTCCCGATA-ATAGG
1 CTCTCATGAGCTTCCCGTTATAT-GG
* * *
69359288 CTTTCATGAGCTTCCCGTTATTTAG
1 CTCTCATGAGCTTCCCGTTATATGG
* * *
69359313 CTTTCATGAGCATCCCGTTATATGA
1 CTCTCATGAGCTTCCCGTTATATGG
* * * * *
69359338 CTCTTACGAGCTTCTCGTTATTTAG
1 CTCTCATGAGCTTCCCGTTATATGG
*
69359363 CTCTCATGAGCATCCCGTTATATGG
1 CTCTCATGAGCTTCCCGTTATATGG
* *
69359388 CTCTCACGAGCTTCCCGTTATATGA
1 CTCTCATGAGCTTCCCGTTATATGG
* * * * *
69359413 CTCTTACGAGCTTCTCGTTATTTAG
1 CTCTCATGAGCTTCCCGTTATATGG
69359438 CTCTCATGAG-TATCCCGTTATATGG
1 CTCTCATGAGCT-TCCCGTTATATGG
*
69359463 CTCTCACGAGCTTCCCGATTA-ATGG
1 CTCTCATGAGCTTCCCG-TTATATGG
* * *
69359488 CTCTCTTGAGTTTCCCATT-TATGG
1 CTCTCATGAGCTTCCCGTTATATGG
* * **
69359512 CT-TGTATGAGCTTCTCAATA-ATTGG
1 CTCT-CATGAGCTTCCCGTTATA-TGG
** * * *
69359537 CTCTCCGGAGCTTCCCGATAAAAGG
1 CTCTCATGAGCTTCCCGTTATATGG
*
69359562 CTCTCTCATGAGTTTCCCGATTA-ATGG
1 --CTCTCATGAGCTTCCCG-TTATATGG
* *
69359589 CTCT-TTAGAGCTAT-CCGATAT-TGG
1 CTCTCAT-GAGCT-TCCCGTTATATGG
* * * *
69359613 CTCGCATAAGCTTCCCGATATTTGG
1 CTCTCATGAGCTTCCCGTTATATGG
* * * *
69359638 CT-TGCAAGAGCTTTCCGTTACATGA
1 CTCT-CATGAGCTTCCCGTTATATGG
* **
69359663 CTCACATGAGCTTCCTATTATATGG
1 CTCTCATGAGCTTCCCGTTATATGG
** * *
69359688 CTCAAAAGAGCTACCCGTTTATAT-G
1 CTCTCATGAGCTTCCCG-TTATATGG
*
69359713 CTCACATGAGCATTCC
1 CTCTCATGAGC-TTCC
69359729 TGAATATGAA
Statistics
Matches: 331, Mismatches: 87, Indels: 45
0.71 0.19 0.10
Matches are distributed among these distances:
23 2 0.01
24 40 0.12
25 253 0.76
26 17 0.05
27 17 0.05
28 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGTTATATGG
Found at i:69359625 original size:76 final size:74
Alignment explanation
Indices: 69359471--69359632 Score: 177
Period size: 76 Copynumber: 2.2 Consensus size: 74
69359461 GGCTCTCACG
* * *
69359471 AGCTTCCCGATTAATGGCTCTCTTGAGTTTCCCATTTATGGCTTGTATGAGCTTCTCAATAATTG
1 AGCTTCCCGATAAAAGGCTCTCTTGAGTTTCCCATTAATGGCTTGTATGAGCTTCTCAATAATTG
* * *
69359536 GCTCTCCGG
66 GCTCGCAGA
* *
69359545 AGCTTCCCGATAAAAGGCTCTCTCATGAGTTTCCCGATTAATGGCTCTTTA-GAGCTATC-CGAT
1 AGCTTCCCGATAAAAGGCTCTCT--TGAGTTTCCC-ATTAATGGCT-TGTATGAGCT-TCTCAAT
*
69359608 -ATTGGCTCGCATA
61 AATTGGCTCGCAGA
69359621 AGCTTCCCGATA
1 AGCTTCCCGATA
69359633 TTTGGCTTGC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
74 21 0.28
76 31 0.42
77 17 0.23
78 5 0.07
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (74 bp):
AGCTTCCCGATAAAAGGCTCTCTTGAGTTTCCCATTAATGGCTTGTATGAGCTTCTCAATAATTG
GCTCGCAGA
Found at i:69375458 original size:40 final size:40
Alignment explanation
Indices: 69375384--69375565 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
69375374 AACCCAAGTA
* * *
69375384 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
69375423 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
69375463 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
69375503 CCTTCGGGACTTAGCCCGGATATAGTCATTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
69375543 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
69375566 NNNNNNNNNN
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.09
40 120 0.89
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:69378087 original size:17 final size:17
Alignment explanation
Indices: 69378062--69378096 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
69378052 GTAGGTTGTA
69378062 GTTAAGAGTTAGTTAAG
1 GTTAAGAGTTAGTTAAG
*
69378079 GTTAGGAGTTAGTTAAG
1 GTTAAGAGTTAGTTAAG
69378096 G
1 G
69378097 CTAGTTAGGT
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:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (17 bp):
GTTAAGAGTTAGTTAAG
Found at i:69378103 original size:21 final size:19
Alignment explanation
Indices: 69378059--69378105 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
69378049 ATTGTAGGTT
*
69378059 GTAGTTAAGAGTTAGTTAA
1 GTAGTTAGGAGTTAGTTAA
69378078 G--GTTAGGAGTTAGTTAA
1 GTAGTTAGGAGTTAGTTAA
69378095 GGCTAGTTAGG
1 -G-TAGTTAGG
69378106 TAATTCAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 15 0.65
18 1 0.04
19 1 0.04
21 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (19 bp):
GTAGTTAGGAGTTAGTTAA
Found at i:69399668 original size:21 final size:21
Alignment explanation
Indices: 69399644--69399688 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
69399634 GTTAATGGCA
69399644 TGTATAGGGCTTTGAGTATTT
1 TGTATAGGGCTTTGAGTATTT
69399665 TGTATAGGGCTTTGAGTATTT
1 TGTATAGGGCTTTGAGTATTT
69399686 TGT
1 TGT
69399689 CATATGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (21 bp):
TGTATAGGGCTTTGAGTATTT
Found at i:69401731 original size:13 final size:13
Alignment explanation
Indices: 69401713--69401752 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
69401703 GCTCGACAAG
69401713 GACACGCCCGTGT
