Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold103
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: 2633873
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 16636 characters in sequence are not A, C, G, or T
File 16 of 21
Found at i:1801504 original size:18 final size:18
Alignment explanation
Indices: 1801478--1801571 Score: 56
Period size: 18 Copynumber: 5.2 Consensus size: 18
1801468 TATTAAATAA
1801478 AAATAATATATAAATTTAT
1 AAAT-ATATATAAATTTAT
1801497 AAATATAT-TAAAATTTAT
1 AAATATATAT-AAATTTAT
* *
1801515 ATAAT-TTTAAAAATAATTAT
1 A-AATATATATAAAT--TTAT
*
1801535 AACATATA-A-AAATATAT
1 AA-ATATATATAAATTTAT
1801552 AAAT-TAT-TAAATTTAAT
1 AAATATATATAAATTT-AT
1801569 AAA
1 AAA
1801572 AAATCTACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
15 2 0.03
16 7 0.12
17 11 0.18
18 19 0.32
19 12 0.20
20 8 0.13
21 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATATAAATTTAT
Found at i:1802443 original size:19 final size:19
Alignment explanation
Indices: 1802419--1802463 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1802409 GTTCGATCTT
*
1802419 TATATTATTTTTA-TTATTA
1 TATATT-TTGTTATTTATTA
1802438 TATATTTTGTTATTTATTA
1 TATATTTTGTTATTTATTA
1802457 TA-ATTTT
1 TATATTTT
1802464 AATAAACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TATATTTTGTTATTTATTA
Found at i:1802897 original size:25 final size:24
Alignment explanation
Indices: 1802876--1802977 Score: 89
Period size: 25 Copynumber: 4.0 Consensus size: 24
1802866 GAAAAATTAA
1802876 TATTTTTTAAATATTTTTAAATTT
1 TATTTTTTAAATATTTTTAAATTT
* *
1802900 TACTTTTTCTAATTTTTTTTAAAATTGTT
1 TA-TTTTT-TAAATATTTTT-AAA-T-TT
* *
1802929 TAATATTT-AATATTTTTAATATTT
1 TATTTTTTAAATATTTTTAA-ATTT
*
1802953 TACTTTTTAAATATTTTTAATATTT
1 TATTTTTTAAATATTTTTAA-ATTT
1802978 AAAAATACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 10 0.16
25 24 0.38
26 17 0.27
27 4 0.06
28 4 0.06
29 4 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (24 bp):
TATTTTTTAAATATTTTTAAATTT
Found at i:1802948 original size:16 final size:17
Alignment explanation
Indices: 1802917--1802952 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1802907 TCTAATTTTT
1802917 TTTAAAATTGTTTAATA
1 TTTAAAATTGTTTAATA
*
1802934 TTTAATATT-TTTAATA
1 TTTAAAATTGTTTAATA
1802950 TTT
1 TTT
1802953 TACTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTAAAATTGTTTAATA
Found at i:1802960 original size:16 final size:17
Alignment explanation
Indices: 1802880--1802977 Score: 69
Period size: 17 Copynumber: 5.6 Consensus size: 17
1802870 AATTAATATT
1802880 TTTTAAATATTTTTAA-A
1 TTTT-AATATTTTTAATA
* *
1802897 TTTTACT-TTTTCTAATTTT
1 TTTTAATATTTT-TAA--TA
*
1802916 TTTTAAAATTGTTTAATA
1 TTTTAATATT-TTTAATA
1802934 -TTTAATATTTTTAATA
1 TTTTAATATTTTTAATA
* *
1802950 TTTTACT-TTTTAAATA
1 TTTTAATATTTTTAATA
1802966 TTTTTAATATTT
1 -TTTTAATATTT
1802978 AAAAATACTT
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.06
16 20 0.32
17 23 0.37
18 4 0.06
19 5 0.08
20 5 0.08
21 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTAATATTTTTAATA
Found at i:1802971 original size:10 final size:9
Alignment explanation
Indices: 1802872--1802977 Score: 73
Period size: 9 Copynumber: 12.0 Consensus size: 9
1802862 TTTTGAAAAA
1802872 TTAATATTTT
1 TTAATA-TTT
1802882 TTAAATATTT
1 TT-AATATTT
1802892 TTAA-A-TT
1 TTAATATTT
*
1802899 TTACT-TTT
1 TTAATATTT
*
1802907 TCTAATTTTTT
1 T-TAA-TATTT
*
1802918 TTAAAATTGT
1 TTAATATT-T
1802928 TTAATA--T
1 TTAATATTT
1802935 TTAATATTT
1 TTAATATTT
1802944 TTAATA-TT
1 TTAATATTT
*
1802952 TTACT-TTT
1 TTAATATTT
*
1802960 TAAATATTT
1 TTAATATTT
1802969 TTAATATTT
1 TTAATATTT
1802978 AAAAATACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
7 12 0.16
8 15 0.20
9 24 0.32
10 17 0.22
11 8 0.11
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTAATATTT
Found at i:1803196 original size:8 final size:9
Alignment explanation
Indices: 1803182--1803208 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1803172 AAAATTAATG
1803182 TTTTTTTAA
1 TTTTTTTAA
1803191 TTTTTTTAA
1 TTTTTTTAA
1803200 TTTTTTTAA
1 TTTTTTTAA
1803209 AATTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:1803427 original size:9 final size:9
Alignment explanation
Indices: 1803397--1803430 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
1803387 TAATATTTTT
1803397 ATTTTTAAA
1 ATTTTTAAA
1803406 ATTATTATAAA
1 ATT-TT-TAAA
1803417 ATTTTTAAA
1 ATTTTTAAA
1803426 ATTTT
1 ATTTT
1803431 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:1803462 original size:5 final size:5
Alignment explanation
Indices: 1803454--1803488 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
1803444 TAAATTTTTA
1803454 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
1803489 CTGTATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:1807862 original size:2 final size:2
Alignment explanation
Indices: 1807855--1807894 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1807845 TCTTGAATGA
1807855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1807895 TTCATGCTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1808364 original size:108 final size:108
Alignment explanation
Indices: 1808175--1808391 Score: 434
Period size: 108 Copynumber: 2.0 Consensus size: 108
1808165 TAACTCAAGT
1808175 GAAAGCACCTCCTTCATTCTTAGGATGAAGAAACTTGCATTAACATGGACATAAACTATAACATG
1 GAAAGCACCTCCTTCATTCTTAGGATGAAGAAACTTGCATTAACATGGACATAAACTATAACATG
1808240 AACAGTAAATGTCTGGTTGAATGCAAGCAAACGAAAGCTTTGC
66 AACAGTAAATGTCTGGTTGAATGCAAGCAAACGAAAGCTTTGC
1808283 GAAAGCACCTCCTTCATTCTTAGGATGAAGAAACTTGCATTAACATGGACATAAACTATAACATG
1 GAAAGCACCTCCTTCATTCTTAGGATGAAGAAACTTGCATTAACATGGACATAAACTATAACATG
1808348 AACAGTAAATGTCTGGTTGAATGCAAGCAAACGAAAGCTTTGC
66 AACAGTAAATGTCTGGTTGAATGCAAGCAAACGAAAGCTTTGC
1808391 G
1 G
1808392 TTTGTCAAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (108 bp):
GAAAGCACCTCCTTCATTCTTAGGATGAAGAAACTTGCATTAACATGGACATAAACTATAACATG
AACAGTAAATGTCTGGTTGAATGCAAGCAAACGAAAGCTTTGC
Found at i:1809011 original size:2 final size:2
Alignment explanation
Indices: 1809006--1809040 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1808996 TCTCTCTCTC
1809006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1809041 TCGTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1810087 original size:14 final size:14
Alignment explanation
Indices: 1810068--1810094 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1810058 TTTTATTAGA
1810068 TAAATAAGTTTAAT
1 TAAATAAGTTTAAT
1810082 TAAATAAGTTTAA
1 TAAATAAGTTTAA
1810095 ACAGCTAAAT
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TAAATAAGTTTAAT
Found at i:1811282 original size:24 final size:25
Alignment explanation
Indices: 1811229--1811288 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
1811219 TTAAAATTCA
*
1811229 TATTAAATTTTATTAAAAATTTAATT
1 TATT-AATATTATTAAAAATTTAATT
* *
1811255 TATT-ATATTATTAAATA-TTATTT
1 TATTAATATTATTAAAAATTTAATT
1811278 ATATTAATATT
1 -TATTAATATT
1811289 TATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.17
24 15 0.52
25 5 0.17
26 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTAATATTATTAAAAATTTAATT
Found at i:1811767 original size:20 final size:21
Alignment explanation
Indices: 1811739--1811777 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1811729 ATTTTAAATA
* *
1811739 TAAAGATATTATAT-ATATAT
1 TAAAAATATCATATCATATAT
1811759 TAAAAATATCATATCATAT
1 TAAAAATATCATATCATAT
