Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 5 of 240
Found at i:1844064 original size:3 final size:3
Alignment explanation
Indices: 1844056--1844087 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1844046 ATCACATGTT
1844056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1844088 TGGATGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1844207 original size:73 final size:73
Alignment explanation
Indices: 1844088--1844273 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
1844078 TATTATTATT
*
1844088 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1844153 ATTTTAAG
66 ATTTTAAG
1844161 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1844226 ATTTTAAG
66 ATTTTAAG
1844234 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1844274 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:1848634 original size:73 final size:73
Alignment explanation
Indices: 1848515--1848700 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
1848505 TATTATTATT
*
1848515 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1848580 ATTTTAAG
66 ATTTTAAG
1848588 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1848653 ATTTTAAG
66 ATTTTAAG
1848661 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1848701 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:1853079 original size:21 final size:21
Alignment explanation
Indices: 1853053--1853093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1853043 ATCTGCTCAA
* *
1853053 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1853074 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1853094 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1866837 original size:282 final size:282
Alignment explanation
Indices: 1866333--1866851 Score: 896
Period size: 282 Copynumber: 1.8 Consensus size: 282
1866323 ATACGGCGAT
*
1866333 CAAAGCCTGATATATTGGAATAAGCATAGAATAAGAATCTAAACCGCTAGTTATAGCCGTTGTAA
1 CAAAGCCTGATATATTGGAATAAGCATAGAATAAGAATCTAAACCGATAGTTATAGCCGTTGTAA
*
1866398 CGACCGACAATTAAATAAGTCTACCGATCAAATTTTCAACAAGCATCTTACTCACATATCAATCG
66 CGACCGACAATTAAATAAGTCCACCGATCAAATTTTCAACAAGCATCTTACTCACATATCAATCG
* *
1866463 GTCATACCGAAAATGCATGATCTACTGCCGTAACCACTTATAAACCTCAACACGATACATAATCT
131 ATCATACAGAAAATGCATGATCTACTGCCGTAACCACTTATAAACCTCAACACGATACATAATCT
1866528 AAGTTCTTAATTAGGCCAATCAACACTAATTGCCAACACATAATCTATAAGTCCTATTCTAGCCT
196 AAGTTCTTAATTAGGCCAATCAACACTAATTGCCAACACATAATCTATAAGTCCTATTCTAGCCT
1866593 TGTTTACTCAAAATATGACGAA
261 TGTTTACTCAAAATATGACGAA
* *
1866615 CAAAGCCTGATATGTTGGAATAAGCATAGAATAAGAATCTAAACTGATAGTTATAGCCGTTGTAA
1 CAAAGCCTGATATATTGGAATAAGCATAGAATAAGAATCTAAACCGATAGTTATAGCCGTTGTAA
* * * *
1866680 CGGCCGACAATTAAATAAGTCCACTGATCAAATTTTCAACAAGCATCTTACTCACATATCGATTG
66 CGACCGACAATTAAATAAGTCCACCGATCAAATTTTCAACAAGCATCTTACTCACATATCAATCG
**
1866745 ATCATA-AGAAAAATGCATGATCTACTGCCGTAACCACTTATAAACCTTGACACGATACATAATC
131 ATCATACAG-AAAATGCATGATCTACTGCCGTAACCACTTATAAACCTCAACACGATACATAATC
* *
1866809 TAGGTTTTTAATTAGGCCAATCAACACTAATTGCCAACACATA
195 TAAGTTCTTAATTAGGCCAATCAACACTAATTGCCAACACATA
1866852 TCTGAGTTCT
Statistics
Matches: 222, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
281 1 0.00
282 221 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (282 bp):
CAAAGCCTGATATATTGGAATAAGCATAGAATAAGAATCTAAACCGATAGTTATAGCCGTTGTAA
CGACCGACAATTAAATAAGTCCACCGATCAAATTTTCAACAAGCATCTTACTCACATATCAATCG
ATCATACAGAAAATGCATGATCTACTGCCGTAACCACTTATAAACCTCAACACGATACATAATCT
AAGTTCTTAATTAGGCCAATCAACACTAATTGCCAACACATAATCTATAAGTCCTATTCTAGCCT
TGTTTACTCAAAATATGACGAA
Found at i:1874852 original size:14 final size:14
Alignment explanation
Indices: 1874833--1874860 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1874823 TCAAATTCAA
1874833 TAGTTTATGTGCTC
1 TAGTTTATGTGCTC
1874847 TAGTTTATGTGCTC
1 TAGTTTATGTGCTC
1874861 GGCCACTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
TAGTTTATGTGCTC
Found at i:1882821 original size:4 final size:4
Alignment explanation
Indices: 1882812--1882838 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1882802 ATCAATTTTA
1882812 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1882839 CAGGCACGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:1884600 original size:31 final size:31
Alignment explanation
Indices: 1884538--1884601 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
1884528 GATCTCTGAT
* *
1884538 CTATTTAAAAGTTTTTACTCAAGTTAGTAAA
1 CTATTTAAAAGCTTTTACTCAAGTCAGTAAA
* * * *
1884569 CTATTTGAAAGCTTTTATTTAAGTCATTAAA
1 CTATTTAAAAGCTTTTACTCAAGTCAGTAAA
1884600 CT
1 CT
1884602 GTTAAGGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (31 bp):
CTATTTAAAAGCTTTTACTCAAGTCAGTAAA
Found at i:1893711 original size:32 final size:31
Alignment explanation
Indices: 1893675--1893735 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
1893665 TATTAATATT
1893675 TAATAGTTGAGTAACTAAAATGAAAAAAAAAG
1 TAATAGTTGAGTAACTAAAAT-AAAAAAAAAG
* *
1893707 TAATAGTTGAGTGATTAAAATAAAAAAAA
1 TAATAGTTGAGTAACTAAAATAAAAAAAA
1893736 CTGAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.25
Consensus pattern (31 bp):
TAATAGTTGAGTAACTAAAATAAAAAAAAAG
Found at i:1899466 original size:14 final size:14
Alignment explanation
Indices: 1899447--1899473 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1899437 CAATTTTTAA
1899447 ATTTTAGTGAAATG
1 ATTTTAGTGAAATG
1899461 ATTTTAGTGAAAT
1 ATTTTAGTGAAAT
1899474 TGCTCGCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
ATTTTAGTGAAATG
Found at i:1899603 original size:17 final size:17
Alignment explanation
Indices: 1899562--1899634 Score: 56
Period size: 22 Copynumber: 3.8 Consensus size: 17
1899552 AATCATGTAT
1899562 AATTTATAAAAATTAAAAA
1 AATTTA-AAAAA-TAAAAA
*
1899581 ATATTTAAAAAATAAACA
1 A-ATTTAAAAAATAAAAA
1899599 AATTTAATAAATTTAATAAAAA
1 AATTT-A-AAA---AATAAAAA
*
1899621 CATTTAAAAAATAA
1 AATTTAAAAAATAA
1899635 TTCCATATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
17 9 0.20
18 7 0.16
19 9 0.20
20 8 0.18
21 1 0.02
22 11 0.24
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAAAATAAAAA
Found at i:1899617 original size:22 final size:22
Alignment explanation
Indices: 1899591--1899632 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1899581 ATATTTAAAA
*
1899591 AATAAACAA-ATTTAATAAATTT
1 AATAAA-AACATTTAAAAAATTT
1899613 AATAAAAACATTTAAAAAAT
1 AATAAAAACATTTAAAAAAT
1899633 AATTCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAAAAACATTTAAAAAATTT
Found at i:1905888 original size:16 final size:18
Alignment explanation
Indices: 1905852--1905888 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
1905842 AATTTTCGTT
*
1905852 TAAATATTTTATAATTTA
1 TAAATATTTTATAATTAA
1905870 TAAA-ATTTTA-AATTAA
1 TAAATATTTTATAATTAA
1905886 TAA
1 TAA
1905889 CGATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATTTTATAATTAA
Found at i:1905930 original size:24 final size:24
Alignment explanation
Indices: 1905890--1905936 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1905880 AATTAATAAC
*
1905890 GATAAAATTATACTTTAATTTTTT
1 GATAAAATTATAATTTAATTTTTT
1905914 GATAAATATT-TAATTTAATTTTT
1 GATAAA-ATTATAATTTAATTTTT
1905937 AAAATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
GATAAAATTATAATTTAATTTTTT
Found at i:1911924 original size:2 final size:2
Alignment explanation
Indices: 1911917--1911941 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1911907 TAATCTCGAA
1911917 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 A
1911942 AAAGATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1912837 original size:28 final size:28
Alignment explanation
Indices: 1912793--1912849 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1912783 CTTGTTAAGG
1912793 ATACGTAATTAAAGCTCCATCCTTAGGT
1 ATACGTAATTAAAGCTCCATCCTTAGGT
*
1912821 ATACGTAATTAATGCTCCATCCTTAGGT
1 ATACGTAATTAAAGCTCCATCCTTAGGT
1912849 A
1 A
1912850 ACACACTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (28 bp):
ATACGTAATTAAAGCTCCATCCTTAGGT
Found at i:1913375 original size:22 final size:22
Alignment explanation
Indices: 1913345--1913387 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1913335 CAAACGTAAC
* *
1913345 AACAAAATAGTGAAATGATAGT
1 AACAAAATAATAAAATGATAGT
*
1913367 AACATAATAATAAAATGATAG
1 AACAAAATAATAAAATGATAG
1913388 CAAAACAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.23
Consensus pattern (22 bp):
AACAAAATAATAAAATGATAGT
Found at i:1921643 original size:30 final size:30
Alignment explanation
Indices: 1921609--1921670 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1921599 CTTAACAAGT
1921609 AAATGCCTCT-AAAATAATAACAAAATTAAC
1 AAATG-CTCTAAAAATAATAACAAAATTAAC
* *
1921639 AAATGCTTTAAAAATATTAACAAAATTAAC
1 AAATGCTCTAAAAATAATAACAAAATTAAC
1921669 AA
1 AA
1921671 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCTCTAAAAATAATAACAAAATTAAC
Found at i:1923162 original size:18 final size:18
Alignment explanation
Indices: 1923139--1923181 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1923129 CACGGAGGAA
1923139 GAAGAAGAAGAACCAGAG
1 GAAGAAGAAGAACCAGAG
*
1923157 GAAGAAGAGGAACCAGAG
1 GAAGAAGAAGAACCAGAG
1923175 GAAGAAG
1 GAAGAAG
1923182 GAGTTCAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.53, C:0.09, G:0.37, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAACCAGAG
Found at i:1929906 original size:29 final size:30
Alignment explanation
Indices: 1929872--1929928 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1929862 TAGCCTAATG
* *
1929872 TGTAATTTTGTAC-TTAAATTTTGATTTTA
1 TGTAATTTTATACATAAAATTTTGATTTTA
1929901 TGTAATTTTATACATAAAATTTTGATTT
1 TGTAATTTTATACATAAAATTTTGATTT
1929929 GATCCAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.56
Consensus pattern (30 bp):
TGTAATTTTATACATAAAATTTTGATTTTA
Found at i:1934026 original size:24 final size:24
Alignment explanation
Indices: 1933971--1934026 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1933961 GAATTATAAA
1933971 ATATAT-AAAATATGTACATATAT
1 ATATATAAAAATATGTACATATAT
* **
1933994 ATATGTAAAAATATGTATTTATAT
1 ATATATAAAAATATGTACATATAT
*
1934018 ATTTATAAA
1 ATATATAAA
1934027 GGTTAGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (24 bp):
ATATATAAAAATATGTACATATAT
Found at i:1935944 original size:25 final size:25
Alignment explanation
Indices: 1935912--1935966 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
1935902 ATAAGAAAAT
1935912 ATCATTAAAATAACATAAAAAAACA
1 ATCATTAAAATAACATAAAAAAACA
1935937 ATCATTAAAATAACATAAAAAAACA
1 ATCATTAAAATAACATAAAAAAACA
1935962 A-CATT
1 ATCATT
1935967 TTTTTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.22
Consensus pattern (25 bp):
ATCATTAAAATAACATAAAAAAACA
Found at i:1938313 original size:18 final size:17