1 GACACGCCCGTGT
69401726 GACACGCCCGTGT
1 GACACGCCCGTGT
*
69401739 GACACGCCCATGT
1 GACACGCCCGTGT
69401752 G
1 G
69401753 CGATTACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:69421239 original size:18 final size:17
Alignment explanation
Indices: 69421211--69421244 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69421201 GGCCTTAGCC
69421211 CATTACAGAACAAGAAA
1 CATTACAGAACAAGAAA
*
69421228 CATTATCAGAACTAGAA
1 CATTA-CAGAACAAGAA
69421245 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CATTACAGAACAAGAAA
Found at i:69421270 original size:25 final size:25
Alignment explanation
Indices: 69421241--69421307 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
69421231 TATCAGAACT
* * *
69421241 AGAATCAAAATGAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
69421266 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
69421291 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
69421308 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:69421770 original size:16 final size:16
Alignment explanation
Indices: 69421749--69421780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69421739 AACCCCACCC
*
69421749 TATGCAACATGTCATG
1 TATGCAAAATGTCATG
69421765 TATGCAAAATGTCATG
1 TATGCAAAATGTCATG
69421781 CCCATATTTG
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:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (16 bp):
TATGCAAAATGTCATG
Found at i:69422043 original size:27 final size:27
Alignment explanation
Indices: 69421923--69422062 Score: 149
Period size: 27 Copynumber: 5.2 Consensus size: 27
69421913 GGGCAAAATG
* * * *
69421923 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
69421950 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
69421977 GTATTTCTACCCTACAAGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCA
*
69422003 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
69422030 GTAATTCTATCCTA-TAGTGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
*
69422057 ATAATT
1 GTAATT
69422063 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 26 0.27
27 69 0.73
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:69422054 original size:53 final size:53
Alignment explanation
Indices: 69421923--69422043 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 53
69421913 GGGCAAAATG
* * ** * *
69421923 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTAT-TTTGTAATTCTACCCTACAAGGGTATTTCA
* *
69421977 GTATTTCTACCCTACAAGGGTATTTTGTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTGTAATTCTACCCTACAAGGGTATTTCA
*
69422030 GTAATTCTATCCTA
1 GTAATTCTACCCTA
69422044 TAGTGGTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 37 0.65
54 20 0.35
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTTGTAATTCTACCCTACAAGGGTATTTCA
Found at i:69422078 original size:27 final size:27
Alignment explanation
Indices: 69422048--69422150 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
69422038 ATCCTATAGT
*
69422048 GGTATTTCAATAATTTTGTAAATCGAG
1 GGTATTTCAGTAATTTTGTAAATCGAG
*** * *
69422075 GGTAAAACGGTAATTTTGTAAATCGGG
1 GGTATTTCAGTAATTTTGTAAATCGAG
* ** *
69422102 GGTACTTT-GGTAATTTTACAAGTCGAG
1 GGTA-TTTCAGTAATTTTGTAAATCGAG
* *
69422129 GGTATTTTAGTAATTTGGTAAA
1 GGTATTTCAGTAATTTTGTAAA
69422151 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTGTAAATCGAG
Found at i:69429745 original size:29 final size:29
Alignment explanation
Indices: 69429678--69429802 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
69429668 AAGTCTACAT
* *
69429678 ACATGCATATGGCCCACTAGG-CCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
69429706 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
69429735 ACATTTTTATGGCCCATTAGACCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
69429764 ACCTTCATATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
69429793 ACATTCATAT
1 ACATTCATAT
69429803 TCATGCTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 18 0.22
29 65 0.78
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:69432266 original size:13 final size:15
Alignment explanation
Indices: 69432248--69432279 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
69432238 GCAATTTAAA
69432248 TTTTATT-CTAATT-
1 TTTTATTACTAATTC
69432261 TTTTATTACTAATTC
1 TTTTATTACTAATTC
69432276 TTTT
1 TTTT
69432280 TTTTCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTACTAATTC
Found at i:69443927 original size:29 final size:29
Alignment explanation
Indices: 69443860--69444013 Score: 238
Period size: 29 Copynumber: 5.3 Consensus size: 29
69443850 AAGTCTACAT
* * *
69443860 ACATGCATATAGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
69443888 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