1811778 TTACTACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (21 bp):
TAAAAATATCATATCATATAT
Found at i:1811962 original size:2 final size:2
Alignment explanation
Indices: 1811955--1811989 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1811945 CACGGTGTAA
1811955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1811990 CACACAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1814465 original size:24 final size:24
Alignment explanation
Indices: 1814416--1814475 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1814406 ACAAGCGATT
* * *
1814416 AATAAAAGTAAAATTATTAATATA
1 AATAAAAATCAAATTATCAATATA
1814440 AATAAAAATCAAATTATCAAGT-TA
1 AATAAAAATCAAATTATCAA-TATA
*
1814464 AATGAAAATCAA
1 AATAAAAATCAA
1814476 TCTTACCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
AATAAAAATCAAATTATCAATATA
Found at i:1820040 original size:15 final size:15
Alignment explanation
Indices: 1820002--1820041 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1819992 TTTAAAATTT
1820002 TTATATATTTAAAAAA
1 TTATAT-TTTAAAAAA
*
1820018 TAAT-TTTTAAAAAA
1 TTATATTTTAAAAAA
1820032 TTATATTTTA
1 TTATATTTTA
1820042 TAATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 12 0.57
15 6 0.29
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATATTTTAAAAAA
Found at i:1824958 original size:29 final size:30
Alignment explanation
Indices: 1824894--1824976 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
1824884 AAATTTTATA
* *
1824894 ATTTTAAATTTTTATTTAAATAAATATTTAT
1 ATTTT-AATTTATATTTAAATAAATATTCAT
*
1824925 ATTTTTA-TTATATTTAAATAAATAATTCA-
1 ATTTTAATTTATATTTAAATAAAT-ATTCAT
* *
1824954 CTTTTAATTTATATTTATATAAA
1 ATTTTAATTTATATTTAAATAAA
1824977 CTTTTAACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 20 0.45
30 19 0.43
31 5 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTTTAATTTATATTTAAATAAATATTCAT
Found at i:1824968 original size:30 final size:30
Alignment explanation
Indices: 1824895--1825028 Score: 123
Period size: 31 Copynumber: 4.4 Consensus size: 30
1824885 AATTTTATAA
*
1824895 TTTTAAATTTTTATTTAAATAAA-TATTTATA-
1 TTTT-AATTTATATTTAAATAAACTA-TTA-AC
* *
1824926 TTTTTA-TTATATTTAAATAAA-TAATTCAC
1 TTTTAATTTATATTTAAATAAACT-ATTAAC
* *
1824955 TTTTAATTTATATTTATATAAACTTTTAAC
1 TTTTAATTTATATTTAAATAAACTATTAAC
* * *
1824985 TTTTAATTTTTTATTTATATAAACTCTTAAC
1 TTTTAA-TTTATATTTAAATAAACTATTAAC
1825016 TTTTAATTTATAT
1 TTTTAATTTATAT
1825029 CCAAATATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
28 1 0.01
29 22 0.25
30 32 0.36
31 33 0.38
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTAATTTATATTTAAATAAACTATTAAC
Found at i:1825009 original size:24 final size:24
Alignment explanation
Indices: 1824982--1825028 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1824972 ATAAACTTTT
* * *
1824982 AACTTTTAATTTTTTATTTATATA
1 AACTCTTAACTTTTAATTTATATA
1825006 AACTCTTAACTTTTAATTTATAT
1 AACTCTTAACTTTTAATTTATAT
1825029 CCAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (24 bp):
AACTCTTAACTTTTAATTTATATA
Found at i:1825468 original size:23 final size:23
Alignment explanation
Indices: 1825442--1825504 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
1825432 AACTATCGAA
1825442 TAAGTTAAATTAAATATTTAATT
1 TAAGTTAAATTAAATATTTAATT
* * *
1825465 TAAGTAAAATTAAATTTTTTATTT
1 TAAGTTAAATTAAA-TATTTAATT
*
1825489 TAATTTAAATTTAAAT
1 TAAGTTAAA-TTAAAT
1825505 TCAAACACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 13 0.39
24 15 0.45
25 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TAAGTTAAATTAAATATTTAATT
Found at i:1825818 original size:13 final size:13
Alignment explanation
Indices: 1825800--1825825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1825790 ATATTCTTAT
1825800 CCGACACTCATAC
1 CCGACACTCATAC
1825813 CCGACACTCATAC
1 CCGACACTCATAC
1825826 TCGAGTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (13 bp):
CCGACACTCATAC
Found at i:1826560 original size:181 final size:181
Alignment explanation
Indices: 1826249--1826611 Score: 674
Period size: 181 Copynumber: 2.0 Consensus size: 181
1826239 CAATACGATA
1826249 TGACATTATGATTGTTATTTTGTGATTTCAGTTCTCTCTACCCTGATATCTAATATTTATTGTAA
1 TGACATTATGATTGTTATTTTGTGATTTCAGTTCTCTCTACCCTGATATCTAATATTTATTGTAA
*
1826314 TTAATTATAGTAATATTTATTATGATTATAATTACAATAAATGGGACGTAATAAAAAATACATCG
66 TTAATTATAGTAATATTTATTATGATTATAATTACAATAAATGGGACGTAATAAAAAACACATCG
*
1826379 ACAATCTCAATTTAAATCCCTGATCAGAAGGGTAATTGGCAGTGTATTAGT
131 ACAATCTCAATTTAAATCCCTGATCAGAAGAGTAATTGGCAGTGTATTAGT
1826430 TGACATTATGATTGTTATTTTGTGATTTCAGTTCTCTCTATCCC-GATATCTAATATTTATTGTA
1 TGACATTATGATTGTTATTTTGTGATTTCAGTTCTCTCTA-CCCTGATATCTAATATTTATTGTA
* *
1826494 ATTAATTATAGTAATATTTATTATGATTATAATTACAATAAATGTGACGTAATAAAAGACACATC
65 ATTAATTATAGTAATATTTATTATGATTATAATTACAATAAATGGGACGTAATAAAAAACACATC
1826559 GACAATCTCAATTTAAATCCCTGATCAGAAGAGTAATTGGCAGTGTATTAGT
130 GACAATCTCAATTTAAATCCCTGATCAGAAGAGTAATTGGCAGTGTATTAGT
1826611 T
1 T
1826612 TTACCTTGAT
Statistics
Matches: 177, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
181 174 0.98
182 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (181 bp):
TGACATTATGATTGTTATTTTGTGATTTCAGTTCTCTCTACCCTGATATCTAATATTTATTGTAA
TTAATTATAGTAATATTTATTATGATTATAATTACAATAAATGGGACGTAATAAAAAACACATCG
ACAATCTCAATTTAAATCCCTGATCAGAAGAGTAATTGGCAGTGTATTAGT
Found at i:1827350 original size:18 final size:18
Alignment explanation
Indices: 1827322--1827460 Score: 78
Period size: 19 Copynumber: 7.7 Consensus size: 18
1827312 AGATGTAATA
1827322 ATTTATATTATATTTATAT
1 ATTT-TATTATATTTATAT
*
1827341 ATTTTATTATATTTAAAAT
1 ATTTTATTATATTT-ATAT
*
1827360 ATTTTATATTTATTTA-AT
1 ATTTTAT-TATATTTATAT
*
1827378 -TTTTAATATA-TTA-AT
1 ATTTTATTATATTTATAT
* * *
1827393 ATTTTA-TAT-TATAAAA
1 ATTTTATTATATTTATAT
*
1827409 ATTTTAAATATATATT-TAT
1 ATTTT-ATTATAT-TTATAT
*
1827428 ATTATATTATAGTTT-TATT
1 ATTTTATTATA-TTTATA-T
1827447 ATTTTATATATATT
1 ATTTTAT-TATATT
1827461 AAATTTATAA
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
15 10 0.10
16 14 0.15
17 6 0.06
18 24 0.25
19 31 0.32
20 11 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
ATTTTATTATATTTATAT
Found at i:1827368 original size:16 final size:16
Alignment explanation
Indices: 1827347--1827414 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
1827337 ATATATTTTA
1827347 TTATATTTAAAATATT
1 TTATATTTAAAATATT
*
1827363 TTATATTTATTTAAT-TT
1 TTATATTTA--AAATATT
1827380 TTAATATATT--AATATT
1 TT-ATAT-TTAAAATATT
1827396 TTATATTATAAAA-ATT
1 TTATATT-TAAAATATT
1827412 TTA
1 TTA
1827415 AATATATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
14 1 0.02
15 8 0.19
16 19 0.44
17 6 0.14
18 7 0.16
19 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTTAAAATATT
Found at i:1827412 original size:33 final size:33
Alignment explanation
Indices: 1827357--1827438 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
1827347 TTATATTTAA
** *
1827357 AATATTTTATATT-TATTTAATTTTTAATATATT
1 AATATTTTATATTATATAAAATTTTAAATATA-T
1827390 AATATTTTATATTATA-AAAATTTTAAATATAT
1 AATATTTTATATTATATAAAATTTTAAATATAT
* *
1827422 ATTTATATTATATTATA
1 A-ATATTTTATATTATA
1827439 GTTTTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.05
33 38 0.90
34 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
AATATTTTATATTATATAAAATTTTAAATATAT
Found at i:1827466 original size:16 final size:16
Alignment explanation
Indices: 1827360--1827466 Score: 56