Alignment explanation
Indices: 1938276--1938314 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1938266 TTAAAATGTT
* *
1938276 AAATTAAAAATATTATA
1 AAATTAAAAATATAAAA
1938293 AAATTATAAAATATAAAA
1 AAATTA-AAAATATAAAA
1938311 AAAT
1 AAAT
1938315 CCCAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTAAAAATATAAAA
Found at i:1939178 original size:30 final size:32
Alignment explanation
Indices: 1939139--1939199 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
1939129 TCTTGAATTT
*
1939139 GACACA-TTTTCCTAATTTGGTACTTAAACTA
1 GACACATTTTTCCTAAGTTGGTACTTAAACTA
*
1939170 GACA-ATTTTTCTTAAGTTGGTACTTAAACT
1 GACACATTTTTCCTAAGTTGGTACTTAAACT
1939200 GTTTGGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (32 bp):
GACACATTTTTCCTAAGTTGGTACTTAAACTA
Found at i:1939822 original size:4 final size:4
Alignment explanation
Indices: 1939806--1939835 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1939796 ACTTTTAGTT
*
1939806 TTAA TTGA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1939836 GACAATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:1940085 original size:31 final size:30
Alignment explanation
Indices: 1940044--1940136 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 30
1940034 AAAAAAGCTT
1940044 AGGTACCAAATTAGGAAAAAATGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAATGTCAA-TTC
* * *
1940075 AGGTATCAAATTGGGAAAAAA----AATTT
1 AGGTACCAAATTAGGAAAAAATGTCAATTC
* *
1940101 AGGTACCAAATTAAGAAAAATTGTCAAATTC
1 AGGTACCAAATTAGGAAAAAATGTC-AATTC
1940132 AGGTA
1 AGGTA
1940137 TCGAATTGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
26 19 0.39
27 2 0.04
31 28 0.57
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (30 bp):
AGGTACCAAATTAGGAAAAAATGTCAATTC
Found at i:1940112 original size:57 final size:58
Alignment explanation
Indices: 1940032--1940178 Score: 199
Period size: 57 Copynumber: 2.6 Consensus size: 58
1940022 AATTAAACCT
** *
1940032 AAAAAAAAGCTTAGGTACCAAATTAGGAAAAAATGTCAAGTTCAGGTATCAAATTG-G
1 AAAAAAAAATTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAGGTATCAAATTGAG
* * * *
1940089 GAAAAAAAATTTAGGTACCAAATTAAGAAAAATTGTCAAATTCAGGTATCGAATTGAG
1 AAAAAAAAATTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAGGTATCAAATTGAG
* *
1940147 AAAAAAAAATTTA-TTACCAAATTAGAAAAAAA
1 AAAAAAAAATTTAGGTACCAAATTAGGAAAAAA
1940179 ACATAGGTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
57 64 0.83
58 13 0.17
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (58 bp):
AAAAAAAAATTTAGGTACCAAATTAGGAAAAAATGTCAAATTCAGGTATCAAATTGAG
Found at i:1940149 original size:31 final size:30
Alignment explanation
Indices: 1940060--1940151 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 30
1940050 CAAATTAGGA
* *
1940060 AAAAATGTCAAGTTCAGGTATCAAATTGGG
1 AAAAATGTCAAATTCAGGTATCAAATTGAG
* * *
1940090 AAAAA----AAATTTAGGTACCAAATTAAG
1 AAAAATGTCAAATTCAGGTATCAAATTGAG
*
1940116 AAAAATTGTCAAATTCAGGTATCGAATTGAG
1 AAAAA-TGTCAAATTCAGGTATCAAATTGAG
1940147 AAAAA
1 AAAAA
1940152 AAAATTTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
26 21 0.44
30 5 0.10
31 22 0.46
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (30 bp):
AAAAATGTCAAATTCAGGTATCAAATTGAG
Found at i:1958315 original size:31 final size:31
Alignment explanation
Indices: 1958280--1958338 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1958270 CAAAATAGTT
*
1958280 ATTGAATTATTCGA-AGGTTTTTATTTAAATA
1 ATTGAACTATTCGATA-GTTTTTATTTAAATA
*
1958311 ATTGAACTATTTGATAGTTTTTATTTAA
1 ATTGAACTATTCGATAGTTTTTATTTAA
1958339 GTCGTTGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (31 bp):
ATTGAACTATTCGATAGTTTTTATTTAAATA
Found at i:1967090 original size:44 final size:43
Alignment explanation
Indices: 1967038--1967141 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
1967028 CACTCCATTA
* * *
1967038 CAACTTTAGGGAGATAGAATTTGTTCATTCAGTCTG-TCCCACTG
1 CAACTTTAGGGAGATAGAATTTCTT-ACTCAGCCTGCT-CCACTG
* * *
1967082 CAATTTTAGGGGGATAAGACTTTCTTACTCAGCCTGCTCCACTG
1 CAACTTTAGGGAGAT-AGAATTTCTTACTCAGCCTGCTCCACTG
*
1967126 CAACTTCAGGGAGATA
1 CAACTTTAGGGAGATA
1967142 AGACCAGATG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.02
44 39 0.80
45 9 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
CAACTTTAGGGAGATAGAATTTCTTACTCAGCCTGCTCCACTG
Found at i:1968321 original size:51 final size:50
Alignment explanation
Indices: 1968265--1968563 Score: 305
Period size: 51 Copynumber: 5.9 Consensus size: 50
1968255 AGTGAAAGTG
* *
1968265 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAT
1 TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT
* * * * * * *
1968315 AATGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTATCGAGAAGCT
1 -TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-AT
* * *
1968367 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAAT
1 TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT
* * * * * *
1968417 GATGGTCACATGTGTAGTACTAAGCGAAGGCTACTATGTGTACCGA-AAAGCT
1 -TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--T
* * *
1968469 TTAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAAC
1 TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAT-AAAT
* * * *
1968519 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTGCGTGTATCGA
1 TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
1968564 ATGATAATAG
Statistics
Matches: 198, Mismatches: 43, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
50 42 0.21
51 151 0.76
52 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TTGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT
Found at i:1968446 original size:102 final size:102
Alignment explanation
Indices: 1968265--1968551 Score: 425
Period size: 102 Copynumber: 2.8 Consensus size: 102
1968255 AGTGAAAGTG
1968265 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
1968330 AGTACTAAGTGAAGGCTACAATGTGTATCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAAAAGCT
* *
1968367 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
1968432 AGTACTAAGCGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAAAAGCT
* * * * * * *
1968469 TTAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTG
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
*
1968532 TAGTACTATGTGAAGGCTAC
65 TAGTACTAAGTGAAGGCTAC
1968552 TGCGTGTATC
Statistics
Matches: 167, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 32 0.19
102 135 0.81
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAAAAGCT
Found at i:1968739 original size:14 final size:15
Alignment explanation
Indices: 1968715--1968743 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1968705 TTTTTCTGTG
1968715 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
1968730 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
1968744 AGTTTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:1968962 original size:15 final size:14
Alignment explanation
Indices: 1968938--1968991 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
1968928 AGTTTTTATA
*
1968938 ATAATTATAAAGGTT
1 ATAATAATAAA-GTT
*
1968953 ATAATAATAAA-TA
1 ATAATAATAAAGTT
*
1968966 ATATATTATAAAGTT
1 ATA-ATAATAAAGTT
1968981 ATAATAATAAA
1 ATAATAATAAA
1968992 ACAAACATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (14 bp):
ATAATAATAAAGTT
Found at i:1968981 original size:28 final size:28
Alignment explanation
Indices: 1968935--1968991 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
1968925 TATAGTTTTT
1968935 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
1968963 ATAATATATTATAAA-GTTATAATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
1968991 A
1 A
1968992 ACAAACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:1970803 original size:41 final size:41
Alignment explanation
Indices: 1970758--1970896 Score: 215
Period size: 41 Copynumber: 3.4 Consensus size: 41
1970748 GTCTTTAAGT
* *
1970758 CTAGCAGGCTAAGTGTCAGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
* *
1970799 CTAGCAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
* * *
1970840 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAAGCTATAAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1970881 CTAGCAGGCTAAGTGC
1 CTAGCAGGCTAAGTGC
1970897 TGGTGAATAT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
Found at i:1973255 original size:44 final size:44
Alignment explanation
Indices: 1973185--1973284 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 44
1973175 TCTGCAACTT
* * * * *
1973185 CAGGGAGATAAGATTCTCAATCTTCAACGTATTCCCCTGTTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTAAC
* * *
1973229 CAGGGAGGTAGGATTCACAATTTTCAACCTATTCCACTGCTAAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTAAC
1973273 CAGGGAGATAAG
1 CAGGGAGATAAG
1973285 GCCGGGGACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTAAC
Found at i:1973352 original size:87 final size:87
Alignment explanation
Indices: 1973247--1973456 Score: 240
Period size: 87 Copynumber: 2.4 Consensus size: 87
1973237 TAGGATTCAC
* * * * *
1973247 AATTTTCAACCTATTCCACTGCTAACCAGGGAGATAAGGCCGGGGACTTCGATCTGCTCCACTAC
1 AATTTTCAACCTACTCCACTGTTGACCAGGGAGATAAGGACGGGGACTTCGATCTACTCCACTAC
* *
1973312 TGCTTAGGGAGATAAGATCTAT
66 TGCTTAAGGAGATAAGATATAT
* *** * * ** *
1973334 AATTTTCAACCTACTCCACTATTGTTTAGGGAGACAAGGATGGGGTTTTTGATCTACTCCACTAC
1 AATTTTCAACCTACTCCACTGTTGACCAGGGAGATAAGGACGGGGACTTCGATCTACTCCACTAC
* *
1973399 TGCTTAAGGAGATATGATATGT
66 TGCTTAAGGAGATAAGATATAT
* *
1973421 AATTTTTAACCTACTCCACTGTTGACCAAGGAGATA
1 AATTTTCAACCTACTCCACTGTTGACCAGGGAGATA
1973457 GGATTCACAA
Statistics
Matches: 98, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
87 98 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (87 bp):
AATTTTCAACCTACTCCACTGTTGACCAGGGAGATAAGGACGGGGACTTCGATCTACTCCACTAC
TGCTTAAGGAGATAAGATATAT
Found at i:1973440 original size:44 final size:44
Alignment explanation
Indices: 1973303--1973440 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 44
1973293 CTTCGATCTG
* * *
1973303 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTTAACCTA
* * * * *** * *
1973347 CTCCACTATTGTTTAGGGAGACAAG-GATGGGGTTTTTGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTTAACCTA
* *
1973390 CTCCACTACTGCTTAAGGAGATATGATATGTAATTTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTTAACCTA
1973434 CTCCACT
1 CTCCACT
1973441 GTTGACCAAG
Statistics
Matches: 70, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
43 29 0.41
44 41 0.59
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTTAACCTA
Found at i:1973625 original size:88 final size:88
Alignment explanation
Indices: 1973513--1974033 Score: 744
Period size: 88 Copynumber: 5.9 Consensus size: 88
1973503 GTTGGGGTCA
* * * * *