69443917 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
69443946 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
69443975 ACATTCATATAGCTCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
69444004 ACATTCATAT
1 ACATTCATAT
69444014 TCATGCTTTC
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 20 0.17
29 96 0.83
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:69447371 original size:13 final size:13
Alignment explanation
Indices: 69447353--69447377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69447343 TACCCTATTT
69447353 TTGTACGGCCGTA
1 TTGTACGGCCGTA
69447366 TTGTACGGCCGT
1 TTGTACGGCCGT
69447378 GGTAACGCCC
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:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TTGTACGGCCGTA
Found at i:69457592 original size:13 final size:13
Alignment explanation
Indices: 69457574--69457598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69457564 CGGACGAAAC
69457574 ACGGCCGTGCAAT
1 ACGGCCGTGCAAT
69457587 ACGGCCGTGCAA
1 ACGGCCGTGCAA
69457599 AAATAGGGTA
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:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (13 bp):
ACGGCCGTGCAAT
Found at i:69457978 original size:14 final size:15
Alignment explanation
Indices: 69457943--69457979 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
69457933 GAAAAATTAG
*
69457943 ATTATTTATCTTATT
1 ATTATTTTTCTTATT
69457958 -TTATTTTTCTT-TT
1 ATTATTTTTCTTATT
69457971 ATTATTTTT
1 ATTATTTTT
69457980 TTAAAACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTATTTTTCTTATT
Found at i:69458640 original size:235 final size:235
Alignment explanation
Indices: 69458229--69458698 Score: 940
Period size: 235 Copynumber: 2.0 Consensus size: 235
69458219 GAATGATCAC
69458229 GTTGTTCTATTGAAAAGCTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTTGA
1 GTTGTTCTATTGAAAAGCTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTTGA
69458294 TTGATATATCTTGAATTAAAACATAGGGATTTATGCATTGATTACTTAAACTTTAAGACATTAGA
66 TTGATATATCTTGAATTAAAACATAGGGATTTATGCATTGATTACTTAAACTTTAAGACATTAGA
69458359 GAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATTATAGGTGGTTTCCCCAAGTTATTAC
131 GAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATTATAGGTGGTTTCCCCAAGTTATTAC
69458424 TTTGAATTGGAATTCACAAGTCTAAACATAAAAAAGCCAT
196 TTTGAATTGGAATTCACAAGTCTAAACATAAAAAAGCCAT
69458464 GTTGTTCTATTGAAAAGCTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTTGA
1 GTTGTTCTATTGAAAAGCTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTTGA
69458529 TTGATATATCTTGAATTAAAACATAGGGATTTATGCATTGATTACTTAAACTTTAAGACATTAGA
66 TTGATATATCTTGAATTAAAACATAGGGATTTATGCATTGATTACTTAAACTTTAAGACATTAGA
69458594 GAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATTATAGGTGGTTTCCCCAAGTTATTAC
131 GAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATTATAGGTGGTTTCCCCAAGTTATTAC
69458659 TTTGAATTGGAATTCACAAGTCTAAACATAAAAAAGCCAT
196 TTTGAATTGGAATTCACAAGTCTAAACATAAAAAAGCCAT
69458699 AATTTTTGTG
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 235 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (235 bp):
GTTGTTCTATTGAAAAGCTCTCATATCATATTTAGGATAAATTTTAATTGATTTATGATTTTTGA
TTGATATATCTTGAATTAAAACATAGGGATTTATGCATTGATTACTTAAACTTTAAGACATTAGA
GAATCAAGCATGATAAGTTGATTTTTAAGAATTTAAAATTATAGGTGGTTTCCCCAAGTTATTAC
TTTGAATTGGAATTCACAAGTCTAAACATAAAAAAGCCAT
Found at i:69465901 original size:45 final size:44
Alignment explanation
Indices: 69465813--69465931 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 44
69465803 ATGAGATATG
* *
69465813 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGA
* *
69465857 TGTTAGTTAGTGTCAA-ACATGTCT-GGACATGCGTCGGCCACGAGA
1 TG-T-GCTAGTGT-AAGACATGTCTGGGACATGCATCGGCCACGAGA
69465902 TGTGCTAGTGTAAGACATGTCTGGGACATG
1 TGTGCTAGTGTAAGACATGTCTGGGACATG
69465932 TATTGGCATG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
42 2 0.03
43 15 0.23
44 10 0.15
45 22 0.34
46 14 0.22
47 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGA
Found at i:69479181 original size:20 final size:20
Alignment explanation
Indices: 69479156--69479208 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
69479146 TTAAAAACCA
*
69479156 GCAATAAAGGAGTTGCTGGT
1 GCAATAAAGGAGCTGCTGGT
69479176 GCAATAAAGGAGCTGCTGGT
1 GCAATAAAGGAGCTGCTGGT
*
69479196 GCATTAAA-GAGCT
1 GCAATAAAGGAGCT
69479209 AATGGTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (20 bp):
GCAATAAAGGAGCTGCTGGT
Found at i:69479214 original size:19 final size:20
Alignment explanation
Indices: 69479156--69479216 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
69479146 TTAAAAACCA
* **
69479156 GCAATAAAGGAGTTGCTGGT
1 GCAATAAAGGAGCTAATGGT
**
69479176 GCAATAAAGGAGCTGCTGGT
1 GCAATAAAGGAGCTAATGGT