Period size: 16 Copynumber: 6.2 Consensus size: 16
1827350 TATTTAAAAT
* *
1827360 ATTTTATATTTATTTA
1 ATTTTATATATATTAA
1827376 ATTTT-TAATATATTAA
1 ATTTTAT-ATATATTAA
*
1827392 TATTTTATAT-TATAAAA
1 -ATTTTATATATAT-TAA
*
1827409 ATTTTAAATATATATTTAT
1 ATTTT--ATATATA-TTAA
* * *
1827428 ATTATATTATAGTTTTATT
1 ATTTTA-TATA-TATTA-A
1827447 ATTTTATATATATTAA
1 ATTTTATATATATTAA
1827463 ATTT
1 ATTT
1827467 ATAATAATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 22
0.69 0.10 0.22
Matches are distributed among these distances:
15 1 0.01
16 24 0.34
17 14 0.20
18 16 0.23
19 14 0.20
20 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (16 bp):
ATTTTATATATATTAA
Found at i:1827836 original size:17 final size:18
Alignment explanation
Indices: 1827811--1827855 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
1827801 AAATTAAATT
1827811 TAAATAAAAATTTTTAAAA
1 TAAA-AAAAATTTTTAAAA
*
1827830 TAAAAAATATATTTTTATAA
1 TAAAAAA-A-ATTTTTAAAA
1827850 TAAAAA
1 TAAAAA
1827856 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 5 0.22
20 15 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAAAAATTTTTAAAA
Found at i:1827858 original size:17 final size:17
Alignment explanation
Indices: 1827829--1827862 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1827819 AATTTTTAAA
1827829 ATAAAAAATATATTTTT
1 ATAAAAAATATATTTTT
1827846 ATAATAAAA-ATATTTTT
1 ATAA-AAAATATATTTTT
1827863 TATTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAAAAATATATTTTT
Found at i:1827870 original size:17 final size:19
Alignment explanation
Indices: 1827820--1827865 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1827810 TTAAATAAAA
*
1827820 ATTTTTAAAATAAAAAATAT
1 ATTTTTATAAT-AAAAATAT
1827840 ATTTTTATAATAAAAATAT
1 ATTTTTATAATAAAAATAT
1827859 -TTTTTAT
1 ATTTTTAT
1827866 TTAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 8 0.32
20 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTTATAATAAAAATAT
Found at i:1827929 original size:39 final size:40
Alignment explanation
Indices: 1827846--1827932 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
1827836 ATATATTTTT
1827846 ATAATA-AAAATATTTTTTATTTAAATATAATGATTAATA
1 ATAATATAAAATATTTTTTATTTAAATATAATGATTAATA
* * *
1827885 TTAATATAAAATATTTATTT-TTT-AATATTAT-TTTAAATA
1 ATAATATAAAATATTT-TTTATTTAAATATAATGATT-AATA
1827924 ATAATATAA
1 ATAATATAA
1827933 GATTTTACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.05
39 24 0.59
40 12 0.29
41 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
ATAATATAAAATATTTTTTATTTAAATATAATGATTAATA
Found at i:1830626 original size:28 final size:28
Alignment explanation
Indices: 1830595--1830655 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
1830585 AGCGCGATTG
1830595 ATTTATGCTATAATTTTTAAAATATGTT
1 ATTTATGCTATAATTTTTAAAATATGTT
1830623 ATTTATGCTATAATTTTTAAAATATGTT
1 ATTTATGCTATAATTTTTAAAATATGTT
1830651 ATTTA
1 ATTTA
1830656 ACAGGTCTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (28 bp):
ATTTATGCTATAATTTTTAAAATATGTT
Found at i:1832856 original size:17 final size:19
Alignment explanation
Indices: 1832830--1832866 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
1832820 TTTTTAAGAC
*
1832830 AAAAATGGAA-AAT-AAAA
1 AAAAAAGGAATAATCAAAA
1832847 AAAAAAGGAATAATCAAAA
1 AAAAAAGGAATAATCAAAA
1832866 A
1 A
1832867 GGGAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAAAAGGAATAATCAAAA
Found at i:1836672 original size:2 final size:2
Alignment explanation
Indices: 1836665--1836704 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1836655 AACTTCTCCT
1836665 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1836705 CATGTAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1839407 original size:17 final size:18
Alignment explanation
Indices: 1839372--1839419 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
1839362 ATTATTAATT
*
1839372 TAAATTTTTTATTTAAAAA
1 TAAA-TTTTTATATAAAAA
*
1839391 TTAATTTTTATAT-AAAA
1 TAAATTTTTATATAAAAA
1839408 TAAATTTATTAT
1 TAAATTT-TTAT
1839420 TCACATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAATTTTTATATAAAAA
Found at i:1839811 original size:14 final size:14
Alignment explanation
Indices: 1839788--1839831 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1839778 ACAAAAAGAT
* *
1839788 ATATACTTTTTAAA
1 ATATAATTTTAAAA
1839802 ATATAATTTTAAAA
1 ATATAATTTTAAAA
*
1839816 ATTTAA-TTTAAAA
1 ATATAATTTTAAAA
1839829 ATA
1 ATA
1839832 AATGGGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAATTTTAAAA
Found at i:1840067 original size:53 final size:54
Alignment explanation
Indices: 1840010--1840117 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 54
1840000 ATATATATAT
*
1840010 ATATATAATCTGGGTTTTTTTTTGCTTAATTAATGTTTTTTA-TTGCCTATGGA
1 ATATATAATCTGGGTTTTTTTTGGCTTAATTAATGTTTTTTATTTGCCTATGGA
1840063 ATATATAATCTGGGTTTTTTTTGGCTTAATTAATGTTTTTTATTTGCCTATGGA
1 ATATATAATCTGGGTTTTTTTTGGCTTAATTAATGTTTTTTATTTGCCTATGGA
1840117 A
1 A
1840118 GTTTTGAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 41 0.77
54 12 0.23
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.54
Consensus pattern (54 bp):
ATATATAATCTGGGTTTTTTTTGGCTTAATTAATGTTTTTTATTTGCCTATGGA
Found at i:1840348 original size:27 final size:27
Alignment explanation
Indices: 1840323--1840394 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
1840313 TTATATTTAA
1840323 AATATATT-AT-ATTTATATATTTTTT
1 AATATATTAATAATTTATATATTTTTT
1840348 AATATATTAATAATTTATATATTTTTT
1 AATATATTAATAATTTATATATTTTTT
1840375 AATATATTAATAATTTATAT
1 AATATATTAATAATTTATAT
1840395 TATATAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.18
26 2 0.04
27 35 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AATATATTAATAATTTATATATTTTTT
Found at i:1840366 original size:25 final size:25
Alignment explanation
Indices: 1840296--1840395 Score: 109
Period size: 27 Copynumber: 4.0 Consensus size: 25
1840286 TTTTTAAATA
1840296 TTTTAATCATATTATAA-T-TATA-T
1 TTTTAAT-ATATTATAATTATATATT
** *
1840319 TTAAAATATATTATATTTATATATT
1 TTTTAATATATTATAATTATATATT
1840344 TTTTAATATATTAATAATTTATATATT
1 TTTTAATATATT-ATAA-TTATATATT
1840371 TTTTAATATATTAATAATT-TATATT
1 TTTTAATATATT-ATAATTATATATT
1840396 ATATAAATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.12
23 6 0.09
24 4 0.06
25 17 0.26
26 5 0.08
27 26 0.39
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTAATATATTATAATTATATATT
Found at i:1840391 original size:16 final size:16
Alignment explanation
Indices: 1840345--1840391 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 16
1840335 TTATATATTT
1840345 TTTAATATATTAATAA
1 TTTAATATATTAATAA
1840361 TTT-ATATATT--T--
1 TTTAATATATTAATAA
1840372 TTTAATATATTAATAA
1 TTTAATATATTAATAA
1840388 TTTA
1 TTTA
1840392 TATTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 1 0.04
14 1 0.04
15 7 0.27
16 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATATATTAATAA
Found at i:1840442 original size:25 final size:26
Alignment explanation
Indices: 1840414--1840478 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
1840404 TATGAGACAT
*
1840414 ATATTTTCAT-TATAT-TGTATATTAA
1 ATATTTT-ATATATATATATATATTAA
1840439 ATATTTTATATATATATATATATT--
1 ATATTTTATATATATATATATATTAA
1840463 ATA-TTTATATA-ATATA
1 ATATTTTATATATATATA
1840479 ATTATCTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 5 0.14
23 8 0.22
24 5 0.14
25 12 0.32
26 7 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
ATATTTTATATATATATATATATTAA