1973513 TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATATGCTATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
1973578 CCAGGGAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* *
1973601 TCGATCTGCTTCGCTGTCGATGCAGGAAGACAAGATCTGCTATCTTCAACTTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
1973666 CCA-GGAGGGCAAGGCTGGTATCT
66 CCAGGGA-GGCAAGGCTGGTATCT
* * *
1973689 TCGATCTGCTTAGCTGTCGATGCAGGAAGGCAAGATCTGCTATATTCAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
1973754 CCAGGGAGGCAAGGTTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* *
1973777 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATATGCTATCTTCAACCTGCTCCACGACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* * * *
1973842 CCAAGGATGCAAGACTGGTATCG
66 CCAGGGAGGCAAGGCTGGTATCT
1973865 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
1973930 CCAAGTAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * *
1973953 TCGATCTGTTTCGCCT-TC-AGTACATGAAGGCAAGATCTGTTATTTTCAACCTGCTCCACTGA-
1 TCGATCTGCTTCG-CTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-AC
* *
1974015 AAACCAGGAAGGCAAGGCT
63 AACCCAGGGAGGCAAGGCT
1974034 TTGTGATTTC
Statistics
Matches: 391, Mismatches: 37, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
87 4 0.01
88 381 0.97
89 6 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTATCT
Found at i:1980027 original size:29 final size:27
Alignment explanation
Indices: 1979973--1980028 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
1979963 TAATGATGGC
* *
1979973 ATAGAAATAATATAAACAAATAAATAA
1 ATAGAAATAATATAAAAAAAAAAATAA
*
1980000 ATAGAATTAATATATAAAAAAAACAATAA
1 ATAGAAATAATATA-AAAAAAAA-AATAA
1980029 TCCGTGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.54
28 6 0.25
29 5 0.21
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (27 bp):
ATAGAAATAATATAAAAAAAAAAATAA
Found at i:1982422 original size:28 final size:28
Alignment explanation
Indices: 1982382--1982451 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
1982372 ATAAAGGGAC
1982382 AGTCAAATATTATTTTTTTCCTAGAATA
1 AGTCAAATATTATTTTTTTCCTAGAATA
1982410 AGTCAAATATTATTTTTTTCCTAGAATA
1 AGTCAAATATTATTTTTTTCCTAGAATA
*
1982438 AGTCAAAAATTATT
1 AGTCAAATATTATT
1982452 GCTTAACGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (28 bp):
AGTCAAATATTATTTTTTTCCTAGAATA
Found at i:1985432 original size:2 final size:2
Alignment explanation
Indices: 1985425--1985454 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1985415 ATTACTATGC
*
1985425 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1985455 TTTTTTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1985447 original size:14 final size:14
Alignment explanation
Indices: 1985428--1985456 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1985418 ACTATGCATA
1985428 TATATATATATATT
1 TATATATATATATT
1985442 TATATATATATATT
1 TATATATATATATT
1985456 T
1 T
1985457 TTTTATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATATATATATT
Found at i:1993270 original size:19 final size:19
Alignment explanation
Indices: 1993220--1993271 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
1993210 TTTTATATTA
*
1993220 TTAAATTTAATTATTATCC
1 TTAAACTTAATTATTATCC
*
1993239 TTAATACAT-ATTATTAAT-C
1 TTAA-ACTTAATTATT-ATCC
1993258 TTAAACTTAATTAT
1 TTAAACTTAATTAT
1993272 ATCTTGAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAACTTAATTATTATCC
Found at i:1997311 original size:31 final size:31
Alignment explanation
Indices: 1997238--1997311 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1997228 TAATTTGCTC
* * *
1997238 AATTTTAGTCCCTATGTTATTTGAATTAGTC
1 AATTTTAGTCCTTATCTTATTTGAATTAGTA
1997269 AATTTTAGTCCTTATACTT-TTTGAATTA-TGA
1 AATTTTAGTCCTTAT-CTTATTTGAATTAGT-A
1997300 AATTTTAGTCCT
1 AATTTTAGTCCT
1997312 GACTTGGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 1 0.03
31 35 0.92
32 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (31 bp):
AATTTTAGTCCTTATCTTATTTGAATTAGTA
Found at i:2004020 original size:26 final size:26
Alignment explanation
Indices: 2003991--2004045 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
2003981 TGTAGGTAAA
*
2003991 AGTATCATAAAAGTTTTTATATTAAG
1 AGTATCATAAAAATTTTTATATTAAG
2004017 AGTATCATAAAAATTTTTATATTAAG
1 AGTATCATAAAAATTTTTATATTAAG
2004043 AGT
1 AGT
2004046 CAAATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (26 bp):
AGTATCATAAAAATTTTTATATTAAG
Found at i:2014089 original size:17 final size:18
Alignment explanation
Indices: 2014068--2014108 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2014058 TGTTGATTTT
* *
2014068 TTATTTTTTATTTTTAAA
1 TTATTTTATAATTTTAAA
2014086 -TATTTTATAATTTTAAA
1 TTATTTTATAATTTTAAA
2014103 TTATTT
1 TTATTT
2014109 GTTAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTATAATTTTAAA
Found at i:2014114 original size:18 final size:17
Alignment explanation
Indices: 2014072--2014114 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2014062 GATTTTTTAT
*
2014072 TTTTTATTTTTAAA-TA
1 TTTTTAATTTTAAATTA
2014088 TTTTATAATTTTAAATTA
1 TTTT-TAATTTTAAATTA
2014106 TTTGTTAAT
1 TTT-TTAAT
2014115 GATATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 9 0.39
19 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTAATTTTAAATTA
Found at i:2018441 original size:20 final size:21
Alignment explanation
Indices: 2018416--2018466 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2018406 AAGATTAAAA
*
2018416 TATAATTTTATA-TATCATTT
1 TATAATTTTATAGTATAATTT
*
2018436 TATAA-TTTAAAGTATAATTT
1 TATAATTTTATAGTATAATTT
2018456 TATAATTTTAT
1 TATAATTTTAT
2018467 TAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 17 0.65
21 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATAATTTTATAGTATAATTT
Found at i:2019815 original size:7 final size:7
Alignment explanation
Indices: 2019800--2019830 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2019790 TTTAGGACTA
2019800 AAATTTC
1 AAATTTC
*
2019807 AAATCTC
1 AAATTTC
2019814 AAATTTC
1 AAATTTC
2019821 AAATTTC
1 AAATTTC
2019828 AAA
1 AAA
2019831 AAGCATAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (7 bp):
AAATTTC
Found at i:2022169 original size:12 final size:13
Alignment explanation
Indices: 2022147--2022175 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2022137 TCCCATTACA
2022147 GTTTCCTGTTTCT
1 GTTTCCTGTTTCT
2022160 GTTT-CTGTTTCT
1 GTTTCCTGTTTCT
2022172 GTTT
1 GTTT
2022176 GGCCCTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.66
Consensus pattern (13 bp):
GTTTCCTGTTTCT
Found at i:2031967 original size:21 final size:20
Alignment explanation
Indices: 2031937--2031998 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
2031927 TGTCATAATA
*
2031937 AAAAACATATTAATTAATTAT
1 AAAAATATATTAATTAATT-T
* *
2031958 AAAAATATATAAATATTATTT
1 AAAAATATATTAAT-TAATTT
*
2031979 AAAAATA-ATTAAATAATTT
1 AAAAATATATTAATTAATTT
2031998 A
1 A
2031999 TATTTTATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 20 0.59
22 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATATATTAATTAATTT
Found at i:2034508 original size:48 final size:50
Alignment explanation
Indices: 2034431--2034526 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 50
2034421 GTTCTCTCTG
* * **
2034431 CAAATTAGTTTTTTTTTCCTTCTAATCTCAGTTCTCACCTGCCGCCGTTT
1 CAAATCAGTTTTTCTTTCCTTCTAATCTCAGTTCTCACCCACCGCCGTTT
*
2034481 CAAATCAG-TTTTCTTT-CTTCTCATCTCAGTTCTCACCCACCGCCGT
1 CAAATCAGTTTTTCTTTCCTTCTAATCTCAGTTCTCACCCACCGCCGT
2034527 GTCCGCTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 27 0.66
49 7 0.17
50 7 0.17
ACGTcount: A:0.17, C:0.32, G:0.09, T:0.42
Consensus pattern (50 bp):
CAAATCAGTTTTTCTTTCCTTCTAATCTCAGTTCTCACCCACCGCCGTTT
Found at i:2040109 original size:15 final size:16
Alignment explanation
Indices: 2040078--2040110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2040068 TTGACTAGAC
*
2040078 AAAATATTGTAAGAAA
1 AAAATATTGTAAAAAA
2040094 AAAATATT-TAAAAAA
1 AAAATATTGTAAAAAA
2040109 AA
1 AA
2040111 GAGACACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAATATTGTAAAAAA
Found at i:2041063 original size:42 final size:43
Alignment explanation
Indices: 2041015--2041102 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
2041005 TCAATAGCCA
*
2041015 TTCAACGTTCATCTTA-AATTTGAATTTTGAAAAATCAGACCG
1 TTCAACGTTCATCTTATAATTTGAATTTTGAAAAACCAGACCG
*
2041057 TTCAACGTTCATCTTATATTTTGAATTTTGAAAAACCAGACCG
1 TTCAACGTTCATCTTATAATTTGAATTTTGAAAAACCAGACCG
2041100 TTC
1 TTC
2041103 CTCACCCCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 16 0.37
43 27 0.63
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (43 bp):
TTCAACGTTCATCTTATAATTTGAATTTTGAAAAACCAGACCG
Found at i:2042125 original size:12 final size:12
Alignment explanation
Indices: 2042110--2042142 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2042100 GAAGAAGCTG
2042110 AGAAAGAAACCA
1 AGAAAGAAACCA
*
2042122 AGAAAAAAACCA
1 AGAAAGAAACCA
2042134 AGAAAGAAA
1 AGAAAGAAA
2042143 GGGATCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.73, C:0.12, G:0.15, T:0.00
Consensus pattern (12 bp):
AGAAAGAAACCA
Found at i:2048595 original size:36 final size:36
Alignment explanation
Indices: 2048543--2048631 Score: 160
Period size: 36 Copynumber: 2.5 Consensus size: 36
2048533 CCCAACTACT
*
2048543 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
*
2048579 GTATACGTTAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
2048615 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
2048632 CGTAAACGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:2048634 original size:18 final size:18
Alignment explanation
Indices: 2048543--2048635 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
2048533 CCCAACTACT
* *
2048543 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
*
2048561 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
2048579 GTATACGTTAATAGTACT
1 GTATACGTGAATAGTACC
*
2048597 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
2048615 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
2048633 GTA
1 GTA
2048636 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:2051185 original size:9 final size:9
Alignment explanation
Indices: 2051171--2051258 Score: 83
Period size: 9 Copynumber: 9.8 Consensus size: 9
2051161 CTTGCCATGG
2051171 AAAGAAGGA
1 AAAGAAGGA
2051180 AAAGAA-G-
1 AAAGAAGGA
* *
2051187 -ATGAAAGA
1 AAAGAAGGA
*
2051195 CAAGAAGGA
1 AAAGAAGGA
2051204 GAAAGACAAGGA
1 -AAAG--AAGGA
*
2051216 CAAGAAGGA
1 AAAGAAGGA
*
2051225 AAAGAAAGA
1 AAAGAAGGA
2051234 AAAGAAGGA
1 AAAGAAGGA
2051243 AAAGAAGGA
1 AAAGAAGGA
2051252 AAAGAAG
1 AAAGAAG
2051259 ACCGAGAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
6 4 0.06
7 1 0.02
8 1 0.02
9 48 0.74
10 3 0.05
11 3 0.05
12 5 0.08
