Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 91 of 117
Found at i:16420988 original size:33 final size:33
Alignment explanation
Indices: 16420942--16421005 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
16420932 AATTTGTCAG
* *
16420942 TAAAGTTTGAGATGAAACACTATATAAGAATAA
1 TAAAGTTTCAGATGAAACACCATATAAGAATAA
16420975 TAAAGTTTCAGATGAAACACCATATAAGAAT
1 TAAAGTTTCAGATGAAACACCATATAAGAAT
16421006 CCTTATCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (33 bp):
TAAAGTTTCAGATGAAACACCATATAAGAATAA
Found at i:16431371 original size:27 final size:27
Alignment explanation
Indices: 16431320--16431372 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
16431310 TAAAAATGAG
* * * *
16431320 AAAGGGAAAGAATAGGGTGAGAGAGAA
1 AAAGGGAAAGAAGAAGGAGAAAGAGAA
16431347 AAAGGGAAAGAAGAAGGAGAAAGAGA
1 AAAGGGAAAGAAGAAGGAGAAAGAGA
16431373 GAAGAGAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.04
Consensus pattern (27 bp):
AAAGGGAAAGAAGAAGGAGAAAGAGAA
Found at i:16434036 original size:35 final size:35
Alignment explanation
Indices: 16433996--16434064 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
16433986 ATTTGAGAAG
*
16433996 CTTTTAAAAATTTTTAAATTTATATTTTAAAAAAA
1 CTTTTAAAAACTTTTAAATTTATATTTTAAAAAAA
*
16434031 CTTTTAAAAACTTTTAAATTTATATTTTTAAAAA
1 CTTTTAAAAACTTTTAAATTTATATTTTAAAAAA
16434065 TTTTTGGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (35 bp):
CTTTTAAAAACTTTTAAATTTATATTTTAAAAAAA
Found at i:16434063 original size:23 final size:24
Alignment explanation
Indices: 16434032--16434083 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16434022 TTAAAAAAAC
16434032 TTTTAAAAACTTTTAAATTTATAT
1 TTTTAAAAACTTTTAAATTTATAT
* **
16434056 TTTTAAAAATTTTTGGATTTATAT
1 TTTTAAAAACTTTTAAATTTATAT
16434080 TTTT
1 TTTT
16434084 TGAAACTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAAAAACTTTTAAATTTATAT
Found at i:16434873 original size:34 final size:35
Alignment explanation
Indices: 16434821--16434888 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
16434811 TATTGATAAG
16434821 TAAATTGATTTTTATAATATAAATTATGTAAAAAA
1 TAAATTGATTTTTATAATATAAATTATGTAAAAAA
*
16434856 TAAATTGA-TTTTATAATATAAATTCTGTAAAAA
1 TAAATTGATTTTTATAATATAAATTATGTAAAAA
16434889 TATTTGAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 24 0.75
35 8 0.25
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (35 bp):
TAAATTGATTTTTATAATATAAATTATGTAAAAAA
Found at i:16434876 original size:18 final size:18
Alignment explanation
Indices: 16434821--16434879 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
16434811 TATTGATAAG
16434821 TAAATTGATTTTTATAATA
1 TAAATTGA-TTTTATAATA
* * *
16434840 TAAATT-A-TGTAAAAAA
1 TAAATTGATTTTATAATA
16434856 TAAATTGATTTTATAATA
1 TAAATTGATTTTATAATA
16434874 TAAATT
1 TAAATT
16434880 CTGTAAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 12 0.38
17 1 0.03
18 13 0.41
19 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TAAATTGATTTTATAATA
Found at i:16435001 original size:32 final size:33
Alignment explanation
Indices: 16434936--16435004 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
16434926 ATAATAAAAG
16434936 AAAAATAAAAAATATGTTATATATAAAACATTTTA
1 AAAAATAAAAAATA--TTATATATAAAACATTTTA
* **
16434971 AAAAATAAAAAATA-TATATGTAAATTATTTTA
1 AAAAATAAAAAATATTATATATAAAACATTTTA
16435003 AA
1 AA
16435005 TTTGTTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 17 0.55
35 14 0.45
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (33 bp):
AAAAATAAAAAATATTATATATAAAACATTTTA
Found at i:16435051 original size:15 final size:16
Alignment explanation
Indices: 16435031--16435064 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16435021 TTAGTTTGAA
*
16435031 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
16435046 AATATAAAATAATTAT
1 AATATAAAATAATTAT
16435062 AAT
1 AAT
16435065 TTTAAGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:16435880 original size:17 final size:18
Alignment explanation
Indices: 16435849--16435884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16435839 TAAAACAAAC
16435849 ATTTTTAATAAAATATTT
