Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2564052
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 12
Found at i:1911611 original size:45 final size:45
Alignment explanation
Indices: 1911544--1911647 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
1911534 GACTAGATGT
* * *
1911544 ATAACAATATATAATGGTGTATAAAAGGCATGAAAAGATGACATAA
1 ATAA-AATGTATAACGGCGTATAAAAGGCATGAAAAGATGACATAA
* * *
1911590 ATGAAATGTATAACGGCGTATAAAAGGCATGAAATGATGCCATAA
1 ATAAAATGTATAACGGCGTATAAAAGGCATGAAAAGATGACATAA
1911635 ATAAAATGTATAA
1 ATAAAATGTATAA
1911648 TAGTATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 48 0.94
46 3 0.06
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (45 bp):
ATAAAATGTATAACGGCGTATAAAAGGCATGAAAAGATGACATAA
Found at i:1914775 original size:18 final size:18
Alignment explanation
Indices: 1914752--1914799 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
1914742 TTTAGTTTTT
1914752 TAGAAGCCTTAAGCATGA
1 TAGAAGCCTTAAGCATGA
1914770 TAGAAGCCTTAAGCATGA
1 TAGAAGCCTTAAGCATGA
1914788 TAGAAG-CTTAAG
1 TAGAAGCCTTAAG
1914800 GAAGGATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (18 bp):
TAGAAGCCTTAAGCATGA
Found at i:1915345 original size:34 final size:35
Alignment explanation
Indices: 1915285--1915368 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 35
1915275 CATGGTAAGA
1915285 GTATCGATACCAGGAAATCATCGAATCTAAAATTG
1 GTATCGATACCAGGAAATCATCGAATCTAAAATTG
*
1915320 GTATCGATACCAGG-ACTCATCGAATCTAAAATTG
1 GTATCGATACCAGGAAATCATCGAATCTAAAATTG
1915354 GTATCGATACC-GGAA
1 GTATCGATACCAGGAA
1915369 GGGGTATCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 2 0.04
34 31 0.66
35 14 0.30
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (35 bp):
GTATCGATACCAGGAAATCATCGAATCTAAAATTG
Found at i:1915409 original size:17 final size:18
Alignment explanation
Indices: 1915387--1915425 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
1915377 GATACCATAG
1915387 CATGGTAA-TATCGATAC
1 CATGGTAAGTATCGATAC
1915404 CATGGTAAGGGTATCGATAC
1 CATGGTAA--GTATCGATAC
1915424 CA
1 CA
1915426 GGAAACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
20 11 0.58
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
CATGGTAAGTATCGATAC
Found at i:1915970 original size:59 final size:58
Alignment explanation
Indices: 1915856--1916051 Score: 252
Period size: 59 Copynumber: 3.3 Consensus size: 58
1915846 AGTGTATAAA
* * *
1915856 GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCATTTCATGCGCTAAAAT
1 GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACATTT-GTGTGCTAAAAT
* *
1915915 GTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGACACTTTGTGTGCT-AAAT
1 GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACA-TTTGTGTGCTAAAAT
* * * *
1915973 GATAAGAAATTCATACTAAGTTTATGAATTTCCGTATAGGAAATATATGTGT-ATAAAAT
1 GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACAT-T-TGTGTGCTAAAAT
*
1916032 GTTAAGAAATTCATAATAAG
1 GTTAAGAAATTCATACTAAG
1916052 GAAATGGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 44 0.37
59 72 0.60
60 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (58 bp):
GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGACATTTGTGTGCTAAAAT
Found at i:1916450 original size:68 final size:68
Alignment explanation
Indices: 1916365--1916495 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
1916355 TAAAGGCCTG
* * * *
1916365 ACTGTTCATTTGACAGAAAAGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAAGTGTCAATTATGCCAATTAAATGAAAGGCTAAGTACCGTTGAGGC
1916430 ATA
66 ATA
* * * *
1916433 ACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTTGAG
1 ACTGTGCATTTGACAGAAAAGTGTCAATTATGCCAATTAAATGAAAGGCTAAGTACCGTTGAG
1916496 TAAAAGAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
ACTGTGCATTTGACAGAAAAGTGTCAATTATGCCAATTAAATGAAAGGCTAAGTACCGTTGAGGC
ATA
Found at i:1916644 original size:149 final size:149
Alignment explanation
Indices: 1916371--1916844 Score: 620
Period size: 149 Copynumber: 3.3 Consensus size: 149
1916361 CCTGACTGTT
* * * * *
1916371 CATTTGACAGAAAAGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAACT
1 CATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
* *
1916436 GTGC-ATTTGACAGAAATGTGTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTTGAGTAAA
66 GT-CTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
1916500 AGAATAATAGCCTAGATGTG
130 AGAATAATAGCCTAGATGTG
* * *
1916520 CATTTGACATAAATGTATTAATCATGACAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
1 CATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
* * *
1916585 GTCTATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCC-TT---T----
66 GTCTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAA
* * *
1916641 ---TGA-GGCCTA-ACTATG
131 GAATAATAGCCTAGA-TGTG
* *
1916656 CATTTGACAGAAAGGTGTCAA-CTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
1 CATTTGACAGAAATGTATCAATC-ATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
* *
1916720 TGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAGCGGTTAAGTACCGTTGAGTAAA
65 TGTCTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
*
1916785 AGAATAATAGCCTAGCTGTG
130 AGAATAATAGCCTAGATGTG
1916805 CATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAA
1 CATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAA
1916845 TGTTAAATGC
Statistics
Matches: 275, Mismatches: 32, Indels: 36
0.80 0.09 0.10
Matches are distributed among these distances:
135 2 0.01
136 94 0.34
137 22 0.08
138 2 0.01
141 1 0.00
144 1 0.00
147 2 0.01
148 23 0.08
149 127 0.46
150 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (149 bp):
CATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
GTCTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAA
GAATAATAGCCTAGATGTG
Found at i:1916780 original size:68 final size:68
Alignment explanation
Indices: 1916547--1916761 Score: 378
Period size: 68 Copynumber: 3.2 Consensus size: 68
1916537 TTAATCATGA
*
1916547 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTCTATTTGACAGAAAGGTGTCAATTA
1 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATTA
1916612 TG-
66 TGC
* * *
1916614 CAGTTAGATGAAAGGCTAAGTGCCTTTTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAACT
1 CAGTTAGATGAAAGGCTAAGTGCC-TTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATT
1916679 ATGC
65 ATGC
1916683 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATTA
1 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATTA
1916748 TGC
66 TGC
1916751 CAGTTAGATGA
1 CAGTTAGATGA
1916762 GCGGTTAAGT
Statistics
Matches: 139, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
67 24 0.17
68 91 0.65
69 24 0.17
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (68 bp):
CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGTATTTGACAGAAAGGTGTCAATTA
TGC
Found at i:1916850 original size:81 final size:80
Alignment explanation
Indices: 1916713--1916867 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 80
1916703 TGCCTTTGAG
* * * ** *
1916713 GCCTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAGCGGTTAAGTACCGTT
1 GCCTAACTGTGCATTTGACAGAAAGGTATCAATCATGCCAGTTAGATGAAAGGTTAAAT-CCGTT
1916778 GAGTAAAAGAATAATA
65 GAGTAAAAGAATAATA
* * * * *
1916794 GCCTAGCTGTGCATTTGACAGAAATGTATCAATCATGCCAGTTAGATGAAATGTTAAATGCTTTG
1 GCCTAACTGTGCATTTGACAGAAAGGTATCAATCATGCCAGTTAGATGAAAGGTTAAATCCGTTG
1916859 AGTAAAAGA
66 AGTAAAAGA
1916868 CTAGATGTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 13 0.21
81 50 0.79
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (80 bp):
GCCTAACTGTGCATTTGACAGAAAGGTATCAATCATGCCAGTTAGATGAAAGGTTAAATCCGTTG
AGTAAAAGAATAATA
Found at i:1916935 original size:45 final size:45
Alignment explanation
Indices: 1916885--1917020 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
1916875 TATAACAATG
* *
1916885 TATAATGGTGTATAAAAGGCATGAAAAGATGTCATAAATGAAATT
1 TATAATGGTATATAAAAGGCATGAAAAGATGCCATAAATGAAATT
* * * *
1916930 TATAATGGCATATAAAAGACAT-AAAATGATGCCATAAATAAAATG
1 TATAATGGTATATAAAAGGCATGAAAA-GATGCCATAAATGAAATT
* ** *
1916975 TATAATAGTATATAAAAAGGCATGAACGGTTGCCATAAATGAAATT
1 TATAATGGTATAT-AAAAGGCATGAAAAGATGCCATAAATGAAATT
1917021 GCATAATGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.05
45 45 0.61
46 23 0.31
47 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (45 bp):
TATAATGGTATATAAAAGGCATGAAAAGATGCCATAAATGAAATT
Found at i:1917012 original size:46 final size:45
Alignment explanation
Indices: 1916876--1917028 Score: 155
Period size: 45 Copynumber: 3.3 Consensus size: 45
1916866 GACTAGATGT
* *
1916876 ATAACAATGTATAATGGTGTATAAAAGGCATGAAAAGATGTCATAA
1 ATAA-AATGTATAATGGTATATAAAAGGCATGAAAAGATGCCATAA
* * * *
1916922 ATGAAATTTATAATGGCATATAAAAGACAT-AAAATGATGCCATAA
1 ATAAAATGTATAATGGTATATAAAAGGCATGAAAA-GATGCCATAA
* ** *
1916967 ATAAAATGTATAATAGTATATAAAAAGGCATGAACGGTTGCCATAA
1 ATAAAATGTATAATGGTATAT-AAAAGGCATGAAAAGATGCCATAA
* *
1917013 ATGAAATTGCATAATG
1 AT-AAAATGTATAATG
1917029 ATGCATTATA
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
44 4 0.05
45 48 0.56
46 22 0.26
47 12 0.14
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (45 bp):
ATAAAATGTATAATGGTATATAAAAGGCATGAAAAGATGCCATAA
Found at i:1920076 original size:94 final size:94
Alignment explanation
Indices: 1919966--1920173 Score: 267
Period size: 94 Copynumber: 2.2 Consensus size: 94
1919956 TACCGAAGAG
*
1919966 GTAGTATCGGTACCATGGT-AAGACTATCGATACCAGG-AATCATCAAATCTAAAATTGGTATCG
1 GTAGTATCGGTACCATGGTAAAG-CTATCGATACCAGGCAA-CATCAAACCTAAAATTGGTATCG
*** * * *
1920029 ATACCTGAAGTGGTATTGGTACCATAGCATA
64 ATACAAAAAGGGGTATCGATACCATAGCATA
* * * *
1920060 GTAGTATCGATACCATGGTAAAGGTATCGATACCAGGCAACATCGAACCTAAAATTTGTATCGAT
1 GTAGTATCGGTACCATGGTAAAGCTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGAT
1920125 ACAAAAAGGGGTATCGATACCATAGCATA
66 ACAAAAAGGGGTATCGATACCATAGCATA