Found at i:1840697 original size:18 final size:20
Alignment explanation
Indices: 1840650--1840700 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1840640 TTATACACTA
*
1840650 AAGT-ATTTTTTAAAAATAT
1 AAGTAATTTTTAAAAAATAT
*
1840669 AAGTAAATTTTAAAAAAT-T
1 AAGTAATTTTTAAAAAATAT
1840688 AA-TAATTTTTAAA
1 AAGTAATTTTTAAA
1840701 TAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 7 0.25
20 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
AAGTAATTTTTAAAAAATAT
Found at i:1840715 original size:18 final size:17
Alignment explanation
Indices: 1840657--1840715 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
1840647 CTAAAGTATT
1840657 TTTTAAAAATATAAGTAAA
1 TTTTAAAAA-ATAA-TAAA
*
1840676 TTTTAAAAAATTAATAAT
1 TTTTAAAAAA-TAATAAA
1840694 TTTTAAATAAA-AATCAAA
1 TTTTAAA-AAATAAT-AAA
1840712 TTTT
1 TTTT
1840716 TATATTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 3 0.09
18 17 0.49
19 15 0.43
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTTAAAAAATAATAAA
Found at i:1840742 original size:17 final size:17
Alignment explanation
Indices: 1840720--1840758 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1840710 AATTTTTATA
1840720 TTAATTA-ATATTATAAT
1 TTAATTACAT-TTATAAT
*
1840737 TTAATTACATTTTTAAT
1 TTAATTACATTTATAAT
1840754 TTAAT
1 TTAAT
1840759 ATTACTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTACATTTATAAT
Found at i:1840860 original size:28 final size:27
Alignment explanation
Indices: 1840825--1840878 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
1840815 AATAAAATAT
1840825 ATTTATAT-ATAAAAAAATTTAAATTTA
1 ATTTATATAAT-AAAAAATTTAAATTTA
* *
1840852 ATTTCATATAATTAAAATTTTAAATTT
1 ATTT-ATATAATAAAAAATTTAAATTT
1840879 TAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 17 0.74
29 2 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTATATAATAAAAAATTTAAATTTA
Found at i:1841164 original size:23 final size:21
Alignment explanation
Indices: 1841136--1841190 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
1841126 TTAATAAAAA
*
1841136 AAATTAAAATATTTTTTATATT
1 AAATTAAAATATTTTATA-ATT
*
1841158 AATATTAATATATTTTATAATT
1 AA-ATTAAAATATTTTATAATT
*
1841180 AAATTTAAATA
1 AAATTAAAATA
1841191 AAAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 7 0.25
22 7 0.25
23 14 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTAAAATATTTTATAATT
Found at i:1841244 original size:16 final size:17
Alignment explanation
Indices: 1841217--1841250 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1841207 ATTAAATATC
*
1841217 AATTTAAATTATTTTAA
1 AATTTAAATTATATTAA
1841234 AATTT-AATTATATTAA
1 AATTTAAATTATATTAA
1841250 A
1 A
1841251 CTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAAATTATATTAA
Found at i:1844650 original size:6 final size:6
Alignment explanation
Indices: 1844639--1844677 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
1844629 AATTATATGG
*
1844639 TATTTA TATTTA T-TTTA TTTTTA TATTATA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATT-TA TATTTA TAT
1844678 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:1844655 original size:11 final size:12
Alignment explanation
Indices: 1844639--1844677 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
1844629 AATTATATGG
1844639 TATTTATATTTA
1 TATTTATATTTA
*
1844651 T-TTTATTTTTA
1 TATTTATATTTA
1844662 TATTATATATTTA
1 TATT-TATATTTA
1844675 TAT
1 TAT
1844678 AAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 3 0.13
13 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTATATTTA
Found at i:1845248 original size:23 final size:26
Alignment explanation
Indices: 1845221--1845275 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1845211 TAATAAATTT
1845221 TATAAATA-AATTT-ATTTTTAATAA
1 TATAAATATAATTTAATTTTTAATAA
*
1845245 -AT-AATATCATTTAAATTTTTAATAA
1 TATAAATATAATTT-AATTTTTAATAA
1845270 TATAAA
1 TATAAA
1845276 ATTTATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
25 11 0.44
26 2 0.08
27 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAAATATAATTTAATTTTTAATAA
Found at i:1845256 original size:19 final size:19
Alignment explanation
Indices: 1845202--1845256 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
1845192 TTAAATTAAA
*
1845202 AATAAATAATAATAAATTTT
1 AATAAATAAT-ATAATTTTT
*
1845222 -ATAAATAA-ATTTATTTTT
1 AATAAATAATA-TAATTTTT
*
1845240 AATAAATAATATCATTT
1 AATAAATAATATAATTT
1845257 AAATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.03
18 6 0.21
19 21 0.72
20 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAATAATATAATTTTT
Found at i:1845399 original size:20 final size:19
Alignment explanation
Indices: 1845371--1845409 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1845361 ATAACATTTC
*
1845371 AAATAATAATTTTATAATAA
1 AAATAATAATATTA-AATAA
*
1845391 AAATTATAATATTAAATAA
1 AAATAATAATATTAAATAA
1845410 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAATATTAAATAA
Found at i:1845788 original size:15 final size:16
Alignment explanation
Indices: 1845765--1845832 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 16
1845755 CTAAATTATT
*
1845765 ATATATTAAT-TAAAA
1 ATATTTTAATATAAAA
*
1845780 ATATTTTAATTTAAAA
1 ATATTTTAATATAAAA
* *
1845796 TTATTATTAAATATATAA
1 ATATT-TT-AATATAAAA
1845814 ATA--TTAATATAAAA
1 ATATTTTAATATAAAA
1845828 ATATT
1 ATATT
1845833 ATTTATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
14 11 0.26
15 11 0.26
16 9 0.21
17 2 0.05
18 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTTAATATAAAA
Found at i:1845902 original size:2 final size:2
Alignment explanation
Indices: 1845895--1845935 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1845885 CGTCCCATTG
1845895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1845936 ATGTGTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1846069 original size:13 final size:13
Alignment explanation
Indices: 1846053--1846094 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
1846043 AATTCAATTC
1846053 TTAAATTTTAT-T
1 TTAAATTTTATAT
*
1846065 TTTAATTTTAATAT
1 TTAAATTTT-ATAT
1846079 TTAAATTTTATAT
1 TTAAATTTTATAT
1846092 TTA
1 TTA
1846095 TAATCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 9 0.35
14 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAAATTTTATAT
Found at i:1847203 original size:30 final size:30
Alignment explanation
Indices: 1847154--1847262 Score: 103
Period size: 30 Copynumber: 3.6 Consensus size: 30
1847144 CCCGTTAGCT
* * *
1847154 CTCCACCACCGGCTACTCCACCCCCCGCCA
1 CTCCTCCACCAGCTTCTCCACCCCCCGCCA
* *
1847184 CTCCTCCATCAGCTTCTCCACCTCCTC-CCA
1 CTCCTCCACCAGCTTCTCCACC-CCCCGCCA
* *
1847214 CTCCTCCACCAGCTTCGCCACCTCCCGCCA
1 CTCCTCCACCAGCTTCTCCACCCCCCGCCA
* * * *
1847244 CCCCACCACCTGCATCTCC
1 CTCCTCCACCAGCTTCTCC
1847263 TCCTCCAGCA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
29 2 0.03
30 58 0.92
31 3 0.05
ACGTcount: A:0.15, C:0.61, G:0.07, T:0.17
Consensus pattern (30 bp):
CTCCTCCACCAGCTTCTCCACCCCCCGCCA
Found at i:1849107 original size:17 final size:17
Alignment explanation
Indices: 1849087--1849130 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
1849077 ATTATGATTT
*
1849087 AATTTGATTTATAAATA
1 AATTTAATTTATAAATA
* *
1849104 AATTTAATTTATTATTA
1 AATTTAATTTATAAATA
*
1849121 AATTTTATTT
1 AATTTAATTT
1849131 TTAATAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
AATTTAATTTATAAATA
Found at i:1850678 original size:16 final size:15
Alignment explanation