1 ATTTTTAATAAAATATTT
*
16435867 ATTTTTAAT-TAATATTT
1 ATTTTTAATAAAATATTT
16435884 A
1 A
16435885 GATTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTAATAAAATATTT
Found at i:16436748 original size:24 final size:24
Alignment explanation
Indices: 16436721--16436803 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
16436711 TACTTGTAAG
16436721 TTAAATAAATATGTTATAAAAATA
1 TTAAATAAATATGTTATAAAAATA
* ** ** *
16436745 TTAAATAAATAAGTTATTCATGTG
1 TTAAATAAATATGTTATAAAAATA
*
16436769 TT-AATAAATATATTATAAAAATA
1 TTAAATAAATATGTTATAAAAATA
16436792 TTAAATAAATAT
1 TTAAATAAATAT
16436804 TATGTGTTAT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 16 0.36
24 29 0.64
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (24 bp):
TTAAATAAATATGTTATAAAAATA
Found at i:16438306 original size:16 final size:17
Alignment explanation
Indices: 16438276--16438309 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16438266 TATAGATTAA
16438276 TAAAAAATAAATATTTT
1 TAAAAAATAAATATTTT
*
16438293 TAAAAAA-AATTATTTT
1 TAAAAAATAAATATTTT
16438309 T
1 T
16438310 CGGATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAAATAAATATTTT
Found at i:16438419 original size:18 final size:18
Alignment explanation
Indices: 16438396--16438497 Score: 104
Period size: 18 Copynumber: 5.7 Consensus size: 18
16438386 AAATTTACTT
16438396 ATAAATAATATATTATTA
1 ATAAATAATATATTATTA
16438414 ATAAATAATATATTATTA
1 ATAAATAATATATTATTA
*
16438432 AT--ATAATATATTAATA
1 ATAAATAATATATTATTA
* *
16438448 A-ATAATATTATAATGTATTC
1 ATA-AATAATAT-AT-TATTA
*
16438468 ATAAATACTAT-TATATTA
1 ATAAATAATATAT-TATTA
16438486 ATAAATAATATA
1 ATAAATAATATA
16438498 CTACCAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
16 14 0.20
18 41 0.59
19 2 0.03
20 11 0.16
21 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATAAATAATATATTATTA
Found at i:16438447 original size:31 final size:31
Alignment explanation
Indices: 16438401--16438530 Score: 106
Period size: 31 Copynumber: 4.0 Consensus size: 31
16438391 TACTTATAAA
16438401 TAATAT-AT-TATTAATAAATAATATATTAT
1 TAATATAATATATTAATAAATAATATATTAT
16438430 TAATATAATATATTAATAAATAATATTATAATGTATT
1 TAATATAATATATTAATAAAT-A-A-TAT-AT-TA-T
* * *
16438467 CATAAATACTATTATATTAATAAATAATATACTAC
1 --T-AATA-TAATATATTAATAAATAATATATTAT
*
16438502 CAATATAATATATTAATAAAT-AT-TATTAT
1 TAATATAATATATTAATAAATAATATATTAT
16438531 CTTCAGCTGC
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
29 10 0.12
30 4 0.05
31 26 0.32
32 5 0.06
33 1 0.01
34 3 0.04
35 2 0.02
36 4 0.05
37 2 0.02
38 3 0.04
39 2 0.02
40 5 0.06
41 15 0.18
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (31 bp):
TAATATAATATATTAATAAATAATATATTAT
Found at i:16438459 original size:23 final size:23
Alignment explanation
Indices: 16438433--16438530 Score: 81
Period size: 23 Copynumber: 4.1 Consensus size: 23
16438423 ATATTATTAA
16438433 TATAATATATTAATAAATAATAT
1 TATAATATATTAATAAATAATAT
* * *
16438456 TATAATGTATTCATAAATACTAT
1 TATAATATATTAATAAATAATAT
* * * *
16438479 TATATTA-ATAAATAATATACTACCAA
1 TATAATATATTAATAA-ATA--A-TAT
*
16438505 TATAATATATTAATAAATATTAT
1 TATAATATATTAATAAATAATAT
16438528 TAT
1 TAT
16438531 CTTCAGCTGC
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
22 6 0.11
23 32 0.58
26 10 0.18
27 7 0.13
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (23 bp):
TATAATATATTAATAAATAATAT
Found at i:16438485 original size:72 final size:72
Alignment explanation
Indices: 16438396--16438530 Score: 209
Period size: 72 Copynumber: 1.9 Consensus size: 72
16438386 AAATTTACTT
* **
16438396 ATAAATAATATATTATTAATAAATAATATATTATTAATATAATATATTAATAAATAATATTATAA
1 ATAAATAATATATTATTAATAAATAATATACTACCAATATAATATATTAATAAATAATATTATAA
16438461 TGTATTC
66 TGTATTC
* *
16438468 ATAAATACTAT-TATATTAATAAATAATATACTACCAATATAATATATTAATAAATATTATTAT
1 ATAAATAATATAT-TATTAATAAATAATATACTACCAATATAATATATTAATAAATAATATTAT
16438531 CTTCAGCTGC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 56 0.98
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (72 bp):
ATAAATAATATATTATTAATAAATAATATACTACCAATATAATATATTAATAAATAATATTATAA