* *
1920154 GAAATATCGGTACCATGGTA
1 GTAGTATCGGTACCATGGTA
1920174 GTAGTATCGT
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
94 93 0.95
95 5 0.05
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (94 bp):
GTAGTATCGGTACCATGGTAAAGCTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGAT
ACAAAAAGGGGTATCGATACCATAGCATA
Found at i:1920655 original size:52 final size:56
Alignment explanation
Indices: 1920524--1920659 Score: 212
Period size: 56 Copynumber: 2.5 Consensus size: 56
1920514 AGCGTGCAAA
1920524 GTTAAGAAATTCATACTAAGTTTATGAATTTCGTATGGGCACTTATGTGGCTAAAAT
1 GTTAAGAAATTCATACTAAGTTTATGAATTTCGTATGGG-ACTTATGTGGCTAAAAT
1920581 GTTAAG-AATTCATACTAAGTTTATGAATTTCGTATGGG-CTT-TGT-G-TATAAAT
1 GTTAAGAAATTCATACTAAGTTTATGAATTTCGTATGGGACTTATGTGGCTA-AAAT
1920633 G-TAAGAAATTCATACTAAGTTTATGAA
1 GTTAAGAAATTCATACTAAGTTTATGAA
1920660 ACTATGCAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
51 6 0.08
52 27 0.35
53 3 0.04
54 3 0.04
56 32 0.42
57 6 0.08
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (56 bp):
GTTAAGAAATTCATACTAAGTTTATGAATTTCGTATGGGACTTATGTGGCTAAAAT
Found at i:1921020 original size:68 final size:68
Alignment explanation
Indices: 1920940--1921068 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
1920930 AAAAGATTAA
* *
1920940 AGGCCTAACTGTGTATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
1921005 TTG
66 TTG
* * * *
1921008 AGGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGACAGTTAGATGAACGGTTAAGT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGT
1921069 ACCATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1921430 original size:68 final size:68
Alignment explanation
Indices: 1921097--1921411 Score: 450
Period size: 68 Copynumber: 4.6 Consensus size: 68
1921087 AATAGTCTAG
* ** *
1921097 CTGTGCATTTGACAGAAAGGTGTCAATCATGTTAATTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
*
1921162 TAG
66 TAA
* * * * * *
1921165 TTGTACATTTGATAGAAAGGTGTCAATCATGTCAGTTAGATGAAAAGCTAAGTGCCTTTGAGGCC
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1921230 TAA
66 TAA
* *
1921233 CTATGCATTTGACAGAAAGGTGTCAATTATCCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1921298 TAA
66 TAA
* * * *
1921301 CTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTATATGAAAGGCTAAGTGTCTTTGAGGTC
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1921366 TAA
66 TAA
* * *
1921369 CTGTGTATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGA
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
1921412 GCGGTTAAGT
Statistics
Matches: 221, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 221 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
TAA
Found at i:1921581 original size:45 final size:45
Alignment explanation
Indices: 1921526--1921649 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 45
1921516 GACTAGATGT
1921526 ATAATAATGTATAATGGTGTATAAAAGGCATGAAAAGATGTCATAA
1 ATAA-AATGTATAATGGTGTATAAAAGGCATGAAAAGATGTCATAA
* * * * *
1921572 ATGAAATGTATAACGGTGTATAAAATGCATGAAATGATGTTATAA
1 ATAAAATGTATAATGGTGTATAAAAGGCATGAAAAGATGTCATAA
* *
1921617 ATAAAATGTATAATAGTATATAAAAAGGCATGA
1 ATAAAATGTATAATGGTGTAT-AAAAGGCATGA
1921650 TCGGTTTCCA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
45 54 0.81
46 13 0.19
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (45 bp):
ATAAAATGTATAATGGTGTATAAAAGGCATGAAAAGATGTCATAA
Found at i:1923303 original size:40 final size:40
Alignment explanation
Indices: 1923255--1923342 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
1923245 AGAATTTTGA
1923255 GAAGGGGGAGTGATTTTGAGGGAAATAAGAAAATGAGATG
1 GAAGGGGGAGTGATTTTGAGGGAAATAAGAAAATGAGATG
*
1923295 GAAGGGGGAGTGATTTTGAGGGAAATGAGAAAATGAGATG
1 GAAGGGGGAGTGATTTTGAGGGAAATAAGAAAATGAGATG
*
1923335 AAAGGGGG
1 GAAGGGGG
1923343 GGTTTGCACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.43, T:0.18
Consensus pattern (40 bp):
GAAGGGGGAGTGATTTTGAGGGAAATAAGAAAATGAGATG
Found at i:1927183 original size:36 final size:36
Alignment explanation
Indices: 1927142--1927217 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1927132 ATTTTCGGGA
*
1927142 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1927178 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1927214 TTTT
1 TTTT
1927218 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:1933345 original size:20 final size:19
Alignment explanation
Indices: 1933320--1933358 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1933310 CTTAAATTAC
1933320 AAAAACTCCAAATCCCTAAA
1 AAAAACT-CAAATCCCTAAA
*
1933340 AAAAACTTAAATCCCTAAA
1 AAAAACTCAAATCCCTAAA
1933359 TCTAACCCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAACTCAAATCCCTAAA
Found at i:1938554 original size:31 final size:31
Alignment explanation
Indices: 1938485--1938546 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1938475 CGGGGTGACT
*
1938485 ACATCTAAATTAAATAAAAACGAAAGTGATC
1 ACATCTTAATTAAATAAAAACGAAAGTGATC
1938516 ACATCTTAATTAAATAAAAACGAAAGTGATC
1 ACATCTTAATTAAATAAAAACGAAAGTGATC
1938547 GTATCTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (31 bp):
ACATCTTAATTAAATAAAAACGAAAGTGATC
Found at i:1944116 original size:46 final size:46
Alignment explanation
Indices: 1944066--1944166 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
1944056 AAATATATTT
* *
1944066 ATAATATTATGAAAATATTTTAAA-AATATTTATTTATTT-TTTTAAA
1 ATAATATTATGAAAATATTTGAAATAATA-TTAATTATTTATTTT-AA
** **
1944112 ATAATATTATTTATTTATTTGAAATAATATTAATTATTTATTTTAA
1 ATAATATTATGAAAATATTTGAAATAATATTAATTATTTATTTTAA
1944158 ATAATATTA
1 ATAATATTA
1944167 CTTTTAGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 39 0.83
47 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (46 bp):
ATAATATTATGAAAATATTTGAAATAATATTAATTATTTATTTTAA
Found at i:1944125 original size:23 final size:22
Alignment explanation
Indices: 1944083--1944166 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 22
1944073 TATGAAAATA
1944083 TTTTAAA-AATATTTATTTATTT
1 TTTTAAATAATA-TTATTTATTT
1944105 TTTTAAAATAATATTATTTATTT
1 TTTT-AAATAATATTATTTATTT
* *
1944128 ATTTGAAATAATATTAATTATTT
1 -TTTTAAATAATATTATTTATTT
1944151 ATTTTAAATAATATTA
1 -TTTTAAATAATATTA
1944167 CTTTTAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
22 4 0.07
23 45 0.80
24 7 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TTTTAAATAATATTATTTATTT
Found at i:1944322 original size:24 final size:23
Alignment explanation
Indices: 1944284--1944332 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
1944274 AGATAATTTA
1944284 AAAATAATATTATTTCAAATAAAT
1 AAAATAATATTATTTCAAA-AAAT
*
1944308 AAAATAAT-TTGATTTTAAAAAAT
1 AAAATAATATT-ATTTCAAAAAAT
1944331 AA
1 AA
1944333 CTATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAATAATATTATTTCAAAAAAT
Found at i:1945958 original size:2 final size:2
Alignment explanation
Indices: 1945951--1945981 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1945941 AATTATTAGT
1945951 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1945982 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1947177 original size:10 final size:10
Alignment explanation
Indices: 1947158--1947197 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1947148 CATTTAAATG
1947158 ATAAACGAAC
1 ATAAACGAAC
*
1947168 ATAAATGAAC
1 ATAAACGAAC
*
1947178 GTAAACGAAC
1 ATAAACGAAC
*
1947188 ACAAACGAAC
1 ATAAACGAAC
1947198 GAACATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1947184 original size:20 final size:20
Alignment explanation
Indices: 1947159--1947198 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1947149 ATTTAAATGA
* *
1947159 TAAACGAACATAAATGAACG
1 TAAACGAACACAAACGAACG
1947179 TAAACGAACACAAACGAACG
1 TAAACGAACACAAACGAACG
1947199 AACATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.20, G:0.15, T:0.10
Consensus pattern (20 bp):
TAAACGAACACAAACGAACG
Found at i:1947563 original size:24 final size:24
Alignment explanation
Indices: 1947534--1947587 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1947524 TCGAACGTTC
* *
1947534 ACAAACGTAAATGAACGAACATAA
1 ACAAACATAAATCAACGAACATAA
* *
1947558 ATAAACATAAATCAACGAATATAA
1 ACAAACATAAATCAACGAACATAA
1947582 ACAAAC
1 ACAAAC
1947588 TTTCCGCCGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.17, G:0.07, T:0.15
Consensus pattern (24 bp):
ACAAACATAAATCAACGAACATAA
Found at i:1948767 original size:5 final size:5
Alignment explanation
Indices: 1948757--1948783 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1948747 AATTAATAAA
1948757 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1948784 GCAGTCCTTT
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:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1959758 original size:27 final size:27
Alignment explanation
Indices: 1959728--1959780 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1959718 AATAGTAACA
*
1959728 AACTTTATAAAAATTGCAATAAAACCC
1 AACTTTATAAAAATTACAATAAAACCC
* *
1959755 AACTTTTTATAAATTACAATAAAACC
1 AACTTTATAAAAATTACAATAAAACC
1959781 TAAAGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (27 bp):
AACTTTATAAAAATTACAATAAAACCC
Found at i:1959789 original size:27 final size:27
Alignment explanation
Indices: 1959726--1960032 Score: 147
Period size: 29 Copynumber: 10.8 Consensus size: 27
1959716 GCAATAGTAA
* *
1959726 CAAACTTTATAAAAATTGCAATAAAACC
1 CAAACTTT-TATAAATTACAATAAAACC
1959754 C-AACTTTTTATAAATTACAATAAAACC
1 CAAAC-TTTTATAAATTACAATAAAACC
* * * *
1959781 TAAAGTTTTCATAAATTATATTAATAACC
1 CAAACTTTT-ATAAATTACAATAA-AACC
* * * *
1959810 CAAACTTTTTATAAATCATAATAAATGCT
1 CAAAC-TTTTATAAATTACAATAAA-ACC
* *
1959839 CAAACTTTCAATAAATTACAATAATA-C
1 CAAACTTT-TATAAATTACAATAAAACC
* * *
1959866 CAAACTTTTTTAAAAAATTATAAT-AAAGC
1 CAAAC--TTTT-ATAAATTACAATAAAACC
*
1959895 CAAACTTTTTTTACAAATTACAATAAAAACC
1 CAAAC---TTTTATAAATTACAAT-AAAACC
* * *
