Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_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: 4148933
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 13
Found at i:1930068 original size:81 final size:81
Alignment explanation
Indices: 1929933--1930185 Score: 319
Period size: 81 Copynumber: 3.1 Consensus size: 81
1929923 CCTTTGAGGC
* * * * *
1929933 CTAACTATGCAATTGGCAGGAATGTGTCAATTACGCCAGTTAGATGAATAGTTAAATATCATTGA
1 CTAACTATGCAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAATGGTTAAATATCGTTGA
1929998 GTAAAAGAATAATGGA
66 GTAAAAGAATAATGGA
* * * * *
1930014 CTAACTATGCAGTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTTGA
1 CTAACTATGCAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAATGGTTAAATATCGTTGA
*
1930079 GTAAAAGGATAATGG-
66 GTAAAAGAATAATGGA
* * * * ** *
1930094 CTTAACTATGCAATTGACAGAAAGGTGTAAATTAAGCCGGTTAGCTGAATGGTTAAGCATTGTTG
1 C-TAACTATGCAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAATGGTTAAATATCGTTG
1930159 AGTAAAAGAATAATGGA
65 AGTAAAAGAATAATGGA
*
1930176 CTAGCTATGC
1 CTAACTATGC
1930186 CTTGGACAGA
Statistics
Matches: 146, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 144 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (81 bp):
CTAACTATGCAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAATGGTTAAATATCGTTGA
GTAAAAGAATAATGGA
Found at i:1930234 original size:162 final size:162
Alignment explanation
Indices: 1929934--1930252 Score: 383
Period size: 162 Copynumber: 2.0 Consensus size: 162
1929924 CTTTGAGGCC
* * * * * *
1929934 TAACTATGCAATTGGCAGGAATGTGTCAATTACGCCAGTTAGATGAATAGTTAAATATCATTGAG
1 TAACTATGCAATTGACAGAAAGGTGTAAATTAAGCCAGTTAGATGAATAGTTAAACATCATTGAG
* * * * **
1929999 TAAAAGAATAATGGACTAACTATGCAGTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACG
66 TAAAAGAATAATGGACTAACTATGCACTTGGCAGAAAAGCGTCAAATATGTCAGTTAGATGAAAA
* *
1930064 GTTAAATACCGTTGAGTAAAAGGATAATGGCT
131 GCTAAATACCGTTGAGTAAAAGAATAATGGCT
* * * * **
1930096 TAACTATGCAATTGACAGAAAGGTGTAAATTAAGCCGGTTAGCTGAATGGTTAAGCATTGTTGAG
1 TAACTATGCAATTGACAGAAAGGTGTAAATTAAGCCAGTTAGATGAATAGTTAAACATCATTGAG
*
1930161 TAAAAGAATAATGGACTAGCTATGC-CTTGGACAGAAAAGCGTCAAATATG-CAAGTTA-AGTGA
66 TAAAAGAATAATGGACTAACTATGCACTTGG-CAGAAAAGCGTCAAATATGTC-AGTTAGA-TGA
* *
1930223 AAAGCTAAATACCTTTGGGTAAAAGAATAA
128 AAAGCTAAATACCGTTGAGTAAAAGAATAA
1930253 AATAATTATA
Statistics
Matches: 131, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
161 6 0.05
162 125 0.95
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (162 bp):
TAACTATGCAATTGACAGAAAGGTGTAAATTAAGCCAGTTAGATGAATAGTTAAACATCATTGAG
TAAAAGAATAATGGACTAACTATGCACTTGGCAGAAAAGCGTCAAATATGTCAGTTAGATGAAAA
GCTAAATACCGTTGAGTAAAAGAATAATGGCT
Found at i:1933667 original size:47 final size:45
Alignment explanation
Indices: 1933573--1933698 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
1933563 GTAAGCATAT
* * *
1933573 AAATAAGCTTACTAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
1933617 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
1933664 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1933699 GGATTTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 40 0.54
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:1940464 original size:44 final size:44
Alignment explanation
Indices: 1940416--1940533 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 44
1940406 GTAAGCATAT
* * *
1940416 AAATAAGCTTACTAGCTTTTGGAATAATAGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATAGCAAGTATATGAGTA
* * * *
1940460 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTAGTA
1 AAATAAGCTTACGAGCTTATGGAA--T-AATAGCAAGTATATGAGTA
1940507 AAATAAGCTTACGAGCTTATGGAATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
1940534 ATGGTAAGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 24 0.38
45 1 0.02
46 1 0.02
47 38 0.59
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATAGCAAGTATATGAGTA
Found at i:1944197 original size:20 final size:20
Alignment explanation
Indices: 1944172--1944218 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
1944162 AAGTGTTATT
1944172 GATACCAAGAGGGGAGTATC
1 GATACCAAGAGGGGAGTATC
1944192 GATACCAAGAGGGGAGTATC
1 GATACCAAGAGGGGAGTATC
1944212 GATACCA
1 GATACCA
1944219 TAAGGATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.32, T:0.15
Consensus pattern (20 bp):
GATACCAAGAGGGGAGTATC
Found at i:1944285 original size:19 final size:20
Alignment explanation
Indices: 1944261--1944331 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
1944251 TGCAAAAATG
*
1944261 GTATCGGTACCATGATAG-A
1 GTATCGATACCATGATAGTA
1944280 GTATCGATACCATAGCATAGTA
1 GTATCGATACCAT-G-ATAGTA
* * **
1944302 GTATTGATACCATGATGGGG
1 GTATCGATACCATGATAGTA
1944322 GTATCGATAC
1 GTATCGATAC
1944332 TAGTGAACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.28
20 13 0.30
21 5 0.12
22 13 0.30
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (20 bp):
GTATCGATACCATGATAGTA
Found at i:1944310 original size:22 final size:19
Alignment explanation
Indices: 1944261--1944331 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 19
1944251 TGCAAAAATG
*
1944261 GTATCGGTACCATGATAGA
1 GTATCGATACCATGATAGA
1944280 GTATCGATACCATAGCATAGTA
1 GTATCGATACCAT-G-ATAG-A
* * *
1944302 GTATTGATACCATGATGGGG
1 GTATCGATACCATGAT-AGA
1944322 GTATCGATAC
1 GTATCGATAC
1944332 TAGTGAACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.28
20 12 0.28
21 6 0.14
22 13 0.30
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (19 bp):
GTATCGATACCATGATAGA
Found at i:1944711 original size:59 final size:59
Alignment explanation
Indices: 1944645--1944844 Score: 332
Period size: 59 Copynumber: 3.4 Consensus size: 59
1944635 ATGGAACTAA
*
1944645 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATAAGACACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGACACTTC
*
1944704 GTGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATAT-AGAGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGA-CACTTC
* *
1944763 GTGTGCTAAAAT-AGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGA-TAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGACACTTC
1944822 GTGTGCTAAAATGATAAGAAATT
1 GTGTGCTAAAATGATAAGAAATT
1944845 TATGATAAGA
Statistics
Matches: 132, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
58 3 0.02
59 127 0.96
60 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGACACTTC
Found at i:1944826 original size:118 final size:118
Alignment explanation
Indices: 1944640--1944998 Score: 400
Period size: 132 Copynumber: 2.9 Consensus size: 118
1944630 ACCAAATGGA
* * * *
1944640 ACTAAGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATAAGACACTTCG
1 ACTATGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
1944705 TGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAGC
66 TGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAGC
1944758 ACT-TCGTGTGCTAAAAT-AGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
1 ACTAT-GTGTGCTAAAATGA-TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTT
* * *
1944821 CGTGTGCTAAAATGATAAGAAATTTATGATAAGAAATTTATACTAAGTATATGAATTTCCGTATA
64 CGTGTGCT-AAA--AT--G--------G-TAAGAAATTCATACTAAGTGTATGAATTTCCATATA
1944886 GAGC
115 GAGC
* ** * *
1944890 ACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTACAAATTTCCGTATTGGGCAC-TCG
1 ACTATGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
* * * *
1944954 ATGTGCAAAAATGTTAAGAAATTCAAACCAAGTGTATGAATTTCC
66 -TGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCC
1944999 GTATGTATGA
Statistics
Matches: 204, Mismatches: 18, Indels: 38
0.78 0.07 0.15
Matches are distributed among these distances:
117 1 0.00
118 91 0.45
119 3 0.01
121 2 0.01
123 1 0.00
127 1 0.00
129 2 0.01
131 7 0.03
132 95 0.47
133 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (118 bp):
ACTATGTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG
TGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAGC
Found at i:1944867 original size:14 final size:14
Alignment explanation
Indices: 1944832--1944861 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1944822 GTGTGCTAAA
1944832 ATGATAAGAAATTT
1 ATGATAAGAAATTT
1944846 ATGATAAGAAATTT
1 ATGATAAGAAATTT
1944860 AT
1 AT
1944862 ACTAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (14 bp):
ATGATAAGAAATTT
Found at i:1944899 original size:73 final size:73
Alignment explanation
Indices: 1944777--1944917 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
1944767 GCTAAAATAG
* *
1944777 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAAATGATAAGAA
1 TAAGAAATTCATACTAAGTATATGAATTTCCATATAGAGCACTTCGTGTGCTAAAATGATAAGAA
1944842 ATTTATGA
66 ATTTATGA
* * *
1944850 TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACTAT-GTGTGCTAAAATGTTAAGA
1 TAAGAAATTCATACTAAGTATATGAATTTCCATATAGAGCACT-TCGTGTGCTAAAATGATAAGA
1944914 AATT
65 AATT
1944918 CATACTAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 61 0.98
74 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (73 bp):
TAAGAAATTCATACTAAGTATATGAATTTCCATATAGAGCACTTCGTGTGCTAAAATGATAAGAA
ATTTATGA
Found at i:1944942 original size:59 final size:59
Alignment explanation
Indices: 1944850--1945002 Score: 200
Period size: 59 Copynumber: 2.6 Consensus size: 59
1944840 AAATTTATGA
* * * *
1944850 TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACTATG-TGTGCTAAAATGT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGAGCACT-CGATGTGCAAAAATGT
** * *
1944909 TAAGAAATTCATACTAAGTGTACAAATTTCCGTATTGGGCACTCGATGTGCAAAAATGT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGAGCACTCGATGTGCAAAAATGT
* *
1944968 TAAGAAATTCAAACCAAGTGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1945003 GTATGAATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 1 0.01
59 80 0.99
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGAGCACTCGATGTGCAAAAATGT
Found at i:1944959 original size:132 final size:127
Alignment explanation
Indices: 1944718--1945107 Score: 406
Period size: 132 Copynumber: 3.0 Consensus size: 127
1944708 GCTAAAATGG
* * *
1944718 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAGCACTTCGTGTGCTAAAATAGTAAGAA
1 TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACTT-GTGTGCTAAAAT-GTAAGAA
* * *
1944783 ATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCG-TGTGCTAAAATGATAAGAAATTTA
64 ATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TCGATGTGC-AAAATGATAAGAAATTCA
1944847 TGA
127 --A
1944850 TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACTATGTGTGCTAAAATGTTAAGAA
1 TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACT-TGTGTGCTAAAATG-TAAGAA
** *
1944915 ATTCATACTAAGTGTACAAATTTCCGTATTGGGCACTCGATGTGCAAAAATGTTAAGAAATTCAA
64 ATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGATGTGC-AAAATGATAAGAAATTCAA
** * * * ** * * * * *
1944980 -ACCAAGTGTATGAATTTCCGTATGTATGAATTTCCGTATTGGGAACTCGATGTGCAAAAATGAT
1 TAAGAAATTTAT--A-CTAAGTA--TATGAATTTCCGTATAGAGCACTTG-TGTGCTAAAATG-T
* **
1945044 AAGAAACTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATGTGCAAAATGATAAGAAA
59 AAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGATGTGCAAAATGATAAGAAA
1945108 CTCATACTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
129 7 0.03
130 1 0.00
131 5 0.02
132 115 0.52
133 15 0.07
134 77 0.35
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (127 bp):
TAAGAAATTTATACTAAGTATATGAATTTCCGTATAGAGCACTTGTGTGCTAAAATGTAAGAAAT
TCATACTAAGTGTATGAATTTCCGTATTGGGCACTCGATGTGCAAAATGATAAGAAATTCAA
Found at i:1944989 original size:191 final size:191