TGTATTC
Found at i:16438693 original size:15 final size:15
Alignment explanation
Indices: 16438673--16438706 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16438663 TAATAAATAA
*
16438673 TAAATAGTTTTATTT
1 TAAATAGTTTTATAT
*
16438688 TAAATATTTTTATAT
1 TAAATAGTTTTATAT
16438703 TAAA
1 TAAA
16438707 ATAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TAAATAGTTTTATAT
Found at i:16438733 original size:19 final size:18
Alignment explanation
Indices: 16438688--16438764 Score: 52
Period size: 19 Copynumber: 4.3 Consensus size: 18
16438678 AGTTTTATTT
* *
16438688 TAAATATT-TTTATATTA
1 TAAATATTATTTTTAATA
*
16438705 -AAATAATATTTTTAATA
1 TAAATATTATTTTTAATA
* *
16438722 TCAAATATTATTATTAAAA
1 T-AAATATTATTTTTAATA
*
16438741 TATAT-TTATTTTTTAATA
1 TAAATATTA-TTTTTAATA
*
16438759 TTAATA
1 TAAATA
16438765 ATTGTAATAA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
16 6 0.14
17 10 0.23
18 13 0.30
19 15 0.34
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATATTATTTTTAATA
Found at i:16439950 original size:38 final size:38
Alignment explanation
Indices: 16439908--16439995 Score: 167
Period size: 38 Copynumber: 2.3 Consensus size: 38
16439898 AAATAGATTA
*
16439908 TATAATTTATATATTTGTATCATATAAAAATTATTTAT
1 TATAATTTATATATTTATATCATATAAAAATTATTTAT
16439946 TATAATTTATATATTTATATCATATAAAAATTATTTAT
1 TATAATTTATATATTTATATCATATAAAAATTATTTAT
16439984 TATAATTTATAT
1 TATAATTTATAT
16439996 TAATATAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (38 bp):
TATAATTTATATATTTATATCATATAAAAATTATTTAT
Found at i:16439979 original size:31 final size:31
Alignment explanation
Indices: 16439944--16440009 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
16439934 AAAATTATTT
*
16439944 ATTATA-ATTTATATATTTATA-TCATATAAAA
1 ATTATATA-TTATA-ATTTATATTAATATAAAA
*
16439975 ATTATTTATTATAATTTATATTAATATAAAA
1 ATTATATATTATAATTTATATTAATATAAAA
16440006 ATTA
1 ATTA
16440010 AAAACATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.23
31 23 0.74
32 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
ATTATATATTATAATTTATATTAATATAAAA
Found at i:16439982 original size:20 final size:20
Alignment explanation
Indices: 16439919--16439983 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
16439909 ATAATTTATA
*
16439919 TATTTGTATCATATAAAAAT
1 TATTTATATCATATAAAAAT
***
16439939 TATTTAT-T-ATA-ATTTAT
1 TATTTATATCATATAAAAAT
16439956 ATATTTATATCATATAAAAAT
1 -TATTTATATCATATAAAAAT
16439977 TATTTAT
1 TATTTAT
16439984 TATAATTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 2 0.06
20 16 0.47
21 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTATATCATATAAAAAT
Found at i:16440012 original size:38 final size:38
Alignment explanation
Indices: 16439908--16440013 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
16439898 AAATAGATTA
* * **
16439908 TATAATTTATATATTTGTATCATATAAAAATTATTTAT
1 TATAATTTATATATATATAAAATATAAAAATTATTTAT
* **
16439946 TATAATTTATATATTTATATCATATAAAAATTATTTAT
1 TATAATTTATATATATATAAAATATAAAAATTATTTAT
16439984 TATAATTTATAT-TAATATAAAA-ATTAAAAA
1 TATAATTTATATAT-ATATAAAATA-TAAAAA
16440014 CATATTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
37 2 0.03
38 60 0.97
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (38 bp):
TATAATTTATATATATATAAAATATAAAAATTATTTAT
Found at i:16440076 original size:25 final size:24
Alignment explanation
Indices: 16440022--16440078 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
16440012 AACATATTTT
*
16440022 TTATTTTTATTAAATTTATATATA
1 TTATTTTTATTAAATTTAAATATA
*
16440046 TAATTTTTATTAAAATTTTAAAT-TA
1 TTATTTTTATT-AAA-TTTAAATATA
16440071 TTATTTTT
1 TTATTTTT
16440079 TTGGTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.36
25 12 0.43
26 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTTTTATTAAATTTAAATATA
Found at i:16442052 original size:20 final size:18
Alignment explanation
Indices: 16442025--16442062 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
16442015 AATGTAATTT
16442025 TATAATTAAAATAATAAAA
1 TATAATTAAAATAA-AAAA
16442044 TATATATTAAAATAAAAAA
1 TATA-ATTAAAATAAAAAA