1959926 CAAACTTTTTACAAATTA-AACAGCAACC
1 CAAAC-TTTTATAAATTACAATA-AAACC
* *
1959954 CAAACTTTTTATAAATTATAATAAAGA-T
1 CAAAC-TTTTATAAATTACAATAAA-ACC
** ** *
1959982 CAAACTTTTCCAAATTATGATAACAAAC
1 CAAACTTTTATAAATTACAATAA-AACC
* *
1960010 CAAACATTTTACAAATTATAATA
1 CAAAC-TTTTATAAATTACAATA
1960033 TCAGCCCATT
Statistics
Matches: 222, Mismatches: 37, Indels: 39
0.74 0.12 0.13
Matches are distributed among these distances:
27 46 0.21
28 59 0.27
29 98 0.44
30 10 0.05
31 9 0.04
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (27 bp):
CAAACTTTTATAAATTACAATAAAACC
Found at i:1959818 original size:29 final size:28
Alignment explanation
Indices: 1959726--1959978 Score: 199
Period size: 29 Copynumber: 8.9 Consensus size: 28
1959716 GCAATAGTAA
* * *
1959726 CAAACTTTATAAAAATTGCAATAAAACC
1 CAAACTTTTTATAAATTACAATAAAACC
1959754 C-AACTTTTTATAAATTACAATAAAACC
1 CAAACTTTTTATAAATTACAATAAAACC
* * * * *
1959781 TAAAGTTTTCATAAATTATATTAATAACC
1 CAAACTTTTTATAAATTACAATAA-AACC
* * * *
1959810 CAAACTTTTTATAAATCATAATAAATGCT
1 CAAACTTTTTATAAATTACAATAAA-ACC
** *
1959839 CAAACTTTCAATAAATTACAATAATA-C
1 CAAACTTTTTATAAATTACAATAAAACC
* * *
1959866 CAAACTTTTTTAAAAAATTATAAT-AAAGC
1 CAAAC-TTTTT-ATAAATTACAATAAAACC
*
1959895 CAAACTTTTTTTACAAATTACAATAAAAACC
1 CAAAC--TTTTTATAAATTACAAT-AAAACC
* * *
1959926 CAAACTTTTTACAAATTA-AACAGCAACC
1 CAAACTTTTTATAAATTACAATA-AAACC
*
1959954 CAAACTTTTTATAAATTATAATAAA
1 CAAACTTTTTATAAATTACAATAAA
1959979 GATCAAACTT
Statistics
Matches: 179, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
27 29 0.16
28 49 0.27
29 86 0.48
30 6 0.03
31 9 0.05
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (28 bp):
CAAACTTTTTATAAATTACAATAAAACC
Found at i:1959954 original size:28 final size:29
Alignment explanation
Indices: 1959902--1960027 Score: 98
Period size: 28 Copynumber: 4.4 Consensus size: 29
1959892 AGCCAAACTT
*
1959902 TTTTTACAAATTACAATAAAAACCCAAAC
1 TTTTTACAAATTACAACAAAAACCCAAAC
**
1959931 TTTTTACAAATTA-AACAGCAACCCAAAC
1 TTTTTACAAATTACAACAAAAACCCAAAC
* * * * *
1959959 TTTTTATAAATTATAATAAAGA-TCAAAC
1 TTTTTACAAATTACAACAAAAACCCAAAC
* ** *
1959987 -TTTTCCAAATTATGATAACAAA-CCAAAC
1 TTTTTACAAATTACAACAA-AAACCCAAAC
*
1960015 ATTTTACAAATTA
1 TTTTTACAAATTA
1960028 TAATATCAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
27 15 0.19
28 36 0.46
29 28 0.35
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.32
Consensus pattern (29 bp):
TTTTTACAAATTACAACAAAAACCCAAAC
Found at i:1960569 original size:13 final size:13
Alignment explanation
Indices: 1960551--1960576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1960541 ATAACAAAAG
1960551 AAATGAAAGGAGA
1 AAATGAAAGGAGA
1960564 AAATGAAAGGAGA
1 AAATGAAAGGAGA
1960577 TATGAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (13 bp):
AAATGAAAGGAGA
Found at i:1961654 original size:19 final size:19
Alignment explanation
Indices: 1961588--1961680 Score: 97
Period size: 19 Copynumber: 5.1 Consensus size: 19
1961578 TCTTTTGGTT
1961588 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
1961607 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1961625 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1961641 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
1961660 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1961679 GA
1 GA
1961681 TTTTTGTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 2 0.03
17 1 0.02
18 2 0.03
19 32 0.52
20 14 0.23
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1961712 original size:19 final size:19
Alignment explanation
Indices: 1961676--1961742 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1961666 AAAATCGCAA
*
1961676 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
1961695 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
1961714 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
1961734 TGCGATTTT
1 TGCGATTTT
1961743 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1962307 original size:21 final size:22
Alignment explanation
Indices: 1962276--1962335 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 22
1962266 TGCGAAAGTC
*
1962276 AGTATCTCATTGCGATTTTGT-
1 AGTATCGCATTGCGATTTTGTA
* *
1962297 ATTATCGCATTGCGA--TAGTA
1 AGTATCGCATTGCGATTTTGTA
1962317 AGTATCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
1962336 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 13 0.42
22 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (22 bp):
AGTATCGCATTGCGATTTTGTA
Found at i:1962324 original size:20 final size:19
Alignment explanation
Indices: 1962259--1962332 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
1962249 CGCTATGTAA
* *
1962259 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* * *
1962279 ATCTCATTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
1962300 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
1962320 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1962333 TTTCCCAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.58
21 13 0.30
22 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:1962351 original size:41 final size:41
Alignment explanation
Indices: 1962259--1962353 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
1962249 CGCTATGTAA
* * * ** *
1962259 ATCGCGTTGCGAAAGTCAGTATCTCATTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
1962300 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
1962342 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
1962354 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:1962638 original size:28 final size:28
Alignment explanation
Indices: 1962569--1962632 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
1962559 TTATTTTCTC
* * *
1962569 TTATAATAA-AGATCAAACTTTTCCAAA
1 TTATAATAACAAACCAAACTTTTACAAA
*
1962596 TTATGATAACAAACCAAACATTTTACAAA
1 TTATAATAACAAACCAAAC-TTTTACAAA
1962625 TTATAATA
1 TTATAATA
1962633 TCAACCCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 8 0.27
28 7 0.23
29 15 0.50
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (28 bp):
TTATAATAACAAACCAAACTTTTACAAA
Found at i:1963181 original size:13 final size:13
Alignment explanation
Indices: 1963163--1963188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1963153 AGAAGAAAAG
1963163 AAATGAAAGGAGA
1 AAATGAAAGGAGA
1963176 AAATGAAAGGAGA
1 AAATGAAAGGAGA
1963189 TATGAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (13 bp):
AAATGAAAGGAGA
Found at i:1963819 original size:31 final size:29
Alignment explanation
Indices: 1963760--1963826 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
1963750 TTTGACCCTA
* *
1963760 AATAAAATATTGATTTAATCCTTGAATCTT
1 AATAAAATATTAATTTAATCCTTCAATC-T
*
1963790 AGATAAAATGTTAATTTAA-CCTTTCAATCT
1 A-ATAAAATATTAATTTAATCC-TTCAATCT
1963820 AATAAAA
1 AATAAAA
1963827 AATCATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 6 0.19
30 5 0.16
31 21 0.66
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (29 bp):
AATAAAATATTAATTTAATCCTTCAATCT
Found at i:1968956 original size:24 final size:24
Alignment explanation
Indices: 1968899--1968956 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1968889 TACTTGTTAG
*
1968899 TCATCATGAACATCACCATACACA
1 TCATCCTGAACATCACCATACACA
* * *
1968923 TCA-CCTTGAACGTCACCGTGCACA
1 TCATCC-TGAACATCACCATACACA
1968947 TCATCCTGAA
1 TCATCCTGAA
1968957 TATGATCTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.33, C:0.34, G:0.10, T:0.22
Consensus pattern (24 bp):
TCATCCTGAACATCACCATACACA
Found at i:1972889 original size:11 final size:11
Alignment explanation
Indices: 1972873--1972911 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1972863 GGTGTTATAT
1972873 AAGCTTAAAGA
1 AAGCTTAAAGA
* *
1972884 AAGCTTATA-T
1 AAGCTTAAAGA
1972894 AAGCTTAAAGA
1 AAGCTTAAAGA
1972905 AAGCTTA
1 AAGCTTA
1972912 TATAAGCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (11 bp):
AAGCTTAAAGA
Found at i:1972893 original size:21 final size:21
Alignment explanation
Indices: 1972867--1972923 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
1972857 TAATTAGGTG
1972867 TTATATAAGCTTAAAGAAAGC
1 TTATATAAGCTTAAAGAAAGC
1972888 TTATATAAGCTTAAAGAAAGC
1 TTATATAAGCTTAAAGAAAGC
1972909 TTATATAAGCTTAAA
1 TTATATAAGCTTAAA
1972924 ACACCAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (21 bp):
TTATATAAGCTTAAAGAAAGC
Found at i:1972899 original size:10 final size:10
Alignment explanation
Indices: 1972867--1972921 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
1972857 TAATTAGGTG
1972867 TTATATAAGC
1 TTATATAAGC
* *
1972877 TTAAAGAAAGC
1 TTATA-TAAGC
1972888 TTATATAAGC
1 TTATATAAGC
* *
1972898 TTAAAGAAAGC
1 TTATA-TAAGC
1972909 TTATATAAGC
1 TTATATAAGC
1972919 TTA
1 TTA
1972922 AAACACCAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 19 0.54
11 16 0.46
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (10 bp):
TTATATAAGC
Found at i:1974354 original size:18 final size:18
Alignment explanation
Indices: 1974267--1974346 Score: 124
Period size: 18 Copynumber: 4.4 Consensus size: 18
1974257 GAGGGTCTAC
* *
1974267 GTGGTCCTTTAGGACACA
1 GTGGTCCTTCAGGACATA
*
1974285 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCAGGACATA
*
1974303 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCAGGACATA
1974321 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCAGGACATA
1974339 GTGGTCCT
1 GTGGTCCT
1974347 ATAGGACAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCAGGACATA
Found at i:1975708 original size:2 final size:2
Alignment explanation
Indices: 1975701--1975758 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1975691 TATTAAAATA
1975701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1975743 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1975759 TTGGTTGATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1983842 original size:20 final size:20