Alignment explanation
Indices: 1944655--1944998 Score: 507
Period size: 191 Copynumber: 1.8 Consensus size: 191
1944645 GTGTGCTAAA
* *
1944655 ATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATAAGACACTTCGTGTGCTAAAATGGTA
1 ATGATAAGAAATTCATACTAAGTATATGAATTTCCATATAAGACACTTCGTGTGCTAAAATGGTA
** *
1944720 AGAAATTCATACTAAGTGTATGAATTTCCATATAGAGCACTTCGTGTGCTAAAATAGTAAGAAAT
66 AGAAATTCATACTAAGTGTACAAATTTCCATATAGAGCACTTCGTGTGCAAAAATAGTAAGAAAT
* *
1944785 TCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTT
131 TCAAACCAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTT
* * *
1944846 ATGATAAGAAATTTATACTAAGTATATGAATTTCCGTAT-AGAGCACTAT-GTGTGCTAAAATGT
1 ATGATAAGAAATTCATACTAAGTATATGAATTTCCATATAAGA-CACT-TCGTGTGCTAAAATGG
* * *
1944909 TAAGAAATTCATACTAAGTGTACAAATTTCCGTATTGGGCAC-TCGATGTGCAAAAAT-GTTAAG
64 TAAGAAATTCATACTAAGTGTACAAATTTCCATATAGAGCACTTCG-TGTGCAAAAATAG-TAAG
1944972 AAATTCAAACCAAGTGTATGAATTTCC
127 AAATTCAAACCAAGTGTATGAATTTCC
1944999 GTATGTATGA
Statistics
Matches: 136, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
190 7 0.05
191 128 0.94
192 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (191 bp):
ATGATAAGAAATTCATACTAAGTATATGAATTTCCATATAAGACACTTCGTGTGCTAAAATGGTA
AGAAATTCATACTAAGTGTACAAATTTCCATATAGAGCACTTCGTGTGCAAAAATAGTAAGAAAT
TCAAACCAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAAATGATAAGAAATTT
Found at i:1945007 original size:16 final size:16
Alignment explanation
Indices: 1944986--1945018 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1944976 TCAAACCAAG
1944986 TGTATGAATTTCCGTA
1 TGTATGAATTTCCGTA
1945002 TGTATGAATTTCCGTA
1 TGTATGAATTTCCGTA
1945018 T
1 T
1945019 TGGGAACTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (16 bp):
TGTATGAATTTCCGTA
Found at i:1945062 original size:75 final size:75
Alignment explanation
Indices: 1944933--1945077 Score: 245
Period size: 75 Copynumber: 1.9 Consensus size: 75
1944923 TAAGTGTACA
* * *
1944933 AATTTCCGTATTGGGCACTCGATGTGCAAAAATGTTAAGAAATTCAAACCAAGTGTATGAATTTC
1 AATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCAAACCAAGTGTATGAATTTC
1944998 CGTATGTATG
66 CGTATGTATG
* *
1945008 AATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCATACTAAGTGTATGAATTTC
1 AATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCAAACCAAGTGTATGAATTTC
1945073 CGTAT
66 CGTAT
1945078 TGGGCACTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (75 bp):
AATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCAAACCAAGTGTATGAATTTC
CGTATGTATG
Found at i:1945124 original size:58 final size:59
Alignment explanation
Indices: 1945002--1945129 Score: 222
Period size: 58 Copynumber: 2.2 Consensus size: 59
1944992 AATTTCCGTA
1945002 TGTATGAATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCATACTAAG
1 TGTATGAATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCATACTAAG
* **
1945061 TGTATGAATTTCCGTATTGGGCACTTTATGTGC-AAAATGATAAGAAACTCATACTAAG
1 TGTATGAATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCATACTAAG
1945119 TGTATGAATTT
1 TGTATGAATTT
1945130 AGATAAGGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
58 36 0.55
59 30 0.45
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (59 bp):
TGTATGAATTTCCGTATTGGGAACTCGATGTGCAAAAATGATAAGAAACTCATACTAAG
Found at i:1945568 original size:81 final size:81
Alignment explanation
Indices: 1945431--1945743 Score: 238
Period size: 81 Copynumber: 3.9 Consensus size: 81
1945421 GGCCTAAGTG
* ** * *
1945431 TGCAATTGGCAGGAATTTGCCAATTACGCCAGTTAGATGAAC-GATTAAATATCGTTGAGTAAAA
1 TGCAATTGGCAGAAAAGTGCCAATTATGCCAGTTAGATGAACAG-TTAAATACCGTTGAGTAAAA
*
1945495 GAATAACGGACCAACTA
65 GAATAATGGACCAACTA
* *
1945512 TGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGCAAAAG
1 TGCAATTGGCAGAAAAGTGCCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAAAG
* * *
1945577 GATATTGG-CCTAACTG
66 AATAATGGACC-AACTA
* * * * * * * ** ** **
1945593 TGCAATTGACAAAAAATTGCCAGTTATGTCGGTTAGCTGAATGGTTAAGCACTATTGAGTAAAAG
1 TGCAATTGGCAGAAAAGTGCCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAAAG
* *
1945658 AATAATGGACTAGCTA
66 AATAATGGACCAACTA
* * * * * ** * *
1945674 TGC-CTTGGACAGAAAAGTGTCAAATATGCAAGTTA-AGTGAAAAACTAAATACCTTTGGGTAAA
1 TGCAATTGG-CAGAAAAGTGCCAATTATGCCAGTTAGA-TGAACAGTTAAATACCGTTGAGTAAA
*
1945737 AAAATAA
64 AGAATAA
1945744 AATAATTATA
Statistics
Matches: 175, Mismatches: 52, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
80 5 0.03
81 168 0.96
82 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (81 bp):
TGCAATTGGCAGAAAAGTGCCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAAAG
AATAATGGACCAACTA
Found at i:1949120 original size:57 final size:57
Alignment explanation
Indices: 1949056--1949169 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
1949046 AAGTATAAGA
*
1949056 AATGACTTAAGTAAGACCAATTTGT-AGTAGATAGTTTATTGAAAGGGCATTTTGGTC
1 AATGACTTAAGTAAGACCAATTTGTAAG-AGATAGTTTATTGAAAGGGAATTTTGGTC
1949113 AATGACTTAAGTAAGACCAATTTGTAAGAGATAGTTTATTGAAAGGGAATTTTGGTC
1 AATGACTTAAGTAAGACCAATTTGTAAGAGATAGTTTATTGAAAGGGAATTTTGGTC
1949170 TTATAGGTGA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 53 0.96
58 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (57 bp):
AATGACTTAAGTAAGACCAATTTGTAAGAGATAGTTTATTGAAAGGGAATTTTGGTC
Found at i:1949848 original size:20 final size:19
Alignment explanation
Indices: 1949802--1949853 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
1949792 ACCTATTCAA
1949802 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCAAGAG
*
1949821 GGGAGTATCGATACCATA-AG
1 GTG-GTATCGATACCA-AGAG
1949841 GATGGTAT-GATAC
1 G-TGGTATCGATAC
1949854 AATTGAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 7 0.25
20 19 0.68
21 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (19 bp):
GTGGTATCGATACCAAGAG
Found at i:1950343 original size:59 final size:59
Alignment explanation
Indices: 1950278--1950679 Score: 601
Period size: 59 Copynumber: 6.8 Consensus size: 59
1950268 ATGGCACTAA
* * *
1950278 GTGTGCTAAATTGTTAAGAAATTCATACTAATTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
*
1950337 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
*
1950396 GTGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* *
1950455 GTGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * *
1950514 GTGCGCTAAAATGATAAGAAATTCATACTAAGTGCATGAATTTCCGTATAGGGCACTAT-
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACT-TC
* * * * * *
1950573 GTGTGCTAAAATGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTTTTGGGCACTTT
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * * *
1950632 ATGTGC-AAAAAGATAAGAAACTCATACTAAGTGTTTGAATTTCCATAT
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATAT
1950680 GGGAAATATA
Statistics
Matches: 316, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
58 36 0.11
59 279 0.88
60 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
Found at i:1952002 original size:14 final size:15
Alignment explanation
Indices: 1951977--1952006 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1951967 CTCTGTTGTA
1951977 TGATATTGATCTATG
1 TGATATTGATCTATG
1951992 TGATA-TGATCTATG
1 TGATATTGATCTATG
1952006 T
1 T
1952007 TAGTATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TGATATTGATCTATG
Found at i:1952511 original size:44 final size:43
Alignment explanation
Indices: 1952448--1952530 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 43
1952438 AGTCAAGGGT
1952448 TCTATGCGGTCCTTCGGGACAATTCTATGTGGTC-CTTCGGGACA
1 TCTATGCGGTCCTTCGGGAC-ATTCTATGTGG-CACTTCGGGACA
* *
1952492 TCTATGTGGTCCTTCGGGACATTCTGTGTGGCACTTCGG
1 TCTATGCGGTCCTTCGGGACATTCTATGTGGCACTTCGG
1952531 TGCATTTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 1 0.03
43 16 0.44
44 19 0.53
ACGTcount: A:0.13, C:0.24, G:0.29, T:0.34
Consensus pattern (43 bp):
TCTATGCGGTCCTTCGGGACATTCTATGTGGCACTTCGGGACA
Found at i:1952528 original size:22 final size:22
Alignment explanation
Indices: 1952447--1952530 Score: 118
Period size: 21 Copynumber: 3.8 Consensus size: 22
1952437 GAGTCAAGGG
*
1952447 TTCTATGCGGTCCTTCGGGACAA
1 TTCTATGTGGTCCTTCGGGAC-A
1952470 TTCTATGTGGTCCTTCGGGACA
1 TTCTATGTGGTCCTTCGGGACA
1952492 -TCTATGTGGTCCTTCGGGACA
1 TTCTATGTGGTCCTTCGGGACA
*
1952513 TTCTGTGTGG-CACTTCGG
1 TTCTATGTGGTC-CTTCGG
1952531 TGCATTTCTA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
21 22 0.39
22 15 0.26
23 20 0.35
ACGTcount: A:0.13, C:0.24, G:0.29, T:0.35
Consensus pattern (22 bp):
TTCTATGTGGTCCTTCGGGACA
Found at i:1955702 original size:54 final size:54
Alignment explanation
Indices: 1955652--1956410 Score: 1009
Period size: 54 Copynumber: 14.1 Consensus size: 54
1955642 CGTAGTGTTG
* * * *
1955652 ATACGGTCGTTCATAAACATATTATGAATTCCGGGGGTTGCACACTTAGTGTCG
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * *
1955706 ATATGGTCGTTCATCAACATA-TATTGAACTT-CGTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTA-TGAA-TTCCGTGGGTTGCACACTTAGTGCCT
** * *
1955760 ATACGGTTATTCATAAACACATTATGAATTCTGTGGGTTGCACACTTAGTGCAT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * *
1955814 ATACGGTCGTTCATCAACATATGATGAATTGCGTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
*
1955868 ATACGGTCGTTCATAAACACATTATGAATTCCGTAGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * *
1955922 ATACGATCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
** *
1955976 ATACGGTTATTCATAAACACATTATGAATTCTGTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * * * *
1956030 ATACGGTCATTCATCAACATATAATGAATTCCGTGGGTTGCACACATAGTTCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
** * * *
1956084 ATACGGTCGTTCATAAACACATTATGAATTATGTGGATTACACACTTAGTTCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* *
1956138 ATACGGTCGTTCATAAACACATTATGAATTTCGTGGGTTACACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * * *
1956192 ATACGGTCGTTCATCAACATATAATGAATTCCGCGGGTTGCACACTTAGTTCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * ** *
1956246 ATACAGTCGTTTATAAACACATTACGAATTATGTGGGTTGCACACTTAGTTCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* *
1956300 ATAAGGTCGTTCATAAACACATTATGAATTCCTTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * *
1956354 ATACGATCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
1 ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
1956408 ATA
1 ATA
1956411 GTACACATAG
Statistics
Matches: 614, Mismatches: 87, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
53 4 0.01
54 606 0.99
55 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (54 bp):
ATACGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGCACACTTAGTGCCT
Found at i:1962904 original size:54 final size:54
Alignment explanation
Indices: 1962852--1963444 Score: 595
Period size: 54 Copynumber: 11.0 Consensus size: 54
1962842 CTGTCGATAT
*
1962852 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATAC
1 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* * ** * *
1962906 GGTCGTTCATTAACATAAGATGAATTTTGTTGGTTGCACACTTAGTGCCTATAC
1 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* *
1962960 GGTTGTTCATAAACACATTATGAATTCTGTGGGTTGCACACTTAGTGTCTATAC
1 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* * * ** * *
1963014 -GTTCGTTCATCAATATATGATGAATTCCATGGGTTGGACACTTAGTACCTATAC
1 GGTT-GTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* * * * * * *
1963068 GATTATTTATATACAAATTATGAATTAC-GTGGATTGCACACTAAGTGCCTATAC
1 GGTTGTTCATAAACATATTATGAATT-CTGTGGGTTGCACACTTAGTGCCTATAC
* ** * *
1963122 GGTTGTTCATCAACATACGATGAATTAC-ATGGGTTGCACACTTAGTGCCTATAA