16442063 GCTTGAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAATTAAAATAAAAAA
Found at i:16445120 original size:43 final size:43
Alignment explanation
Indices: 16445044--16445134 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
16445034 AAAATGAAAC
* * *
16445044 AAAAGTTTATTATCCTTTTGTTTAGTTTCCAATCATTATCTAT
1 AAAATTTTAATATCATTTTGTTTAGTTTCCAATCATTATCTAT
*
16445087 AAAATTTTAATATCATTTTGTTTAGTTTTCAATCATTATCTAT
1 AAAATTTTAATATCATTTTGTTTAGTTTCCAATCATTATCTAT
16445130 AAAAT
1 AAAAT
16445135 GACTAGTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (43 bp):
AAAATTTTAATATCATTTTGTTTAGTTTCCAATCATTATCTAT
Found at i:16445280 original size:13 final size:13
Alignment explanation
Indices: 16445262--16445286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16445252 TATAAAGTTA
16445262 ATAACAATCCCTC
1 ATAACAATCCCTC
16445275 ATAACAATCCCT
1 ATAACAATCCCT
16445287 TATGATAGCA
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:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAACAATCCCTC
Found at i:16446519 original size:15 final size:15
Alignment explanation
Indices: 16446498--16446564 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
16446488 TTTATCAAAC
16446498 AACAACAAAAATAAT
1 AACAACAAAAATAAT
* **
16446513 GACAACATTAATAAT
1 AACAACAAAAATAAT
*
16446528 AACAA-AAAAATAAA
1 AACAACAAAAATAAT
* * * *
16446542 AATAACAATAACAAC
1 AACAACAAAAATAAT
16446557 AACAACAA
1 AACAACAA
16446565 CAACAACAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
14 10 0.26
15 29 0.74
ACGTcount: A:0.70, C:0.15, G:0.01, T:0.13
Consensus pattern (15 bp):
AACAACAAAAATAAT
Found at i:16446553 original size:6 final size:6
Alignment explanation
Indices: 16446525--16446600 Score: 73
Period size: 6 Copynumber: 12.8 Consensus size: 6
16446515 CAACATTAAT
* * * * *
16446525 AATAAC AA-AAA AATAAA AATAAC AATAAC AACAAC AACAAC AACAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* * *
16446572 AATAAC AACAAC AACAAC AATAAT AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAA
16446601 ATCATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
5 4 0.06
6 58 0.94
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.11
Consensus pattern (6 bp):
AATAAC
Found at i:16446559 original size:3 final size:3
Alignment explanation
Indices: 16446545--16446591 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
16446535 AAATAAAAAT
* *
16446545 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16446592 TAATAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:16448061 original size:61 final size:59
Alignment explanation
Indices: 16447996--16448136 Score: 185
Period size: 60 Copynumber: 2.3 Consensus size: 59
16447986 GTTTGGCATG
* ** *
16447996 AAAAATACCTTAAATAATCTTGTTCAATTTTTTTTAGTATTATTTAAGGTGTTTTCTAGC-C
1 AAAAATACCTTAAATAAT-TTATTCAATTTTTTAGAG-ATTATTTAAGGTGTTTT-TAGCAA
* *
16448057 AAAAACACCTTAAATAAGTTTATTCAATTTTTTAGAGATTATTTAAGGTGTTTTTGGCAA
1 AAAAATACCTTAAATAA-TTTATTCAATTTTTTAGAGATTATTTAAGGTGTTTTTAGCAA
16448117 AAAAATACCTTAAATAATTT
1 AAAAATACCTTAAATAATTT
16448137 TTTATAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
59 6 0.08
60 33 0.46
61 31 0.44
62 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (59 bp):
AAAAATACCTTAAATAATTTATTCAATTTTTTAGAGATTATTTAAGGTGTTTTTAGCAA
Found at i:16448183 original size:63 final size:61
Alignment explanation
Indices: 16448092--16448259 Score: 171
Period size: 63 Copynumber: 2.7 Consensus size: 61
16448082 AATTTTTTAG
* ***
16448092 AGATTATTTAAGGTGTTTTTG-GCAAAAAAATACCTTAAATAATTTTTTATAAAAAATTAAAT-A
1 AGATTATTTAAGAT-TTTTTGAGC-AAAAAATACCTTAAATAATCCATTA-AAAAAATT-AATCA
* * *
16448155 AGATTATTTAAGATCTTTTCGAGCAAAAAATATCTTAAATAATCCATTAAAAAAATTGATCA
1 AGATTATTTAAGAT-TTTTTGAGCAAAAAATACCTTAAATAATCCATTAAAAAAATTAATCA
* *
16448217 ACATTATTTAAGGTATTTTTTGA-TAAAAAATACCTTAAATAAT
1 AGATTATTTAA-G-ATTTTTTGAGCAAAAAATACCTTAAATAAT
16448260 AAAAAAAATC
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
61 2 0.02
62 37 0.42
63 46 0.52
64 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (61 bp):
AGATTATTTAAGATTTTTTGAGCAAAAAATACCTTAAATAATCCATTAAAAAAATTAATCA