ACGTcount: A:0.65, C:0.03, G:0.31, T:0.01
Consensus pattern (9 bp):
AAAGAAGGA
Found at i:2051290 original size:18 final size:18
Alignment explanation
Indices: 2051245--2051292 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
2051235 AAGAAGGAAA
*
2051245 AGAAGGAAAAGAAGACCG
1 AGAAGGAGAAGAAGACCG
* *
2051263 AG-AGCAAGAAGAAGCCCG
1 AGAAG-GAGAAGAAGACCG
2051281 AGAAGGAGAAGA
1 AGAAGGAGAAGA
2051293 GTAAGCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.52, C:0.12, G:0.35, T:0.00
Consensus pattern (18 bp):
AGAAGGAGAAGAAGACCG
Found at i:2069180 original size:21 final size:22
Alignment explanation
Indices: 2069154--2069200 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2069144 CTCTGCTCAA
*
2069154 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
2069175 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
2069197 ACTC
1 ACTC
2069201 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:2086691 original size:24 final size:22
Alignment explanation
Indices: 2086664--2086711 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2086654 TATTCTATGT
2086664 ATAAAGATATTTTTAACAGTAAAA
1 ATAAAGAT-TTTTTAACA-TAAAA
* *
2086688 ATAAATATTTTTTAATATAAAA
1 ATAAAGATTTTTTAACATAAAA
2086710 AT
1 AT
2086712 TAAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
ATAAAGATTTTTTAACATAAAA
Found at i:2086696 original size:22 final size:22
Alignment explanation
Indices: 2086670--2086726 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
2086660 ATGTATAAAG
2086670 ATATTTTTAACAGTAAAAA-TAA
1 ATATTTTTAACA-TAAAAATTAA
*
2086692 ATATTTTTTAATATAAAAATTAA
1 ATA-TTTTTAACATAAAAATTAA
2086715 ATTATTATTTAA
1 A-TATT-TTTAA
2086727 TCTAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.30
23 14 0.47
24 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATTTTTAACATAAAAATTAA
Found at i:2086720 original size:24 final size:23
Alignment explanation
Indices: 2086664--2086727 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
2086654 TATTCTATGT
* *
2086664 ATAAAGATATTTTTAACAGTAAAA
1 ATAAATAT-TTTTTAATAGTAAAA
2086688 ATAAATATTTTTTAATA-TAAAA
1 ATAAATATTTTTTAATAGTAAAA
*
2086710 ATTAAATTATTATTTAAT
1 A-TAAA-TATTTTTTAAT
2086728 CTAATTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.17
23 12 0.34
24 17 0.49
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
ATAAATATTTTTTAATAGTAAAA
Found at i:2095782 original size:186 final size:188
Alignment explanation
Indices: 2095410--2095971 Score: 934
Period size: 186 Copynumber: 3.0 Consensus size: 188
2095400 CATTAGAGAG
* * * * *
2095410 ATGTTTAATTCGTGTATACTTGCCTTAGCTCATGTCCTTTTCATGTAAACCGTGTA-AATATAAA
1 ATGTTTAATTCGTGTATACATCCCTTAGCTCATGTTCTTTTCGTGTAAACCGTG-AGAGTATAAA
* * * * *
2095474 TTCAATACAAATTATTATGCGTCAAAATCCTAAATACGAGTACAATAAATGTA-CTAAATGTGTT
65 TTCAATACAAATTATTATGTGTCAAGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTT
*
2095538 GTGTTTATGTCATGTTTTCAGATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
130 GTGTTTATGTCATGTTTTCATATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
*
2095597 ATGTTTAATTCGTGTATACATCCCTTAGCTCCTGTTCTTTTCGTGTAAACCGTGAGAGTATAAAT
1 ATGTTTAATTCGTGTATACATCCCTTAGCTCATGTTCTTTTCGTGTAAACCGTGAGAGTATAAAT
2095662 TCAATACAAATTA-T-TGTGTCAAGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTTG
66 TCAATACAAATTATTATGTGTCAAGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTTG
2095725 TGTTTATGTCATGTTTTCATATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
131 TGTTTATGTCATGTTTTCATATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
2095783 ATGTTTAATTCGTGTATACATCCCTTAGCTCATGTTCTTTTCGTGTAAACCGTGAGAGTATAAAT
1 ATGTTTAATTCGTGTATACATCCCTTAGCTCATGTTCTTTTCGTGTAAACCGTGAGAGTATAAAT
*
2095848 TCAATACAAATTATTATGTGTCATGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTTG
66 TCAATACAAATTATTATGTGTCAAGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTTG
* ***
2095913 TGTTTATGTCATGTTTTCATATCGTCCAATCTAGAAAAGAAGTGCGAGCAAAAAATGA
131 TGTTTATGTCATGTTTTCATATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
2095971 A
1 A
2095972 GGTACCTGAT
Statistics
Matches: 353, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
185 33 0.09
186 146 0.41
187 71 0.20
188 103 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (188 bp):
ATGTTTAATTCGTGTATACATCCCTTAGCTCATGTTCTTTTCGTGTAAACCGTGAGAGTATAAAT
TCAATACAAATTATTATGTGTCAAGATCCTAAATATGAGTACAATAAATGTACCAAAATGCGTTG
TGTTTATGTCATGTTTTCATATCGTCAAATCTAGAAAAGAAACCCGAGCAAAAAATGA
Found at i:2107161 original size:6 final size:6
Alignment explanation
Indices: 2107150--2107176 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2107140 GAAAAAACAC
2107150 TCACTG TCACTG TCACTG TCACTG TCA
1 TCACTG TCACTG TCACTG TCACTG TCA
2107177 TTTGGTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (6 bp):
TCACTG
Found at i:2109650 original size:120 final size:120
Alignment explanation
Indices: 2109513--2109991 Score: 908
Period size: 120 Copynumber: 4.0 Consensus size: 120
2109503 CTTTTATTAA
2109513 AATTTATCA-TTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATT
1 AATTTAT-ATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATT
*
2109577 AAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTT
65 AAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
2109633 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
1 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
*
2109698 AGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
2109753 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
1 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
2109818 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
2109873 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
1 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
*
2109938 AGAA-TTTATTAAATTATATATTTTAATTAATATATATTTAATAATAATTATGTT
66 AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
2109992 TAAATATGAT
Statistics
Matches: 354, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
119 50 0.14
120 304 0.86
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTA
AGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
Found at i:2109849 original size:18 final size:17
Alignment explanation
Indices: 2109821--2109855 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2109811 ATTATTAAGA
*
2109821 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2109838 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2109856 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2110204 original size:44 final size:45
Alignment explanation
Indices: 2110139--2110229 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2110129 ACCTCTATTC
* * *
2110139 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
2110183 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
2110228 CA
1 CA
2110230 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:2110231 original size:16 final size:16
Alignment explanation
Indices: 2110210--2110278 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
2110200 GATTAGCTAT
2110210 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2110226 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
2110243 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2110259 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
2110275 TACA
1 TACA
2110279 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2110252 original size:33 final size:32
Alignment explanation
Indices: 2110210--2110278 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
2110200 GATTAGCTAT
2110210 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
2110243 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
2110275 TACA
1 TACA
2110279 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:2124948 original size:13 final size:13
Alignment explanation
Indices: 2124930--2124954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2124920 TAATATAATG
2124930 AATTTAATAATTT
1 AATTTAATAATTT
2124943 AATTTAATAATT
1 AATTTAATAATT
2124955 AAAATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTAATAATTT
Found at i:2127709 original size:19 final size:18
Alignment explanation
Indices: 2127685--2127724 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
2127675 TGCCGTAATC
2127685 TAATTTTT-TAATAATATAT
1 TAATTTTTATAA-AATAT-T
2127704 TAATTTTTATAAAATATT
1 TAATTTTTATAAAATATT
2127722 TAA
1 TAA
2127725 AAATATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTTTTATAAAATATT
Found at i:2140069 original size:18 final size:18
Alignment explanation
Indices: 2140046--2140138 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
2140036 CCCAACTACT
*
2140046 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
2140064 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
2140082 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
2140100 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
2140118 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
2140136 GTA
1 GTA
2140139 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:2140098 original size:36 final size:36
Alignment explanation
Indices: 2140046--2140138 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
2140036 CCCAACTACT
*
2140046 GTATACGTGAACAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
2140082 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
2140118 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
2140139 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:2141530 original size:34 final size:34
Alignment explanation
Indices: 2141487--2141556 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2141477 ACTTCTCCAT
2141487 CAGTTCTTGAAGTTGCTCACCGAGTAGCCGGATG
1 CAGTTCTTGAAGTTGCTCACCGAGTAGCCGGATG
*
2141521 CAGTTCTTGAAGTTGCTCACCGAGTAGCTGGATG
1 CAGTTCTTGAAGTTGCTCACCGAGTAGCCGGATG
2141555 CA
1 CA
2141557 ATTATGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (34 bp):
CAGTTCTTGAAGTTGCTCACCGAGTAGCCGGATG
Found at i:2141612 original size:4 final size:4
Alignment explanation
Indices: 2141603--2141651 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
2141593 CCTGTGGCTG
2141603 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2141651 T
1 T
2141652 CCATCCATCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:2141656 original size:4 final size:4
Alignment explanation
Indices: 2141649--2141673 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2141639 TACATACATA
2141649 CATC CATC CATC CATC CATC CATC C
1 CATC CATC CATC CATC CATC CATC C
2141674 TTTGGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CATC
Found at i:2146015 original size:3 final size:3
Alignment explanation