1 GGTTGTTCATAAACATATTATGAATT-CTGTGGGTTGCACACTTAGTGCCTATAC
** * * * *
1963176 GGTCATTCCTAAACACATTATGAATT-TCGTGGGTTGCACATTTAGTGCCTATAT
1 GGTTGTTCATAAACATATTATGAATTCT-GTGGGTTGCACACTTAGTGCCTATAC
** ** * *
1963230 GGTCATTCATAAACATACGATGAATTTTGTAGGTTGCACACTTAGTGCCTATAC
1 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* ** * * *
1963284 GATCATTCATAAACACATTATGAATTTTGTGGGTTGCACACTTAGGGCCTATAC
1 GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
* * *
1963338 GTTTGTTCATAAACACATTATGAATTAC-GTGGGTTGCACACTTAGTGCCTATAA
1 GGTTGTTCATAAACATATTATGAATT-CTGTGGGTTGCACACTTAGTGCCTATAC
* * * * * *
1963392 GGTCGTTCATCAACATGTGATGAATT-TATTGGGTTGCACACTTAGTGTCTATA
1 GGTTGTTCATAAACATATTATGAATTCT-GTGGGTTGCACACTTAGTGCCTATA
1963445 GTACACATAG
Statistics
Matches: 444, Mismatches: 86, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.01
54 437 0.98
55 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTTGTTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAGTGCCTATAC
Found at i:1965352 original size:29 final size:29
Alignment explanation
Indices: 1965314--1965369 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
1965304 ATATGCCAAT
* *
1965314 AAGGAAAGTGATAGGTGATGTTTCCATAA
1 AAGGAAAGTGATAAGTGATGATTCCATAA
1965343 AAGGAAAGTGATAAGTGATGATTCCAT
1 AAGGAAAGTGATAAGTGATGATTCCAT
1965370 GATGTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (29 bp):
AAGGAAAGTGATAAGTGATGATTCCATAA
Found at i:1965901 original size:27 final size:27
Alignment explanation
Indices: 1965855--1965923 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
1965845 CTACAGTACC
* *
1965855 TATGATCCTTTGTAGCACTTAAAGTGCA
1 TATGAT-CTATGTAGAACTTAAAGTGCA
1965883 TATGATCTATGTAGAACTTAAAGTGCA
1 TATGATCTATGTAGAACTTAAAGTGCA
*
1965910 TATGTTCTATGTAG
1 TATGATCTATGTAG
1965924 CAGTTTGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 32 0.84
28 6 0.16
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (27 bp):
TATGATCTATGTAGAACTTAAAGTGCA
Found at i:1966836 original size:28 final size:28
Alignment explanation
Indices: 1966796--1966851 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1966786 ATTTAGCTTT
1966796 TCTCCTCATGGTCGAGTGCACCTACACA
1 TCTCCTCATGGTCGAGTGCACCTACACA
1966824 TCTCCTCATGGTCGAGTGCACCTACACA
1 TCTCCTCATGGTCGAGTGCACCTACACA
1966852 CAAAGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (28 bp):
TCTCCTCATGGTCGAGTGCACCTACACA
Found at i:1971315 original size:90 final size:89
Alignment explanation
Indices: 1971170--1971335 Score: 280
Period size: 90 Copynumber: 1.9 Consensus size: 89
1971160 CTTTTATAGG
*
1971170 CAAGTTACCATAATCTTATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
1 CAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
*
1971235 GAAATTTAATAATCCTCTTATATC
66 GAAATTAAATAATCCTCTTATATC
*
1971259 CAAGTTACCCTAATCATATT-GGAGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAA
1 CAAGTTACCATAATCATATTAGG-G-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAA
1971323 TTGAAATTAAATA
64 TTGAAATTAAATA
1971336 TTCGGGATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
88 2 0.03
89 19 0.26
90 51 0.71
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
CAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
GAAATTAAATAATCCTCTTATATC
Found at i:1982380 original size:15 final size:15
Alignment explanation
Indices: 1982360--1982388 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1982350 CTCTAGGACT
1982360 TGATGATGTAATATA
1 TGATGATGTAATATA
1982375 TGATGATGTAATAT
1 TGATGATGTAATAT
1982389 TAATGAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (15 bp):
TGATGATGTAATATA
Found at i:1988331 original size:56 final size:54
Alignment explanation
Indices: 1988224--1988329 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 54
1988214 TTTAGTATCA
*
1988224 ACTATTACTTTTATTTCATTTTGATCACTTAATTATTATTTTTTTCAAAATTAT
1 ACTATTACTTTTATTTCATTTTGATCACTTAATTATTATGTTTTTCAAAATTAT
1988278 ACTATTACGTTTTGATTTCATTTTGATCACTTATCATTA-TATGTTTTTCAAA
1 ACTATTAC-TTTT-ATTTCATTTTGATCACTTA--ATTATTATGTTTTTCAAA
1988330 TTTTCAGTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
54 8 0.17
55 4 0.09
56 19 0.40
57 12 0.26
58 4 0.09
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (54 bp):
ACTATTACTTTTATTTCATTTTGATCACTTAATTATTATGTTTTTCAAAATTAT
Found at i:1991645 original size:2 final size:2
Alignment explanation
Indices: 1991638--1991663 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1991628 TAATATTTAC
1991638 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
1991664 TAGTATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1991941 original size:2 final size:2
Alignment explanation
Indices: 1991934--1991963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1991924 ATTAATACTA
1991934 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
1991964 GTAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1994667 original size:7 final size:7
Alignment explanation
Indices: 1994655--1994700 Score: 83
Period size: 7 Copynumber: 6.4 Consensus size: 7
1994645 TTTAATTCTC
1994655 TTCCTTT
1 TTCCTTT
1994662 TTCCTTT
1 TTCCTTT
1994669 TTGCCTTT
1 TT-CCTTT
1994677 TTCCTTT
1 TTCCTTT
1994684 TTCCTTT
1 TTCCTTT
1994691 TTCCTTT
1 TTCCTTT
1994698 TTC
1 TTC
1994701 TTTAAGGTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (7 bp):
TTCCTTT
Found at i:1994680 original size:22 final size:21
Alignment explanation
Indices: 1994655--1994700 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 21
1994645 TTTAATTCTC
1994655 TTCCTTTTTCCTTTTTGCCTTT
1 TTCCTTTTTCCTTTTT-CCTTT
1994677 TTCCTTTTTCCTTTTTCCTTT
1 TTCCTTTTTCCTTTTTCCTTT
1994698 TTC
1 TTC
1994701 TTTAAGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCCTTTTTCCTTTTTCCTTT
Found at i:1998673 original size:16 final size:16
Alignment explanation
Indices: 1998652--1998683 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1998642 AATAAATAAG
1998652 CGAACATAAACGAACA
1 CGAACATAAACGAACA
1998668 CGAACATAAACGAACA
1 CGAACATAAACGAACA
1998684 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:1998788 original size:22 final size:22
Alignment explanation
Indices: 1998763--1998823 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
1998753 ACGAACATAA
1998763 ACGAACACAAACATAAACGAAC
1 ACGAACACAAACATAAACGAAC
*
1998785 ACGAACA-TAA-ATAAACTCGAAC
1 ACGAACACAAACATAAA--CGAAC
*
1998807 A-TAA-ACAAACATAAACG
1 ACGAACACAAACATAAACG
1998824 TTGGAGACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
20 8 0.25
21 6 0.19
22 18 0.56
ACGTcount: A:0.59, C:0.23, G:0.08, T:0.10
Consensus pattern (22 bp):
ACGAACACAAACATAAACGAAC
Found at i:1998805 original size:16 final size:16
Alignment explanation
Indices: 1998753--1998817 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
1998743 TAATAAATAA
*
1998753 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
* *
1998769 ACAAACATAAACGAAC
1 ACGAACATAAACAAAC
*
1998785 ACGAACATAAATAAAC
1 ACGAACATAAACAAAC
*
1998801 TCGAACATAAACAAAC
1 ACGAACATAAACAAAC
1998817 A
1 A
1998818 TAAACGTTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.60, C:0.23, G:0.08, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:2010398 original size:16 final size:15
Alignment explanation
Indices: 2010379--2010418 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
2010369 ATTATGCTAG
2010379 AAGAATAAAAAAAGAA
1 AAGAA-AAAAAAAGAA
*
2010395 AAGAGAAAAGAAAGAA
1 AAGA-AAAAAAAAGAA
2010411 AAGAAAAA
1 AAGAAAAA
2010419 GAAGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 17 0.77
17 1 0.05
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:2013216 original size:124 final size:124
Alignment explanation
Indices: 2012996--2013703 Score: 1012
Period size: 124 Copynumber: 5.7 Consensus size: 124
2012986 GATGGATTAA
* * ** *
2012996 CATTTTCAGAAAGAGTTCGTAATAGGAAGAACTCAAATGAAGAGGAAGAAGAATTTCATAATCTG
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* *
2013061 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGTAACATCGT
66 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCGT
* * *
2013120 CATTTCCAGAAAGAGTTTGTAATAAGAAGAACTTATCGGAAGAGGAAGAAGAAGTTCATAATCTG
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* *
2013185 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGTAGAAGAAGATAGAGCAGCATCGT
66 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCGT
* * * *
2013244 CATTTCCCGAAAGAGTTCGTAATAATAAGAACTCATTTGAAGAGGAAAAAGAAGTTCATAATCTG
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* *
2013309 AAGAACATATTCAACCTTTTTCCTTGACTCTATCGCAGAAGGAAATAGAGCAGCATCGT
66 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCGT
* * *
2013368 CATTTCCACAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTA
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* * * * *
2013433 AAGAACGTATTTAACCTTTTTGCTTGACTCTATCGCTGAAGGAGATAGAGCAACATCGA
66 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCGT
* *
2013492 CATTTCCTGAAGGAGTTCGTAAT---AAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* * *
2013554 AAGAACATATTCAACCTTTTTGCTTGACTATATCGTAAAAGGAGATAGAGCAGCATCGAT
66 AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCG-T
* * * * * *
2013614 -ATTTCCAGAAGGAGTTTGTAATAACAAGAATTCATCTGAAGAAGAAGAAGAAGTTCATAATCCG
1 CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
* * *
2013678 AATAACTTATTTAACCTTTTT-CTTGA
66 AAGAACATATTCAACCTTTTTGCTTGA
2013704 ATAGAGCATC
Statistics
Matches: 522, Mismatches: 58, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
121 109 0.21
123 5 0.01
124 408 0.78
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (124 bp):
CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTG
AAGAACATATTCAACCTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATCGT
Found at i:2013953 original size:3 final size:3
Alignment explanation
Indices: 2013945--2013990 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
2013935 TTTTGTCCAA
* *
2013945 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT TTT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2013991 AATAATTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
ATT
Found at i:2014265 original size:62 final size:62
Alignment explanation
Indices: 2014137--2014267 Score: 156
Period size: 62 Copynumber: 2.1 Consensus size: 62
2014127 GGCGCCGCCT
* * **
2014137 TCAACCACTCCAAACTGCTCCGCCGTTATGTTCCCTCGTAAGCTGCTACCATGACACCATGT
1 TCAACCACTCCAAACTGCTCCGCCGTTATGTTCCCTCATAAGCTGCTACCACGACACCATCC
** * * * *
2014199 TCAACCACTCTGAACTGCTCCGCCGTTGTGTTCCCT-ATCCAGCTGCTTCCACGACGCCATCC
1 TCAACCACTCCAAACTGCTCCGCCGTTATGTTCCCTCAT-AAGCTGCTACCACGACACCATCC
2014261 TCAACCA
1 TCAACCA
2014268 AAACTTCCAG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 1 0.02
62 57 0.98
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.25
Consensus pattern (62 bp):
TCAACCACTCCAAACTGCTCCGCCGTTATGTTCCCTCATAAGCTGCTACCACGACACCATCC
Found at i:2018248 original size:7 final size:7
Alignment explanation
Indices: 2018233--2018278 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
2018223 TTTTTAAAAG
*
2018233 AAATTTA
1 AAATATA
2018240 AAATATA
1 AAATATA
2018247 AAATATA
1 AAATATA
2018254 AAATATA
1 AAATATA
2018261 AAATATA
1 AAATATA
2018268 AAATATA
1 AAATATA
2018275 AAAT
1 AAAT
2018279 TCAAGTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:2018648 original size:16 final size:15
Alignment explanation
Indices: 2018627--2018656 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2018617 TTGGTCTACG
2018627 ATTTTTATAGTTAATC
1 ATTTTTATA-TTAATC
2018643 ATTTTTATATTAAT
1 ATTTTTATATTAAT