Found at i:16448604 original size:63 final size:61
Alignment explanation
Indices: 16448404--16448762 Score: 246
Period size: 63 Copynumber: 5.8 Consensus size: 61
16448394 ATAATTGATG
* * ** * * * * *
16448404 AAAAAAATTATTTAAGGTATTTTT-GATAAAAAATACTTTAAATAATACAGTTCAAAAAATTG
1 AAAAGAATTATTTAA-GTATTTTTGGATAAAAAATACCTTAAATAAT-CTTTTGATACATTTT
** * ** * * * *
16448466 AAGGGTATTATTTAAGATATTTTTGG-TGAAAAAATATTTTAAATAATATCCTTTAAAAAATTTT
1 AAAAGAATTATTTAAG-TATTTTTGGAT-AAAAAATACCTTAAAT-A-ATCTTTTGATACATTTT
* * *
16448530 AAAAG-AGTATTTAATGTGTTTTTGGATAAAAAATACCTTAAATAATCTCTTGATACATTTT
1 AAAAGAATTATTTAA-GTATTTTTGGATAAAAAATACCTTAAATAATCTTTTGATACATTTT
* * * *
16448591 AAAGAGAATTATTTAAAGTATTTTTGGACAAAAAATACCTCAAATAATCTTTTTA-AAATTTTT
1 AAA-AGAATTATTT-AAGTATTTTTGGATAAAAAATACCTTAAATAATCTTTTGATACA-TTTT
* * * ** *
16448654 AAAGGACATTATTTAAGGA-TTTT--ATCCAAAAAGGCCTTAAGTAATCTTTTGATACATTTT
1 AAAAGA-ATTATTTAAGTATTTTTGGAT-AAAAAATACCTTAAATAATCTTTTGATACATTTT
* *
16448714 AAAAGGGATTATTTAAGGTATTTTTGAATAAAAAATACCTTAAATAATC
1 AAAA-GAATTATTTAA-GTATTTTTGGATAAAAAATACCTTAAATAATC
16448763 CATTTTAAAA
Statistics
Matches: 233, Mismatches: 45, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
59 1 0.00
60 36 0.15
61 25 0.11
62 34 0.15
63 115 0.49
64 20 0.09
65 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (61 bp):
AAAAGAATTATTTAAGTATTTTTGGATAAAAAATACCTTAAATAATCTTTTGATACATTTT
Found at i:16449331 original size:23 final size:23
Alignment explanation
Indices: 16449304--16449351 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16449294 AGTAAAAATC
*
16449304 AAAAGAAAGAAGAGAA-ACAAAAA
1 AAAAGAAAGAA-AAAAGACAAAAA
16449327 AAAAGAAAGAAAAAAGACAAAAA
1 AAAAGAAAGAAAAAAGACAAAAA
16449350 AA
1 AA
16449352 GGGAAATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAGAAAGAAAAAAGACAAAAA
Found at i:16460063 original size:4 final size:4
Alignment explanation
Indices: 16460056--16460099 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
16460046 AATATATATA
* *
16460056 TATG TATG TATG TAAG TATG AATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
16460100 CTACTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:16460385 original size:2 final size:2
Alignment explanation
Indices: 16460351--16460375 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16460341 ATGTAAAATA
16460351 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
16460376 AAGAATATAT
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:16462162 original size:13 final size:14
Alignment explanation
Indices: 16462136--16462168 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16462126 AGTACAATTT
16462136 ATTAAAAGAAAGTC
1 ATTAAAAGAAAGTC
16462150 ATTAAAA-AAAGTC
1 ATTAAAAGAAAGTC
*
16462163 TTTAAA
1 ATTAAA
16462169 TATCTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (14 bp):
ATTAAAAGAAAGTC
Found at i:16465859 original size:19 final size:21
Alignment explanation
Indices: 16465835--16465873 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
16465825 ACTTTAATAA
16465835 TAAATAATT-T-TTAATATTT
1 TAAATAATTATATTAATATTT
*
16465854 TAAATAGTTATATTAATATT
1 TAAATAATTATATTAATATT
16465874 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TAAATAATTATATTAATATTT
Found at i:16465859 original size:26 final size:24
Alignment explanation
Indices: 16465793--16465856 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 24
16465783 TTTTTGAATA
16465793 TTAATAATTTTAATAATAAATAATT
1 TTAAT-ATTTTAATAATAAATAATT
*
16465818 TCAATATACTTTAATAATAAATAATTT
1 TTAATAT--TTTAATAATAAATAA-TT
16465845 TTAATATTTTAA
1 TTAATATTTTAA
16465857 ATAGTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 2 0.06
25 9 0.26
26 15 0.44
27 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATATTTTAATAATAAATAATT
Found at i:16472232 original size:15 final size:15
Alignment explanation
Indices: 16472185--16472234 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
16472175 TCATTGATAT
16472185 TTTATTGCATGAA-A
1 TTTATTGCATGAACA
* * *
16472199 -TTATTTGGATGATCT
1 TTTA-TTGCATGAACA
16472214 TTTATTGCATGAACA
1 TTTATTGCATGAACA