*
69479196 GCATTAAA-GAGCTAATGGT
1 GCAATAAAGGAGCTAATGGT
69479215 GC
1 GC
69479217 TTAGAACGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.30
20 26 0.70
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (20 bp):
GCAATAAAGGAGCTAATGGT
Found at i:69488532 original size:17 final size:17
Alignment explanation
Indices: 69488510--69488544 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
69488500 AATTTAGAAG
*
69488510 TAAGAATATCTTTATTA
1 TAAGAATATATTTATTA
69488527 TAAGAATATATTTATTA
1 TAAGAATATATTTATTA
69488544 T
1 T
69488545 TATGTTCAAT
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:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (17 bp):
TAAGAATATATTTATTA
Found at i:69491342 original size:41 final size:40
Alignment explanation
Indices: 69491261--69491374 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 40
69491251 GAATCAGTAT
*
69491261 GGGCCTTAGCCCACTCAGATATAGAATCAGATATAAATTA
1 GGGCCTTAGCCCACTCAGATACAGAATCAGATATAAATTA
* * * *
69491301 GGGCCTTAGCCCAGCTCAGGTACAGAGTTAGGA-ATATATTA
1 GGGCCTTAGCCCA-CTCAGATACAGAATCA-GATATAAATTA
* *
69491342 GGGCCTCAGCCCAATCAGATACAGAATACAGAT
1 GGGCCTTAGCCCACTCAGATACAGAAT-CAGAT
69491375 CAGAATATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 26 0.43
41 32 0.53
42 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
GGGCCTTAGCCCACTCAGATACAGAATCAGATATAAATTA
Found at i:69513578 original size:41 final size:40
Alignment explanation
Indices: 69513532--69513631 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 40
69513522 GTTAGTCCAT
* * *
69513532 TCAGATATAGAATCAGATATAAATTA-AGGCCTTAGCCCAGC
1 TCAGATACAGAATCAGATATAAATTAGA-GCCTCAGCCCA-A
* *
69513573 TCAGATACAGAGTCAGGA-ATATATTAGAGCCTCAGCCCAA
1 TCAGATACAGAATCA-GATATAAATTAGAGCCTCAGCCCAA
69513613 TCAGATACAGAATGCAGAT
1 TCAGATACAGAAT-CAGAT
69513632 CAAAATATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
40 14 0.29
41 32 0.65
42 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (40 bp):
TCAGATACAGAATCAGATATAAATTAGAGCCTCAGCCCAA
Found at i:69525773 original size:47 final size:47
Alignment explanation
Indices: 69525566--69525874 Score: 233
Period size: 47 Copynumber: 6.6 Consensus size: 47
69525556 TTACCGATGC
*
69525566 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGT-GGCCGAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATC-TAGGCCGAGG
** * * * * *
69525614 CCATGTCCCAGACATGGTCTTACTGTAGCTCTCGT-ATATAAGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCT-AG-GCCGAGG
*
69525664 CATGTCCCAGACATGTCTTACACTAGC-A-CAGTGC-T-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCA-T-CATCTAGGCCGAGG
* * *
69525708 CATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGAGG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCTAGGCCGAGG
* * * * *
69525755 CATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCTACGCCAATGC
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCTAGGCCGA-GG
* * * * * * *
69525802 CATGTCTCAAACATGTCTTACACTAGCGATCATAATATA-GCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCTAGGCCGAGG
*
69525848 CATGTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
69525875 CCTCGTCTTA
Statistics
Matches: 212, Mismatches: 33, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
44 32 0.15
45 3 0.01
46 38 0.18
47 72 0.34
48 18 0.08
49 44 0.21
50 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCTAGGCCGAGG
Found at i:69525868 original size:93 final size:91
Alignment explanation
Indices: 69525561--69525922 Score: 275
Period size: 93 Copynumber: 3.8 Consensus size: 91
69525551 CTAAGTTACC
* * * * * *
69525561 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGTGGCCGAGGCCATGTCCCAGA
1 GATG-CATGTCCCAAACAT-GTCTTACACTAGC-A-C-TCATCTTAGCCGATGCCATGT-CCAAA
** ** *
69525626 CATGGTCTTACTGTAGCTCTCGTATATA-AGTGCT
60 CAT-GTCTTACACTAGCGATCATA-ATAGAG-GCT
* * *
69525660 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAGTGCTTAGCCGATG-CATGTCCCAGACAC
1 GATGCATGTCCCAAACATGTCTTACACTAGCACTCA-T-CTTAGCCGATGCCATGT-CCAAACAT
* * * * *
69525722 GTCTTACACTGGCTATCATCATCGAGGCC
63 GTCTTACACTAGCGATCATAATAGAGGCT
* * *
69525751 GAGGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTACGCCAATGCCATGTCTCAAACAT
1 GATGCATGTCCCAAACATGTCTTACACTAGCACTCATCT-TA-GCCGATGCCATGTC-CAAACAT
*
69525816 GTCTTACACTAGCGATCATAATATA-GCT
63 GTCTTACACTAGCGATCATAATAGAGGCT
* * *
69525844 GATGCATGTCCCATACATGTCTTACACTAGCCCTCGTCTTAATGCCGATGCCATGTCCTAAACAT
1 GATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTT-A-GCCGATGCCATGTCC-AAACAT
*
69525909 GGTCTTACATTAGC
63 -GTCTTACACTAGC
69525923 TCTTACATAA
Statistics
Matches: 218, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
91 35 0.16
92 23 0.11
93 79 0.36
94 50 0.23
96 1 0.00
97 12 0.06