2018657 GTGGTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
ATTTTTATATTAATC
Found at i:2018863 original size:23 final size:23
Alignment explanation
Indices: 2018818--2018866 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2018808 TTAATGGTAT
* **
2018818 TTTTTATATTTAACTTTTTAATA
1 TTTTTATATTTAAATTTAAAATA
2018841 TTTTTATATTTAAATTTAAAATA
1 TTTTTATATTTAAATTTAAAATA
2018864 TTT
1 TTT
2018867 GTAATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTATATTTAAATTTAAAATA
Found at i:2021970 original size:18 final size:19
Alignment explanation
Indices: 2021949--2021988 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2021939 GTACTATTGA
2021949 ATTTTAAGATT-T-TATTTG
1 ATTTTAA-ATTATATATTTG
2021967 ATTTTAAATTATATATTTG
1 ATTTTAAATTATATATTTG
2021986 ATT
1 ATT
2021989 AAATTATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 8 0.40
19 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTAAATTATATATTTG
Found at i:2028111 original size:21 final size:22
Alignment explanation
Indices: 2028068--2028148 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 22
2028058 TATCGATACC
* * *
2028068 TATGTATAGATACAC-CCTCAA
1 TATGTATCGATACACTACTGAA
2028089 TATGTATCGATACACTAC-GAA
1 TATGTATCGATACACTACTGAA
** * *
2028110 TATGTGCCGATACATTCCTTGAA
1 TATGTATCGATACACTAC-TGAA
*
2028133 TGTGTATCGATACACT
1 TATGTATCGATACACT
2028149 CACAGGTGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 30 0.65
22 1 0.02
23 15 0.33
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (22 bp):
TATGTATCGATACACTACTGAA
Found at i:2030342 original size:13 final size:13
Alignment explanation
Indices: 2030320--2030353 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2030310 AGGGGGAGTA
*
2030320 ATTTTCAAAATTG
1 ATTTTCAAAAATG
2030333 A-TTTCAAAAATG
1 ATTTTCAAAAATG
2030345 ATTTTCAAA
1 ATTTTCAAA
2030354 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:2037772 original size:22 final size:21
Alignment explanation
Indices: 2037742--2037819 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 21
2037732 TAGTACAGAA
*
2037742 GGAATCGATACCCCCTTGAAGG
1 GGAACCGATACCCCCTTGAA-G
*
2037764 GGAACCGATTCCCCCTTTGAATG
1 GGAACCGATACCCCC-TTGAA-G
* *
2037787 GGAACCGATTCCCCCTT-TAG
1 GGAACCGATACCCCCTTGAAG
*
2037807 GGAATCGATACCC
1 GGAACCGATACCC
2037820 TCCACGGGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.24
21 1 0.02
22 15 0.31
23 21 0.43
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (21 bp):
GGAACCGATACCCCCTTGAAG
Found at i:2037783 original size:23 final size:23
Alignment explanation
Indices: 2037742--2037804 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2037732 TAGTACAGAA
* *
2037742 GGAATCGATACCCCC-TTGAAGG
1 GGAACCGATTCCCCCTTTGAAGG
*
2037764 GGAACCGATTCCCCCTTTGAATG
1 GGAACCGATTCCCCCTTTGAAGG
2037787 GGAACCGATTCCCCCTTT
1 GGAACCGATTCCCCCTTT
2037805 AGGGAATCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 13 0.35
23 24 0.65
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAGG
Found at i:2042060 original size:16 final size:16
Alignment explanation
Indices: 2042039--2042079 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
2042029 CCCATTACAA
2042039 AATCCATGGAAATATC
1 AATCCATGGAAATATC
2042055 AATCCATGGAAATATC
1 AATCCATGGAAATATC
*
2042071 AACCCATGG
1 AATCCATGG
2042080 TGTTGTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (16 bp):
AATCCATGGAAATATC
Found at i:2044137 original size:24 final size:24
Alignment explanation
Indices: 2044104--2044164 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
2044094 TTTATATCTT
2044104 TATAC-ATAATGA-AGCTAATTTCA
1 TATACTATAAT-ATAGCTAATTTCA
* *
2044127 TATACTATAATATAGTTATTTTCA
1 TATACTATAATATAGCTAATTTCA
2044151 TATA-TATATATATA
1 TATACTATA-ATATA
2044165 TATATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (24 bp):
TATACTATAATATAGCTAATTTCA
Found at i:2044157 original size:2 final size:2
Alignment explanation
Indices: 2044150--2044182 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2044140 AGTTATTTTC
*
2044150 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2044183 TATGATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2045451 original size:23 final size:23
Alignment explanation
Indices: 2045407--2045451 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2045397 GCTTGAGATA
* * **
2045407 CAACATCACCACCATCTCCATTT
1 CAACAACAACACCATCAACATTT
2045430 CAACAACAACACCATCAACATT
1 CAACAACAACACCATCAACATT
2045452 ATCCATCAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (23 bp):
CAACAACAACACCATCAACATTT
Found at i:2048690 original size:2 final size:2
Alignment explanation
Indices: 2048683--2048758 Score: 136
Period size: 2 Copynumber: 38.5 Consensus size: 2
2048673 AGTTATTTTA
2048683 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
*
2048725 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2048759 GTTATTATGA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 70 0.99
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2056670 original size:3 final size:3
Alignment explanation
Indices: 2056652--2056731 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
2056642 GTAATTATTT
* *
2056652 ATA ATTA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA TTTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
2056698 GTA ATA ATA ATA GTA GTA ATT TTA A-A ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2056732 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
2 4 0.06
3 53 0.85
4 5 0.08
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:2056942 original size:36 final size:36
Alignment explanation
Indices: 2056902--2057168 Score: 135
Period size: 37 Copynumber: 7.3 Consensus size: 36
2056892 AGTGAAAATG
* *
2056902 TCTCATGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
* * ** ** **
2056938 TCTCAAGTGAGATAAA-CTTCTGTTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAATC-T-TGTTTTAAGAAAAACAA
*
2056975 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
* * * ** ** **
2057011 TCTCAAGTGAGATAAAGTTTTGTTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAA
* * *
2057048 CCTCAAGCAAGACAAAT-TTTTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
* * ** ** **
2057083 TCTCAAGTGAGATAAAGT-TCTGTTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAA-TCT-TGTTTTAAGAAAAACAA
* * * *
2057120 TCTCAAGCAAGACAATTTTTTTTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAA-ATCTTGTTTTAAGAAAAACAA
*
2057157 TCTCAAGTGAGA
1 TCTCAAGCGAGA
2057169 TAAAGTTCTG
Statistics
Matches: 161, Mismatches: 62, Indels: 15
0.68 0.26 0.06
Matches are distributed among these distances:
35 24 0.15
36 41 0.25
37 95 0.59
38 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
Found at i:2056997 original size:73 final size:73
Alignment explanation
Indices: 2056885--2057185 Score: 478
Period size: 73 Copynumber: 4.1 Consensus size: 73
2056875 TGGAAATTTT
* * * * * *
2056885 TGTTTCTAGTGAAAATGTCTCATGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCAAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
*
2056950 TAAACTTC
66 TAAAGTTC
*
2056958 TGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCAAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
*
2057023 TAAAGTTT
66 TAAAGTTC
*
2057031 TGTTTCGAGTGAAACTGCCTCAAGCAAGACAAATTTT-TTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAGTGAAACTGTCTCAAGCAAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
2057095 TAAAGTTC
66 TAAAGTTC
* *
2057103 TGTTTCGAGTGAAACTGTCTCAAGCAAGACAATTTTTTTTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAACTGTCTCAAGCAAGACAA-ATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
2057168 ATAAAGTTC
65 ATAAAGTTC
2057177 TGTTTCGAG
1 TGTTTCGAG
2057186 AACATCCGGC
Statistics
Matches: 214, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
72 65 0.30
73 105 0.49
74 44 0.21
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (73 bp):
TGTTTCGAGTGAAACTGTCTCAAGCAAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAAGTTC
Found at i:2057923 original size:20 final size:20
Alignment explanation
Indices: 2057887--2057941 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 20
2057877 AATAAAGCTT
2057887 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTG--AAGAGAATCTA
2057909 TCATCTTTGAAGAGAATCTA
1 TCATCTTTGAAGAGAATCTA
2057929 TCATCTTTGAAGA
1 TCATCTTTGAAGA
2057942 ATGTAGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 24 0.73
22 9 0.27
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TCATCTTTGAAGAGAATCTA
Found at i:2065422 original size:41 final size:41
Alignment explanation
Indices: 2065345--2065423 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
2065335 AAGGTCTTAT
* *
2065345 AGATGGCCTAAAGGACTTATCATCTTGCTTGAAAGACTGAC
1 AGATGGCCTAAAGGACTTATCATCATGCTCGAAAGACTGAC
* * *
2065386 AGATGTCCTAAAGGATTTTTTCATCATGCTCG-AAGACT
1 AGATGGCCTAAAGGA-CTTATCATCATGCTCGAAAGACT
2065424 TACTGATTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 20 0.62
42 12 0.38
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (41 bp):
AGATGGCCTAAAGGACTTATCATCATGCTCGAAAGACTGAC
Found at i:2065600 original size:257 final size:258
Alignment explanation
Indices: 2064826--2067750 Score: 3354
Period size: 258 Copynumber: 11.4 Consensus size: 258
2064816 CATCTTGCAT
* *
2064826 GAAGGTCTTATAGATAGCCAAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCC----
1 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
*
2064887 G----AATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
66 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * * * * * * * *
2064948 TTAATGGGTAATAAACTTTGAAAATCGCATTCTTTCTTTTCAGAAATTTTACTTTATGAAAATAA
131 TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAT
* * * * * *
2065013 TAAATGAGAAACTTTGGAAATTACTTTCTCATTTTTTTTAAAATCACGTGAAAACAACCTGCCC
196 TAAATGAGAAATTTTGGAAATTGCTTTCTCA-TTTTTTGAAAATCACGTGAAAACATCATGACC
** * *
2065077 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGGAG
1 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
* * * *
2065142 GATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCAAAGGACTTATCGATTTTGGAAATAGT
66 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* *
2065207 TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATAT
131 TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAT
* * * *
2065272 TAAAAGATAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAATATGAT-ACC
196 TAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
* * **
2065334 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTTGAAAGACTGACAGATGTCCTAAAG
1 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
** * * *
2065399 GATTTTTTCATCATGCTCG-AAGACTTACTGATTGCCCGAAGGACTTACTAATTTTAGAAATAGT
66 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * *
2065463 TTACTGGGTAAGAAACTTTGGAAATCGCTTACTTACTTTTCAAAAATTTCATTTTGTGAAAACAT
131 TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAT
* *
2065528 TAAATGAGAAATTTTGGAAATCGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGGCC
196 TAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
* * *
2065591 GAAGGTCTTATAGATGGCCTGAAA-GACTTACCATCTTGCTCGAAAGACTGATAGATGACCCGAT
1 GAAGGTCTTATAGATGGCCT-AAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
* *
2065655 GGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACCGATTTTGGAAATAG
65 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
*
2065720 TTTACTGGGTAAGAAACTTCGGAAATCACTTTCTTAC--TT------TTTC--------AAAA-A
130 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
* **