Indices: 1850653--1850694 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
1850643 TAAAATAAAA
*
1850653 TAAAAAATTTTAATT
1 TAAAAAATTTAAATT
1850668 TAAAAAGATTTAAATT
1 TAAAAA-ATTTAAATT
1850684 TATAAAAATTT
1 TA-AAAAATTT
1850695 GAATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TAAAAAATTTAAATT
Found at i:1850971 original size:15 final size:15
Alignment explanation
Indices: 1850948--1850983 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1850938 TCGGTTAAAA
1850948 AAAAAAATATTATTT
1 AAAAAAATATTATTT
* *
1850963 AAAATAATATTTTTT
1 AAAAAAATATTATTT
1850978 AAAAAA
1 AAAAAA
1850984 TTATATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAAAATATTATTT
Found at i:1850983 original size:17 final size:17
Alignment explanation
Indices: 1850946--1850991 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
1850936 GATCGGTTAA
*
1850946 AAAAAAAAATATTATTT
1 AAAAAATAATATTATTT
*
1850963 --AAAATAATATTTTTT
1 AAAAAATAATATTATTT
*
1850978 AAAAAATTATATTA
1 AAAAAATAATATTA
1850992 ATATTTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
15 13 0.57
17 10 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATAATATTATTT
Found at i:1851023 original size:20 final size:21
Alignment explanation
Indices: 1850998--1851048 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1850988 ATTAATATTT
1850998 ATAATTAAATTTATATAAA-A
1 ATAATTAAATTTATATAAATA
**
1851018 ATAATTTTA-TTATATAAATA
1 ATAATTAAATTTATATAAATA
1851038 ATAATTTAAAT
1 ATAA-TTAAAT
1851049 CAAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATTAAATTTATATAAATA
Found at i:1851036 original size:17 final size:17
Alignment explanation
Indices: 1850993--1851039 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
1850983 ATTATATTAA
* *
1850993 TATT-TATAATTAAATT
1 TATTATATAAATAATTT
*
1851009 TA-TATAAAAATAATTT
1 TATTATATAAATAATTT
1851025 TATTATATAAATAAT
1 TATTATATAAATAAT
1851040 AATTTAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
17 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTATATAAATAATTT
Found at i:1853612 original size:25 final size:25
Alignment explanation
Indices: 1853565--1853615 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1853555 ATTTATTTTT
** *
1853565 TATATAATATAAATTATATTATATA
1 TATATAATATAAAAAATAGTATATA
1853590 TATATAATATAAAAAATAGTATATA
1 TATATAATATAAAAAATAGTATATA
1853615 T
1 T
1853616 TATTGTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
TATATAATATAAAAAATAGTATATA
Found at i:1854193 original size:2 final size:2
Alignment explanation
Indices: 1854186--1854222 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1854176 TTAGTGTTTG
*
1854186 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1854223 TGGCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1855414 original size:15 final size:14
Alignment explanation
Indices: 1855386--1855427 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
1855376 ATTTTAATTT
1855386 TTTATTAT-TAATA
1 TTTATTATATAATA
1855399 TTTATTATAATAATA
1 TTTATTAT-ATAATA
*
1855414 TTTAATATTATAAT
1 TTTATTA-TATAAT
1855428 TAATATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 8 0.32
15 16 0.64
16 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTATATAATA
Found at i:1855953 original size:19 final size:19
Alignment explanation
Indices: 1855917--1855954 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1855907 AATAATTTTT
*
1855917 TATATAAATTTAGTTATAA
1 TATATAAATTTAGATATAA
1855936 TATATAAATATTA-ATATAA
1 TATATAAAT-TTAGATATAA
1855955 AATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TATATAAATTTAGATATAA
Found at i:1856347 original size:12 final size:13
Alignment explanation
Indices: 1856330--1856358 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1856320 TTTTATCAAA
1856330 AATATTTATAT-T
1 AATATTTATATGT
1856342 AATATTTATATGT
1 AATATTTATATGT
1856355 AATA
1 AATA
1856359 CATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
AATATTTATATGT
Found at i:1858159 original size:21 final size:20
Alignment explanation
Indices: 1858135--1858178 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1858125 ATCAAAAATT
*
1858135 TATATAGTTATATCATATTTA
1 TATATAGTTAAATCAT-TTTA
* *
1858156 TATATATTTAAATTATTTTA
1 TATATAGTTAAATCATTTTA
1858176 TAT
1 TAT
1858179 TTATATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TATATAGTTAAATCATTTTA
Found at i:1858164 original size:10 final size:10
Alignment explanation
Indices: 1858135--1858191 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
1858125 ATCAAAAATT
*
1858135 TATATAGTTA
1 TATATATTTA
1858145 TATCATATTTA
1 TAT-ATATTTA
1858156 TATATATTTA
1 TATATATTTA
*
1858166 AAT-TA-TT-
1 TATATATTTA
1858173 T-TATATTTA
1 TATATATTTA
*
1858182 TATAAATTTA
1 TATATATTTA
1858192 ATTTTTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
8 4 0.11
9 3 0.08
10 19 0.50
11 9 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
TATATATTTA
Found at i:1858177 original size:20 final size:20
Alignment explanation
Indices: 1858152--1858189 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1858142 TTATATCATA
*
1858152 TTTATATATATTTAAATTAT
1 TTTATATATATATAAATTAT
*
1858172 TTTATATTTATATAAATT
1 TTTATATATATATAAATT
1858190 TAATTTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATATATATATAAATTAT
Found at i:1858784 original size:20 final size:20
Alignment explanation
Indices: 1858759--1858797 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1858749 CTTACGTTAT
1858759 ATTTAAATTT-ATTTTATTAA
1 ATTTAAATTTGA-TTTATTAA
1858779 ATTTAAATTTGATTTATTA
1 ATTTAAATTTGATTTATTA
1858798 TTATGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTAAATTTGATTTATTAA
Found at i:1860514 original size:20 final size:20
Alignment explanation
Indices: 1860491--1860553 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
1860481 TTTAATTTTT
1860491 AATTATAATTTTTTTAAAAA
1 AATTATAATTTTTTTAAAAA
*
1860511 AATTATTAA-CTTTTTAAAAA
1 AATTA-TAATTTTTTTAAAAA
* *
1860531 ACTATATATTTTTTTCTAAAAA
1 AAT-TATAATTTTTT-TAAAAA
1860553 A
1 A
1860554 CTACTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 19 0.54
21 9 0.26
22 7 0.20
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTATAATTTTTTTAAAAA
Found at i:1870410 original size:2 final size:2
Alignment explanation
Indices: 1870403--1870444 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1870393 AGTCGACGAC
* *
1870403 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT GT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1870445 GGCACCCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.45, G:0.05, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1870653 original size:18 final size:19
Alignment explanation
Indices: 1870630--1870674 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
1870620 AAGCCTAATC
*
1870630 ATATAATAT-TATTATATA
1 ATATAATATATAATATATA
1870648 ATATAA-ATATAATATATA
1 ATATAATATATAATATATA
*
1870666 ATATGATAT
1 ATATAATAT
1870675 GAGATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATAATATATAATATATA
Found at i:1873865 original size:40 final size:41
Alignment explanation
Indices: 1873792--1873869 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
1873782 TATTACCAAA
* *
1873792 AAAATATTTTTTATATTAATATATATTACTTAAATTAAAAT
1 AAAATATTTTTTATATTAATAAATATAACTTAAATTAAAAT
*
1873833 AAAATA-TTTTTA-ATTAATAAATAATAATTTAAATTAA
1 AAAATATTTTTTATATTAATAAAT-ATAACTTAAATTAA
1873870 TCGATTCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 9 0.27
40 18 0.55