Alignment explanation
Indices: 1983813--1983857 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1983803 CAGACTTTGT
*
1983813 AACTACACATTAACAACCTC
1 AACTAAACATTAACAACCTC
*
1983833 AACTAAACATTAACAACCTT
1 AACTAAACATTAACAACCTC
1983853 AACTA
1 AACTA
1983858 CTAGAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (20 bp):
AACTAAACATTAACAACCTC
Found at i:1984170 original size:72 final size:72
Alignment explanation
Indices: 1984053--1984203 Score: 275
Period size: 72 Copynumber: 2.1 Consensus size: 72
1984043 AGATAAACAA
*
1984053 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCTTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1984118 GTTCTTC
66 GTTCTTC
* *
1984125 TTGAATCGAAAGTGTCGATGCTTTCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1984190 GTTCTTC
66 GTTCTTC
1984197 TTGAATC
1 TTGAATC
1984204 ACCTTTATTT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (72 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTTCTTC
Found at i:1984203 original size:36 final size:36
Alignment explanation
Indices: 1984053--1984193 Score: 212
Period size: 36 Copynumber: 3.9 Consensus size: 36
1984043 AGATAAACAA
1984053 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
* * * *
1984089 TTGAATCGAAAGTGCCGATGCTTCTTTTCGTTC-TT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
*
1984124 CTTGAATCGAAAGTGTCGATGCTTTCTTCCGTTCACT
1 -TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
*
1984161 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC
1984194 TTCTTGAATC
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.01
36 90 0.98
37 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (36 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
Found at i:1985564 original size:20 final size:20
Alignment explanation
Indices: 1985535--1985578 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1985525 CAGACTTTGT
*
1985535 AACTACACATTAACAACCTC
1 AACTAAACATTAACAACCTC
*
1985555 AACTAAACATTAACAACCTT
1 AACTAAACATTAACAACCTC
1985575 AACT
1 AACT
1985579 GCTAGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
AACTAAACATTAACAACCTC
Found at i:1989873 original size:6 final size:6
Alignment explanation
Indices: 1989859--1989891 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1989849 AATAAAACTT
1989859 AAAAT- AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
1989892 CTTGAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:1989873 original size:18 final size:19
Alignment explanation
Indices: 1989847--1989899 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
1989837 AGCGTGTTTA
1989847 AAAAT-AAAACTTAAAAT-
1 AAAATGAAAACTTAAAATG
*
1989864 AAAATGAAAA-TGAAAATG
1 AAAATGAAAACTTAAAATG
1989882 AAAATGAAAACTTGAAAA
1 AAAATGAAAACTT-AAAA
1989900 GATAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.37
18 14 0.47
19 1 0.03
20 4 0.13
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (19 bp):
AAAATGAAAACTTAAAATG
Found at i:1996082 original size:31 final size:31
Alignment explanation
Indices: 1996044--1996111 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
1996034 TTAACGTTAT
* *
1996044 AGTGACCACATCTTAATTAAAATGAAACGAA
1 AGTGACCACATCTTAATAAAAACGAAACGAA
1996075 AGTGACCACATCTTAATAAAAACGAAACGAA
1 AGTGACCACATCTTAATAAAAACGAAACGAA
1996106 AGTGAC
1 AGTGAC
1996112 TATGAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (31 bp):
AGTGACCACATCTTAATAAAAACGAAACGAA
Found at i:2000339 original size:21 final size:19
Alignment explanation
Indices: 2000296--2000341 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
2000286 ACTGTCGTTA
**
2000296 TTTTTTATTGTATTTTTCT
1 TTTTTTATTGTATTTTTAG
2000315 TTTTTTATATCGTATTTTTAG
1 TTTTTTAT-T-GTATTTTTAG
2000336 TTTTTT
1 TTTTTT
2000342 CTATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 14 0.61
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTTTATTGTATTTTTAG
Found at i:2003704 original size:134 final size:134
Alignment explanation
Indices: 2003464--2003731 Score: 536
Period size: 134 Copynumber: 2.0 Consensus size: 134
2003454 TGAAAAGATC
2003464 AAATCCTTCTTTCTTCCCAGTGTTGATGCTGGTGTGTGAGAGAAGAGAGGAAGAGGGTAAGCGGC
1 AAATCCTTCTTTCTTCCCAGTGTTGATGCTGGTGTGTGAGAGAAGAGAGGAAGAGGGTAAGCGGC
2003529 ATTCAATACTATAACCCTTTGTCTATTTATGCTGGCCAATCCCAGGCACCATTGCTCCAAGTCAC
66 ATTCAATACTATAACCCTTTGTCTATTTATGCTGGCCAATCCCAGGCACCATTGCTCCAAGTCAC
2003594 TGTT
131 TGTT
2003598 AAATCCTTCTTTCTTCCCAGTGTTGATGCTGGTGTGTGAGAGAAGAGAGGAAGAGGGTAAGCGGC
1 AAATCCTTCTTTCTTCCCAGTGTTGATGCTGGTGTGTGAGAGAAGAGAGGAAGAGGGTAAGCGGC
2003663 ATTCAATACTATAACCCTTTGTCTATTTATGCTGGCCAATCCCAGGCACCATTGCTCCAAGTCAC
66 ATTCAATACTATAACCCTTTGTCTATTTATGCTGGCCAATCCCAGGCACCATTGCTCCAAGTCAC
2003728 TGTT
131 TGTT
2003732 TCTTATCACG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (134 bp):
AAATCCTTCTTTCTTCCCAGTGTTGATGCTGGTGTGTGAGAGAAGAGAGGAAGAGGGTAAGCGGC
ATTCAATACTATAACCCTTTGTCTATTTATGCTGGCCAATCCCAGGCACCATTGCTCCAAGTCAC
TGTT
Found at i:2005075 original size:82 final size:82
Alignment explanation
Indices: 2004970--2005134 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
2004960 CGGTCCACGT
*
2004970 TGTCTGGATATAACATTTTAATTTTGGTAGGCTTGTTTGGGGTTATTATATCTAAAATCCCATTA
1 TGTCTGGATATAACATTTTAATTTTGGTAGGCTTGTTTGGGGTTATTATAT-AAAAATCCCATTA
2005035 AATA-TTTTTTAACACCC
65 AATATTTTTTTAACACCC
2005052 TGTCTGGATATAACATTTTAATTTTGGTAGGCTTGTTTGGGGTTATTATATAAAAATCCCATTAA
1 TGTCTGGATATAACATTTTAATTTTGGTAGGCTTGTTTGGGGTTATTATATAAAAATCCCATTAA
*
2005117 ATATTTTTTTAGCACCC
66 ATATTTTTTTAACACCC
2005134 T
1 T
2005135 CTCATGATTT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
81 16 0.20
82 64 0.80
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (82 bp):
TGTCTGGATATAACATTTTAATTTTGGTAGGCTTGTTTGGGGTTATTATATAAAAATCCCATTAA
ATATTTTTTTAACACCC
Found at i:2005655 original size:18 final size:18
Alignment explanation
Indices: 2005634--2005683 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
2005624 TTTTATTTAT
2005634 TTATTTATTTATTTTAAA
1 TTATTTATTTATTTTAAA
*
2005652 TTATTTATTTATTTTGAA
1 TTATTTATTTATTTTAAA
*
2005670 TCATTTATTTATTT
1 TTATTTATTTATTT
2005684 ATTTATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTTATTTATTTTAAA
Found at i:2005681 original size:26 final size:25
Alignment explanation
Indices: 2005625--2005738 Score: 110
Period size: 26 Copynumber: 4.5 Consensus size: 25
2005615 GGAGGTAATT
2005625 TTTATTTATTTATTTA-TTT--AT-
1 TTTATTTATTTATTTATTTTGAATA
*
2005646 TTTAAATTATTTATTTATTTTGAATCA
1 TTT-ATTTATTTATTTATTTTGAAT-A
*
2005673 TTTATTTATTTATTTATTTTGAAAAAAA
1 TTTATTTATTTATTTATTTTG---AATA
*
2005701 GTTATTTATTTATTTATTTTGAATA
1 TTTATTTATTTATTTATTTTGAATA
*
2005726 CTTTCTTTATTTA
1 -TTTATTTATTTA
2005739 ATTGAATGGG
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
21 3 0.04
22 12 0.16
23 3 0.04
25 5 0.07
26 27 0.36
27 3 0.04
28 21 0.28
29 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTATTTATTTATTTATTTTGAATA
Found at i:2005711 original size:4 final size:4
Alignment explanation
Indices: 2005625--2005691 Score: 71
Period size: 4 Copynumber: 15.8 Consensus size: 4
2005615 GGAGGTAATT
* * *
2005625 TTTA TTTA TTTA TTTA TTTA TTTTAA ATTA TTTA TTTA TTTTGA ATCA
1 TTTA TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA -TTT-A TTTA
2005673 TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
2005692 TGAAAAAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 42 0.79
5 9 0.17
6 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:2005714 original size:28 final size:28
Alignment explanation
Indices: 2005652--2005723 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
2005642 TTATTTTAAA
** *
2005652 TTATTTATTTATTTTG--AATCATTTAT
1 TTATTTATTTATTTTGAAAAAAAGTTAT
2005678 TTATTTATTTATTTTGAAAAAAAGTTAT
1 TTATTTATTTATTTTGAAAAAAAGTTAT
2005706 TTATTTATTTATTTTGAA
1 TTATTTATTTATTTTGAA
2005724 TACTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.39
28 25 0.61
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (28 bp):
TTATTTATTTATTTTGAAAAAAAGTTAT
Found at i:2008879 original size:131 final size:131
Alignment explanation
Indices: 2008645--2008909 Score: 530
Period size: 131 Copynumber: 2.0 Consensus size: 131
2008635 TAAACATGCT
2008645 ATTGGAGGGATAAGACTGTTGTTGCAGTCGTGGGTATAATTTATGAATTCTATTTGTACGCCAAA
1 ATTGGAGGGATAAGACTGTTGTTGCAGTCGTGGGTATAATTTATGAATTCTATTTGTACGCCAAA
2008710 TTCGCTCTCCATTAAACTCGTCGGTCTCATGAACCTTTAACACAAGTAACCTGACATTCTCGTGA
66 TTCGCTCTCCATTAAACTCGTCGGTCTCATGAACCTTTAACACAAGTAACCTGACATTCTCGTGA
2008775 A
131 A
2008776 ATTGGAGGGATAAGACTGTTGTTGCAGTCGTGGGTATAATTTATGAATTCTATTTGTACGCCAAA
1 ATTGGAGGGATAAGACTGTTGTTGCAGTCGTGGGTATAATTTATGAATTCTATTTGTACGCCAAA
2008841 TTCGCTCTCCATTAAACTCGTCGGTCTCATGAACCTTTAACACAAGTAACCTGACATTCTCGTGA
66 TTCGCTCTCCATTAAACTCGTCGGTCTCATGAACCTTTAACACAAGTAACCTGACATTCTCGTGA
2008906 A
131 A
2008907 ATT
1 ATT
2008910 TATTGTTTCT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (131 bp):
ATTGGAGGGATAAGACTGTTGTTGCAGTCGTGGGTATAATTTATGAATTCTATTTGTACGCCAAA
TTCGCTCTCCATTAAACTCGTCGGTCTCATGAACCTTTAACACAAGTAACCTGACATTCTCGTGA
A
Found at i:2011227 original size:17 final size:18
Alignment explanation
Indices: 2011190--2011230 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2011180 CTATTATGTA
*
2011190 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
2011208 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
2011225 TTTACT
1 TTTACT
2011231 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:2011483 original size:111 final size:111
Alignment explanation
Indices: 2011292--2011624 Score: 596
Period size: 111 Copynumber: 3.0 Consensus size: 111
2011282 TGTAAATCAT
* *
2011292 ATATCTCTACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
2011357 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2011403 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