2065768 TTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCAAGTGAAAACATTTTG-CC
195 TTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
* * * * * *
2065831 TGAAGGTCTTATAGATGGCCCAAATGACTTATCATCTTGCTTGAAAGACTGATAGATGGCCTGAA
1 -GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
* * *
2065896 GGATTTAATCATCATTCTCGAAAGACTTACTGATGGCCCGAATGACTTACCAATTTTAGAAATAG
65 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* * * * *
2065961 TTTACTGGATAAGAAACTTTGCAAATCGCTTTCTTACTTTTCAAAAATTTCACTTTCTGAAAATA
130 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
* * * * ** *
2066026 CTAAATGAGAAACTATGGAAATCGCTTTCTCATTTTTT-AAAATTCTTGTGAAAACATCCT-ACC
195 TTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAA-TCACGTGAAAACATCATGA-C
2066089 C
258 C
* ** *
2066090 AAAGGTCTTACGGATGGCGTGAAA-GACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
1 GAAGGTCTTATAGATGGCCT-AAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
** * * * *
2066154 TAATTTAATAATCATGCTCGAAAAACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAG
65 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* * *
2066219 TTTACT-GGTAAGAAACTTTGGAAACCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAAT
130 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATG-AAAAT
* * * * * * ** *
2066283 ACTGAATGATAAACTTTGGAAATCGCCTTCTCATTTTTT-AAAATTCATTTGAAAACATCCT-AC
194 ATTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAA-TCACGTGAAAACATCATGAC
2066346 C
258 C
* * ** * * *
2066347 TGAAGGTCTTACAGATGGCCCGAAA-GACTTATCATCTCACTCAAAAGATTGACAGATGACCTGA
1 -GAAGGTCTTATAGATGG-CCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGA
* * *
2066411 AGAATTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAATA
64 AGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATA
* * * * * *
2066476 GTTTACTGGGTAAGAAGCTTTGGAAACCGCTTACTTACTTTTCAAAAATTTCATTTTGTGAAAAC
129 GTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAAT
** *
2066541 ATTAAATGAGAAATTTTGGAAATCACTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGGCC
194 ATTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
* * * *
2066606 GAAGGTCTTATAGATGGCCCGAAA-GACTTACCATCTTGCTCGAAAGACTGATAGATGACCTGAA
1 GAAGGTCTTATAGATGG-CCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
* * *
2066670 GGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCAAAGGACTTACCGATTTTGGAAATAG
65 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* *
2066735 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAAATTCATTTTATGAAAACA
130 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
* * * * * * *
2066800 TTAAATGAAAAACTTTGGAATTTTCTTTCTCATTTTTTGAAAATCAAGTGAAAACATCCTGCCC
195 TTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
** * *
2066864 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTGACAGATGACCCGAAA
1 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
* * * * *
2066929 GATTTAATTATCATGCTCGAAACACTTACTGATGGCCCGAATGACTTACCGATTTTAGAAATAGT
66 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * * * *
2066994 TTACTGGATAAGAAACTTTGGAAATAACTTTCTTACTTTTCAAATATTTCACTTTCTGAAAATAC
131 TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAT
* * ** *
2067059 TAAATGAGAAACTTTGGAAATCT-CTTTCTCATTTTTTTTGAAATTCTTGTGAAAACGA-CCT-A
196 TAAATGAGAAATTTTGGAAAT-TGCTTTCTCA--TTTTTTGAAAATCACGTGAAAAC-ATCATGA
2067121 CC
257 CC
* ** * * * * *
2067123 CAACGGTCTTACGGATGGCCTAAAAGACTTATCATCTTGCTCTAAAGACTGATAGATGGCCAGAA
1 GAA-GGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
** * * * * *
2067188 TAATTTATTAATCATGCTCGAAAAACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAG
65 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* *
2067253 TTTACT-GGTAATAAACTTTGGAAACCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
130 TTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
* * * ** * * ** *
2067317 CTAAATGAGAAACTTTGAAAATCACCTTCTTATTTTTT-AAAATTCATTTGAAAACATCCT-ACC
195 TTAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAA-TCACGTGAAAACATCATGA-C
2067380 C
258 C
* * ** * * *
2067381 GAAGGTCTTAAAGATGGCCCGAAA-GACTTATCATCTCACTCAAAAGATTGATAGATGACCCGAA
1 GAAGGTCTTATAGATGG-CCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
* * * *
2067445 GGATTTAATCATCATGCTCTAAATG-CTTACTGATGGCCCGAAAGACTTGCCAAATTTGGAAATA
65 GGATTTAATCATCATGCTCGAAA-GACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATA
* * * *
2067509 GTTTACTGGGCAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAAATTCATTTTCTGAAAAT
129 GTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAAT
* * * ** * ** * *
2067574 ACTAAATGAGAAACTTTGAAAATCACTTTC-C-TATTTTTCAATTTCATGTGAAAACATCCT-AC
194 ATTAAATGAGAAATTTTGGAAATTGCTTTCTCAT-TTTTTGAAAATCACGTGAAAACATCATGA-
2067636 CC
257 CC
* * ** ** * * *
2067638 GAAGGTCTTATGGATGACCCGAATTACTTATCATCTTACTCGAAAGACTTACAGATGACCCGAAC
1 GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
* *
2067703 GATTTAATCATCATGGTCGAAACACTTACTGATGGCCCGAAGGACTTA
66 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
2067751 ATAGGTAAGA
Statistics
Matches: 2314, Mismatches: 303, Indels: 108
0.85 0.11 0.04
Matches are distributed among these distances:
240 5 0.00
241 205 0.09
242 4 0.00
243 2 0.00
249 4 0.00
250 4 0.00
251 57 0.02
255 1 0.00
256 164 0.07
257 448 0.19
258 1007 0.44
259 277 0.12
260 135 0.06
261 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (258 bp):
GAAGGTCTTATAGATGGCCTAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG
GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
TTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATAT
TAAATGAGAAATTTTGGAAATTGCTTTCTCATTTTTTGAAAATCACGTGAAAACATCATGACC
Found at i:2076627 original size:15 final size:14
Alignment explanation
Indices: 2076607--2076636 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2076597 AGTTATTAAC
2076607 AATTACAAAATGTGA
1 AATTACAAAAT-TGA
2076622 AATTACAAAATTGA
1 AATTACAAAATTGA
2076636 A
1 A
2076637 GCATGGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (14 bp):
AATTACAAAATTGA
Found at i:2081212 original size:24 final size:28
Alignment explanation
Indices: 2081157--2081212 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
2081147 TTAAACTGTA
**
2081157 AAATAAATAAAATGAATCAATAAATATT
1 AAATAAATAAAATGAATCAATAAATAGC
2081185 AAATAAATAAAA-GAAT-AA-AAA-AGC
1 AAATAAATAAAATGAATCAATAAATAGC
2081209 AAAT
1 AAAT
2081213 TTTAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 3 0.12
26 2 0.08
27 4 0.15
28 12 0.46
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (28 bp):
AAATAAATAAAATGAATCAATAAATAGC
Found at i:2082716 original size:103 final size:101
Alignment explanation
Indices: 2082591--2083040 Score: 335
Period size: 99 Copynumber: 4.5 Consensus size: 101
2082581 ATATACCAAA
* * * *
2082591 ATATAAATATAAAT-ATAATATATACATATAAGACATATAAAT-ATACTATAATA-ATAATAATA
1 ATATATATATATATAATAATATATACATATAATACATATAAATAATAATATAATACATAATAATA
*
2082653 TATATATAATATA-ATATAATATATATAGATATATACT
66 TATATAT-ATATACATATAATA-ATATATATATATACT
* **
2082690 ATAATATATACTATATAACTAATATAT--ATAT-ATAC-TA-AAATAATAATGTAATATGTAATA
1 AT-ATATATA-TATATAA-TAATATATACATATAATACATATAAATAATAATATAATACATAATA
*
2082750 TTATA-ATATATATACTATATAATAATATATATATATA-T
63 ATATATATATATATAC-ATATAATAATATATATATATACT
* * *
2082788 ACTATATATTATATATATATACTATATA-ATATTATA-ATATTATAATGTAAT-ATGTAAT--AT
1 A-TATATA-TATATATA-ATAATATATACATATAATACATA-TA-AA--TAATAATATAATACAT
*
2082848 TATAATATATATATATATACTATATAATAATATATATATATACT
59 AATAATATATATATATATAC-ATATAATAATATATATATATACT
* *
2082892 ATAT-TATA-ATAATAAT-ATAAAATACATATACCA-AAATATAAAT-ATAATAT-ATACAT-AT
1 ATATATATATAT-ATAATAAT-ATATACATATA--ATACATATAAATAATAATATAATACATAAT
* *
2082950 AATACATATAAATATAC-TATAATAATATATATATATA-T
62 AATATATATATATATACATATAATAATATATATATATACT
* *
2082988 ATA-ATATA-ATATATATAGATATATAC-TATAATATATACTATATAACTAATATA
1 ATATATATATATATA-ATA-ATATATACATATAATACATA-TAAATAA-TAATATA
2083041 TATATATATA
Statistics
Matches: 291, Mismatches: 21, Indels: 78
0.75 0.05 0.20
Matches are distributed among these distances:
94 1 0.00
95 7 0.02
96 20 0.07
97 26 0.09
98 41 0.14
99 59 0.20
100 41 0.14
101 19 0.07
102 15 0.05
103 49 0.17
104 9 0.03
105 4 0.01
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (101 bp):
ATATATATATATATAATAATATATACATATAATACATATAAATAATAATATAATACATAATAATA
TATATATATATACATATAATAATATATATATATACT
Found at i:2082755 original size:23 final size:23
Alignment explanation
Indices: 2082644--2083108 Score: 208
Period size: 23 Copynumber: 20.4 Consensus size: 23
2082634 TACTATAATA
*
2082644 ATAATAATAT-ATATATAATATA
1 ATAATAATATAATATATAATATT
* *
2082666 AT-ATAATATATATAGATATATACT
1 ATAATAATATA-ATATATA-ATATT
*
2082690 ATAAT-ATATACTATATAACTA--
1 ATAATAATATAATATATAA-TATT
2082711 AT-AT-ATAT-ATATACTAA-A--
1 ATAATAATATAATATA-TAATATT
* *
2082729 ATAATAATGTAATATGTAATATT
1 ATAATAATATAATATATAATATT
* *
2082752 ATAATATATATACTATATAATAAT
1 ATAATA-ATATAATATATAATATT
2082776 AT-AT-ATAT-ATATACTATATATT
1 ATAATAATATAATATA-TA-ATATT
*
2082798 AT-ATATATATACTATATAATATT
1 ATAATA-ATATAATATATAATATT
*
2082821 ATAATATTATAATGTAATATGTAATATT
1 ATAATA--AT-A--TAATATATAATATT
*
2082849 ATAAT-ATATATATATATACTA-T
1 ATAATAATATA-ATATATAATATT
2082871 ATAATAATATATATATATACTATATT
1 ATAATAATATA-ATATATA--ATATT
* *
2082897 ATAAT-A-ATAATATAAAATACAT
1 ATAATAATATAATATATAATA-TT
*
2082919 ATACCAAAATATAA-ATATAATA-T
1 ATA--ATAATATAATATATAATATT
2082942 ATACAT-ATAATACATATA-AATATACT
1 ATA-ATAAT-ATA-ATATATAATAT--T
*
2082968 ATAATAATAT-ATATATATATATA
1 ATAATAATATAATATATA-ATATT
* *
2082991 AT-ATAATATATATAGATATATACT
1 ATAATAATATA-ATATATA-ATATT
* *
2083015 ATAAT-ATATACTATATAACTAAT
1 ATAATAATATAATATATAA-TATT
2083038 AT-AT-ATATATATATACTAA-A-T
1 ATAATAATATA-ATATA-TAATATT
* *
2083059 -TAATAATGTAATATGTAATATT
1 ATAATAATATAATATATAATATT
*
2083081 ATAAT-ATAT-ATATAT-ATGTT
1 ATAATAATATAATATATAATATT
2083101 AT-ATAATA
1 ATAATAATA
2083109 ACATATTAAA
Statistics
Matches: 351, Mismatches: 38, Indels: 110
0.70 0.08 0.22
Matches are distributed among these distances:
18 3 0.01
19 8 0.02
20 32 0.09
21 38 0.11
22 52 0.15
23 89 0.25
24 63 0.18
25 32 0.09
26 17 0.05
28 17 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATAATATAATATATAATATT
Found at i:2082982 original size:202 final size:204
Alignment explanation
Indices: 2082647--2083017 Score: 494
Period size: 202 Copynumber: 1.8 Consensus size: 204
2082637 TATAATAATA
*
2082647 ATAATATATATATAATATAATATAATATATATAGATATATACTATAATATATACTATATAACTAA
1 ATAATATATATATAATATAATATAATATATATAGATATATACTATAATATATAATATATAACTAA
* * * * * *
2082712 TATATATATATACTAAAATAATAATGTAATATGTAATATTATAATATATATACTATATAATAATA
66 TAAATACATATACCAAAATAATAATATAATATATAATATAATAATATATATACTATATAATAATA
* *
2082777 TATATATATATACTAT-ATAT-TATATATATATACTATATAATATTATAATATTATAATGTAATA
131 TATATATATATAATATAATATATATAGATATATACTATATAATATTATAATATTATAATGTAATA
2082840 TGTAATATT
196 TGTAATATT
*
2082849 ATAATATATATAT-ATATACTATATAATA-ATATATATATATACTAT-AT-TATAATA-ATAA-T
1 ATAATATATATATAATATA--ATATAATATATATAGATATATACTATAATATATAATATATAACT
2082908 -ATAAAATACATATACCAAAAT-ATAAATATAATATATACATATAATACATATAAATATACTATA
64 AAT-AAATACATATACCAAAATAAT-AATATAATATATA-ATATAATA-ATAT--ATATACTAT-
2082971 ATAAT-ATATATATATATATAATATAATATATATAGATATATACTATA
122 ATAATAATATATATATATATAATATAATATATATAGATATATACTATA
2083018 ATATATACTA
Statistics
Matches: 148, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
197 4 0.03
198 27 0.18
199 11 0.07
200 10 0.07
201 7 0.05
202 56 0.38
203 17 0.11
204 16 0.11
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (204 bp):
ATAATATATATATAATATAATATAATATATATAGATATATACTATAATATATAATATATAACTAA