41 6 0.18
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (41 bp):
AAAATATTTTTTATATTAATAAATATAACTTAAATTAAAAT
Found at i:1876957 original size:20 final size:21
Alignment explanation
Indices: 1876929--1876968 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1876919 AATTTGACTC
*
1876929 TCATGTTTG-CGAAACTTGAG
1 TCATCTTTGTCGAAACTTGAG
*
1876949 TCATCTTTGTTGAAACTTGA
1 TCATCTTTGTCGAAACTTGA
1876969 AACCAGGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (21 bp):
TCATCTTTGTCGAAACTTGAG
Found at i:1877023 original size:2 final size:2
Alignment explanation
Indices: 1877018--1877046 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1877008 TGTGTGTGTG
1877018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1877047 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1880412 original size:3 final size:3
Alignment explanation
Indices: 1880404--1880428 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1880394 GAGAAATATA
1880404 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
1880429 GGAAAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1881141 original size:40 final size:39
Alignment explanation
Indices: 1881093--1881317 Score: 118
Period size: 40 Copynumber: 5.3 Consensus size: 39
1881083 ATATAATATT
1881093 ATTATATAAAATATTACTAATTACATATAAAATATTATA
1 ATTATATAAAATATTACTAATTACATATAAAATATTATA
* *
1881132 AGTTATATAAAATATTACT-TTTACATGTAATTGCATAAACATTATTA
1 A-TTATATAAAATATTACTAATTACA--T-A-T--A-AAATATTA-TA
* * *
1881179 ATTGTATAAAATATTATTCAATTACATAT-AAATTTTATTA
1 ATTATATAAAATATTACT-AATTACATATAAAATATTA-TA
* *
1881219 ATTACATAAAATATTATCTTTATATGTA-ATTAAATAAAATATTAAAA
1 ATTATATAAAATATTA-C--TA-AT-TACA-T--ATAAAATATT-ATA
* *
1881266 ATTATATTAAAAAATTATTAATT--ATATAAAATATTATA
1 ATTATA-TAAAATATTACTAATTACATATAAAATATTATA
* *
1881304 TGTTACATAAAATA
1 -ATTATATAAAATA
1881318 ACATAAAAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 47
0.69 0.09 0.22
Matches are distributed among these distances:
38 8 0.06
39 20 0.14
40 40 0.28
41 2 0.01
42 3 0.02
43 6 0.04
44 6 0.04
45 4 0.03
46 25 0.17
47 15 0.10
48 15 0.10
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (39 bp):
ATTATATAAAATATTACTAATTACATATAAAATATTATA
Found at i:1881182 original size:18 final size:17
Alignment explanation
Indices: 1881159--1881234 Score: 55
Period size: 20 Copynumber: 4.1 Consensus size: 17
1881149 CTTTTACATG
*
1881159 TAATTGCATAAACATTAT
1 TAATTACATAAA-ATTAT
**
1881177 TAATTGTATAAAATATTAT
1 TAATTACAT-AAA-ATTAT
1881196 TCAATTACATATAAATTTTAT
1 T-AATTACATA-AAA--TTAT
1881217 TAATTACATAAAA-TAT
1 TAATTACATAAAATTAT
1881233 TA
1 TA
1881235 TCTTTATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
16 5 0.10
18 8 0.16
19 14 0.29
20 17 0.35
21 5 0.10
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (17 bp):
TAATTACATAAAATTAT
Found at i:1881223 original size:20 final size:19
Alignment explanation
Indices: 1881089--1881235 Score: 84
Period size: 19 Copynumber: 7.2 Consensus size: 19
1881079 CTAAATATAA
*
1881089 TATT-ATTATATAAAATAT
1 TATTAATTACATAAAATAT
*
1881107 TACTAATTACATATAAAATAT
1 TATTAATTAC--ATAAAATAT
*
1881128 TA-TAAGTTATATAAAATAT
1 TATTAA-TTACATAAAATAT
*
1881147 TACTTTTACATGTA-ATTGCATAAACAT
1 TA---TTA-AT-TACA-T--A-AAATAT
**
1881174 TATTAATTGTATAAAATAT
1 TATTAATTACATAAAATAT
*
1881193 TATTCAATTACATATAAATTT
1 TATT-AATTACATA-AAATAT
1881214 TATTAATTACATAAAATAT
1 TATTAATTACATAAAATAT
1881233 TAT
1 TAT
1881236 CTTTATATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 33
0.70 0.07 0.23
Matches are distributed among these distances:
18 3 0.03
19 32 0.31
20 20 0.20
21 23 0.23
22 2 0.02
23 7 0.07
24 7 0.07
26 1 0.01
27 7 0.07
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
TATTAATTACATAAAATAT
Found at i:1881229 original size:86 final size:85
Alignment explanation
Indices: 1881089--1881317 Score: 243
Period size: 86 Copynumber: 2.7 Consensus size: 85
1881079 CTAAATATAA
*
1881089 TATTATTATATAAAATATTACTAATTACATATAAAATATTATAAGTTATATAAAATATTA-CTTT
1 TATTATTATATAAAATATTACTAATTACATATAAAATATTATAAGTTACATAAAATATTATC-TT
1881153 TACATGTAATTGCATAAACAT
65 TACATGTAATTGCATAAACAT
* * *
1881174 TATTAATTGTATAAAATATTATTCAATTACATAT-AAATTTTATTAA-TTACATAAAATATTATC
1 TATT-ATTATATAAAATATTACT-AATTACATATAAAATATTA-TAAGTTACATAAAATATTATC
* ** *
1881237 TTTATATGTAATTAAATAAAATAT
63 TTTACATGTAATTGCAT-AAACAT
** * * *
1881261 TAAAAATTATATTAAAAAATTATTAATT--ATATAAAATATTATATGTTACATAAAATA
1 T-ATTATTATA-TAAAATATTACTAATTACATATAAAATATTATAAGTTACATAAAATA
1881318 ACATAAAAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
85 10 0.08
86 70 0.58
87 29 0.24
88 12 0.10
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (85 bp):
TATTATTATATAAAATATTACTAATTACATATAAAATATTATAAGTTACATAAAATATTATCTTT
ACATGTAATTGCATAAACAT
Found at i:1881282 original size:20 final size:19
Alignment explanation
Indices: 1881246--1881301 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
1881236 CTTTATATGT
*
1881246 AATTAAATAAAATATTAAA
1 AATTATATAAAATATTAAA
* **
1881265 AATTATATTAAAAAATTATT
1 AATTATA-TAAAATATTAAA
1881285 AATTATATAAAATATTA
1 AATTATATAAAATATTA
1881302 TATGTTACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTATATAAAATATTAAA
Found at i:1881336 original size:47 final size:48
Alignment explanation
Indices: 1881275--1881365 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
1881265 AATTATATTA
** *
1881275 AAAAATTATTAATTATATA-AAATATTATATGTTACATAAAATAACAT
1 AAAAATTACCAATTATATATAAATATTATAAGTTACATAAAATAACAT
*
1881322 AAAAATTACCAATTATATATAAATATTATAAGTTACATTAAATA
1 AAAAATTACCAATTATATATAAATATTATAAGTTACATAAAATA
1881366 TTAAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 17 0.44
48 22 0.56
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.37
Consensus pattern (48 bp):
AAAAATTACCAATTATATATAAATATTATAAGTTACATAAAATAACAT
Found at i:1881336 original size:67 final size:68
Alignment explanation
Indices: 1881213--1881368 Score: 169
Period size: 67 Copynumber: 2.3 Consensus size: 68
1881203 CATATAAATT
* * * *
1881213 TTATTAATTACATAAAATATTATCTTTATATGTAATTAAATAAAATATTAAAAATTATAT-TAAA
1 TTATTAATTACATAAAATATTATATTTACATGAAAATAAATAAAATATTAAAAATTATATATAAA
1881277 AAA
66 AAA
* **
1881280 TTATTAATTATATAAAATATTATATGTTACAT-AAAATAACATAAAA-ATTACCAATTATATAT-
1 TTATTAATTACATAAAATATTATAT-TTACATGAAAATAA-ATAAAATATTAAAAATTATATATA
*
1881342 AAATA
64 AAAAA
*
1881347 TTA-TAAGTTACATTAAATATTA
1 TTATTAA-TTACATAAAATATTA
1881369 AAAATTACAT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
66 3 0.04
67 60 0.80
68 12 0.16
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (68 bp):
TTATTAATTACATAAAATATTATATTTACATGAAAATAAATAAAATATTAAAAATTATATATAAA
AAA
Found at i:1881365 original size:19 final size:20
Alignment explanation
Indices: 1881332--1881383 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1881322 AAAAATTACC
* *
1881332 AATTATATATAAATATTATA
1 AATTACATATAAATATTAAA
*
1881352 AGTTACAT-TAAATATTAAA
1 AATTACATATAAATATTAAA
1881371 AATTACATATAAA
1 AATTACATATAAA
1881384 CTTAAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTACATATAAATATTAAA
Found at i:1881635 original size:15 final size:16
Alignment explanation
Indices: 1881599--1881662 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
1881589 TGATACAATT
1881599 AAATAAAATAAATATA
1 AAATAAAATAAATATA
*
1881615 ATATAAAA-AAATA-A
1 AAATAAAATAAATATA
*
1881629 CAAATAAAATATAATGTGAA
1 -AAATAAAATA-AATAT--A
*
1881649 AAATAAAATTAATA