2011468 TAGTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
2011514 ATATCTCGAC-CATTTGCTAATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACAC-TTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
2011578 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2011625 TTTTTGTAAT
Statistics
Matches: 215, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
110 1 0.00
111 214 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2014008 original size:51 final size:51
Alignment explanation
Indices: 2013905--2014034 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
2013895 CCCCTACGTG
* * * * *
2013905 GCGTATAGAGCGG-AGCAGGGGGCACGTTATACCCCACGTGTAACCCAGTCA
1 GCGTATAGCGCGGTA-CAGGGGGCACGCTATACCCCACGTGGAACCAAATCA
* * *
2013956 GCGTATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGGCACCAAATCA
1 GCGTATAGCGCGGTACAGGGGGCACGCTATACCCCACGTGGAACCAAATCA
* ** *
2014007 GCATATAGCGTAGTTCAGGGGGCACGCT
1 GCGTATAGCGCGGTACAGGGGGCACGCT
2014035 TTATTGCTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 64 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.32, T:0.17
Consensus pattern (51 bp):
GCGTATAGCGCGGTACAGGGGGCACGCTATACCCCACGTGGAACCAAATCA
Found at i:2029404 original size:16 final size:16
Alignment explanation
Indices: 2029368--2029437 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
2029358 CATTTAATAA
2029368 ATAAACGAACACGAA-
1 ATAAACGAACACGAAC
2029383 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
2029399 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
2029415 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
2029431 ATAAACG
1 ATAAACG
2029438 TTGAAGACCC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
15 15 0.29
16 37 0.71
ACGTcount: A:0.57, C:0.21, G:0.13, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:2030226 original size:24 final size:24
Alignment explanation
Indices: 2030189--2030260 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
2030179 TGGGTTAAAT
* * *
2030189 ATAAATGAATGAACATAAACGTAC
1 ATAACTGAACGAACATAAACGAAC
2030213 ATAA-TCGAACGAACATAAACGAAC
1 ATAACT-GAACGAACATAAACGAAC
*
2030237 ATAACTGAACGAACATAACCGAAC
1 ATAACTGAACGAACATAAACGAAC
2030261 GTTCACGAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.95
25 1 0.02
ACGTcount: A:0.53, C:0.19, G:0.12, T:0.15
Consensus pattern (24 bp):
ATAACTGAACGAACATAAACGAAC
Found at i:2030247 original size:14 final size:14
Alignment explanation
Indices: 2030206--2030261 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
2030196 AATGAACATA
* *
2030206 AACGTACATAATCG
1 AACGAACATAACCG
2030220 AACGAACAT-A---
1 AACGAACATAACCG
*
2030230 AACGAACATAACTG
1 AACGAACATAACCG
2030244 AACGAACATAACCG
1 AACGAACATAACCG
2030258 AACG
1 AACG
2030262 TTCACGAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.12
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2032524 original size:18 final size:18
Alignment explanation
Indices: 2032501--2032543 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2032491 CTTTAGATTA
*
2032501 TTTATTTAATTATTTTAT
1 TTTATTTAATTATTATAT
* *
2032519 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATAT
2032537 TTTATTT
1 TTTATTT
2032544 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:2032590 original size:3 final size:3
Alignment explanation
Indices: 2032584--2032649 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
2032574 TCTTTACTAC
*
2032584 TAT TATT TAT TAT T-T TAT TA- TAT T-T CCAT T-T TATT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT
2032628 TAT TAT TAT T-T TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
2032650 ACATTTTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
2 11 0.21
3 34 0.65
4 7 0.13
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:2032616 original size:16 final size:14
Alignment explanation
Indices: 2032593--2032650 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 14
2032583 CTATTATTTA
2032593 TTATTTTATTATAT
1 TTATTTTATTATAT
2032607 TTCCATTTTATT-TA-
1 TT--ATTTTATTATAT
2032621 TTATTATTATTATTATT
1 TTATT-TTATTA-TA-T
2032638 TTATTTTATTATA
1 TTATTTTATTATA
2032651 CATTTTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.08
13 5 0.14
14 4 0.11
15 6 0.16
16 14 0.38
17 5 0.14
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTATTATAT
Found at i:2032631 original size:24 final size:23
Alignment explanation
Indices: 2032589--2032649 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
2032579 ACTACTATTA
*
2032589 TTTATTATTTTATTATATT-TCCAT
1 TTTATT-TATTATTATATTAT-CAT
*
2032613 TTTATTTATTATTATTATTATTAT
1 TTTATTTATTATTA-TATTATCAT
2032637 TTTATTTTATTAT
1 TTTA-TTTATTAT
2032650 ACATTTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 7 0.22
24 16 0.50
25 9 0.28
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTATTTATTATTATATTATCAT
Found at i:2036822 original size:20 final size:20
Alignment explanation
Indices: 2036785--2036823 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2036775 AGATTGAGTG
* * *
2036785 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
2036805 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
2036824 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:2037009 original size:21 final size:21
Alignment explanation
Indices: 2036983--2037022 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2036973 CAGAACCCCA
*
2036983 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2037004 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2037023 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2037051 original size:20 final size:21
Alignment explanation
Indices: 2037005--2037065 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
2036995 TTCCCCTGTG
2037005 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
2037028 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
2037048 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
2037066 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2050561 original size:31 final size:31
Alignment explanation
Indices: 2050523--2050665 Score: 205
Period size: 31 Copynumber: 4.6 Consensus size: 31
2050513 AGGGTCGAGG
2050523 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
2050554 GTTTACCTATGTTCTTCGGGACATATGGGTT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
** *
2050585 GTTTACCTATGTTCTTCAAGACATATGGAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2050616 GTTTGCATATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2050647 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
2050666 AATCTATAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 97 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2055321 original size:31 final size:31
Alignment explanation
Indices: 2055283--2055381 Score: 162
Period size: 31 Copynumber: 3.2 Consensus size: 31
2055273 AGGGTCGAGG
2055283 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2055314 GTTTACCTTTGTTCTTCGGGACATATGGAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2055345 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2055376 GATTAC
1 GTTTAC
2055382 TTTGGTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2055403 original size:62 final size:62
Alignment explanation
Indices: 2055283--2055404 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
2055273 AGGGTCGAGG
* *
2055283 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTTTGTTCTTCGGGACATATGGAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTTTGTTCTTCGGAACATATGGAAT
* *
2055345 GTTTACCTATGTTCTTCGGGATATATGGACTGATTA-CTTTGGTTCTTTGGAATC-TATGGA
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTTT-GTTCTTCGGAA-CATATGGA
2055405 CTGGTCCTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
61 4 0.07
62 49 0.91
63 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.42
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTTTGTTCTTCGGAACATATGGAAT
Found at i:2059432 original size:20 final size:20
Alignment explanation
Indices: 2059409--2059447 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2059399 ATCGCTTTGC
2059409 GATTTTCCATTTCGCGTTGT
1 GATTTTCCATTTCGCGTTGT
2059429 GATTTTCCATTTCGCGTTG
1 GATTTTCCATTTCGCGTTG
2059448 CGATAGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.49
Consensus pattern (20 bp):
GATTTTCCATTTCGCGTTGT
Found at i:2059457 original size:20 final size:20
Alignment explanation
Indices: 2059375--2059475 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
2059365 ATTCGCGTTG
*
2059375 CATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAG-TC
* ** * **
2059396 AAAATCGCTTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTC
* **
2059416 CATTTCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGTC
2059436 CATTTCGCGTTGCGATAGTC
1 CATTTCGCGTTGCGATAGTC
*
2059456 CAAGTT-GTCGTTGCGATAGT
1 C-ATTTCG-CGTTGCGATAGT
2059476 TTCCAAATTC
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
20 35 0.56
21 27 0.44
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.40
Consensus pattern (20 bp):
CATTTCGCGTTGCGATAGTC
Found at i:2059467 original size:21 final size:19
Alignment explanation
Indices: 2059443--2059537 Score: 82
Period size: 21 Copynumber: 4.6 Consensus size: 19
2059433 TTCCATTTCG
*
2059443 CGTTGCGATAGTCCAAGTTGT
1 CGTTGCGATAGTCCAA-AT-T
2059464 CGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAG--TCCAAATT
**
2059485 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTC--CAAAT-T
**
2059507 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
2059526 CGTTGCGATAGT
1 CGTTGCGATAGT
2059538 AAAAAAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 13 0.22
20 3 0.05
21 26 0.43
22 13 0.22
23 5 0.08
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:2059530 original size:41 final size:41
Alignment explanation
Indices: 2059443--2059537 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