TAAATACATATACCAAAATAATAATATAATATATAATATAATAATATATATACTATATAATAATA
TATATATATATAATATAATATATATAGATATATACTATATAATATTATAATATTATAATGTAATA
TGTAATATT
Found at i:2083105 original size:2 final size:2
Alignment explanation
Indices: 2082591--2083097 Score: 269
Period size: 2 Copynumber: 273.0 Consensus size: 2
2082581 ATATACCAAA
* * * * * *
2082591 AT AT AA AT AT AA AT AT A- AT AT AT AC AT AT A- AG AC AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2082631 AT AT ACT AT A- AT A- AT A- AT A- AT AT AT AT AT A- AT AT A- AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2082668 AT A- AT AT AT AT AG AT AT AT ACT AT A- AT AT AT ACT AT AT A- ACT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT A-T
* * *
2082710 A- AT AT AT AT AT AT ACT A- AA AT A- AT A- AT GT A- AT AT GT A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
2082747 AT AT -T AT A- AT AT AT AT ACT AT AT A- AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
2082786 AT ACT AT AT AT -T AT AT AT AT AT ACT AT AT A- AT AT -T AT A- AT
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* *
2082826 AT -T AT A- AT GT A- AT AT GT A- AT AT -T AT A- 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
2082862 AT AT ACT AT AT A- AT A- AT AT AT AT AT AT ACT AT AT -T AT A- AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
2082902 A- AT A- AT AT A- AA AT AC AT AT ACC A- AA AT AT AA AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
2082940 AT AT AC AT AT A- AT AC AT AT AA AT AT ACT AT A- AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
2082980 AT AT AT AT AT A- AT AT A- AT AT AT AT AG AT AT AT ACT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
2083020 AT AT ACT AT AT A- ACT A- AT AT AT AT AT AT AT AT ACT AA AT -T
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
2083060 A- AT A- AT GT A- AT AT GT A- AT AT -T AT A- 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
2083096 AT
1 AT
2083098 GTTATATAAT
Statistics
Matches: 392, Mismatches: 42, Indels: 142
0.68 0.07 0.25
Matches are distributed among these distances:
1 55 0.14
2 308 0.79
3 29 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:2089003 original size:19 final size:19
Alignment explanation
Indices: 2088979--2089017 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2088969 ATTTGAATTT
2088979 AAAGAA-ATGAAAAAAATAC
1 AAAGAATATG-AAAAAATAC
*
2088998 AAAGAATATGGAAAAATAC
1 AAAGAATATGAAAAAATAC
2089017 A
1 A
2089018 TGATGTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAGAATATGAAAAAATAC
Found at i:2089950 original size:45 final size:44
Alignment explanation
Indices: 2089840--2089953 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 44
2089830 ATACAAAATA
* * * *
2089840 GTGCACTATTAGCAGAAATGTGTCATAAATAAAAATGTATAACG
1 GTGCATTATTGGCAGAAAGGTGCCATAAATAAAAATGTATAACG
** *
2089884 GTGCATTATTGATAAAAAGGTGCCATAAATGAAAAATGTATAACG
1 GTGCATTATTGGCAGAAAGGTGCCATAAAT-AAAAATGTATAACG
*
2089929 GTGCATTATTGGCAGATAGGTGCCA
1 GTGCATTATTGGCAGAAAGGTGCCA
2089954 CTCATGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 23 0.40
45 35 0.60
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.27
Consensus pattern (44 bp):
GTGCATTATTGGCAGAAAGGTGCCATAAATAAAAATGTATAACG
Found at i:2096139 original size:18 final size:19
Alignment explanation
Indices: 2096094--2096144 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
2096084 TACAATAAAC
2096094 AGTATCGATACTGATGTAATT
1 AGTATCGATACTGATG--ATT
2096115 AGTATCGATACTGATG-TT
1 AGTATCGATACTGATGATT
* *
2096133 GGTATCGGTACT
1 AGTATCGATACT
2096145 AAGAGAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.43
21 16 0.57
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (19 bp):
AGTATCGATACTGATGATT
Found at i:2096824 original size:45 final size:45
Alignment explanation
Indices: 2096703--2096836 Score: 182
Period size: 44 Copynumber: 3.0 Consensus size: 45
2096693 TGTTACCGAA
2096703 ATAAAT-AAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
* * * * *
2096747 ATAAATG-AAAATGCGTAAGGGTACAATATTGGCATAAATGTGCC
1 ATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
* * *
2096791 ATAAATGAAAAATACATAATGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
2096836 A
1 A
2096837 CTCATGGTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
44 45 0.59
45 31 0.41
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (45 bp):
ATAAATGAAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
Found at i:2105210 original size:19 final size:20
Alignment explanation
Indices: 2105186--2105235 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2105176 TATATTTTTG
*
2105186 GTATCGATACTCA-GGGTGA
1 GTATCGATACTCATGGGTCA
*
2105205 GTATCGATACCCATGGGTCA
1 GTATCGATACTCATGGGTCA
2105225 GTATCGATACT
1 GTATCGATACT
2105236 GCTAGCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
GTATCGATACTCATGGGTCA
Found at i:2106147 original size:21 final size:21
Alignment explanation
Indices: 2106105--2106147 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2106095 AGACTACCTT
*
2106105 ATTTTATATTTCATGATTATG
1 ATTTTATATTTCATGATGATG
*
2106126 ATTTTAT-TTTACATTATGATG
1 ATTTTATATTT-CATGATGATG
2106147 A
1 A
2106148 ATGATTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (21 bp):
ATTTTATATTTCATGATGATG
Found at i:2109682 original size:20 final size:20
Alignment explanation
Indices: 2109645--2109682 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2109635 TTGAAATTAA
*
2109645 ATGTTAGAATGATGATTTTT
1 ATGTTAGAATGATAATTTTT
*
2109665 ATGTTAGAATGTTAATTT
1 ATGTTAGAATGATAATTT
2109683 GGATTGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (20 bp):
ATGTTAGAATGATAATTTTT
Found at i:2113719 original size:59 final size:59
Alignment explanation
Indices: 2113592--2113720 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
2113582 CGTAATGCAA
* * * **
2113592 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * * * ** *
2113651 TCCCAAATATGACTCATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
2113710 TCCCGAATATG
1 TCCCGAATATG
2113721 CAGCCTGCTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:2120973 original size:2 final size:2
Alignment explanation
Indices: 2120968--2120994 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2120958 ACACACACAC
2120968 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2120995 GTTTCTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2121053 original size:2 final size:2
Alignment explanation
Indices: 2121048--2121090 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2121038 TTCTTAGTAC
* *
2121048 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2121089 AT
1 AT
2121091 GCTTTGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2122511 original size:23 final size:23
Alignment explanation
Indices: 2122468--2122524 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
2122458 TGGTACCCTA
2122468 TTTTATTT-TTTATTTTACAATG
1 TTTTATTTATTTATTTTACAATG
*
2122490 TTTTATTTATTTA-TTTATCAATT
1 TTTTATTTATTTATTTTA-CAATG
*
2122513 TTTTATTCATTT
1 TTTTATTTATTT
2122525 TATAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTTATTTATTTTACAATG
Found at i:2127406 original size:21 final size:21
Alignment explanation
Indices: 2127382--2127422 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2127372 TATAATAGAT
*
2127382 TTAAAGTTGGTTGTTATGGAA
1 TTAAAGTTGATTGTTATGGAA
*
2127403 TTAAAGTTTATTGTTATGGA
1 TTAAAGTTGATTGTTATGGA
2127423 TGTCATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (21 bp):
TTAAAGTTGATTGTTATGGAA
Found at i:2128091 original size:12 final size:12
Alignment explanation
Indices: 2128074--2128098 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2128064 GTGTCATAGG
2128074 ACAACAAATGTA
1 ACAACAAATGTA
2128086 ACAACAAATGTA
1 ACAACAAATGTA
2128098 A
1 A
2128099 TATTACAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAACAAATGTA
Found at i:2141293 original size:21 final size:21
Alignment explanation
Indices: 2141267--2141319 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2141257 TTCAATCCAA
*
2141267 AAAAATTCTTTAAAATATATT
1 AAAAATTATTTAAAATATATT
* *
2141288 AAAAATTATTTAATATATGTT
1 AAAAATTATTTAAAATATATT
*
2141309 AAAAGTTATTT
1 AAAAATTATTT
2141320 TCTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
AAAAATTATTTAAAATATATT
Found at i:2144681 original size:7 final size:7
Alignment explanation
Indices: 2144671--2144697 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2144661 AAAAATAAAA
2144671 TTAATAT
1 TTAATAT
2144678 TTAATAT
1 TTAATAT
2144685 TTAATAT
1 TTAATAT
2144692 TTAATA
1 TTAATA
2144698 ATTATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAATAT
Found at i:2145017 original size:20 final size:20
Alignment explanation
Indices: 2144992--2145041 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2144982 TTGAAGGTAA
*
2144992 TTATTTATTTT-CTTTTAAAT
1 TTATTT-TTTTGCTATTAAAT
2145012 TTATTTTTTTGCTATTAAAT
1 TTATTTTTTTGCTATTAAAT
* *
2145032 ATGTTTTTTT
1 TTATTTTTTT
2145042 TGTTGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTTTTGCTATTAAAT
Found at i:2146611 original size:194 final size:194
Alignment explanation
Indices: 2146254--2146612 Score: 412
Period size: 194 Copynumber: 1.9 Consensus size: 194
2146244 GTGTTTTGCT
* * * *
2146254 ACAATATATTTTTCGTCACATATAAGTAGATTTTAATGCATTATTTCTGACAATATAAATTATCA
1 ACAATATATCTTTCATCACATATAAGTAGATTTTAATGCATTATCTCTGACAATATAAATCATCA
* * ** * *
2146319 ATAGCGAAATCTTATTTAATTTAGCGACGTAACCAACTGTCATAGAATATAAATTATAAAGTGAC
66 ATAACAAAATCTTACATAATTTAGCGACATAACCAACTATCATAGAATATAAATTATAAAGTGAC
* * *
2146384 GTTATGCATAAACGTCATTCATAATATTATTAGGTAACATTTATATTATGTCACTAAGAATGTA
131 GTTATACATAAACGTCATACATAATACTATTAGGTAACATTTATATTATGTCACTAAGAATGTA
* * * * * **
2146448 ACAATATCTCTTTCATCACATATATGTTGATTTTAATGTATTATCTGTGATGATATAAATCATCA
1 ACAATATATCTTTCATCACATATAAGTAGATTTTAATGCATTATCTCTGACAATATAAATCATCA
* * ** ** * * * *
2146513 ATAACAAAATTTTACATAATTTAGTGACATAATTAGTTATCATTGAATATTAATTATATAGTGAT
66 ATAACAAAATCTTACATAATTTAGCGACATAACCAACTATCATAGAATATAAATTATAAAGTGAC
* * **
2146578 GTTATATATAAATGTCATACATGCTACTATTAGGT
131 GTTATACATAAACGTCATACATAATACTATTAGGT
2146613 GATGATATAC
Statistics
Matches: 131, Mismatches: 34, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
194 131 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (194 bp):
ACAATATATCTTTCATCACATATAAGTAGATTTTAATGCATTATCTCTGACAATATAAATCATCA
ATAACAAAATCTTACATAATTTAGCGACATAACCAACTATCATAGAATATAAATTATAAAGTGAC
GTTATACATAAACGTCATACATAATACTATTAGGTAACATTTATATTATGTCACTAAGAATGTA
Found at i:2159751 original size:209 final size:208
Alignment explanation
Indices: 2159385--2159790 Score: 589
Period size: 209 Copynumber: 1.9 Consensus size: 208
2159375 ACATGCGATC
* * *
2159385 ACCAATATCACACATAGTATGCTTAATCCCTACCTTACCAAATTTACAAGGTATCGCAAACATAC
1 ACCAATATCACACATAGCACGATTAATCCCTACCTTACCAAATTTACAAGGTATCGCAAACATAC
* * * ** *
2159450 CTTGATCCTTTAACTTAGGTGGAAGCTTATATTGAAATAAAGCCTAAACATGTTCACCTAAGTTT
66 CTTGATCATTTAACTTAGGTGGAAGCTTACATTGAAAGAAAGCAGAAACATGTTCAACTAAGTTT
* *
2159515 ACCTTTTCAATCCCGGTAAGTTTTCTTTTATTTATGCAGAGATCCTTTAAGAATCTAGAATACCT
131 ACCTTTTCAATCCAGGTAAGTTTTCTTTTATTTATACAGAGATCCTTTAAGAATCTAGAATACCT
2159580 TAATCCCTACCTT
196 TAATCCCTACCTT
* *
2159593 ACCAATAATCACACATAGCACGATTAATCCCTACCTTACC-AATTGTACAAGGTATGGTAAACAT
1 ACCAAT-ATCACACATAGCACGATTAATCCCTACCTTACCAAATT-TACAAGGTATCGCAAACAT
* *
2159657 ACCTTGATCATTTCACTTAGGTGGAAGCTTACATTGAAAGAGAGCAGAAACATGTTCAACTAAGT
64 ACCTTGATCATTTAACTTAGGTGGAAGCTTACATTGAAAGAAAGCAGAAACATGTTCAACTAAGT