16472229 TTTATT
1 TTTATT
16472235 TTATTCGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 14 0.52
16 3 0.11
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (15 bp):
TTTATTGCATGAACA
Found at i:16472690 original size:14 final size:14
Alignment explanation
Indices: 16472667--16472696 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16472657 AATTACACAA
*
16472667 ATATATATAACTAT
1 ATATAAATAACTAT
16472681 ATATAAATAACTAT
1 ATATAAATAACTAT
16472695 AT
1 AT
16472697 TTAAGTCTTA
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAAATAACTAT
Found at i:16473044 original size:16 final size:15
Alignment explanation
Indices: 16473023--16473052 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16473013 ATTTTTATTT
16473023 TTATATCATATTTATA
1 TTATATCAT-TTTATA
16473039 TTATATCATTTTAT
1 TTATATCATTTTAT
16473053 CATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATCATTTTATA
Found at i:16474059 original size:20 final size:19
Alignment explanation
Indices: 16474033--16474201 Score: 83
Period size: 18 Copynumber: 9.1 Consensus size: 19
16474023 ATATTTAATA
*
16474033 TTTATTT-TGTTTCATATTT
1 TTTATTTATATTT-ATATTT
16474052 TGTTATTTATATTTATATTT
1 T-TTATTTATATTTATATTT
*
16474072 TTTATATTTTATGTTATA-TT
1 TTTAT-TTATAT-TTATATTT
* *
16474092 TAT-TTTATAATTT-TATGT
1 TTTATTTAT-ATTTATATTT
*
16474110 TATATTTATA-TT-TATTT
1 TTTATTTATATTTATATTT
* *
16474127 TATATTTATCTTTATCA--T
1 TTTATTTATATTTAT-ATTT
*
16474145 TATATTTATATTTAT-TTAT
1 TTTATTTATATTTATATT-T
*
16474164 CTTTATTT-TATTT-TACTT
1 -TTTATTTATATTTATATTT
*
16474182 CTTATTTATCATTT-TATTT
1 TTTATTTAT-ATTTATATTT
16474201 T
1 T
16474202 ATTTATTATT
Statistics
Matches: 120, Mismatches: 13, Indels: 34
0.72 0.08 0.20
Matches are distributed among these distances:
17 23 0.19
18 30 0.25
19 29 0.24
20 29 0.24
21 9 0.08
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTTATATTTATATTT
Found at i:16474066 original size:6 final size:6
Alignment explanation
Indices: 16474055--16474212 Score: 114
Period size: 6 Copynumber: 27.8 Consensus size: 6
16474045 CATATTTTGT
16474055 TATTTA TATTTA TA-TT- T-TTTA TATTT- TATGTTA TATTTA T-TTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT-TTA TATTTA TATTTA
*
16474099 TAATTT- TATGTTA TATTTA TATTTA T-TTTA TATTTA TCTTTA TCA-TTA
1 T-ATTTA TAT-TTA TATTTA TATTTA TATTTA TATTTA TATTTA T-ATTTA
* *
16474147 TATTTA TA-TT- TATTTA TCTTTA T-TTTA T-TTTA CT-TCT- TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA -TATTTA TATTTA
16474190 TCATTT- TATTT- TATTTA TTATTT
1 T-ATTTA TATTTA TATTTA -TATTT
16474213 TATCTTATCT
Statistics
Matches: 127, Mismatches: 5, Indels: 39
0.74 0.03 0.23
Matches are distributed among these distances:
4 6 0.05
5 43 0.34
6 60 0.47
7 18 0.14
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:16474210 original size:24 final size:22
Alignment explanation
Indices: 16474054--16474229 Score: 105
Period size: 24 Copynumber: 7.5 Consensus size: 22
16474044 TCATATTTTG
16474054 TTATTTATATTTATATTT-T-TT
1 TTATTT-TATTTATATTTATATT
*
16474075 ATATTTTATGTTATATTTAT-TT
1 TTATTTTAT-TTATATTTATATT
16474097 TATAATTTTATGTTATATTTATA-T
1 T-T-ATTTTAT-TTATATTTATATT
*
16474121 TTATTTTATATTTATCTTTATCATT
1 TTA-TTT-TATTTATATTTAT-ATT
*
16474146 ATATTTATATTTATTTATCTT-TATT
1 TTATTT-TATTTA--TAT-TTATATT
16474171 TTATTTTACTTCT-TATTTATCATT
1 TTATTTTA-TT-TATATTTAT-ATT
*
16474195 TTATTTTATTTATTATTT-TATC
1 TTATTTTATTTA-TATTTATATT
*
16474217 TTATCTTTGTTTA
1 TTAT-TTTATTTA
16474230 ATGTTTTTGT
Statistics
Matches: 128, Mismatches: 8, Indels: 36
0.74 0.05 0.21
Matches are distributed among these distances:
20 3 0.02
21 13 0.10
22 13 0.10
23 28 0.22
24 52 0.41
25 13 0.10
26 4 0.03
27 2 0.02
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTTTATTTATATTTATATT
Found at i:16474782 original size:19 final size:19
Alignment explanation
Indices: 16474760--16474798 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16474750 GAATTTTTTG
16474760 ATGAAAATCTTAGTTTTCA
1 ATGAAAATCTTAGTTTTCA
* *
16474779 ATGAAAATTTTTGTTTTCA
1 ATGAAAATCTTAGTTTTCA
16474798 A
1 A