98 14 0.06
99 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTTAGCCGATGCCATGTCCAAACATGTC
TTACACTAGCGATCATAATAGAGGCT
Found at i:69525899 original size:140 final size:139
Alignment explanation
Indices: 69525559--69525917 Score: 321
Period size: 140 Copynumber: 2.5 Consensus size: 139
69525549 GGCTAAGTTA
* * * **
69525559 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGTGGCCGAGGCCATGTCCCA
1 CCGATG-CATGTCCCAGACA-CGTCTTACACTAGCCATCATCATCAAGGCCGA-GCCATGTCCCA
* ** * * * * * * ** *
69525624 GACATGGTCTTACTGTAGCTCTCGTATATAAGTGCTGATG-CATGTCCCAGACATGTCTTACACT
63 AACATGGTCTTACACTGGCACTCATCTCT-A-CGCCAATGCCATGTCCCAAACATGTCTTACACT
**
69525688 AGCACAGTGCTTAG
126 AGCACAGTAATTAG
* * * *
69525702 CCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGAGGCATGTCCCAAAC
1 CCGATGCATGTCCCAGACACGTCTTACACTAGCCATCATCATCAAGGCCGAGCCATGTCCCAAAC
*
69525767 AT-GTCTTACACTGGCACTCATCTCTACGCCAATGCCATGTCTCAAACATGTCTTACACTAGCGA
66 ATGGTCTTACACTGGCACTCATCTCTACGCCAATGCCATGTCCCAAACATGTCTTACACTAGC-A
69525831 TCA-TAATATAG
130 -CAGTAAT-TAG
* * * * * * * *
69525842 CTGATGCATGTCCCATACATGTCTTACACTAGCCCTCGTC-TTAATGCCGATGCCATGTCCTAAA
1 CCGATGCATGTCCCAGACACGTCTTACACTAGCCATCATCATCAAGGCCGA-GCCATGTCCCAAA
69525906 CATGGTCTTACA
65 CATGGTCTTACA
69525918 TTAGCTCTTA
Statistics
Matches: 180, Mismatches: 30, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
137 5 0.03
138 26 0.14
139 26 0.14
140 66 0.37
141 38 0.21
142 13 0.07
143 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (139 bp):
CCGATGCATGTCCCAGACACGTCTTACACTAGCCATCATCATCAAGGCCGAGCCATGTCCCAAAC
ATGGTCTTACACTGGCACTCATCTCTACGCCAATGCCATGTCCCAAACATGTCTTACACTAGCAC
AGTAATTAG
Found at i:69533241 original size:47 final size:47
Alignment explanation
Indices: 69533029--69533340 Score: 248
Period size: 47 Copynumber: 6.6 Consensus size: 47
69533019 CTAAGTTACT
* * *
69533029 GATGCCATGTCCTAAACATGGTCTTACACTGGCTATCATTATCGAGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTATCATCATTGAGGCC
* * * * * *
69533078 GATTCTATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATAAGTGCT
1 GATGC-ATGTCCCAAACAT-GTCTTACACTGGCTATCATCAT-TGAG-GCC
* * * *
69533128 GATACATGTCCCAAACATGTCTTACACTAGC-A-CAGCGCTT-A-GCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTATCATC-ATTGAGGCC
*
69533172 GATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATTGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATTGAGGCC
* * * *
69533219 GAGGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCT-ACGCT
1 GATGCATGTCCCAAACATGTCTTACACTGGCTA-TCATCAT-TGAGGCC
* * * *
69533265 GATGCCATGTCCCAGACATGGTCTTACACTGG-TGATCAT-AATGTGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT-ATCATCATTGAGGCC
69533313 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
69533341 AGCCCTCACT
Statistics
Matches: 217, Mismatches: 29, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
44 30 0.14
45 3 0.01
46 25 0.12
47 66 0.30
48 40 0.18
49 47 0.22
50 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATTGAGGCC
Found at i:69533317 original size:141 final size:141
Alignment explanation
Indices: 69533027--69533395 Score: 347
Period size: 141 Copynumber: 2.6 Consensus size: 141
69533017 GGCTAAGTTA
* * * **
69533027 CTGATGCCATGTCCTAAACATGGTCTTACACTGGCTATCATTATCGAGGCCGATTCTATGTCCCA
1 CTGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATCATCATCGAGGCCGAGGCTATGTCCCA
* *
69533092 GACATGGTCTTACACTAGCTCTCATATATAAGTGCTGATACATGTCCCAAACATGTCTTACACTA
64 GACATGGTCTTACACTAGCACTCATATATAAGCGCTGATACATGTCCCAAACATGTCTTACACTA
**
69533157 GCACAGCGCTTAG
129 GCACAGCAATTAG
* *
69533170 CCGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATTGAGGCCGAGGC-ATGTCCCAGA
1 CTGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAGGCCGAGGCTATGTCCCAGA
* * * * * *
69533234 CAT-GTCTTACACTGGCACTCATCTCT-A-CGCTGATGCCATGTCCCAGACATGGTCTTACACTG
66 CATGGTCTTACACTAGCACTCATATATAAGCGCTGAT-ACATGTCCCAAACAT-GTCTTACACTA
* * *
69533296 GTGATCA-TAATGTGG
129 G-CA-CAGCAAT-TAG
* * ** * * * * * *
69533311 CTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCA-C-TCAATGTCGATGCCATGTCCTAGA
1 CTGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAGGCCGAGGCTATGTCCCAGA
*
69533374 CATGGTCTTACACTAGCTCTCA
66 CATGGTCTTACACTAGCACTCA
69533396 CATAACCCGA
Statistics
Matches: 186, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
137 6 0.03
138 14 0.08
139 38 0.20
140 28 0.15
141 83 0.45
142 12 0.06
143 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (141 bp):
CTGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCGAGGCCGAGGCTATGTCCCAGA
CATGGTCTTACACTAGCACTCATATATAAGCGCTGATACATGTCCCAAACATGTCTTACACTAGC
ACAGCAATTAG
Found at i:69533382 original size:93 final size:90
Alignment explanation