* * * * * * *
2159722 TTACCTTTTCATTCTAGGTAGGTTTTCTTTTATTTGTATAGAGATCCTTTAAGAATCTGGCATAC
129 TTACCTTTTCAATCCAGGTAAGTTTTCTTTTATTTATACAGAGATCCTTTAAGAATCTAGAATAC
2159787 CTTA
194 CTTA
2159791 GCACTTTTCA
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
208 10 0.06
209 164 0.94
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (208 bp):
ACCAATATCACACATAGCACGATTAATCCCTACCTTACCAAATTTACAAGGTATCGCAAACATAC
CTTGATCATTTAACTTAGGTGGAAGCTTACATTGAAAGAAAGCAGAAACATGTTCAACTAAGTTT
ACCTTTTCAATCCAGGTAAGTTTTCTTTTATTTATACAGAGATCCTTTAAGAATCTAGAATACCT
TAATCCCTACCTT
Found at i:2161090 original size:26 final size:26
Alignment explanation
Indices: 2161060--2161120 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
2161050 GCGAGGCAGT
*
2161060 TTCTAGGAGATCCAGTAAGCAGCAAC
1 TTCTAGAAGATCCAGTAAGCAGCAAC
*
2161086 TTCTAGAAGATCCAGTTAGCAGCAAC
1 TTCTAGAAGATCCAGTAAGCAGCAAC
2161112 TTCTAGAAG
1 TTCTAGAAG
2161121 GACGAGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (26 bp):
TTCTAGAAGATCCAGTAAGCAGCAAC
Found at i:2161196 original size:25 final size:25
Alignment explanation
Indices: 2161164--2161212 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2161154 GAATTTGGGA
**
2161164 ATTATTTATTTATATTTAGGATTTC
1 ATTATTTAAATATATTTAGGATTTC
*
2161189 ATTATTTAAATATTTTTAGGATTT
1 ATTATTTAAATATATTTAGGATTT
2161213 TATCCTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (25 bp):
ATTATTTAAATATATTTAGGATTTC
Found at i:2165389 original size:57 final size:58
Alignment explanation
Indices: 2165287--2165402 Score: 225
Period size: 57 Copynumber: 2.0 Consensus size: 58
2165277 GGAAGGGAGG
2165287 GTAGTGCTCCTAGTGGGTCAATAACTCATGCCCTAAGGGAATATGAGGAAACAAATAT
1 GTAGTGCTCCTAGTGGGTCAATAACTCATGCCCTAAGGGAATATGAGGAAACAAATAT
2165345 GTAGTGCTCCTAGTGGGTCAAT-ACTCATGCCCTAAGGGAATATGAGGAAACAAATAT
1 GTAGTGCTCCTAGTGGGTCAATAACTCATGCCCTAAGGGAATATGAGGAAACAAATAT
2165402 G
1 G
2165403 AGCAACTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 36 0.62
58 22 0.38
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (58 bp):
GTAGTGCTCCTAGTGGGTCAATAACTCATGCCCTAAGGGAATATGAGGAAACAAATAT
Found at i:2166601 original size:190 final size:191
Alignment explanation
Indices: 2166268--2166629 Score: 487
Period size: 190 Copynumber: 1.9 Consensus size: 191
2166258 GATAAAACTC
* * * * * *
2166268 CTTTTACCATTCAATCATAAATATATATTATTTTAATTTGAAATATACAGAAGTATGTAATTATC
1 CTTTTACCATTCAAACATAAACAAATATTATCTTAATTTGAAATATACAAAAGTATATAATTATC
* * * *
2166333 TCTTTAATATTCAAAGTTAAAAGGCAACAAATACCTTGTTAAATTGACATATTCAAAGAGTAATT
66 TCTTTAATATTCAAAATTAAAAGACAACAAATACCTTGTTAAAGTGACATATTAAAAGAGTAATT
** **
2166398 ATTTTTTTAATATTCAAATTAAATAA-TAT-ATTTAATTTGCAATGGTCAAAAGGTAAAGTT
131 ATCCTACTAATATTCAAATTAAA-AATTATCATTTAATTTGCAATGGTCAAAAGGTAAAGTT
*
2166458 CTTTTACTATTCAAACATAAACAAATATTATCTTAATTTGAAATATACAAAAGTATATAATTATC
1 CTTTTACCATTCAAACATAAACAAATATTATCTTAATTTGAAATATACAAAAGTATATAATTATC
* * * * * *
2166523 T-TTTAATATTTAAAATTAAAAAGATAACAAATATCTTTTTAAAGTGTCTTATTAAAAGAGTAAT
66 TCTTTAATATTCAAAATT-AAAAGACAACAAATACCTTGTTAAAGTGACATATTAAAAGAGTAAT
*
2166587 TATCCTACTAATATTCAAATTAAAAATTATCTTTTAATTTGCA
130 TATCCTACTAATATTCAAATTAAAAATTATCATTTAATTTGCA
2166630 TCAGTCAAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
189 16 0.11
190 120 0.82
191 11 0.07
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (191 bp):
CTTTTACCATTCAAACATAAACAAATATTATCTTAATTTGAAATATACAAAAGTATATAATTATC
TCTTTAATATTCAAAATTAAAAGACAACAAATACCTTGTTAAAGTGACATATTAAAAGAGTAATT
ATCCTACTAATATTCAAATTAAAAATTATCATTTAATTTGCAATGGTCAAAAGGTAAAGTT
Found at i:2167226 original size:98 final size:97
Alignment explanation
Indices: 2167057--2167241 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
2167047 TATGGTGCTC
*
2167057 AGCCTATACCACTTTGATCACTGTTTACATCATGGGAATGGGCTTGGGATAAGAAACCCCCACAC
1 AGCCTATACCACTTTGATCACTGTTTACATCATGGGAATGGACTTGGGATAAGAAACCCCCACAC
*
2167122 TGACCGTACAATGGGTTATGCAAGCTTTAGCTT
66 TGACCGTA-AACGGGTTATGCAAGCTTTAGCTT
2167155 AGCCTATA-CAGCTTTGATCACTGTTTACATCATGGGAATGGACTTGGGATAAGAAACCCCCACA
1 AGCCTATACCA-CTTTGATCACTGTTTACATCATGGGAATGGACTTGGGATAAGAAACCCCCACA
* *
2167219 GTGACCGTAAACGTGTTATGCAA
65 CTGACCGTAAACGGGTTATGCAA
2167242 TTAGGTTGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
97 14 0.17
98 68 0.83
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (97 bp):
AGCCTATACCACTTTGATCACTGTTTACATCATGGGAATGGACTTGGGATAAGAAACCCCCACAC
TGACCGTAAACGGGTTATGCAAGCTTTAGCTT
Found at i:2170123 original size:376 final size:376
Alignment explanation
Indices: 2169430--2170182 Score: 1506
Period size: 376 Copynumber: 2.0 Consensus size: 376
2169420 GAGCACAAAA
2169430 ATATTTTTTATGAATAGTACTGTACCGTATGAATAGTATTGGTAATGTATAAATAGTATTGATAT
1 ATATTTTTTATGAATAGTACTGTACCGTATGAATAGTATTGGTAATGTATAAATAGTATTGATAT
2169495 TGTGTGAACAGTAATGAACAATACTGATGCTCAAAAACATCGAATGTAAAATGGGTATCGATACT
66 TGTGTGAACAGTAATGAACAATACTGATGCTCAAAAACATCGAATGTAAAATGGGTATCGATACT
2169560 TCTATAGTGTATCGATACACTGCTACAGTAATTTCAGCCCAACGGTCACAAAATTCAAATTTTAT
131 TCTATAGTGTATCGATACACTGCTACAGTAATTTCAGCCCAACGGTCACAAAATTCAAATTTTAT
2169625 TAAGGTGTACCGATACACCTTGATAGTGTACCGATACACCCTGTTATGGACAGTTTTATTTTGCA
196 TAAGGTGTACCGATACACCTTGATAGTGTACCGATACACCCTGTTATGGACAGTTTTATTTTGCA
2169690 GAAAATGAATCCCCAACGGCTCCAAAACATTTCCAATGGCTATATACGACTTCAAACTCATTCCA
261 GAAAATGAATCCCCAACGGCTCCAAAACATTTCCAATGGCTATATACGACTTCAAACTCATTCCA
2169755 ACTTATAAATACATGTTCAAGACACATGAAGAATATATATAACAACTATCC
326 ACTTATAAATACATGTTCAAGACACATGAAGAATATATATAACAACTATCC
2169806 ATATTTTTTATGAATAGTACTGTACCGTATGAATAGTATTGGTAATGTATAAATAGTATTGATAT
1 ATATTTTTTATGAATAGTACTGTACCGTATGAATAGTATTGGTAATGTATAAATAGTATTGATAT
2169871 TGTGTGAACAGTAATGAACAATACTGATGCTCAAAAACATCGAATGTAAAATGGGTATCGATACT
66 TGTGTGAACAGTAATGAACAATACTGATGCTCAAAAACATCGAATGTAAAATGGGTATCGATACT
2169936 TCTATAGTGTATCGATACACTGCTACAGTAATTTCAGCCCAACGGTCACAAAATTCAAATTTTAT
131 TCTATAGTGTATCGATACACTGCTACAGTAATTTCAGCCCAACGGTCACAAAATTCAAATTTTAT
2170001 TAAGGTGTACCGATACACCTTGATAGTGTACCGATACACCCTGTTATGGACAGTTTTATTTTGCA
196 TAAGGTGTACCGATACACCTTGATAGTGTACCGATACACCCTGTTATGGACAGTTTTATTTTGCA
2170066 GAAAATGAATCCCCAACGGCTCCAAAACATTTCCAATGGCTATATACGACTTCAAACTCATTCCA
261 GAAAATGAATCCCCAACGGCTCCAAAACATTTCCAATGGCTATATACGACTTCAAACTCATTCCA
2170131 ACTTATAAATACATGTTCAAGACACATGAAGAATATATATAACAACTATCC
326 ACTTATAAATACATGTTCAAGACACATGAAGAATATATATAACAACTATCC
2170182 A
1 A
2170183 AGCAATCAAA
Statistics
Matches: 377, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
376 377 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (376 bp):
ATATTTTTTATGAATAGTACTGTACCGTATGAATAGTATTGGTAATGTATAAATAGTATTGATAT
TGTGTGAACAGTAATGAACAATACTGATGCTCAAAAACATCGAATGTAAAATGGGTATCGATACT
TCTATAGTGTATCGATACACTGCTACAGTAATTTCAGCCCAACGGTCACAAAATTCAAATTTTAT
TAAGGTGTACCGATACACCTTGATAGTGTACCGATACACCCTGTTATGGACAGTTTTATTTTGCA
GAAAATGAATCCCCAACGGCTCCAAAACATTTCCAATGGCTATATACGACTTCAAACTCATTCCA
ACTTATAAATACATGTTCAAGACACATGAAGAATATATATAACAACTATCC
Found at i:2171609 original size:64 final size:63
Alignment explanation
Indices: 2171305--2171609 Score: 195
Period size: 61 Copynumber: 4.9 Consensus size: 63
2171295 TAATAATATC
* * * * * * * *
2171305 TTTTAATTTGAAATATTCTAAAGATAAAAC--TCTTTTTACATTCAAACTTAAATAAATATCA
1 TTTTAATTTGAAATATACAAAAGATATAACTATCTTTTAATATTCAAAATTAAACAAATATTA
* *
2171366 TTTTAATTTGAAATATACAAAAGCATATAATTATC-TTTAATATTCAAAGTTAAAAAGGTTACAA
1 TTTTAATTTGAAATATACAAAAG-ATATAACTATCTTTTAATATTCAAAATT---AA----ACAA
*
2171430 ATACCT-
58 ATA-TTA
* * * * ** * *
2171436 TTTTAAATTGACATATTC-AAAGA-ATAATTATCCTACTAATATT-TAAATTAAA-TAATA-TA
1 TTTTAATTTGAAATATACAAAAGATATAACTAT-CTTTTAATATTCAAAATTAAACAAATATTA
* * * * *
2171495 -TTTAATTTGCAATGAT-CAAAAGATA-AGCT-CCTTTTACTATTCAAACTTAAACAAATATTA
1 TTTTAATTTGAAAT-ATACAAAAGATATAACTATCTTTTAATATTCAAAATTAAACAAATATTA
2171555 TTTTAATTTGAAATATACAAAAGTATATAACTATCTTTTAATATTCAAAATTAAA
1 TTTTAATTTGAAATATACAAAAG-ATATAACTATCTTTTAATATTCAAAATTAAA
2171610 AAAGATAACA
Statistics
Matches: 184, Mismatches: 35, Indels: 47
0.69 0.13 0.18
Matches are distributed among these distances:
57 8 0.04
58 19 0.10
59 13 0.07
60 9 0.05
61 40 0.22
62 8 0.04
63 16 0.09
64 21 0.11
65 2 0.01
66 2 0.01
67 8 0.04
68 6 0.03
69 11 0.06
70 21 0.11
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (63 bp):
TTTTAATTTGAAATATACAAAAGATATAACTATCTTTTAATATTCAAAATTAAACAAATATTA
Found at i:2172804 original size:37 final size:35
Alignment explanation
Indices: 2172763--2172831 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
2172753 ATATTGTATA
2172763 ATTTATTGAAA-TAAAAATATTATAAATTATATTAATT
1 ATTTATT-AAATTAAAAATATTAT--ATTATATTAATT
* *
2172800 ATTTATTAAATTAATAGTATTATATTATATTA
1 ATTTATTAAATTAAAAATATTATATTATATTA
2172832 TTAGAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 9 0.31
36 3 0.10
37 17 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (35 bp):
ATTTATTAAATTAAAAATATTATATTATATTAATT
Found at i:2172807 original size:16 final size:18
Alignment explanation
Indices: 2172788--2172831 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
2172778 AATATTATAA
2172788 ATTATATTAAT-TATT-T
1 ATTATATTAATATATTAT
*
2172804 ATTAAATTAATAGTATTAT
1 ATTATATTAATA-TATTAT
2172823 ATTATATTA
1 ATTATATTA
2172832 TTAGAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATATTAATATATTAT
Found at i:2173365 original size:17 final size:18
Alignment explanation
Indices: 2173343--2173391 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
2173333 GTTTTAGATT
* *
2173343 CAGATTCTAATTCC-TGA
1 CAGATTCCAATTCCTTCA
2173360 CAGATTCCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
2173378 CAGATTCCAATTCC
1 CAGATTCCAATTCC
2173392 CTCAGAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:2173905 original size:37 final size:37
Alignment explanation
Indices: 2173855--2173929 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
2173845 TGCAAAAGAA
*
2173855 ATTACAAAAGCCCATGTTACCAAATCCTACAGGATTT
1 ATTACAAAAGCCCATGTTACCAAATCCTACAAGATTT
2173892 ATTACAAAAGCCCATGTTACCAAATCCTACAAGATTT
1 ATTACAAAAGCCCATGTTACCAAATCCTACAAGATTT
2173929 A
1 A
2173930 CTTTCCAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (37 bp):
ATTACAAAAGCCCATGTTACCAAATCCTACAAGATTT
Found at i:2174202 original size:25 final size:25
Alignment explanation
Indices: 2174172--2174219 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2174162 CCAGAAATCC
2174172 CAAAAGAAACCAGAAA-AAAGATTAA
1 CAAAAGAAACCA-AAACAAAGATTAA
* *
2174197 CAAAAGGAACTAAAACAAAGATT
1 CAAAAGAAACCAAAACAAAGATT
2174220 GAGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.10
Consensus pattern (25 bp):
CAAAAGAAACCAAAACAAAGATTAA
Found at i:2175936 original size:38 final size:38
Alignment explanation
Indices: 2175894--2175972 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
2175884 AATACAACTA
* **
2175894 TGAATCCTAGTACATTTTGTGAGTATATATTGTAATAT
1 TGAATCCTAGTACATTTTGTGAGTACATATCCTAATAT
2175932 TGAATCCTAGTACATTTTGTGAGTACATATCCTAATAT
1 TGAATCCTAGTACATTTTGTGAGTACATATCCTAATAT
2175970 TGA
1 TGA
2175973 TTAGGATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (38 bp):
TGAATCCTAGTACATTTTGTGAGTACATATCCTAATAT
Found at i:2177261 original size:26 final size:27
Alignment explanation
Indices: 2177232--2177297 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
2177222 CTATTTATTT
*
2177232 ATTTTATTAAT-TACA-TTTATCCTAAA
1 ATTTTATTAATGTACATTTTAT-ATAAA
* *
2177258 ATTTTATTTATGTCCATTTTATATAAA
1 ATTTTATTAATGTACATTTTATATAAA
*
2177285 ATTTTATTTATGT
1 ATTTTATTAATGT
2177298 GTTTATCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.29