Indices: 2146007--2146048 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
2145997 TAAATGACAT
2146007 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2146049 ACCTGTGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2146857 original size:22 final size:22
Alignment explanation
Indices: 2146810--2146859 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2146800 CAATAAAAAC
* *
2146810 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
2146832 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
2146854 AAAATA
1 AAAATA
2146860 ATAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:2152282 original size:31 final size:32
Alignment explanation
Indices: 2152246--2152314 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
2152236 ATAAAATAGC
2152246 TATTAAATTATTTGAA-AATTTTTATTTAAAT
1 TATTAAATTATTTGAATAATTTTTATTTAAAT
* * *
2152277 TATTAAATTATTTTAATATTTTTTATTTAAGT
1 TATTAAATTATTTGAATAATTTTTATTTAAAT
2152309 TATTAA
1 TATTAA
2152315 GATTTTAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TATTAAATTATTTGAATAATTTTTATTTAAAT
Found at i:2154526 original size:34 final size:35
Alignment explanation
Indices: 2154471--2154538 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
2154461 CAAACACCAG
*
2154471 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
2154506 AAAACATTTTCCCG-AAATCATTTTACGGAAAAG
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAG
2154539 ATTTTACTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:2160511 original size:19 final size:19
Alignment explanation
Indices: 2160487--2160550 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 19
2160477 AAATCACGGA
2160487 AATTTTTTTAAAACACAGG
1 AATTTTTTTAAAACACAGG
* *
2160506 AA--TTTTTGAAACACCGG
1 AATTTTTTTAAAACACAGG
2160523 AAATTTTTTTAAAAACACGAGG
1 -AATTTTTTT-AAAACAC-AGG
2160545 -ATTTTT
1 AATTTTT
2160551 GAAAACACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 13 0.36
18 2 0.06
19 2 0.06
20 11 0.31
21 6 0.17
22 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (19 bp):
AATTTTTTTAAAACACAGG
Found at i:2160526 original size:37 final size:38
Alignment explanation
Indices: 2160483--2160554 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
2160473 AAAAAAATCA
2160483 CGGAAATTTTTTT-AAAACAC-AGGAATTTTTGAAACAC
1 CGGAAATTTTTTTAAAAACACGAGG-ATTTTTGAAACAC
2160520 CGGAAATTTTTTTAAAAACACGAGGATTTTTGAAA
1 CGGAAATTTTTTTAAAAACACGAGGATTTTTGAAA
2160555 ACACGAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 13 0.39
38 17 0.52
39 3 0.09
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (38 bp):
CGGAAATTTTTTTAAAAACACGAGGATTTTTGAAACAC
Found at i:2160569 original size:19 final size:19
Alignment explanation
Indices: 2160488--2160571 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 19
2160478 AATCACGGAA
* *
2160488 ATTTTTTTAAAACAC-AGG
1 ATTTTTTGAAAACACGAAG
*
2160506 AATTTTTG-AAACACCGGAA-
1 ATTTTTTGAAAACA-C-GAAG
* *
2160525 ATTTTTTTAAAAACACGAGG
1 A-TTTTTTGAAAACACGAAG
2160545 A-TTTTTGAAAACACGAAG
1 ATTTTTTGAAAACACGAAG
2160563 ATTTTTTGA
1 ATTTTTTGA
2160572 TACGCGAGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
17 5 0.10
18 23 0.45
19 10 0.20
20 8 0.16
21 5 0.10
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATTTTTTGAAAACACGAAG
Found at i:2160666 original size:17 final size:18
Alignment explanation
Indices: 2160645--2160696 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
2160635 AAAAAATTTA
2160645 AAAACACAAAAATTTGTG
1 AAAACACAAAAATTTGTG
* *
2160663 -AAACACGAGAATTAT-TG
1 AAAACACAAAAATT-TGTG
2160680 AAAACACGAAAAATTTG
1 AAAACAC-AAAAATTTG
2160697 AAAATACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
17 13 0.50
18 8 0.31
19 5 0.19
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.21
Consensus pattern (18 bp):
AAAACACAAAAATTTGTG
Found at i:2160697 original size:17 final size:17
Alignment explanation
Indices: 2160636--2160719 Score: 82
Period size: 16 Copynumber: 4.9 Consensus size: 17
2160626 AAAATATAAA
*
2160636 AAAAATTTAAAAACAC-
1 AAAAATTTGAAAACACG
*
2160652 AAAAATTTGTGAAACACG
1 AAAAATTTG-AAAACACG
* *
2160670 AGAATTATTGAAAACACG
1 AAAAAT-TTGAAAACACG
*
2160688 AAAAATTTGAAAATACG
1 AAAAATTTGAAAACACG
*
2160705 -AAAATTTAAAAACAC
1 AAAAATTTGAAAACAC
2160720 AAATTTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
16 21 0.38
17 16 0.29
18 15 0.27
19 3 0.05
ACGTcount: A:0.58, C:0.11, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAAATTTGAAAACACG
Found at i:2160738 original size:21 final size:22
Alignment explanation
Indices: 2160712--2160757 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
2160702 ACGAAAATTT
2160712 AAAAACAC-A-AATTTTTTTTTA
1 AAAAACACGACAA-TTTTTTTTA
2160733 AAAAACACGACAATTTTTTTTA
1 AAAAACACGACAATTTTTTTTA
2160755 AAA
1 AAA
2160758 CATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
22 13 0.57
23 2 0.09
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAACACGACAATTTTTTTTA
Found at i:2160795 original size:126 final size:128
Alignment explanation
Indices: 2160604--2160837 Score: 364
Period size: 126 Copynumber: 1.8 Consensus size: 128
2160594 AAAATTTTTG
*
2160604 AAACACGACAATCTTTTTTTTTAAAATATAAAAAAAATTTAAAAACACAAAAATTTGTGAAACAC
1 AAACACGACAA--TTTTTTTTTAAAACAT-AAAAAAATTTAAAAACACAAAAATTTGTGAAACAC
*
2160669 GAGAATTATTGAAAACACGAAAAATTTGAAAATACGAAAATTTAAAAACACAAATTTTTTTTTAA
63 GAGAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATTTTTTTTTAA
2160734 A
128 A
* * *
2160735 AAACACGACAA-TTTTTTTTAAAACAT-AAAAAATTTTAAAACACGAGAATTTGTGAAACACGAG
1 AAACACGACAATTTTTTTTTAAAACATAAAAAAATTTAAAAACACAAAAATTTGTGAAACACGAG
* *
2160798 AATTGTTGAAAACACGAAAATTTTGAAAACACGAAAATTT
66 AATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTT
2160838 TTGAAACATA
Statistics
Matches: 96, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
126 71 0.74
128 14 0.15
131 11 0.11
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.29
Consensus pattern (128 bp):
AAACACGACAATTTTTTTTTAAAACATAAAAAAATTTAAAAACACAAAAATTTGTGAAACACGAG
AATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATTTTTTTTTAAA
Found at i:2160812 original size:18 final size:17
Alignment explanation
Indices: 2160763--2160874 Score: 113
Period size: 17 Copynumber: 6.4 Consensus size: 17
2160753 TAAAACATAA
2160763 AAAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
*
2160779 AGAATTTGTG-AAACACG
1 AAAATTT-TGAAAACACG
*
2160796 AGAATTGTTGAAAACACG
1 AAAATT-TTGAAAACACG
2160814 AAAATTTTGAAAACACG
1 AAAATTTTGAAAACACG
*
2160831 AAAATTTTTG-AAACATAG
1 AAAA-TTTTGAAAACA-CG
*
2160849 AAATTTTTAGAAAAACACG
1 AAAATTTT-G-AAAACACG
2160868 AAAATTT
1 AAAATTT
2160875 GAATTTTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
16 6 0.07
17 40 0.49
18 23 0.28
19 7 0.09
20 5 0.06
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:2160820 original size:35 final size:35
Alignment explanation
Indices: 2160636--2160873 Score: 116
Period size: 35 Copynumber: 6.7 Consensus size: 35
2160626 AAAATATAAA
* * *
2160636 AAAAATTTAAAAACACAAAAATT-TGTG-AAACACG
1 AAAATTTTGAAAACACGAAAATTGT-TGAAAACACG
* * *
2160670 AGAATTATTGAAAACACGAAAAAT-TTGAAAATACG
1 AAAATT-TTGAAAACACGAAAATTGTTGAAAACACG
* * * *
2160705 AAAA-TTTAAAAACAC-AAATTTTTTTTTAAAAAACACG
1 AAAATTTTGAAAACACGAAA---ATTGTT-GAAAACACG
* * **
2160742 ACAATTTTTTTTAAAACATAAAAAATT-TT-AAAACACG
1 A-AA--ATTTTGAAAACA-CGAAAATTGTTGAAAACACG
* *
2160779 AGAATTTGTG-AAACACGAGAATTGTTGAAAACACG
1 AAAATTT-TGAAAACACGAAAATTGTTGAAAACACG
* *
2160814 AAAATTTTGAAAACACGAAAATTTTTG-AAACATAG
1 AAAATTTTGAAAACACGAAAATTGTTGAAAACA-CG
*
2160849 AAATTTTTAGAAAAACACGAAAATT
1 AAAATTTT-G-AAAACACGAAAATT
2160874 TGAATTTTTT
Statistics
Matches: 157, Mismatches: 27, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
32 3 0.02
33 14 0.09
34 24 0.15
35 63 0.40
36 4 0.03
37 31 0.20
38 2 0.01
39 2 0.01
40 2 0.01
41 9 0.06
43 3 0.02
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (35 bp):
AAAATTTTGAAAACACGAAAATTGTTGAAAACACG
Found at i:2160856 original size:126 final size:126
Alignment explanation
Indices: 2160604--2160915 Score: 353
Period size: 126 Copynumber: 2.4 Consensus size: 126
2160594 AAAATTTTTG
* * * *
2160604 AAACACGACAATCTTTTTTTTTAAAATATAAAAAAAATTTAAAAACACAAAAATTTGTGAAACAC
1 AAACACGACAA--TTTTTTTTTAAAACAT--AAAAAATTTTAAAACACGAGAATTTGTGAAACAC
* *
2160669 GAGAATTATTGAAAACACGAAAAATTTGAAAATACGAAAATTTAAAAACACAAATTTTTTTTTA-
62 GAGAATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAA--TATTTTTAG
2160733 AA
125 AA
2160735 AAACACGACAA-TTTTTTTTAAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGA
1 AAACACGACAATTTTTTTTTAAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGA
* * ** *
2160799 ATTGTTGAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACATAGAA-ATTTTTAGAA
66 ATTATTGAAAACACGAAAAATTTGAAAACACGAAAA-TTTAAAAACACA-AATATTTTTAGAA
* ** *
2160861 AAACACGAAAATTTGAATTTTTTTTTAAC-TAGAAAATTTTAAAACACGAGAATTT
1 AAACACGACAA-TT---TTTTTTTAAAACATAAAAAATTTTAAAACACGAGAATTT
2160916 TTAAAAAAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
125 6 0.04
126 80 0.51
127 9 0.06
128 17 0.11
130 25 0.16
131 21 0.13
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.30
Consensus pattern (126 bp):
AAACACGACAATTTTTTTTTAAAACATAAAAAATTTTAAAACACGAGAATTTGTGAAACACGAGA
ATTATTGAAAACACGAAAAATTTGAAAACACGAAAATTTAAAAACACAAATATTTTTAGAA
Found at i:2162164 original size:29 final size:29
Alignment explanation
Indices: 2162131--2162247 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
2162121 TGTAATTTTT
*
2162131 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
2162160 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
2162190 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
2162219 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
2162248 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:2162186 original size:30 final size:30
Alignment explanation
Indices: 2162146--2162247 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
2162136 ATTTAGGATT
*
2162146 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
2162176 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
2162206 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
2162236 AAAATGCAATTT
1 AAAATGAAATTT
2162248 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:2162648 original size:54 final size:55
Alignment explanation
Indices: 2162519--2162670 Score: 236
Period size: 54 Copynumber: 2.8 Consensus size: 55
2162509 CACATGAGCC
* * * *
2162519 AAGGCTCAACTCACTTCTTGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA-AA
2162574 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
2162628 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
2162671 CAAAGATTGA
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
54 44 0.48