Indices: 69533084--69533387 Score: 301
Period size: 94 Copynumber: 3.3 Consensus size: 90
69533074 GGCCGATTCT
* * *
69533084 ATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAGT-GCTGATACATGTCCCAAACATGT
1 ATGTCCCAGACATGGTCTTACACT-GGTATCATA-AT--GTGGCTGATGCATGTCCCAAACATGT
** *
69533148 CTTACACTAGCACAGCGCT-TAGCCGATG-C
62 CTTACACTAGC-CCTCACTCTAG-CGATGCC
* * * * * * *
69533177 ATGTCCCAAACA-CGTCTTACACTGGCTATCATCATTGAGGCCGAGGCATGTCCCAGACATGTCT
1 ATGTCCCAGACATGGTCTTACACTGG-TATCAT-AATGTGGCTGATGCATGTCCCAAACATGTCT
* *
69533241 TACACTGGCACTCATCTCTACGCTGATGCC
64 TACACTAGCCCTCA-CTCTA-GC-GATGCC
69533271 ATGTCCCAGACATGGTCTTACACTGGTGATCATAATGTGGCTGATGCATGTCCCAAACATGTCTT
1 ATGTCCCAGACATGGTCTTACACTGGT-ATCATAATGTGGCTGATGCATGTCCCAAACATGTCTT
*
69533336 ACACTAGCCCTCACTCAATGTCGATGCC
65 ACACTAGCCCTCACTCTA-G-CGATGCC
*
69533364 ATGTCCTAGACATGGTCTTACACT
1 ATGTCCCAGACATGGTCTTACACT
69533388 AGCTCTCACA
Statistics
Matches: 173, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
90 2 0.01
91 32 0.18
92 19 0.11
93 51 0.29
94 52 0.30
95 17 0.10
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (90 bp):
ATGTCCCAGACATGGTCTTACACTGGTATCATAATGTGGCTGATGCATGTCCCAAACATGTCTTA
CACTAGCCCTCACTCTAGCGATGCC
Found at i:69533389 original size:47 final size:47
Alignment explanation
Indices: 69533084--69533396 Score: 172
Period size: 47 Copynumber: 6.7 Consensus size: 47
69533074 GGCCGATTCT
* *
69533084 ATGTCCCAGACATGGTCTTACACTAGCTCTCA-T-ATATAAGTGCTGAT-AC
1 ATGTCCCAGACAT-GTCTTACACTAGCACTCACTCA-AT--GT-CTGATGCC
* * * * *
69533133 ATGTCCCAAACATGTCTTACACTAGCACAGCGCT-TA-G-CCGATG-C
1 ATGTCCCAGACATGTCTTACACTAGCAC-TCACTCAATGTCTGATGCC
* * * * * * *
69533177 ATGTCCCAAACACGTCTTACACTGGCTA-TCA-TCATTGAGGCCGA-GGC
1 ATGTCCCAGACATGTCTTACACTAGC-ACTCACTCAAT--GTCTGATGCC
* * *
69533224 ATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACG-CTGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCACTCA-CTCAATGTCTGATGCC
* *
69533271 ATGTCCCAGACATGGTCTTACACTGGTGA-TCA-T-AATGTGGCTGATG-C
1 ATGTCCCAGACAT-GTCTTACACTAG-CACTCACTCAATGT--CTGATGCC
* *
69533318 ATGTCCCAAACATGTCTTACACTAGCCCTCACTCAATGTC-GATGCC
1 ATGTCCCAGACATGTCTTACACTAGCACTCACTCAATGTCTGATGCC
* *
69533364 ATGTCCTAGACATGGTCTTACACTAGCTCTCAC
1 ATGTCCCAGACAT-GTCTTACACTAGCACTCAC
69533397 ATAACCCGAT
Statistics
Matches: 211, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 29 0.14
45 7 0.03
46 35 0.17
47 80 0.38
48 40 0.19
49 17 0.08
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCACTCACTCAATGTCTGATGCC
Found at i:69534841 original size:22 final size:22
Alignment explanation
Indices: 69534807--69534848 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
69534797 TCCATAGATG
69534807 TATTATGCCAATATAATTGATT
1 TATTATGCCAATATAATTGATT
* *
69534829 TATTGTGCTAATATAATTGA
1 TATTATGCCAATATAATTGA
69534849 ATGCTTATGT
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:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (22 bp):
TATTATGCCAATATAATTGATT
Found at i:69539209 original size:47 final size:47
Alignment explanation
Indices: 69539137--69539267 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
69539127 CACAATCGAT
* *
69539137 AAATACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCCA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
* * * * *
69539184 GAGTACCTATACCATGCCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
* * *
69539231 AAATACCTATATCATGGCCCATTGCCAAATCAAGGTA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTA
69539268 TTATTTGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (47 bp):
AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:69540844 original size:24 final size:25
Alignment explanation
Indices: 69540817--69540864 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69540807 TCATAACAAT
69540817 TAAGCA-TAGAAAC-TCATACATTAA
1 TAAGCATTA-AAACATCATACATTAA
*
69540841 TAAGCATTAAAACATGATACATTA
1 TAAGCATTAAAACATCATACATTA
69540865 TTACATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (25 bp):
TAAGCATTAAAACATCATACATTAA
Found at i:69551857 original size:93 final size:92
Alignment explanation
Indices: 69551698--69552060 Score: 274
Period size: 93 Copynumber: 3.8 Consensus size: 92
69551688 CTAAGTTACC
* * * ***
69551698 GATGCCATGTCCCAGACAAGGTCTTACACTGGCTATCATCATCGTGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGAC-ATGTCTTACACTAGC-ACCATC-TCAACGCCGATGCCATGTCCCAGA
* *
69551763 CATGGTCTTACAGTAGCTCTCGTATATAAGTGCT
62 CAT-GTCTTACACTAGCTATC-TATAT-AGTGCT
* *
69551797 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAGTGCT-TA-GCTGATG-CATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACCA-T-CTCAACGCCGATGCCATGTCCCAGACA
* *
69551858 TGTCTTACACTGGCTATC-ATCATCGAG-GCC