27 20 0.57
28 5 0.14
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (27 bp):
ATTTTATTAATGTACATTTTATATAAA
Found at i:2177639 original size:19 final size:18
Alignment explanation
Indices: 2177601--2177653 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
2177591 GTCCCATTTG
2177601 AATAATTTTTTAAGAAAC
1 AATAATTTTTTAAGAAAC
*
2177619 AAT-ATTTTTTGAAGAGGAC
1 AATAATTTTTT-AAGA-AAC
2177638 AATAATTTTTTAAGAA
1 AATAATTTTTTAAGAA
2177654 TATCTTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 9 0.30
20 7 0.23
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
AATAATTTTTTAAGAAAC
Found at i:2181539 original size:19 final size:19
Alignment explanation
Indices: 2181515--2181563 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
2181505 CGGCCAAGAG
2181515 CATGTATCTTCATT-AAAAT
1 CATGTAT-TTCATTAAAAAT
2181534 CATGTATTTGCATTAAAAAAT
1 CATGTATTT-CATT-AAAAAT
2181555 CATGTATTT
1 CATGTATTT
2181564 TCAAAAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
21 14 0.52
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (19 bp):
CATGTATTTCATTAAAAAT
Found at i:2182399 original size:8 final size:7
Alignment explanation
Indices: 2182376--2182408 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
2182366 CTCATACATC
2182376 AAAAGAA
1 AAAAGAA
2182383 AAAAGAA
1 AAAAGAA
2182390 AAAAGAAA
1 AAAAG-AA
2182398 AAAAGAA
1 AAAAGAA
2182405 AAAA
1 AAAA
2182409 TTCAAAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:2182415 original size:15 final size:15
Alignment explanation
Indices: 2182376--2182408 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2182366 CTCATACATC
2182376 AAAAG-AAAAAAGAA
1 AAAAGAAAAAAAGAA
2182390 AAAAGAAAAAAAGAA
1 AAAAGAAAAAAAGAA
2182405 AAAA
1 AAAA
2182409 TTCAAAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAGAA
Found at i:2183528 original size:36 final size:36
Alignment explanation
Indices: 2183457--2183528 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
2183447 AACTGAAGGA
* **
2183457 GAACGTTTGGAGGAAAATTCAAATGCAGAAAAGCTT
1 GAACATTTGGAGGAAAATTCAAATAAAGAAAAGCTT
*
2183493 GAACATTTGGAGGAAAATTCAAATAAAGAAGAGCTT
1 GAACATTTGGAGGAAAATTCAAATAAAGAAAAGCTT
2183529 TTTGAAGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (36 bp):
GAACATTTGGAGGAAAATTCAAATAAAGAAAAGCTT
Found at i:2187021 original size:2 final size:2
Alignment explanation
Indices: 2187014--2187047 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2187004 AGAATTACTC
2187014 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
2187048 TGAATACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2195807 original size:19 final size:19
Alignment explanation
Indices: 2195765--2195808 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2195755 TTTTCATTTA
2195765 CTATTTTTAATTTAATAAT
1 CTATTTTTAATTTAATAAT
*
2195784 -AATTTATTAATTTAAT-AT
1 CTATTT-TTAATTTAATAAT
2195802 CTATTTT
1 CTATTTT
2195809 AGATTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTATTTTTAATTTAATAAT
Found at i:2196134 original size:24 final size:23
Alignment explanation
Indices: 2196077--2196134 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
2196067 ATTTAAATTT
2196077 AATATAAAAAATAACTTATTTTTC
1 AATAT-AAAAATAACTTATTTTTC
*
2196101 AACTACAAAAATAACTTATTTTTAC
1 AA-TATAAAAATAACTTATTTTT-C
2196126 AATATAAAA
1 AATATAAAA
2196135 GTATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATAAAAATAACTTATTTTTC
Found at i:2196181 original size:30 final size:30
Alignment explanation
Indices: 2196121--2196177 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
2196111 ATAACTTATT
*
2196121 TTTACAATATAAAAGTATTTTTTTTTATAA
1 TTTAAAATATAAAAGTATTTTTTTTTATAA
*
2196151 TTTAAAAT-TAAAA-TATTATTTTTTATA
1 TTTAAAATATAAAAGTATTTTTTTTTATA
2196178 TAATAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.52
29 5 0.20
30 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTAAAATATAAAAGTATTTTTTTTTATAA
Found at i:2198097 original size:19 final size:19
Alignment explanation
Indices: 2198073--2198122 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
2198063 ATCTAATTTT
2198073 GGTATCGATACCTGTATGG
1 GGTATCGATACCTGTATGG
2198092 GGTATCGATACCTGTATGG
1 GGTATCGATACCTGTATGG
*
2198111 GGTATCAATACC
1 GGTATCGATACC
2198123 ATAATAAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (19 bp):
GGTATCGATACCTGTATGG
Found at i:2198643 original size:59 final size:59
Alignment explanation
Indices: 2198519--2198671 Score: 166
Period size: 59 Copynumber: 2.6 Consensus size: 59
2198509 TGGAAAATAT
* * *
2198519 TAAGAAATTCATACTAAGTATATGAATTTTAGTATAGGGAACTTCGTGTGCTATCATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTAGTATAGGGAACTTCGTGTGCTATAAGGA
* * * * * * *
2198578 TCAGAAATTTATATTGAGTGTATGAATTTTCTGTATTGGGCACCTT-GTGTGCTA-AAGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTT-AGTATAGGG-AACTTCGTGTGCTATAAGGA
* *
2198637 TAAGAAATTCATACCAAGTGTATGAATTTCAGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTTAGTAT
2198672 GAGAAATATA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
58 4 0.05
59 52 0.69
60 15 0.20
61 4 0.05
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (59 bp):
TAAGAAATTCATACTAAGTGTATGAATTTTAGTATAGGGAACTTCGTGTGCTATAAGGA
Found at i:2199316 original size:68 final size:68
Alignment explanation
Indices: 2198993--2199297 Score: 466
Period size: 68 Copynumber: 4.5 Consensus size: 68
2198983 AAATATCAAA
* * * * *
2198993 AGGCCTAACTGTGCATATGACATAGAGGTGTAATTTATGCTAGTTAGATGAAAGACTAAGTATCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2199058 TTG
66 TTG
* * *
2199061 AGGCCTAAATGTGTATATGACATAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2199126 TTG
66 TTG
* *
2199129 AGGCCTAACTATGCATATGATAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2199194 TTG
66 TTG
* *
2199197 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
2199262 TTG
66 TTG
* * * *
2199265 ATGCCTAACTGTGCAAAAGACAGAAAGGTGTCA
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCA
2199298 ATCATGTCAT
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 218 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:2199325 original size:68 final size:67
Alignment explanation
Indices: 2198993--2199334 Score: 423
Period size: 68 Copynumber: 5.0 Consensus size: 67
2198983 AAATATCAAA
* * * * * *
2198993 AGGCCTAACTGTGCATATGACATAGAGGTGTAATTTATGCTAGTTAGATGAAAGACTAAGTATCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGC-AGTTAGATGAAAGGCTAAGTGTCT
2199058 TTG
65 TTG
* * * *
2199061 AGGCCTAAATGTGTATATGACATAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGC-AGTTAGATGAAAGGCTAAGTGTCT
2199126 TTG
65 TTG
* * *
2199129 AGGCCTAACTATGCATATGATAGAAATGTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGC-AGTTAGATGAAAGGCTAAGTGTCT
2199194 TTG
65 TTG
2199197 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATG-CAGTTAGATGAAAGGCTAAGTGTCT
2199262 TTG
65 TTG
* * * * * * * * * * *
2199265 ATGCCTAACTGTGCAAAAGACAGAAAGGTGTCAATCATGTCATTTAGATGAACGGTTAAGTATCG
1 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATG-CAGTTAGATGAAAGGCTAAGTGTCT
2199330 TTG
65 TTG
2199333 AG
1 AG
2199335 TAAAAGAAAA
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 245 1.00
69 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (67 bp):
AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCAGTTAGATGAAAGGCTAAGTGTCTT
TG
Found at i:2199371 original size:81 final size:81
Alignment explanation
Indices: 2199274--2199726 Score: 613
Period size: 81 Copynumber: 5.6 Consensus size: 81
2199264 GATGCCTAAC
** * * *
2199274 TGTGCAAAAGACAGAAAGGTGTCAATCATGTCATTTAGATGAACGGTTAAGTATCGTTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
2199339 AGAAAAATGGCCTAGT
66 AGAAAAATGGCCTAGT
* *
2199355 TGTGCAATTGAAAGAAAGGTGTCAATCACGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
2199420 AGAAAAATGGCCTAGT
66 AGAAAAATGGCCTAGT
* * * * * *
2199436 TTTGTAATTGACAGAAGGGTTTCAATCATGACAGTTAGATGAACGGATAAGTACCGTTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
* *
2199501 AGGAAAATGGCCTAGC
66 AGAAAAATGGCCTAGT
* * *
2199517 TGTGCAATTGACAGAAAGCTGTCAATCATGCCAGTTAGATGAACTGTTAAGTACCATTGAGTAAA
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
2199582 AGAAAAATGGCCTAGT
66 AGAAAAATGGCCTAGT
* * * * * * *
2199598 TGTGTAATTGACAGAAATGTGTCAATCATTCCAGTTAAATGAACGATTAAGTACCGTTGAGGAAG
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
* **
2199663 AGAAAAATGGACTAAC
66 AGAAAAATGGCCTAGT
* * *
2199679 TGTGC-ATTGGCAGAAAGGTGTCAATTATGCCAGTTAGACGAAC-GTTAA
1 TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAA
2199727 ACAATGTTGA
Statistics
Matches: 323, Mismatches: 49, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 4 0.01
80 32 0.10
81 287 0.89
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.26
Consensus pattern (81 bp):
TGTGCAATTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAA
AGAAAAATGGCCTAGT
Found at i:2200850 original size:15 final size:15
Alignment explanation
Indices: 2200832--2200861 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2200822 TTTTTTTCTC
2200832 TTTTTCCCTTTTCCT
1 TTTTTCCCTTTTCCT
2200847 TTTTTCCCTTTTCCT
1 TTTTTCCCTTTTCCT
2200862 CTTTGCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTCCCTTTTCCT
Found at i:2202469 original size:23 final size:24
Alignment explanation
Indices: 2202423--2202469 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2202413 ATATTTTTGT
*
2202423 GTGTTTTAGTGTATTTATAGGGTG
1 GTGTTTTAGTGTATTTATAAGGTG
2202447 GTGTTTT-GTGTATGTTA-AAGGTG
1 GTGTTTTAGTGTAT-TTATAAGGTG
2202470 CATGGTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (24 bp):
GTGTTTTAGTGTATTTATAAGGTG
Found at i:2204725 original size:2 final size:2
Alignment explanation
Indices: 2204718--2204758 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2204708 TCAATCTACA
2204718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2204759 ATTTATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2204943 original size:85 final size:85
Alignment explanation
Indices: 2204786--2204943 Score: 183
Period size: 85 Copynumber: 1.9 Consensus size: 85
2204776 ACGACACATG
* * * * * **
2204786 AATGTGTATCATCTTTTTTAATGACGTGTGCTTCAATGACACGCAATGTAAGTCATACATGCGTG
1 AATGTGTATCATCTTTTTTAATGACGGGGGCTTCAATGACACGCAATATAAGTCATAAATGAGCA
2204851 TCATAAATTTATGACACACA
66 TCATAAATTTATGACACACA
* * * **
2204871 AATGTGTGTCATCTTTATTT-ATGACGGGGGCTTCAATGACTCGCATTATGCGTCATAAATGAGC
1 AATGTGTATCATCTTT-TTTAATGACGGGGGCTTCAATGACACGCAATATAAGTCATAAATGAGC
*
2204935 ATCGTAAAT
65 ATCATAAAT
2204944 GAGTATCATA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
85 56 0.95
86 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (85 bp):
AATGTGTATCATCTTTTTTAATGACGGGGGCTTCAATGACACGCAATATAAGTCATAAATGAGCA
TCATAAATTTATGACACACA
Found at i:2204944 original size:13 final size:13
Alignment explanation
Indices: 2204923--2204957 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2204913 GCATTATGCG
2204923 TCATAAATGAGCA
1 TCATAAATGAGCA
* *
2204936 TCGTAAATGAGTA
1 TCATAAATGAGCA
2204949 TCATAAATG
1 TCATAAATG
2204958 CGTGTCATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (13 bp):
TCATAAATGAGCA
Found at i:2204965 original size:13 final size:13
Alignment explanation
Indices: 2204939--2204979 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
2204929 ATGAGCATCG
* *
2204939 TAAATGAGTATCA
1 TAAATGCGTGTCA
2204952 TAAATGCGTGTCA
1 TAAATGCGTGTCA
*
2204965 TCAATGCGTGTCA
1 TAAATGCGTGTCA
2204978 TA
1 TA
2204980 TATTTATGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (13 bp):
TAAATGCGTGTCA
Done.