2059433 TTCCATTTCG
2059443 CGTTGCGATAGTCCAAGTTGTCGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTGTCGTTGCGATA-TTTCCAAATT
*
2059485 CGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAATT
1 CGTTGCGATAGTCCA-AGTTGTCGTTGCGATATTTCCAAATT
2059526 CGTTGCGATAGT
1 CGTTGCGATAGT
2059538 AAAAAAAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
41 22 0.43
42 14 0.27
43 15 0.29
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCCAAGTTGTCGTTGCGATATTTCCAAATT
Found at i:2059844 original size:22 final size:22
Alignment explanation
Indices: 2059816--2059910 Score: 120
Period size: 22 Copynumber: 4.4 Consensus size: 22
2059806 AATTTGGAAA
* *
2059816 ATCGCAACGATAACTGTACACT
1 ATCGCAACGACAACTGTAGACT
** *
2059838 ATCGCAACGA-ATTTGTAAACT
1 ATCGCAACGACAACTGTAGACT
* *
2059859 ATCGCAACAACCACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2059881 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2059903 ATCGCAAC
1 ATCGCAAC
2059911 ACGAAATGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
21 17 0.27
22 45 0.73
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2059875 original size:43 final size:43
Alignment explanation
Indices: 2059800--2059911 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
2059790 CCCGACAATT
* * *
2059800 GCAACGAATTTGGAAA--ATCGCAACGATAACTGTACACTATC
1 GCAACGAATTTGTAAACTATCGCAACAACAACTGTACACTATC
* *
2059841 GCAACGAATTTGTAAACTATCGCAACAACCACTGTAGACTATC
1 GCAACGAATTTGTAAACTATCGCAACAACAACTGTACACTATC
** *
2059884 GCAACGACAACTGTAGACTATCGCAACA
1 GCAACGA-ATTTGTAAACTATCGCAACA
2059912 CGAAATGGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 15 0.25
43 28 0.47
44 17 0.28
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (43 bp):
GCAACGAATTTGTAAACTATCGCAACAACAACTGTACACTATC
Found at i:2059969 original size:20 final size:20
Alignment explanation
Indices: 2059903--2059975 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
2059893 ACTGTAGACT
*
2059903 ATCGCAACACGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
2059923 ATCGTAACGCGATTTTTAACT
1 ATCGCAACGCGAAATGGAA-A
2059944 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
2059964 ATCGCAACGCGA
1 ATCGCAACGCGA
2059976 TTTTCAACTA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:2060004 original size:21 final size:21
Alignment explanation
Indices: 2059878--2060004 Score: 80
Period size: 21 Copynumber: 6.1 Consensus size: 21
2059868 ACCACTGTAG
* *
2059878 ACTATCGCAACGAC-AACTGTA
1 ACTATCGCAACG-CGAAATGCA
* *
2059899 GACTATCGCAACACGAAATGGA
1 -ACTATCGCAACGCGAAATGCA
* * ** **
2059921 A-AATCGTAACGCGATTTTTA
1 ACTATCGCAACGCGAAATGCA
*
2059941 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
2059962 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
2059982 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
2060003 AC
1 AC
2060005 GCGAATTTGC
Statistics
Matches: 77, Mismatches: 25, Indels: 7
0.71 0.23 0.06
Matches are distributed among these distances:
20 28 0.36
21 33 0.43
22 16 0.21
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:2060017 original size:41 final size:41
Alignment explanation
Indices: 2059900--2060000 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
2059890 ACAACTGTAG
* * *
2059900 ACTATCGCAACACGAAATGGAAAATCGTAACGCGATTTTTA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2059941 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2059982 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
2060001 CAACGCGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:2065552 original size:24 final size:24
Alignment explanation
Indices: 2065525--2065574 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2065515 ATAAAGAACC
2065525 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
2065549 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
2065573 AA
1 AA
2065575 CCAACCACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:2071747 original size:22 final size:20
Alignment explanation
Indices: 2071703--2071748 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2071693 AGACGACGTC
*
2071703 ATAATTATTTAAAAAATTAA
1 ATAATTATTCAAAAAATTAA
*
2071723 ATAATTATATCAAAAATATTTA
1 ATAATTAT-TCAAAAA-ATTAA
2071745 ATAA
1 ATAA
2071749 AAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 6 0.27
22 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATTATTCAAAAAATTAA
Found at i:2073900 original size:26 final size:26
Alignment explanation
Indices: 2073871--2073968 Score: 124
Period size: 26 Copynumber: 3.8 Consensus size: 26
2073861 AATGGTTATC
* * *
2073871 ACTGTTTGATTCGGACTATGATTAAT
1 ACTGATTGATTCGAACTATAATTAAT
*
2073897 ACTGATTAATTCGAACTATAATTAAT
1 ACTGATTGATTCGAACTATAATTAAT
* *
2073923 ACTAATTGATTTGAACTATAATTAAT
1 ACTGATTGATTCGAACTATAATTAAT
* *
2073949 ACTAATTGATTTGAACTATA
1 ACTGATTGATTCGAACTATA
2073969 TTATGAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (26 bp):
ACTGATTGATTCGAACTATAATTAAT
Found at i:2074146 original size:11 final size:11
Alignment explanation
Indices: 2074125--2074149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2074115 ATGATTTTTA
2074125 TTCGATTTTCC
1 TTCGATTTTCC
2074136 TTCGATTTTCC
1 TTCGATTTTCC
2074147 TTC
1 TTC
2074150 CATCGGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.08, T:0.56
Consensus pattern (11 bp):
TTCGATTTTCC
Found at i:2085654 original size:56 final size:56
Alignment explanation
Indices: 2085207--2085644 Score: 666
Period size: 56 Copynumber: 7.9 Consensus size: 56
2085197 CCCACTACCA
* *
2085207 ATACGGAAATTTATAAAATTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * * * * *
2085263 ATACGTAAATTCATAAATTTATTTTGAATTTCTTAGTTTTTTCACACAAAATACCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
2085319 ATATGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
2085375 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGTACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
2085431 ATACGGAAATTCATAAACTTATTATGAATTTATTAGTTTTTGCACACACAGTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
2085487 ATACGAAAATTCATAAACTTATTATGAATTTCTTACTTTTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTA-GTTTTTGCACACAAAGTGCCC
2085544 ATA---AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
2085597 ATACGGAAATTTATAAAATTATTATGAATTTCTTAGTTTTTGCACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACA
2085645 CAATACCCAT
Statistics
Matches: 347, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
53 22 0.06
54 29 0.08
56 276 0.80
57 20 0.06
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
Found at i:2086018 original size:22 final size:21
Alignment explanation
Indices: 2085973--2086071 Score: 94
Period size: 22 Copynumber: 4.7 Consensus size: 21
2085963 TGGCTCAATA
** *
2085973 GTATCGATAC-CCCTACCATG
1 GTATCGATACTCTATACTATG
*
2085993 GTATCGATGCTTCTATACTATG
1 GTATCGATAC-TCTATACTATG
* *
2086015 GTATCGATAC-CTTTACCATG
1 GTATCGATACTCTATACTATG
*
2086035 GTATTGATACTACTATACTATG
1 GTATCGATACT-CTATACTATG
*
2086057 GTTTCGATACTCTAT
1 GTATCGATACTCTAT
2086072 TACGGTACTG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
20 26 0.41
21 4 0.06
22 33 0.52
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
GTATCGATACTCTATACTATG
Found at i:2086032 original size:42 final size:42
Alignment explanation
Indices: 2085973--2086066 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
2085963 TGGCTCAATA
* *
2085973 GTATCGATACCCCTACCATGGTATCGATGCTTCTATACTATG
1 GTATCGATACCCCTACCATGGTATCGATACTACTATACTATG
** *
2086015 GTATCGATACCTTTACCATGGTATTGATACTACTATACTATG
1 GTATCGATACCCCTACCATGGTATCGATACTACTATACTATG
*
2086057 GTTTCGATAC
1 GTATCGATAC
2086067 TCTATTACGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (42 bp):
GTATCGATACCCCTACCATGGTATCGATACTACTATACTATG
Found at i:2092483 original size:152 final size:152
Alignment explanation
Indices: 2092207--2092519 Score: 617
Period size: 152 Copynumber: 2.1 Consensus size: 152
2092197 AATTCTTTCG
2092207 ATTCATTATACACACTATAGTACCAATACAGTCATTTCCCAAACATTACTATAATTTACATGGGT
1 ATTCATTATACACACTATAGTACCAATACAGTCATTTCCCAAACATTACTATAATTTACATGGGT
2092272 TGCACACCCACTACTAATACGGAAATTCATAAACTTATTATGATTTTTTAGTTTTTGCATACAAA
66 TGCACACCCACTACTAATACGGAAATTCATAAACTTATTATGATTTTTTAGTTTTTGCATACAAA
2092337 GTGCCCATACAGAAATTCATAA
131 GTGCCCATACAGAAATTCATAA
2092359 ATTCATTATACACACTATAGTACCAATACAGTCATTTCCCAAACATTACTATAATTTACATGGGT
1 ATTCATTATACACACTATAGTACCAATACAGTCATTTCCCAAACATTACTATAATTTACATGGGT
2092424 TGCACACCCACTACTAATACGGAAATTCATAAACTTATTATGATTTTTTAGTTTTTGCATACAAA
66 TGCACACCCACTACTAATACGGAAATTCATAAACTTATTATGATTTTTTAGTTTTTGCATACAAA
2092489 GTGCCCATACAGAAATTCATAA
131 GTGCCCATACAGAAATTCATAA
*
2092511 ATTTATTAT
1 ATTCATTAT
2092520 GAATTTCTTA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 160 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (152 bp):
ATTCATTATACACACTATAGTACCAATACAGTCATTTCCCAAACATTACTATAATTTACATGGGT
TGCACACCCACTACTAATACGGAAATTCATAAACTTATTATGATTTTTTAGTTTTTGCATACAAA
GTGCCCATACAGAAATTCATAA
Found at i:2092548 original size:56 final size:56
Alignment explanation
Indices: 2092440--2092822 Score: 608
Period size: 56 Copynumber: 6.9 Consensus size: 56
2092430 CCCACTACTA
* *
2092440 ATACGGAAATTCATAAACTTATTATG-ATTTTTTAGTTTTTGCATACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
2092495 ATACAGAAATTCATAAATTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
** * * *
2092551 ATACATAAATTCTTAAACTTATTATGAATTTCTTTGTTTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
2092607 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACACAGTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
2092663 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTTTTGCACACAAAGTG-CC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTA-GTTTTTGCACACAAAGTGCCC
2092719 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