64 TGTCTTACACTAGCTATCTAT-AT--AGTGCT
* * * * * *
69551888 GAGGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCAACGCCAATGCCATGTCTCAAACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC-CATCTCAACGCCGATGCCATGTCCCAGACAT
*
69551953 GTCTTACACTAGCGATC-ATAATA-TAGCT
65 GTCTTACACTAGCTATCTAT-ATAGT-GCT
* * * * * * *
69551981 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTTAATGCCGATGCCTTGTCCTAAACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC-CATCTCAACGCCGATGCCATGTCCCAGACAT
*
69552046 GGTCTTACATTAGCT
65 -GTCTTACACTAGCT
69552061 CTTACATAAC
Statistics
Matches: 217, Mismatches: 35, Indels: 29
0.77 0.12 0.10
Matches are distributed among these distances:
90 2 0.01
91 35 0.16
92 19 0.09
93 77 0.35
94 49 0.23
95 2 0.01
96 3 0.01
97 14 0.06
98 12 0.06
99 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACCATCTCAACGCCGATGCCATGTCCCAGACATG
TCTTACACTAGCTATCTATATAGTGCT
Found at i:69551913 original size:47 final size:47
Alignment explanation
Indices: 69551703--69552011 Score: 217
Period size: 47 Copynumber: 6.6 Consensus size: 47
69551693 TTACCGATGC
* * ** *
69551703 CATGTCCCAGACAAGGTCTTACACTGGCTATCATCATCGTGGCCGATGC
1 CATGTCCCAGAC-ATGTCTTACACTAGCTATCATCATCAAGGCCGA-GG
* * * *
69551752 CATGTCCCAGACATGGTCTTACAGTAGCTCTCGTAT-AT-AAGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATC--ATCATCAAG-GCCGAGG
* * *
69551801 CATGTCCCAGACATGTCTTACACTAGC-A-CAGTGC-T-TA-GCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCA-T-CATCAAGGCCGAGG
* *
69551845 CATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGAGG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCAAGGCCGAGG
* * * * *
69551892 CATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCAACGCCAATGC
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCAAGGCCGA-GG
* * * * * *
69551939 CATGTCTCAAACATGTCTTACACTAGCGATCATAAT-ATA-GCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCA-AGGCCGAGG
69551985 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
69552012 CCTCGTCTTA
Statistics
Matches: 213, Mismatches: 30, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
44 35 0.16
45 4 0.02
46 39 0.18
47 70 0.33
48 16 0.08
49 41 0.19
50 6 0.03
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCAAGGCCGAGG
Found at i:69551991 original size:140 final size:140
Alignment explanation
Indices: 69551698--69552059 Score: 385
Period size: 140 Copynumber: 2.6 Consensus size: 140
69551688 CTAAGTTACC
* * *
69551698 GATGCCATGTCCCAGACAAGGTCTTACACTGGCTATCATCATCGTGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGAC-ATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAA
* * * ** *
69551763 CATGGTCTTACAGTAGCTCTCGTATATAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGC
64 CATGGTCTTACACTAGCACTCG-ATATAAGCGCCAATGCATGTCCCAAACATGTCTTACACTAGC
**
69551828 ACAGTGCTTAGCT
128 ACAGTAATTAGCT
*
69551841 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGA-GGCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACA
* * *
69551905 T-GTCTTACACTGGCACTC-ATCTCAA-CGCCAATGCCATGTCTCAAACATGTCTTACACTAGCG
66 TGGTCTTACACTAGCACTCGATAT-AAGCGCCAATG-CATGTCCCAAACATGTCTTACACTAGC-
69551967 ATCA-TAATATAGCT
128 A-CAGTAAT-TAGCT
* ** * ** * * *
69551981 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TTAATGCCGATGCCTTGTCCTAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACA
*
69552045 TGGTCTTACATTAGC
66 TGGTCTTACACTAGC
69552060 TCTTACATAA
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
137 8 0.04
138 27 0.15
139 24 0.13
140 68 0.37
141 42 0.23
142 12 0.06
143 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (140 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCACTCGATATAAGCGCCAATGCATGTCCCAAACATGTCTTACACTAGCACA
GTAATTAGCT
Found at i:69558788 original size:20 final size:20
Alignment explanation
Indices: 69558763--69558802 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
69558753 TCAAAGGTAA
69558763 GCATAACTTGACTTACTCAT
1 GCATAACTTGACTTACTCAT
69558783 GCATAACTTGACTTACTCAT
1 GCATAACTTGACTTACTCAT
69558803 TACCATCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (20 bp):
GCATAACTTGACTTACTCAT
Found at i:69559062 original size:49 final size:49
Alignment explanation
Indices: 69558989--69559114 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
69558979 TTACTGATGC
* *
69558989 CATGTCCCAAACATGGTCTTACACTGGCAATCAT-TATAAAG-GCCGATT
1 CATGTCCCAAACATGGTCTTACACTAGCAATCATATAT-AAGTGCCGATA
* ** *
69559037 CTATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAGTGCTGATA
1 C-ATGTCCCAAACATGGTCTTACACTAGCAATCATATATAAGTGCCGATA
69559087 CATGTCCCAAACAT-GTCTTACACTAGCA
1 CATGTCCCAAACATGGTCTTACACTAGCA
69559115 CAGCGCTTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 14 0.21
49 44 0.66