55 36 0.40
56 11 0.12
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:2162783 original size:73 final size:72
Alignment explanation
Indices: 2162629--2162895 Score: 439
Period size: 72 Copynumber: 3.7 Consensus size: 72
2162619 AGAAATTAAA
**
2162629 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
2162693 GTGTCTTG
65 GTGTCTTG
* * *
2162701 AGGATCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
2162766 GTGTCTTG
65 GTGTCTTG
2162774 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2162839 TGTCTTG
66 TGTCTTG
*
2162846 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2162896 AAAAGGCTTA
Statistics
Matches: 183, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
71 6 0.03
72 109 0.60
73 66 0.36
74 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2162984 original size:194 final size:194
Alignment explanation
Indices: 2162753--2163500 Score: 1156
Period size: 194 Copynumber: 3.7 Consensus size: 194
2162743 GCAGAAATTG
2162753 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
2162818 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
2162882 GAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTA
131 G-AAAACAGAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTA
*
2162947 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
2163012 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
2163077 GAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTA
131 GAAAACAGAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTA
*
2163141 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
2163206 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
2163271 GAAAACAGAAATTGAAATTGCCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
131 GAAAACAGAAATT--AA-------AA-G-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-T
* * * *
2163336 GAATTTTGAAAACAGAAATTG
176 CAA-TTT-AAAACATAAACTA
* *
2163357 AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGC
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAAC
* *
2163422 AAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
65 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
2163487 TGAAAACAGAAATT
130 TGAAAACAGAAATT
2163501 GAAATTACCT
Statistics
Matches: 518, Mismatches: 12, Indels: 25
0.93 0.02 0.05
Matches are distributed among these distances:
194 328 0.63
195 6 0.01
196 2 0.00
203 2 0.00
204 1 0.00
205 1 0.00
206 3 0.01
207 1 0.00
208 3 0.01
209 2 0.00
210 1 0.00
213 14 0.03
214 3 0.01
215 3 0.01
216 68 0.13
217 80 0.15
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (194 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
GAAAACAGAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTA
Found at i:2162994 original size:122 final size:125
Alignment explanation
Indices: 2162774--2163017 Score: 361
Period size: 122 Copynumber: 2.0 Consensus size: 125
2162764 ACGTGTCTTG
** * * * *
2162774 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
2162839 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
2162899 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
2162961 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2163018 GAAATTACCT
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 71 0.66
123 9 0.08
124 3 0.03
125 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2163041 original size:72 final size:72
Alignment explanation
Indices: 2162899--2163093 Score: 279
Period size: 72 Copynumber: 2.8 Consensus size: 72
2162889 AAAAATTAAA
* ** * * * *
2162899 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
2162961 TGTCTTG
66 TGTCTTG
* * *
2162968 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
2163033 TGTCTTG
66 TGTCTTG
2163040 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAA
2163094 GGCTTAACTC
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
69 25 0.22
70 3 0.03
71 3 0.03
72 81 0.72
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAAAATACCTCAACG
TGTCTTG
Found at i:2163188 original size:122 final size:125
Alignment explanation
Indices: 2162968--2164031 Score: 408
Period size: 144 Copynumber: 8.0 Consensus size: 125
2162958 ATGTGTCTTG
** * * * *
2162968 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
2163033 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
* * *
2163093 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
2163155 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT-AAA
* * * * * * * * * **
2163216 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGA
* * * *
2163280 AATTGAAATTGCCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
47 AACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
*
2163345 AAACAGAAATTGAAA
112 AAACAAAAATT-AAA
* ** * ** * *** *
2163360 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGA-AGCA
1 --AGGCTCAAC-TCACCT--CTCGCAA-T-ATGAGT-TCAAT-T---TTGAA-----A-ACAG-A
* *
2163423 AAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
47 AAC--TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
2163488 GAAAACAGAAATTGAAA
110 GAAAACAAAAATT-AAA
* * * * * * * * ** *
2163505 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA-ACAG
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAACAGA-
* ** ** * ** * * * *
2163568 AAATTGAAATTAC-C-TCAACGTGTCT-TGAG-GCTCAACTCATTTCTCGCAATATGAGTTG-AT
47 AACTAAAAATACCTCAAC-GTGTCT-TGAG-GCTC-AA-CTCATTTCTCGCAATATGAGTTGAAT
2163628 TTTGAAAAACAAAAATTAAA
107 TTTG-AAAACAAAAATTAAA
* * *
2163648 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
2163710 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT-AAA
* * * * * * * * * **
2163771 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGA
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGA
* * *
2163835 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA-TTG-ATTTTGA
47 AACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-
2163898 AAAACAAAAATTAAA
111 AAAACAAAAATTAAA
* * *
2163913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
2163975 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2164032 GAAATTACCT
Statistics
Matches: 712, Mismatches: 132, Indels: 193
0.69 0.13 0.19
Matches are distributed among these distances:
121 52 0.07
122 129 0.18
123 38 0.05
124 25 0.04
125 28 0.04
127 4 0.01
128 2 0.00
129 2 0.00
130 3 0.00
131 8 0.01
132 9 0.01
133 9 0.01
134 9 0.01
135 7 0.01
136 1 0.00
137 4 0.01
138 8 0.01
139 7 0.01
140 2 0.00
141 9 0.01
142 30 0.04
143 42 0.06
144 176 0.25
145 90 0.13
146 1 0.00
147 2 0.00
149 1 0.00
150 5 0.01
151 6 0.01
154 1 0.00
155 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2163235 original size:72 final size:72
Alignment explanation
Indices: 2163093--2163644 Score: 923
Period size: 72 Copynumber: 7.7 Consensus size: 72
2163083 AAAAATTAAA
* ** * * * * * *
2163093 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163155 TGTCTTG
66 TGTCTTG
2163162 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163227 TGTCTTG
66 TGTCTTG
*
2163234 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTGCCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163299 TGTCTTG
66 TGTCTTG
2163306 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163371 TGTCTTG
66 TGTCTTG
* * *
2163378 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
2163443 GTGTCTTG
65 GTGTCTTG
2163451 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163516 TGTCTTG
66 TGTCTTG
*
2163523 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163588 TGTCTTG
66 TGTCTTG
*
2163595 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2163645 AAAAGGCTTA
Statistics
Matches: 458, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 8 0.02
72 353 0.77
73 69 0.15
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2163519 original size:217 final size:216
Alignment explanation
Indices: 2163093--2163648 Score: 933
Period size: 217 Copynumber: 2.6 Consensus size: 216
2163083 AAAAATTAAA
* ** * * * * * *
2163093 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
* *
2163155 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATAC
2163220 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
*
2163285 AAATTGCCTCAACGTGTCTTG
196 AAATTACCTCAACGTGTCTTG
2163306 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2163371 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAAAAATTGAAAATA
2163436 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
2163501 GAAATTACCTCAACGTGTCTTG
195 GAAATTACCTCAACGTGTCTTG
*
2163523 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163588 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTGAAAA
2163649 GGCTTAACTC
Statistics
Matches: 323, Mismatches: 15, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
213 25 0.08
214 3 0.01
215 7 0.02
216 84 0.26
217 204 0.63
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (216 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
AAATTACCTCAACGTGTCTTG
Found at i:2163542 original size:145 final size:144
Alignment explanation
Indices: 2163093--2164539 Score: 1159
Period size: 145 Copynumber: 9.8 Consensus size: 144
2163083 AAAAATTAAA
* ** * * * * *
2163093 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
2163155 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2163220 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
* *
2163234 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTGCCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
2163299 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2163364 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
* *
2163378 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAAAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAAC
2163443 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2163508 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
* *
2163523 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
* *
2163588 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAAAGGC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAA---
* * *
2163652 TTAACTC-ACCTCTCGCAATATG
127 TTACCTCAACGTGT--C--T-TG
* * ** ** *** * * * * ** **
2163674 AGTCAATTTAAAACATAAACTAAAAATACCTCAATGTG--TCTTGAGGCTCAACTCATTTCTCGC
1 AGGC---TCAACTCAT-TTCTCGCAATA--TGAGT-TGAATTTTGA----AAACAGAAAT-T-G-
* ** * ** ** * * * * ** ** *** *
2163737 AATATGAGTTGAA--T-T-TTGAAAACAGAAATTGAAATTAC-CTCAACGTGTCTTG-AGGCTCA
52 AAAAT-ACCTCAACGTGTCTTG-AGGC-TCAACT--CATTTCTCGCAATATGAGTTGAATTTTGA
** **** * * * **
2163796 ACTCATTTCTCGCAATATGA-GTTGA-GT-T-TTG
112 AAACAGAAATTG-AA-ATTACCTCAACGTGTCTTG
** ** * * * * * ** **
2163827 AAAACAGAAATTGAAATTAC-CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGATTG
1 -AGGC-TCAACT--CATTTCTCGCAA----T-ATGA-G-TTGA---ATTT-T-G-AA-A--ACAG
** * ** *** * ** *
2163891 ATTTTGAAAA-A-C-AAAAAT-T-AAAAGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-
46 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* * * * *
2163948 AAAACATAAACTAAAAATACCTCAATGTGTCTTG
111 AAAACAGAAATTGAAATTACCTCAACGTGTCTTG
*
2163982 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
2164047 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2164112 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
*
2164126 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
* *
2164191 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2164256 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
*
2164271 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
* *
2164336 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
* *
2164401 CCTCAGCGTGTCCTG
130 CCTCAACGTGTCTTG
* *
2164416 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATT-AAAATTACCTCA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAAA-TACCTCA
* * ** * *
2164480 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
63 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2164540 AAAAGGCTTA
Statistics
Matches: 1054, Mismatches: 174, Indels: 151
0.76 0.13 0.11
Matches are distributed among these distances:
136 9 0.01
137 1 0.00
138 2 0.00
139 5 0.00
140 2 0.00
141 51 0.05
142 10 0.01
143 12 0.01
144 285 0.27
145 424 0.40
146 74 0.07
147 11 0.01
148 2 0.00
150 1 0.00
151 11 0.01
152 12 0.01
153 14 0.01
154 18 0.02
155 18 0.02
156 11 0.01
157 6 0.01
158 5 0.00
159 1 0.00
160 13 0.01
161 11 0.01
162 12 0.01
163 23 0.02
164 10 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTG
Found at i:2163790 original size:72 final size:72
Alignment explanation
Indices: 2163648--2163909 Score: 381
Period size: 72 Copynumber: 3.7 Consensus size: 72
2163638 AAAAATTAAA
* ** * * * * * *
2163648 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163710 TGTCTTG
66 TGTCTTG
2163717 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163782 TGTCTTG
66 TGTCTTG
*
2163789 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2163854 TGTCTTG
66 TGTCTTG
*
2163861 AGGCTCAACTCATTTCTCGCAATATGA-TTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2163910 AAAAGGCTTA
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
69 25 0.14
70 8 0.05
71 17 0.10
72 127 0.72
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2164006 original size:121 final size:125
Alignment explanation
Indices: 2163789--2164031 Score: 343
Period size: 121 Copynumber: 2.0 Consensus size: 125
2163779 ACGTGTCTTG
** * * * * *
2163789 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAGATTTGAAAACAGAAACTAAAAATACCTCAACG
2163854 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGA-TTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
2163913 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAGATTTGAAAACAGAAACTAAAAATACCTCAACG
*
2163975 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2164032 GAAATTACCT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 56 0.53
122 17 0.16
123 8 0.08
124 25 0.24
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAGATTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2164055 original size:72 final size:72
Alignment explanation
Indices: 2163913--2164539 Score: 929
Period size: 72 Copynumber: 8.7 Consensus size: 72
2163903 AAAAATTAAA
* ** * * * * * *
2163913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2163975 TGTCTTG
66 TGTCCTG
2163982 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164047 TGTCTTG
66 TGTCCTG
2164054 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164119 TGTCTTG
66 TGTCCTG
* *
2164126 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2164191 GTGTCCTG
65 GTGTCCTG
*
2164199 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164264 TGTCTTG
66 TGTCCTG
* *
2164271 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2164336 GTGTCCTG
65 GTGTCCTG
* *
2164344 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2164409 TGTCCTG
66 TGTCCTG
* * * *
2164416 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAA
2164481 CGTGTCCTG
64 CGTGTCCTG
** * *
2164490 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2164540 AAAAGGCTTA
Statistics
Matches: 518, Mismatches: 32, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 3 0.01
72 284 0.55
73 144 0.28
74 59 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCCTG
Found at i:2164392 original size:217 final size:216
Alignment explanation
Indices: 2163913--2165173 Score: 1271
Period size: 217 Copynumber: 5.9 Consensus size: 216
2163903 AAAAATTAAA
* ** * * * * **
2163913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
2163975 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2164040 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
* *
2164105 AAATTACCTCAACGTGTCTTG
196 AAAATACCTCAACGTGTCCTG
2164126 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAGC
*
2164191 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2164256 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAAT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAAT
*
2164321 TGAAAATACCTCAGCGTGTCCTG
194 TGAAAATACCTCAACGTGTCCTG
* *
2164344 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
* * *
2164409 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATT
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATT
* * ** * *
2164474 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAA
129 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAA
2164538 TT----A-A----AA-G-G--CT-
193 TTGAAAATACCTCAACGTGTCCTG
** * * * * * ** *
2164548 ----T-AACTCACCTCTCACAATATGAG-TCAA-TTTAAAACATA-AACTAAAAATACCT-CAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA-ACAGAAATTGAAA-A--TAC-CT
** * ** * * * * * **** **
2164604 GTGTCTTGAGGCTCA-ACTC-A-T--TTCTCGC-AATATGAGTTGAATTTTGAAAACAG-AAATT
61 CAG-CGTG-TCCTGAGGCTCAACTCATT-TCTCGCA-AT-A--TG-A-GTTGAATTTTGAAAACA
** * * * * * * **
2164662 GAAATT-ACCTCAACGT----GTCT-TGAG-GCTC-AACT-CATTTCTCGCAATATGAGTTGAAT
117 GAAATTGAAAT-TACCTCAACGTGTCT-TGAG-GCTCAACTCATTTCTCGCAATATGAGTTGAAT
* *
2164718 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTG
179 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTG
2164756 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAGC
*
2164821 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
*
2164886 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAAGCAGAAAT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAAT
*
2164951 TGAAAATACCTCAGCGTGTCCTG
194 TGAAAATACCTCAACGTGTCCTG
* *
2164974 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
* * *
2165039 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATT
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATT
* * ** * *
2165104 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAA
129 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAA
2165168 TT-AAAA
193 TTGAAAA
2165174 GGCTTAACTC
Statistics
Matches: 850, Mismatches: 128, Indels: 136
0.76 0.11 0.12
Matches are distributed among these distances:
194 29 0.03
195 8 0.01
196 5 0.01
197 15 0.02
198 10 0.01
199 24 0.03
200 16 0.02
201 9 0.01
202 4 0.00
203 6 0.01
204 1 0.00
205 3 0.00
207 2 0.00
208 1 0.00
209 1 0.00
210 6 0.01
211 16 0.02
212 10 0.01
213 49 0.06
214 11 0.01
215 21 0.02
216 16 0.02
217 292 0.34
218 173 0.20
219 122 0.14
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (216 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTCCTG
Found at i:2164682 original size:72 final size:72
Alignment explanation
Indices: 2164543--2165169 Score: 911
Period size: 72 Copynumber: 8.7 Consensus size: 72
2164533 ATAAATTAAA
* ** * * * * * * *
2164543 AGGCTTAACTCACCTCTCACAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164605 TGTCTTG
66 TGTCCTG
2164612 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164677 TGTCTTG
66 TGTCCTG
2164684 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164749 TGTCTTG
66 TGTCCTG
* *
2164756 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2164821 GTGTCCTG
65 GTGTCCTG
*
2164829 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164894 TGTCTTG
66 TGTCCTG
* * *
2164901 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2164966 GTGTCCTG
65 GTGTCCTG
* *
2164974 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2165039 TGTCCTG
66 TGTCCTG
* * * *
2165046 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAA
2165111 CGTGTCCTG
64 CGTGTCCTG
** * *
2165120 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2165170 AAAAGGCTTA
Statistics
Matches: 515, Mismatches: 35, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
69 24 0.05
70 3 0.01
71 3 0.01
72 283 0.55
73 143 0.28
74 59 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCCTG
Found at i:2164866 original size:145 final size:144
Alignment explanation
Indices: 2164595--2165169 Score: 947
Period size: 145 Copynumber: 4.0 Consensus size: 144
2164585 AAACTAAAAA
*
2164595 TACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
1 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
* * * *
2164660 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
66 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
2164725 ACAGAAATTGAAAT
131 ACAGAAATTGAAAT
2164739 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAA
1 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAA
2164804 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAA
65 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAA
2164869 AACAGAAATTGAAAT
130 AACAGAAATTGAAAT
*
2164884 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAAGCAGAA
1 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAA
2164949 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAA
65 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAA
2165014 AACAGAAATTGAAAT
130 AACAGAAATTGAAAT
* * * *
2165029 TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGA
1 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGA
** * *
2165094 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTG
64 AATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG
*
2165157 AAAAACATAAATT
128 -AAAACAGAAATT
2165170 AAAAGGCTTA
Statistics
Matches: 411, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
144 58 0.14
145 282 0.69
146 69 0.17
147 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (144 bp):
TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAA
ACAGAAATTGAAAT
Found at i:2164895 original size:630 final size:627
Alignment explanation
Indices: 2163093--2165292 Score: 3306