2092775 ATACGGAAATTCATAAACTTATTATAAATTTCTTAGTTTTTGTACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACA
2092823 CAATGCACAT
Statistics
Matches: 302, Mismatches: 23, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
55 42 0.14
56 243 0.80
57 17 0.06
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
Found at i:2093176 original size:20 final size:20
Alignment explanation
Indices: 2093151--2093222 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
2093141 TGGCTCAATA
*
2093151 GTATCGATACCCCTACCATG
1 GTATCGATACCCATACCATG
* *
2093171 GTATCGATACTTCTATACTATG
1 GTATCGATAC--CCATACCATG
*
2093193 GTATCGATACCCTTACCATG
1 GTATCGATACCCATACCATG
2093213 GTATCGATAC
1 GTATCGATAC
2093223 TACTATACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 27 0.61
22 17 0.39
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:2093196 original size:22 final size:22
Alignment explanation
Indices: 2093168--2093246 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
2093158 TACCCCTACC
2093168 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
* *
2093190 ATGGTATCGATAC-CCT-TACC
1 ATGGTATCGATACTTCTATACT
*
2093210 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTTCTATACT
*
2093232 ATAGTATCGATACTT
1 ATGGTATCGATACTT
2093247 TATTACGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.33
21 4 0.08
22 29 0.59
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:2093210 original size:42 final size:42
Alignment explanation
Indices: 2093148--2093244 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
2093138 TTTTGGCTCA
*
2093148 ATAGTATCGATACCCCTACCATGGTATCGATACTTCTATACT
1 ATAGTATCGATACCCCTACCATGGTATCGATACTACTATACT
* *
2093190 ATGGTATCGATACCCTTACCATGGTATCGATACTACTATACT
1 ATAGTATCGATACCCCTACCATGGTATCGATACTACTATACT
2093232 ATAGTATCGATAC
1 ATAGTATCGATAC
2093245 TTTATTACGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (42 bp):
ATAGTATCGATACCCCTACCATGGTATCGATACTACTATACT
Found at i:2094370 original size:27 final size:26
Alignment explanation
Indices: 2094310--2094393 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
2094300 TTAAATTCAT
2094310 AATATTTT-TATATTAACTTA-TTAAA
1 AATATTTTAT-TATTAACTTATTTAAA
** *
2094335 TGTAGTTTATTATTAACTTAATTTAAA
1 AATATTTTATTATTAACTT-ATTTAAA
* **
2094362 AATATTTTATTTTTATTTTCATTTAAA
1 AATATTTTATTATTAACTT-ATTTAAA
2094389 AATAT
1 AATAT
2094394 ATATTTTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 14 0.30
26 2 0.04
27 30 0.65
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
AATATTTTATTATTAACTTATTTAAA
Found at i:2094570 original size:31 final size:31
Alignment explanation
Indices: 2094535--2094601 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
2094525 AAATGACCAC
2094535 ATCTTAATTAAACAAAAACGAAAGTGAAC-AT
1 ATCTTAATTAAACAAAAACGAAAGTG-ACTAT
* *
2094566 ATCTTAATTAAATAAAAATGAAAGTGACTAT
1 ATCTTAATTAAACAAAAACGAAAGTGACTAT
2094597 ATCTT
1 ATCTT
2094602 TTTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (31 bp):
ATCTTAATTAAACAAAAACGAAAGTGACTAT
Found at i:2096493 original size:16 final size:16
Alignment explanation
Indices: 2096472--2096516 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
2096462 CGAAAATCAA
2096472 TCGATCTAATATTAAC
1 TCGATCTAATATTAAC
* *
2096488 TCGATCTAAAATTAAT
1 TCGATCTAATATTAAC
*
2096504 TCGATCCAATATT
1 TCGATCTAATATT
2096517 GAACAGTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (16 bp):
TCGATCTAATATTAAC
Found at i:2101335 original size:13 final size:13
Alignment explanation
Indices: 2101317--2101342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2101307 TAGGAGCCAT
2101317 TTGATTTGTAGAA
1 TTGATTTGTAGAA
2101330 TTGATTTGTAGAA
1 TTGATTTGTAGAA
2101343 GTAGACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TTGATTTGTAGAA
Found at i:2102047 original size:30 final size:31
Alignment explanation
Indices: 2101976--2102054 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 31
2101966 TTTGATAATT
* * * *
2101976 TTAAAGATCATTTTATAACACAATTATAAAT
1 TTAATGATTATTTTATAACACAATTAAAAAG
* *
2102007 TTAATAATTATTTTATAAC-CATTTAAAAAG
1 TTAATGATTATTTTATAACACAATTAAAAAG
2102037 TTAATGATTATTTTATAA
1 TTAATGATTATTTTATAA
2102055 TTTCTAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 25 0.61
31 16 0.39
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (31 bp):
TTAATGATTATTTTATAACACAATTAAAAAG
Found at i:2103218 original size:5 final size:5
Alignment explanation
Indices: 2103208--2103238 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2103198 TATTATTATT
2103208 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
2103239 TTCTAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:2111918 original size:25 final size:25
Alignment explanation
Indices: 2111879--2111934 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
2111869 TAATTTGTAA
2111879 TAAAATTA--TTTAATTAAGT-TTTT
1 TAAAATTATTTTTAATTAA-TATTTT
*
2111902 TAATATTATTTTTAATTAATATTTT
1 TAAAATTATTTTTAATTAATATTTT
2111927 TAAAATTA
1 TAAAATTA
2111935 AATATGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
24 1 0.04
25 20 0.71
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TAAAATTATTTTTAATTAATATTTT
Found at i:2111928 original size:13 final size:13
Alignment explanation
Indices: 2111887--2111929 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2111877 AATAAAATTA
2111887 TTTAATTAAGT-TT
1 TTTAATTAA-TATT
*
2111900 TTTAA-TATTATT
1 TTTAATTAATATT
2111912 TTTAATTAATATT
1 TTTAATTAATATT
2111925 TTTAA
1 TTTAA
2111930 AATTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 9 0.35
13 16 0.62
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTAATTAATATT
Found at i:2117006 original size:32 final size:31
Alignment explanation
Indices: 2116965--2117047 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 31
2116955 GGACCTAAAC
2116965 CAAAAATCAACCGATTCGATATTGACCCGATT
1 CAAAAATCAACCGATTCGATATTGACCCGA-T
* * *
2116997 CAAAAATCAACCGATCCAATATTGATCCGAT
1 CAAAAATCAACCGATTCGATATTGACCCGAT
*
2117028 CAAAAAATCAACTGATTCGA
1 C-AAAAATCAACCGATTCGA
2117048 ACCGAAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 42 0.95
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (31 bp):
CAAAAATCAACCGATTCGATATTGACCCGAT
Found at i:2119996 original size:6 final size:6
Alignment explanation
Indices: 2119985--2120198 Score: 63
Period size: 6 Copynumber: 34.2 Consensus size: 6
2119975 AAATAAAAGG
** *
2119985 AATAAA AATAAA AATAAA AA-ATAA AATAAA AATAAA AA-ACCC AATAAT
1 AATAAA AATAAA AATAAA AATA-AA AATAAA AATAAA AATA-AA AATAAA
* *
2120033 AAT-AT AATAAA TAA-AAA ATATAAAA AATAAA AATAAA TAAGAAACCA
1 AATAAA AATAAA -AATAAA A-AT-AAA AATAAA AATAAA -AA-TAA--A
* *
2120080 AATAAA TATAAA AA-AATA AA-AAA TAAGTAAA GATAAAGAA AATAAA
1 AATAAA AATAAA AATAA-A AATAAA -AA-TAAA -A-ATA-AA AATAAA
* * * *
2120126 AATAAA TACAGAAA AATTACAG AA-AAA AAGAAA AA-AAA GAA-AAA AATAAC
1 AATAAA -A-ATAAA AA-TA-AA AATAAA AATAAA AATAAA -AATAAA AATAAA
*
2120176 AATAAA AA-ATA AA-AAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
2120199 GGGTAAAATA
Statistics
Matches: 161, Mismatches: 20, Indels: 54
0.69 0.09 0.23
Matches are distributed among these distances:
5 27 0.17
6 94 0.58
7 13 0.08
8 21 0.13
9 5 0.03
10 1 0.01
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:2120019 original size:30 final size:30
Alignment explanation
Indices: 2119985--2120198 Score: 85
Period size: 30 Copynumber: 7.2 Consensus size: 30
2119975 AAATAAAAGG
2119985 AATAAAAATAAAAATAAAAAATAAAATAAA
1 AATAAAAATAAAAATAAAAAATAAAATAAA
** * *
2120015 AATAAAAA-ACCCAAT-AATAATATAATAAA
1 AATAAAAATA-AAAATAAAAAATAAAATAAA
2120044 TAA-AAAATATAAAAA-ATAAAAAT-AAATAAGA
1 -AATAAAA-ATAAAAATA-AAAAATAAAATAA-A
** *
2120075 AA-CCAAATAAATATAAAAAAATAAAA-AATA
1 AATAAAAATAAAAAT-AAAAAATAAAATAA-A
* * * *
2120105 AGTAAAGATAAAGAAAATAAAAAT-AAATACA
1 AATAAAAATAAA-AATA-AAAAATAAAATAAA
* * * * *
2120136 GA-AAAATTACAGA-AAAAAAGAAAA-AAA
1 AATAAAAATAAAAATAAAAAATAAAATAAA
* *
2120163 AGAAAAAAATAACAATAAAAAAT-AAA-AAA
1 A-ATAAAAATAAAAATAAAAAATAAAATAAA
2120192 AATAAAA
1 AATAAAA
2120199 GGGTAAAATA
Statistics
Matches: 132, Mismatches: 34, Indels: 38
0.65 0.17 0.19
Matches are distributed among these distances:
27 7 0.05
28 10 0.08
29 38 0.29
30 47 0.36
31 22 0.17
32 8 0.06
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (30 bp):
AATAAAAATAAAAATAAAAAATAAAATAAA
Found at i:2120054 original size:16 final size:16
Alignment explanation
Indices: 2120033--2120104 Score: 72
Period size: 16 Copynumber: 4.2 Consensus size: 16
2120023 ACCCAATAAT
*
2120033 AATATAATAAATAAAA
1 AATATAAAAAATAAAA
2120049 AATATAAAAAATAAAA
1 AATATAAAAAATAAAA
* **
2120065 ATAAATAAGAAACCAAATA
1 A-ATATAA-AAAATAAA-A
2120084 AATATAAAAAAATAAAA
1 AATAT-AAAAAATAAAA
2120101 AATA
1 AATA
2120105 AGTAAAGATA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 16 0.36
17 10 0.22
18 15 0.33
19 4 0.09
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (16 bp):
AATATAAAAAATAAAA
Found at i:2120058 original size:53 final size:49
Alignment explanation
Indices: 2119986--2120127 Score: 137
Period size: 52 Copynumber: 2.8 Consensus size: 49
2119976 AATAAAAGGA
*
2119986 ATAAAAAT-AAAAAT-AAAAAATAAAATAAAAATAAAAAACCCAATAATAAT
1 ATAAAAATAAAAAATAAAAAAATAAAA-AAAAATAAAAAACCAAAT-A-AAT
* *
2120036 ATAATAAATAAAAAATATAAAAAATAAAAATAAATAAGAAACCAAATAAAT
1 ATAA-AAATAAAAAATA-AAAAAATAAAAAAAAATAAAAAACCAAATAAAT
* *
2120087 ATAAAAAAATAAAAAATAAGTAAAGAT-AAAGAAAATAAAAA
1 AT--AAAAATAAAAAATAA--AAAAATAAAAAAAAATAAAAA
2120128 TAAATACAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
50 4 0.05
51 10 0.13
52 30 0.39
53 22 0.29
54 11 0.14
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (49 bp):
ATAAAAATAAAAAATAAAAAAATAAAAAAAAATAAAAAACCAAATAAAT
Found at i:2120070 original size:26 final size:24
Alignment explanation
Indices: 2119959--2120198 Score: 97