50 9 0.13
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
CATGTCCCAAACATGGTCTTACACTAGCAATCATATATAAGTGCCGATA
Found at i:69559275 original size:94 final size:91
Alignment explanation
Indices: 69559039--69559343 Score: 287
Period size: 94 Copynumber: 3.3 Consensus size: 91
69559029 GGCCGATTCT
* * *
69559039 ATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAGT-GCTGATACATGTCCCAAACATGT
1 ATGTCCCAGACATGGTCTTACACT-GGTATCATA-AT--GTGGCTGATGCATGTCCCAAACATGT
* *
69559103 CTTACACTAGCAC-AGCGCTTAGTCGATG-C
62 CTTACACTAGCACTATCTC-TAGTCGATGCC
* * * * * * *
69559132 ATGTCCCAGACA-CGTCTTACATTGGCTATCATCATTGAGGCCGAGGCATGTCCCAGACATGTCT
1 ATGTCCCAGACATGGTCTTACACTGG-TATCAT-AATGTGGCTGATGCATGTCCCAAACATGTCT
* *
69559196 TTCACTGGCACTTATCTCTACG-CTGATGCC
64 TACACTAGCAC-TATCTCTA-GTC-GATGCC
*
69559226 ATGTCCCAGACATGGTCTTACACTGGTGATCATAATGTGGCTGATGCATGTCCGAAACATGTCTT
1 ATGTCCCAGACATGGTCTTACACTGGT-ATCATAATGTGGCTGATGCATGTCCCAAACATGTCTT
* * *
69559291 ACACTAGCCCTCGTCTCAATGTCGATGCC
65 ACACTAGCACT-ATCTCTA-GTCGATGCC
*
69559320 ATGTCCTAGACATGGTCTTACACT
1 ATGTCCCAGACATGGTCTTACACT
69559344 AGCTCTCACA
Statistics
Matches: 171, Mismatches: 29, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
90 1 0.01
91 31 0.18
92 18 0.11
93 22 0.13
94 82 0.48
95 17 0.10
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
ATGTCCCAGACATGGTCTTACACTGGTATCATAATGTGGCTGATGCATGTCCCAAACATGTCTTA
CACTAGCACTATCTCTAGTCGATGCC
Found at i:69559276 original size:47 final size:45
Alignment explanation
Indices: 69558982--69559295 Score: 143
Period size: 47 Copynumber: 6.7 Consensus size: 45
69558972 GGCTAAGTTA
* * * **
69558982 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCAATCATTATAAAGG
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGG-TATCATAAT-GTGG
* * * *
69559031 CCGATTCTATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAAGT-G
1 CTGATGC-ATGTCCCAGACAT-GTCTTACACT-GGTATCATA-AT--GTGG
* * * * *** *
69559081 CTGATACATGTCCCAAACATGTCTTACACTAGCA-CAGCGCT-TAG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGTATCA-TAATGTGG
* * * *
69559125 -TCGATGCATGTCCCAGACACGTCTTACATTGGCTATCATCATTGAGG
1 CT-GATGCATGTCCCAGACATGTCTTACACTGG-TATCAT-AATGTGG
* * * * * * * *
69559172 CCGAGGCATGTCCCAGACATGTCTTTCACTGGCA-CTTATCTCTACG
1 CTGATGCATGTCCCAGACATGTCTTACACTGGTATCATA-ATGT-GG
69559218 CTGATGCCATGTCCCAGACATGGTCTTACACTGGTGATCATAATGTGG
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGT-ATCATAATGTGG
* *
69559266 CTGATGCATGTCCGAAACATGTCTTACACT
1 CTGATGCATGTCCCAGACATGTCTTACACT
69559296 AGCCCTCGTC
Statistics
Matches: 196, Mismatches: 51, Indels: 39
0.69 0.18 0.14
Matches are distributed among these distances:
43 2 0.01
44 27 0.14
45 4 0.02
46 22 0.11
47 53 0.27
48 29 0.15
49 46 0.23
50 12 0.06
51 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGTATCATAATGTGG
Found at i:69565163 original size:47 final size:47
Alignment explanation
Indices: 69565091--69565221 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
69565081 CACAATCGAT
* *
69565091 AAATACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCCA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
* * * * *
69565138 GAGTACCTATACCATGCCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
* * *
69565185 AAATACCTATATCATGGCCCATTGCCAAATCAAGGTA
1 AAATACCTATACCATGACCCATAGCCAAATCAAGGTA
69565222 TTATTTGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (47 bp):
AAATACCTATACCATGACCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:69566812 original size:24 final size:25
Alignment explanation
Indices: 69566785--69566832 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69566775 TCATAACAAT
69566785 TAAGCA-TAGAAAC-TCATACATTAA
1 TAAGCATTA-AAACATCATACATTAA
*
69566809 TAAGCATTAAAACATGATACATTA
1 TAAGCATTAAAACATCATACATTA
69566833 TTACATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (25 bp):
TAAGCATTAAAACATCATACATTAA
Found at i:69569986 original size:57 final size:57
Alignment explanation
Indices: 69569858--69570011 Score: 154
Period size: 57 Copynumber: 2.7 Consensus size: 57
69569848 ATTGACCTCA
* * *
69569858 TTACAAA-AAGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCTTCTTGAGCATAT
1 TTACAAACAA-GATTTAGCCTGGACAGGTAATCCTGATATAAACCTTCATGAGCATAT
* * * *
69569915 TTACAGATAGGATTTAGCCTGGACGGGTAATCCTGAT-TAAACTCTT-ATGAGCATAT
1 TTACAAACAAGATTTAGCCTGGACAGGTAATCCTGATATAAAC-CTTCATGAGCATAT
* * *
69569971 GTTGA-AAACAAGATTTAGCTTGGACAAGTAATCCTGTTATA
1 -TT-ACAAACAAGATTTAGCCTGGACAGGTAATCCTGATATA
69570012 TGATATGTGG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
56 13 0.16
57 63 0.79
58 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (57 bp):
TTACAAACAAGATTTAGCCTGGACAGGTAATCCTGATATAAACCTTCATGAGCATAT
Done.