Period size: 630 Copynumber: 3.5 Consensus size: 627
2163083 AAAAATTAAA
* ** * * * * * * *
2163093 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
* * *
2163155 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTAC
* ** * *
2163220 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
131 CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
* *
2163284 GAAATTGCCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
195 --AA-------AA-G-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAAAC
* * * *
2163349 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
238 ATAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
* * *
2163414 TGAGAAGCAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
303 TGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
2163479 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
367 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
* * * *
2163544 ATATGAGTTGATTTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAT
432 ATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAT
* * * *
2163608 TTCTCGCAATATGAGTTG-ATTTTGAAAA-A-CAA---AAATTA----AAAG-G-CTT-A-ACTC
497 TTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
* * * * ** *
2163659 -AC-C---TCTCGCAATATGAG-TCAA-TTTAAAA-CATAAACTAAAAATACCTCAATGTGTCTT
562 AACTCATTTCTCGCAATATGAGTTGAATTTTAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCT
2163716 G
627 G
*
2163717 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
* * *
2163782 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAATTAC
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTAC
* ** * *
2163847 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA-TTGATTTTGAAAAACAAAAATTA
131 CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTA
*
2163911 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGT
196 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGT
2163976 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
261 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
2164041 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
326 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
2164106 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
391 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
2164171 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTT
456 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTT
2164236 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
521 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
2164301 GAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
586 GAATTTT-AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
*
2164344 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2164409 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATT
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTAAAATT
*
2164474 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAAT
129 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAAT
* *
2164539 TAAAAGGCTTAACTCACCTCTCACAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAAT
194 TAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAAC
2164604 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
259 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2164669 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
324 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
2164734 GAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAG
389 GAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAG
2164799 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
454 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
2164864 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
519 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
2164929 TTGAATTTTAAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
584 TTGAATTTT-AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
*
2164974 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2165039 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATT
66 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTAAAATT
*
2165104 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAAT
129 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAAT
***
2165169 TAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGC
194 TAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAAC
* * * *
2165234 GTGCCCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
259 GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2165293 AAAAGGCTCA
Statistics
Matches: 1484, Mismatches: 59, Indels: 59
0.93 0.04 0.04
Matches are distributed among these distances:
603 143 0.10
604 125 0.08
605 13 0.01
606 4 0.00
607 16 0.01
610 7 0.00
611 2 0.00
612 3 0.00
613 1 0.00
614 6 0.00
615 2 0.00
616 4 0.00
617 3 0.00
618 3 0.00
619 2 0.00
620 1 0.00
623 14 0.01
624 30 0.02
625 12 0.01
626 21 0.01
627 252 0.17
628 6 0.00
629 53 0.04
630 747 0.50
631 14 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (627 bp):
AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTAC
CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTA
AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTT
GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:2183330 original size:20 final size:20
Alignment explanation
Indices: 2183305--2183344 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2183295 GAGAACATTA
*
2183305 TAGAACATGGCCTAAGTTAT
1 TAGAACATGGACTAAGTTAT
2183325 TAGAACATGGACTAAGTTAT
1 TAGAACATGGACTAAGTTAT
2183345 GAGGCATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
TAGAACATGGACTAAGTTAT
Found at i:2204391 original size:21 final size:21
Alignment explanation
Indices: 2204367--2204412 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2204357 AAATATTATG
2204367 ACAATAAAATTTTTTAATTCT
1 ACAATAAAATTTTTTAATTCT
2204388 ACAATAAAATTTTTTAATTCT
1 ACAATAAAATTTTTTAATTCT
2204409 ACAA
1 ACAA
2204413 ACAAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (21 bp):
ACAATAAAATTTTTTAATTCT
Found at i:2204418 original size:22 final size:21
Alignment explanation
Indices: 2204367--2204418 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
2204357 AAATATTATG
*
2204367 ACAATAAAATTTTTTAATTCT
1 ACAACAAAATTTTTTAATTCT
*
2204388 ACAATAAAATTTTTTAATTCT
1 ACAACAAAATTTTTTAATTCT
2204409 ACAAACAAAA
1 AC-AACAAAA
2204419 AAACTGTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
ACAACAAAATTTTTTAATTCT
Found at i:2232221 original size:132 final size:132
Alignment explanation
Indices: 2231103--2232205 Score: 1841
Period size: 132 Copynumber: 8.3 Consensus size: 132
2231093 TGAAGTCATT
* * *
2231103 AAAGTAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
2231168 TATTGGCAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2231233 AG
131 AG
* *
2231235 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATTCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
2231300 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2231365 AG
131 AG
2231367 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-AGTAGCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-TAGCAGATCCTATCTTCCT
*
2231431 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
2231496 AAG
130 AAG
2231499 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-AGTAGCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-TAGCAGATCCTATCTTCCT
2231563 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
2231628 CAG
130 AAG
* *
2231631 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * * * *
2231696 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2231761 AG
131 AG
* *
2231763 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
2231828 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2231893 AG
131 AG
* *
2231895 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * * * *
2231960 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2232025 AG
131 AG
* *
2232027 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
2232092 TATTGGTAGGAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
2232157 AG
131 AG
*** * *
2232159 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
2232206 GCCGATCTTG
Statistics
Matches: 920, Mismatches: 48, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 902 0.98
133 17 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:2238180 original size:21 final size:23
Alignment explanation
Indices: 2238148--2238214 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
2238138 TATAAAAGGA
*
2238148 ATATATTAAAAATACT-TTA-ATT
1 ATATATTTAAAATA-TATTATATT
2238170 AT-TATTTAAAA-ATATTATATT
1 ATATATTTAAAATATATTATATT
2238191 ATAATATTTAAAATA-ATATATATT
1 AT-ATATTTAAAATATAT-TATATT
2238215 TTAATTATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 13 0.34
22 2 0.05
23 11 0.29
24 7 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATTTAAAATATATTATATT
Found at i:2238219 original size:24 final size:23
Alignment explanation
Indices: 2238147--2238211 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
2238137 TTATAAAAGG
2238147 AATATATTAAAAATACTT-TAATTAT
1 AATAT-TTAAAAATA-TTAT-ATTAT
2238172 --TATTTAAAAATATTATATTAT
1 AATATTTAAAAATATTATATTAT
*
2238193 AATATTT-AAAATAATATAT
1 AATATTTAAAAATATTATAT
2238212 ATTTTAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 7 0.19
22 21 0.58
23 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATTTAAAAATATTATATTAT
Found at i:2253722 original size:16 final size:17
Alignment explanation
Indices: 2253701--2253734 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2253691 AATTCAACAA
2253701 TGTATTGT-AAAAATAT
1 TGTATTGTAAAAAATAT
*
2253717 TGTATTTTAAAAAATAT
1 TGTATTGTAAAAAATAT
2253734 T
1 T
2253735 TAAAAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
TGTATTGTAAAAAATAT
Found at i:2254370 original size:27 final size:27
Alignment explanation
Indices: 2254332--2254386 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
2254322 TTGAGATAAG
* *
2254332 TGATATTATTATTTATCGACCCACTAA
1 TGATAATATTATTGATCGACCCACTAA
2254359 TGATAATATTATTGATCGACCCACTAA
1 TGATAATATTATTGATCGACCCACTAA
2254386 T
1 T
2254387 CAACTTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (27 bp):
TGATAATATTATTGATCGACCCACTAA
Found at i:2260283 original size:21 final size:21
Alignment explanation
Indices: 2260257--2260297 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2260247 AGACGAGCAA
* *
2260257 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2260278 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2260298 TTGAGCAGAT
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:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Done.