Period size: 27 Copynumber: 9.7 Consensus size: 24
2119949 GCAGAAAGAG
* *
2119959 ATAAAAAAAAATAAGGAAATAAAAGGA
1 ATAAAAATAAATAA--AAATAAAA-AA
2119986 ATAAAAATAAA-AATAAA-AAATAAA
1 ATAAAAATAAATAA-AAATAAA-AAA
* *
2120010 ATAAAAATAAA-AAACCCAATAATAAT
1 ATAAAAATAAATAAA---AATAAAAAA
*
2120036 ATAATAAATAAA-AAATAT-AAAAA
1 ATAA-AAATAAATAAAAATAAAAAA
* *
2120059 ATAAAAATAAATAAGAAACCAAATAA
1 ATAAAAATAAATAA-AAA-TAAAAAA
*
2120085 ATATAAAA-AAATAAAAAATAAGTAAAG
1 ATA-AAAATAAAT-AAAAATAA--AAAA
* * *
2120112 ATAAAGA-AAATAAAAATAAATAC
1 ATAAAAATAAATAAAAATAAAAAA
* * *
2120135 AGAAAAATTACAGAAAAAAAGAAAAAA
1 ATAAAAA-TA-A-ATAAAAATAAAAAA
*
2120162 A-AGAAAA-AAATAACAAT-AAAAA
1 ATA-AAAATAAATAAAAATAAAAAA
2120184 ATAAAAA-AAATAAAA
1 ATAAAAATAAATAAAA
2120199 GGGTAAAATA
Statistics
Matches: 166, Mismatches: 27, Indels: 45
0.70 0.11 0.19
Matches are distributed among these distances:
22 24 0.14
23 23 0.14
24 22 0.13
25 16 0.10
26 33 0.20
27 48 0.29
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (24 bp):
ATAAAAATAAATAAAAATAAAAAA
Found at i:2120184 original size:16 final size:16
Alignment explanation
Indices: 2120149--2120198 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
2120139 AAATTACAGA
*
2120149 AAAAAAGAAAAAAAA-
1 AAAAAATAAAAAAAAT
* * *
2120164 GAAAAA-AATAACAAT
1 AAAAAATAAAAAAAAT
2120179 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
2120195 AAAA
1 AAAA
2120199 GGGTAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 6 0.22
15 10 0.37
16 11 0.41
ACGTcount: A:0.86, C:0.02, G:0.04, T:0.08
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:2120227 original size:20 final size:17
Alignment explanation
Indices: 2120202--2120240 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
2120192 AATAAAAGGG
2120202 TAAAATATATAAGTTAATAA
1 TAAAATA-ATAA--TAATAA
2120222 TAAAATAATAATAATAA
1 TAAAATAATAATAATAA
2120239 TA
1 TA
2120241 GTCGTAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATAATAATAATAA
Found at i:2121460 original size:29 final size:28
Alignment explanation
Indices: 2121397--2121461 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2121387 TAATAAAATA
* *
2121397 ATAAATAAATATACATTTATATATATAC
1 ATAAATAAACATACATATATATATATAC
* *
2121425 ATCAAATAAACATATATATATATATATATT
1 AT-AAATAAACATACATATATATATATA-C
2121455 ATAAATA
1 ATAAATA
2121462 TGTGATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (28 bp):
ATAAATAAACATACATATATATATATAC
Found at i:2122170 original size:83 final size:82
Alignment explanation
Indices: 2121979--2122626 Score: 650
Period size: 83 Copynumber: 7.8 Consensus size: 82
2121969 ATGTGTCATC
* * * * * * * * * *
2121979 GAGCTGAATGGAATCGAACTCGATAGTTTTTATTGACAGACAACCCTTCTCGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGA-AGGTCTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
* * * *
2122044 TG-TACTGGATATGCCCTT
65 TGCAAAT-GATGTGCCTTT
* * * * * * ** * *
2122062 GAACTGAATGGAATTGAGCTCGAAGGTGTTGATTAACAGATATCCCTTCTTGCCTTGAGCTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTG-TTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
*
2122127 TACAAATGATGTGCCTTT
65 TGCAAATGATGTGCCTTT
* *
2122145 GAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTATTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATG
*
2122210 CCGCAAATGATGTGCCTTT
64 CTGCAAATGATGTGCCTTT
* * *
2122229 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
* *
2122294 TGTAAATGATGTGCATTT
65 TGCAAATGATGTGCCTTT
* *
2122312 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTTTTGCCTTGAGCTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-GTTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
*
2122377 TGCAAATGATGGGCCTTT
65 TGCAAATGATGTGCCTTT
* * *
2122395 GAGCTAAGTGTAATTGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTTGCCTTGAGCTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-GTTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
*
2122460 TGCAAACGATGTGCCTTT
65 TGCAAATGATGTGCCTTT
* * * * * * * *
2122478 GAGTTGAGTGTAATTGAACTCTAAGGTCTTTGTTGACATATAACACTTCTAGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
* * **
2122543 TGCGAATTTGAGGTGTTTTT
65 TGC-AA-ATGATGTGCCTTT
* * * * * * *
2122563 GAGCTAAATGTAATCGAATTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGTCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATG
2122627 TTATACTTGG
Statistics
Matches: 482, Mismatches: 75, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
82 7 0.01
83 333 0.69
84 77 0.16
85 65 0.13
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (82 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
GCAAATGATGTGCCTTT
Found at i:2122408 original size:250 final size:249
Alignment explanation
Indices: 2121979--2122621 Score: 786
Period size: 250 Copynumber: 2.6 Consensus size: 249
2121969 ATGTGTCATC
* * * * * *
2121979 GAGCTGAATGGAATCGAACTCGATA-GTTTTTATTGACAGACAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
* * * ** * * * * * * * *
2122043 TTGT-ACTGGATATGCCCTTGAACTGAATGGAATTGAGCTCGAAGGTGTTGATTAACAGATATCC
65 CTGTAAAT-GATGTGCATTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
** * * *
2122107 CTTCTTGCCTTGAGCTATGTTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGT
129 CTTCTTGCCTTGAGCTATACTACAAATGATGGGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGT
* * *
2122172 CTTTTGTTGGCAGATAACCCTTATTGCCTTGAGCTATGCCGCAAATGATGTGCCTTT
194 C-TTGGTTGGCAGATAACCCTTATTGCCTTGAGCTATACCGCAAACGATGTGCCTTT
2122229 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
* *
2122294 TGTAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAGATAACCCT
66 TGTAAATGATGTGCATTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCT
* * *
2122359 TTTTGCCTTGAGCTATACTGCAAATGATGGGCCTTTGAGCTAAGTGTAATTGAACTCGAAGGTCT
131 TCTTGCCTTGAGCTATACTACAAATGATGGGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCT
* *
2122424 TGGTTGGCAGATAACCCTTCTTGCCTTGAGCTATACTGCAAACGATGTGCCTTT
196 TGGTTGGCAGATAACCCTTATTGCCTTGAGCTATACCGCAAACGATGTGCCTTT
* * * * *
2122478 GAGTTGAGTGTAATTGAACTCTAAGGTCTTTGTTGACATATAACACTTCTAGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
* * * ** * * *
2122543 TGCGAATTTGAGGTGTTTTTGAGCTAAATGTAATCGAATTCGAAGGTCTTTGTTGACAGATAACC
66 TG-TAA-ATGATGTGCATTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
* *
2122608 CTTCTCGTCTTGAG
129 CTTCTTGCCTTGAG
2122622 TTATGTTATA
Statistics
Matches: 337, Mismatches: 52, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
249 113 0.34
250 162 0.48
251 62 0.18
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (249 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
TGTAAATGATGTGCATTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCT
TCTTGCCTTGAGCTATACTACAAATGATGGGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCT
TGGTTGGCAGATAACCCTTATTGCCTTGAGCTATACCGCAAACGATGTGCCTTT
Found at i:2122529 original size:249 final size:252
Alignment explanation
Indices: 2122080--2122621 Score: 757
Period size: 249 Copynumber: 2.2 Consensus size: 252
2122070 TGGAATTGAG
* * * * ** *
2122080 CTCGAAGGTGTTGATTAACAGATATCCCTTCTTGCCTTGAGCTATGTTACAAATGATGTGCCTTT
1 CTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTGAGCTATACTACAAATGATGGGCCTTT
* * * *
2122145 GAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTATTGCCTTGAGCTATG
66 GAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATTGCCTTGAGCTATA
* *
2122210 CCGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
131 CCGCAAACGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACAC
* * * *
2122275 TTCTAGCCTTGAGTTATGCTG-TAA-ATGATGTGCATTTGAGCTGAGTGTAATCGAA
196 TTCTAGCCTTGAGTTATGCTGCGAATATGAGGTGCATTTGAGCTAAATGTAATCGAA
* * *
2122330 CTCGAAGGTCTTGGTTGGCAGATAACCCTTTTTGCCTTGAGCTATACTGCAAATGATGGGCCTTT
1 CTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTGAGCTATACTACAAATGATGGGCCTTT
* *
2122395 GAGCTAAGTGTAATTGAACTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTTGCCTTGAGCTATA
66 GAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATTGCCTTGAGCTATA
* * * * *
2122459 CTGCAAACGATGTGCCTTTGAGTTGAGTGTAATTGAACTCTAAGGTCTTTGTTGACATATAACAC
131 CCGCAAACGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACAC
* **
2122524 TTCTAGCCTTGAGTTATGCTGCGAATTTGAGGTGTTTTTGAGCTAAATGTAATCGAA
196 TTCTAGCCTTGAGTTATGCTGCGAATATGAGGTGCATTTGAGCTAAATGTAATCGAA
* * * *
2122581 TTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGTCTTGAG
1 CTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTGAG
2122622 TTATGTTATA
Statistics
Matches: 254, Mismatches: 36, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
249 112 0.44
250 82 0.32
251 60 0.24
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (252 bp):
CTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTGAGCTATACTACAAATGATGGGCCTTT
GAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATTGCCTTGAGCTATA
CCGCAAACGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACAC
TTCTAGCCTTGAGTTATGCTGCGAATATGAGGTGCATTTGAGCTAAATGTAATCGAA
Found at i:2125267 original size:55 final size:55
Alignment explanation
Indices: 2125208--2125362 Score: 147
Period size: 56 Copynumber: 2.7 Consensus size: 55
2125198 AAATAAAAGG
* *
2125208 AATAA-AAGTAAAAATAAACAAAGAAAATAAAAAATAAAAAACCCAAT-AATACTAT
1 AATAATAAGTAAAAATAAACAAA-AAAATAAAAAATAAAAAACCAAATAAATA-AAT
* *
2125263 AATAAATAAATAAATATAAA-AAAAATAA-AAATAAATAAAAAACCAAATAAATAAAT
1 AAT-AATAAGTAAAAATAAACAAAAA-AATAAA-AAATAAAAAACCAAATAAATAAAT
* * *
2125319 AAAAATAAGTAAAGATAAACAAAATAAAAATAAAAATATAAAAA
1 AATAATAAGTAAAAATAAACAAAA-AAATA-AAAAATA-AAAAA
2125363 TTACAGAGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 17
0.78 0.07 0.16
Matches are distributed among these distances:
55 22 0.27
56 32 0.39
57 22 0.27
58 7 0.08
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (55 bp):
AATAATAAGTAAAAATAAACAAAAAAATAAAAAATAAAAAACCAAATAAATAAAT
Done.