1 AAATAAAATAAATA
1881663 CATCAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 1 0.03
15 12 0.32
16 8 0.22
17 3 0.08
18 3 0.08
19 9 0.24
20 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATAAAATAAATATA
Found at i:1883684 original size:16 final size:16
Alignment explanation
Indices: 1883659--1883690 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1883649 CAGGGCCTGG
1883659 GGCCTAGTCCTTATGT
1 GGCCTAGTCCTTATGT
*
1883675 GGCCTTGTCCTTATGT
1 GGCCTAGTCCTTATGT
1883691 AATGAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (16 bp):
GGCCTAGTCCTTATGT
Found at i:1885578 original size:17 final size:18
Alignment explanation
Indices: 1885538--1885579 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1885528 TATTTTAAAT
1885538 TTAAAAATTAAACTTGAA
1 TTAAAAATTAAACTTGAA
* * *
1885556 TAAAAAATTAGACTT-AC
1 TTAAAAATTAAACTTGAA
1885573 TTAAAAA
1 TTAAAAA
1885580 ATAATCAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (18 bp):
TTAAAAATTAAACTTGAA
Found at i:1886228 original size:17 final size:17
Alignment explanation
Indices: 1886193--1886246 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1886183 AATTTAATAT
* *
1886193 AAAATTTTTAAATAGTTA
1 AAAATATTTAAA-ATTTA
1886211 AAAATATTTAAAATTT-
1 AAAATATTTAAAATTTA
*
1886227 AAAATAATTGAAAATTTA
1 AAAAT-ATTTAAAATTTA
1886245 AA
1 AA
1886247 TATTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 13 0.42
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
AAAATATTTAAAATTTA
Found at i:1886232 original size:16 final size:16
Alignment explanation
Indices: 1886192--1886252 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
1886182 AAATTTAATA
*
1886192 TAAAATTTTTAAATAGTT
1 TAAAATATTTAAA-A-TT
*
1886210 AAAAATATTTAAAATT
1 TAAAATATTTAAAATT
*
1886226 TAAAATAATTGAAAATT
1 TAAAAT-ATTTAAAATT
1886243 T-AAATATTTA
1 TAAAATATTTA
1886253 TTTTTATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 11 0.30
17 11 0.30
18 11 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAATATTTAAAATT
Found at i:1888306 original size:42 final size:41
Alignment explanation
Indices: 1888247--1888328 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
1888237 ATATTATACA
1888247 TTATATAATTATATAAAATAAATAAAATATAATATATTAATAAT
1 TTATATAA-TATATAAAATAAATAAAATATAAT-TA-TAATAAT
**
1888291 TTATATAA-ATATAAAATATTTAAAATATAATTATAATA
1 TTATATAATATATAAAATAAATAAAATATAATTATAATA
1888329 GGATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 5 0.14
41 2 0.06
42 21 0.58
44 8 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (41 bp):
TTATATAATATATAAAATAAATAAAATATAATTATAATAAT
Found at i:1888460 original size:17 final size:17
Alignment explanation
Indices: 1888422--1888463 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1888412 TTTAATAATT
*
1888422 TTTTATATATTTATTTA
1 TTTTATATAATTATTTA
*
1888439 ATTTA-ATAATTATATTA
1 TTTTATATAATTAT-TTA
1888456 TTTTATAT
1 TTTTATAT
1888464 TTTATTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 7 0.35
17 11 0.55
18 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATATAATTATTTA
Found at i:1888472 original size:32 final size:33
Alignment explanation
Indices: 1888422--1888483 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1888412 TTTAATAATT
*
1888422 TTTTATATATTTATTTAATTTAATAATTATATTA
1 TTTTATATATTTATTTAATATAA-AATTATATTA
1888456 TTTTATAT-TTTA-TTAATATAAAATTATA
1 TTTTATATATTTATTTAATATAAAATTATA
1888484 CATTGAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 8 0.30
33 4 0.15
34 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTTTATATATTTATTTAATATAAAATTATATTA
Found at i:1888706 original size:22 final size:19
Alignment explanation
Indices: 1888674--1888719 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
1888664 ATTCGTATAA
1888674 AAATTACATAAATATATAAAAT
1 AAATTACAT-AAT-TAT-AAAT
*
1888696 AAATTATATAATTATAAAT
1 AAATTACATAATTATAAAT
1888715 AAATT
1 AAATT
1888720 TATCTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 3 0.13
21 3 0.13
22 8 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTACATAATTATAAAT
Found at i:1889071 original size:16 final size:16
Alignment explanation
Indices: 1889052--1889087 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1889042 AAAATATAAT
1889052 TATTAATATAAAAATA
1 TATTAATATAAAAATA
* *
1889068 TATTAATATTATAATA
1 TATTAATATAAAAATA
1889084 TATT
1 TATT
1889088 TTAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAATATAAAAATA
Found at i:1889080 original size:19 final size:20
Alignment explanation
Indices: 1889041--1889081 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1889031 TAAATTTTAA
*
1889041 AAAAATATAATTATTAATAT
1 AAAAATATAATTAATAATAT
*
1889061 AAAAATAT-ATTAATATTAT
1 AAAAATATAATTAATAATAT
1889080 AA
1 AA
1889082 TATATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATATAATTAATAATAT
Found at i:1889223 original size:25 final size:24
Alignment explanation
Indices: 1889195--1889264 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 24
1889185 AAAAATTAAT
1889195 ATTATTATTTAAAATAATATTTATA
1 ATTATTATTT-AAATAATATTTATA
*
1889220 ATTA-AATTTAAAT-ATA-TT-T-
1 ATTATTATTTAAATAATATTTATA
1889239 -TTATTATTTAAATAATAATTTA-A
1 ATTATTATTTAAATAAT-ATTTATA
1889262 ATT
1 ATT
1889265 TATAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 15
0.68 0.04 0.28
Matches are distributed among these distances:
18 3 0.08
19 8 0.22
20 3 0.08
21 3 0.08
22 5 0.14
23 4 0.11
24 6 0.17
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATTATTTAAATAATATTTATA
Found at i:1889241 original size:24 final size:25
Alignment explanation
Indices: 1889201--1889251 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
1889191 TAATATTATT
1889201 ATTTAAAATAATATTTA-TAATTAA
1 ATTTAAAATAATATTTATTAATTAA
* *
1889225 ATTT-AAATATATTTTTATTATTTAA
1 ATTTAAAATA-ATATTTATTAATTAA
1889250 AT
1 AT
1889252 AATAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 10 0.43
25 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAAAATAATATTTATTAATTAA
Found at i:1889249 original size:19 final size:20
Alignment explanation
Indices: 1889194--1889252 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
1889184 CAAAAATTAA
1889194 TATTATTATTTAAAATAATATT
1 TATTATTATTT-AAAT-ATATT
*
1889216 TATAATTAAATTTAAATATATT
1 TATTATT--ATTTAAATATATT
1889238 T-TTATTATTTAAATA
1 TATTATTATTTAAATA
1889253 ATAATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 9 0.27
21 4 0.12
22 12 0.36
23 4 0.12
24 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATTATTTAAATATATT
Found at i:1889930 original size:23 final size:23
Alignment explanation
Indices: 1889862--1889935 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
1889852 GTAGTTTAAG
1889862 TTTTAATTTAATTTGATTTAAATTAT
1 TTTTAATTTAA-TTG--TTAAATTAT
****
1889888 TATTTAATTT-ATAAAAAAATTAT
1 T-TTTAATTTAATTGTTAAATTAT
1889911 TTTTAATTTAATTGTTAAATTAT
1 TTTTAATTTAATTGTTAAATTAT
1889934 TT
1 TT
1889936 AATTTTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
22 8 0.21
23 19 0.50
25 1 0.03
26 2 0.05
27 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
TTTTAATTTAATTGTTAAATTAT
Found at i:1890298 original size:14 final size:14
Alignment explanation
Indices: 1890281--1890310 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1890271 TTAAAAGTAA
1890281 AATTTTTTATTAAT
1 AATTTTTTATTAAT
*
1890295 AATTTTTTATTTAT
1 AATTTTTTATTAAT
1890309 AA
1 AA
1890311 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTTTATTAAT
Found at i:1890353 original size:26 final size:27
Alignment explanation
Indices: 1890299--1890351 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1890289 ATTAATAATT
**
1890299 TTTTATTTATAAAATTTAAATTTAAAA
1 TTTTATTTATAAAAAATAAATTTAAAA
1890326 TTTTATTT-TAAAAAATAAATATTAAA
1 TTTTATTTATAAAAAATAAAT-TTAAA
1890352 TTATTTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTATTTATAAAAAATAAATTTAAAA
Found at i:1890895 original size:21 final size:22
Alignment explanation
Indices: 1890870--1890910 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1890860 TAAAAAATAA
1890870 TTAAAATATTATA-TAAATATT
1 TTAAAATATTATATTAAATATT
* *
1890891 TTAAATTTTTATATTAAATA
1 TTAAAATATTATATTAAATA
1890911 AATTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAATATTATATTAAATATT
Found at i:1890927 original size:26 final size:26
Alignment explanation
Indices: 1890875--1890928 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1890865 AATAATTAAA
* * *
1890875 ATATTATATAAATATTTTAAATTTTT
1 ATATTAAATAAATATATTAAATATTT
1890901 ATATTAAATAAAT-TATTAATATATTT
1 ATATTAAATAAATATATTAA-ATATTT
1890927 AT
1 AT
1890929 CCAGATGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATTAAATAAATATATTAAATATTT
Found at i:1891059 original size:29 final size:31
Alignment explanation
Indices: 1891003--1891065 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
1890993 TATAATAAAT
* * *
1891003 TCATAAATTTTTTAAAAATATATAAATTTTA
1 TCATAAATATTTTAAAAAAATATAAATTTAA
1891034 TCATAAA-ATTTTAAAAAAAT-TAAATTTAA
1 TCATAAATATTTTAAAAAAATATAAATTTAA
1891063 TCA
1 TCA
1891066 AGTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (31 bp):
TCATAAATATTTTAAAAAAATATAAATTTAA
Found at i:1894707 original size:6 final size:6
Alignment explanation
Indices: 1894696--1894721 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1894686 TTTTAAGTTA
1894696 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
1894722 TTATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:1894809 original size:19 final size:19
Alignment explanation
Indices: 1894770--1894814 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1894760 AAAATAAAAA
*
1894770 TTAAATTATTTAAATACAT
1 TTAAATAATTTAAATACAT
* **
1894789 TTTAATAATTTAAATTTAT
1 TTAAATAATTTAAATACAT
1894808 TTAAATA
1 TTAAATA
1894815 TTAACCTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATAATTTAAATACAT
Found at i:1897800 original size:35 final size:35
Alignment explanation
Indices: 1897761--1897832 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
1897751 TATATATTCA
* * * *
1897761 GACATAAGTATAAAAGTATAAGTTTTTAAATGTAC
1 GACATAAATATAAAAGTACAAGTCTTCAAATGTAC
*
1897796 GACATAAATATAAAGGTACAAGTCTTCAAATGTAC
1 GACATAAATATAAAAGTACAAGTCTTCAAATGTAC
1897831 GA
1 GA
1897833 GGGTTCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (35 bp):
GACATAAATATAAAAGTACAAGTCTTCAAATGTAC
Found at i:1898403 original size:23 final size:23
Alignment explanation
Indices: 1898353--1898409 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1898343 AAATTAATAA
*
1898353 AAATTTAAAT-TTTTTTATATTG
1 AAATTTAAATAATTTTTATATTG
* *
1898375 ATATTTATATAATTTTTATAATT-
1 AAATTTAAATAATTTTTAT-ATTG
1898398 AAATTTAAATAA
1 AAATTTAAATAA
1898410 ATAATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.29
23 17 0.61
24 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AAATTTAAATAATTTTTATATTG
Found at i:1899076 original size:15 final size:15
Alignment explanation
Indices: 1899056--1899088 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1899046 GATAGTAGGG
*
1899056 TGAAGCTGGTGGATA
1 TGAAGCTGGAGGATA
1899071 TGAAGCTGGAGGATA
1 TGAAGCTGGAGGATA
1899086 TGA
1 TGA
1899089 TGAACGTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.39, T:0.24
Consensus pattern (15 bp):
TGAAGCTGGAGGATA
Found at i:1899750 original size:20 final size:17
Alignment explanation
Indices: 1899721--1899759 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 17
1899711 TGAACCCTGT
1899721 AAAACCAAAAATGAAAAAA
1 AAAACCAAAAA--AAAAAA
1899740 AAAATCCAAAAAAAAAAA
1 AAAA-CCAAAAAAAAAAA
1899758 AA
1 AA
1899760 GCAAACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (17 bp):
AAAACCAAAAAAAAAAA
Found at i:1900968 original size:3 final size:3
Alignment explanation
Indices: 1900960--1900985 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1900950 ATTAAGGTAG
1900960 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1900986 ATTTTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1901702 original size:20 final size:20
Alignment explanation
Indices: 1901677--1901717 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1901667 TTAATATTTA
1901677 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
1901697 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
1901717 A
1 A
1901718 TTCAAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATATTTAATAAAATAT
Found at i:1901809 original size:27 final size:27
Alignment explanation
Indices: 1901779--1901842 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
1901769 TTAATATTGA
*
1901779 TTAATTCAATTAA-TTTTAATATTAAAT
1 TTAATTAAATTAATTTTTAAT-TTAAAT
1901806 TTAATTAAATTAATTTTTAATTTAAA-
1 TTAATTAAATTAATTTTTAATTTAAAT
*
1901832 TAAATTAAATT
1 TTAATTAAATT
1901843 GACCAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 10 0.29
27 17 0.50
28 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTAAATTAATTTTTAATTTAAAT
Found at i:1901818 original size:21 final size:21
Alignment explanation
Indices: 1901759--1901839 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
1901749 GATTTTGTTT
1901759 AATTTAA--AAATTAATATTGA
1 AATTTAATTAAATTAATATT-A
* *
1901779 TTAATTCAATTAATTTTAATATTA
1 --AATTTAATTAA-ATTAATATTA
* *
1901803 AATTTAATTAAATTAATTTTT
1 AATTTAATTAAATTAATATTA
*
1901824 AATTTAAATAAATTAA
1 AATTTAATTAAATTAA
1901840 ATTGACCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 22 0.45
22 16 0.33
24 3 0.06
25 8 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (21 bp):
AATTTAATTAAATTAATATTA
Found at i:1901824 original size:16 final size:17
Alignment explanation
Indices: 1901805--1901837 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1901795 TAATATTAAA
*
1901805 TTTAA-TTAAATTAATT
1 TTTAATTTAAATAAATT
1901821 TTTAATTTAAATAAATT
1 TTTAATTTAAATAAATT
1901838 AAATTGACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTTAAATAAATT
Found at i:1902566 original size:6 final size:6
Alignment explanation
Indices: 1902557--1902666 Score: 60
Period size: 6 Copynumber: 19.5 Consensus size: 6
1902547 ACATTTTAAC
* *
1902557 TTTATT TTTATA TCTATA TTTATA -TTAT- TTTATA -TT-T- TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
** * *
1902600 TTTATA TTTATA TGAATA -TCATA TTCAGTA -TTACTA TTTTATA TTT-TA
1 TTTATA TTTATA TTTATA TTTATA TTTA-TA TTTA-TA -TTTATA TTTATA
*
1902648 -TCATA TTTATA TTT-TA TTT
1 TTTATA TTTATA TTTATA TTT
1902667 CTTTTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.05
5 23 0.28
6 48 0.59
7 4 0.05
8 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:1902672 original size:16 final size:15
Alignment explanation
Indices: 1902635--1902664 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1902625 CAGTATTACT
1902635 ATTTTATATTTTATC
1 ATTTTATATTTTATC
1902650 ATATTTATATTTTAT
1 AT-TTTATATTTTAT
1902665 TTCTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 2 0.14
16 12 0.86
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTATATTTTATC
Done.