16474799 CAAACTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
ATGAAAATCTTAGTTTTCA
Found at i:16478995 original size:13 final size:14
Alignment explanation
Indices: 16478974--16479002 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16478964 GTGAAGCTCA
16478974 AGCTGTGAGCTTTG
1 AGCTGTGAGCTTTG
16478988 AGCT-TGAGCTTTG
1 AGCTGTGAGCTTTG
16479001 AG
1 AG
16479003 GGGAAGCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.14, G:0.34, T:0.34
Consensus pattern (14 bp):
AGCTGTGAGCTTTG
Found at i:16483317 original size:25 final size:25
Alignment explanation
Indices: 16483289--16483341 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16483279 AAATCTAAAC
16483289 AAAATTTTTCACCTAAAAATTTTATA
1 AAAATTTTT-ACCTAAAAATTTTATA
** *
16483315 AAAATTTTTATTTAAAATTTTTATA
1 AAAATTTTTACCTAAAAATTTTATA
16483340 AA
1 AA
16483342 TTTCATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAATTTTTACCTAAAAATTTTATA
Found at i:16483394 original size:13 final size:13
Alignment explanation
Indices: 16483378--16483402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16483368 TTCTCAAAAT
16483378 TTTTATTTTATTA
1 TTTTATTTTATTA
16483391 TTTTATTTTATT
1 TTTTATTTTATT
16483403 TTTGATAAAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:16483415 original size:5 final size:5
Alignment explanation
Indices: 16483407--16483454 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
16483397 TTTATTTTTG
*
16483407 ATAAA ATAAA A-AAA AGTAAA A-CAA AT-AA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA A-TAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
16483454 A
1 A
16483455 AATACCAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
4 15 0.41
5 18 0.49
6 4 0.11
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:16483427 original size:9 final size:8
Alignment explanation
Indices: 16483409--16483456 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
16483399 TATTTTTGAT
16483409 AAAATAAAA
1 AAAAT-AAA
16483418 AAAAGTAAA
1 AAAA-TAAA
16483427 ACAAATAAA
1 A-AAATAAA
16483436 TAAAATAAA
1 -AAAATAAA
16483445 ATAAATAAA
1 A-AAATAAA
16483454 AAA
1 AAA
16483457 TACCAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.09
9 27 0.77
10 5 0.14
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (8 bp):
AAAATAAA
Found at i:16484270 original size:27 final size:26
Alignment explanation
Indices: 16484236--16484293 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
16484226 ATAATTGGAT
**
16484236 AAATAAAAGTAAATAGATAAATAATAA
1 AAATAAAAAAAAATAGATAAAT-ATAA
*
16484263 TAATAAAAAAAAATAGATAAATATAA
1 AAATAAAAAAAAATAGATAAATATAA
16484289 AAATA
1 AAATA
16484294 TTAATAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (26 bp):
AAATAAAAAAAAATAGATAAATATAA
Found at i:16484271 original size:45 final size:45
Alignment explanation
Indices: 16484220--16484324 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 45
16484210 ATGGATAACA
* * *
16484220 AAAAAAATAATTGGAT-AA-ATAAAAGTA-AATAGATAAATAATAAT
1 AAAAAAATAAATAGATAAATATAAAAATATAATAGATAAA-AA-AAT
*
16484264 AATAAAAAAAAATAGATAAATATAAAAATATTAATAGATAAAAAAAT
1 AA-AAAAATAAATAGATAAATATAAAAATA-TAATAGATAAAAAAAT
16484311 AAAAAAATATAATA
1 AAAAAAATA-AATA
16484325 AATAGACAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.04
45 11 0.22
46 8 0.16
47 17 0.34
48 2 0.04
49 10 0.20
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (45 bp):
AAAAAAATAAATAGATAAATATAAAAATATAATAGATAAAAAAAT
Found at i:16484308 original size:18 final size:17
Alignment explanation
Indices: 16484254--16484359 Score: 83
Period size: 18 Copynumber: 6.1 Consensus size: 17
16484244 GTAAATAGAT
16484254 AAATAATAATAATAAAA
1 AAATAATAATAATAAAA
*
16484271 AAA-AATAGATAAATATAA
1 AAATAATA-AT-AATAAAA
*
16484289 AAATATTAATAGATAAAA
1 AAATAATAATA-ATAAAA
* *
16484307 AAATAA-AAAAATATAAT
1 AAATAATAATAATA-AAA
*
16484324 AAATAGACAATAATAAAA
1 AAATA-ATAATAATAAAA
*
16484342 TAAACAATAA-AATAAAA
1 -AAATAATAATAATAAAA
16484359 A
1 A
16484360 TAAAAGCCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
16 8 0.11
17 23 0.32
18 27 0.38
19 13 0.18
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAATAATAATAAAA
Found at i:16484319 original size:34 final size:32
Alignment explanation
Indices: 16484252--16484359 Score: 92
Period size: 34 Copynumber: 3.2 Consensus size: 32
16484242 AAGTAAATAG
* *
16484252 ATAAATAATAATAATAAAAAAAAATAGATAAAT
1 ATAAA-AATAATAATAAAAAAAAATAAAAAAAT
*
16484285 ATAAAAATATTAATAGATAAAAAAATAAAAAAAT
1 ATAAAAATAATAATA-A-AAAAAAATAAAAAAAT
* * *
16484319 ATAATAAATAGACAATAATAAAATAAACAATAAAAT
1 ATAA-AAATA-ATAATAA-AAAA-AAATAAAAAAAT
16484355 A-AAAA
1 ATAAAA
16484360 TAAAAGCCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 9 0.14
33 6 0.10
34 20 0.32
35 13 0.21
36 15 0.24
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (32 bp):
ATAAAAATAATAATAAAAAAAAATAAAAAAAT
Found at i:16484328 original size:35 final size:36
Alignment explanation
Indices: 16484252--16484350 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 36
16484242 AAGTAAATAG
16484252 ATAAATAATAATAATAAAAAAAAATAGATAAATATA
1 ATAAATAATAATAATAAAAAAAAATAGATAAATATA
*
16484288 A-AAATATTAATAGATAAAAAAATAA-A-A-AAATATA
1 ATAAATAATAATA-ATAAAAAAA-AATAGATAAATATA
*
16484322 ATAAATAGACAATAATAAAATAAACAATA
1 ATAAATA-ATAATAATAAAA-AAA-AATA
16484351 AAATAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
34 8 0.15
35 22 0.42
36 20 0.38
37 3 0.06
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (36 bp):
ATAAATAATAATAATAAAAAAAAATAGATAAATATA
Found at i:16484352 original size:12 final size:11
Alignment explanation
Indices: 16484252--16484364 Score: 58
Period size: 12 Copynumber: 10.1 Consensus size: 11
16484242 AAGTAAATAG
16484252 ATAAATAATAATA
1 ATAAA-AATAA-A
16484265 ATAAAAA-AAA
1 ATAAAAATAAA
*
16484275 AT--AGATAAA
1 ATAAAAATAAA
*
16484284 TATAAAAATATTA
1 -ATAAAAATA-AA
16484297 ATAGATAAA-AAA
1 ATA-A-AAATAAA
*
16484309 ATAAAAA-AAT
1 ATAAAAATAAA
*
16484319 ATAATAAAT-AG
1 ATAA-AAATAAA
* *
16484330 ACAATAATAAA
1 ATAAAAATAAA
16484341 ATAAACAATAAA
1 ATAAA-AATAAA
16484353 ATAAAAATAAA
1 ATAAAAATAAA
16484364 A
1 A
16484365 GCCAATTGGG
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
8 2 0.03
9 3 0.04
10 17 0.22
11 21 0.27
12 24 0.31
13 8 0.10
14 3 0.04
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:16484354 original size:44 final size:44
Alignment explanation
Indices: 16484252--16484364 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
16484242 AAGTAAATAG
* *
16484252 ATAAATAATAATAATAAAAAAAAATAGATAAATATAAAAATATTA
1 ATAAATAATAA-AATAAAAAAAAATAGATAAATAGAAAAATATAA
* * *
16484297 ATAGATAAAAAAATAAAAAAATATA-ATAAATAGACAATAATA-AA
1 ATAAATAATAAAATAAAAAAAAATAGATAAATAGA-AA-AATATAA
*
16484341 ATAAACAATAAAATAAAAATAAAA
1 ATAAATAATAAAATAAAAA-AAAA
16484365 GCCAATTGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 8 0.14
44 32 0.57
45 16 0.29
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (44 bp):
ATAAATAATAAAATAAAAAAAAATAGATAAATAGAAAAATATAA
Found at i:16484361 original size:18 final size:18
Alignment explanation
Indices: 16484237--16484363 Score: 77
Period size: 19 Copynumber: 6.9 Consensus size: 18
16484227 TAATTGGATA
16484237 AATAAAAGTAAATAGATAAAT
1 AATAAAA-TAAA-A-ATAAAT
*
16484258 AATAATAATAAAAAAAAAT
1 AATAA-AATAAAAATAAAT
*
16484277 AGATAAATATAAAAAT-ATT
1 A-ATAAA-ATAAAAATAAAT
*
16484296 AAT-AGAT-AAAA-AAAT
1 AATAAAATAAAAATAAAT
* *
16484311 AAAAAAAT-ATAATAAAT
1 AATAAAATAAAAATAAAT
* *
16484328 AGACAATAAT-AAAATAAAC
1 A-ATAA-AATAAAAATAAAT
16484347 AATAAAATAAAAATAAA
1 AATAAAATAAAAATAAA
16484364 AGCCAATTGG
Statistics
Matches: 85, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
15 8 0.09
16 8 0.09
17 9 0.11
18 16 0.19
19 21 0.25
20 12 0.14
21 9 0.11
22 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AATAAAATAAAAATAAAT
Found at i:16487298 original size:15 final size:15
Alignment explanation
Indices: 16487280--16487327 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
16487270 CCTTACATGG
16487280 AAAGAAAAGAGAAAA
1 AAAGAAAAGAGAAAA
16487295 AAAG--AAGAGAAAA
1 AAAGAAAAGAGAAAA
*
16487308 AAATAAAA-AGAAAA
1 AAAGAAAAGAGAAAA
16487322 ACAAGA
1 A-AAGA
16487328 CTCAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 12 0.43
14 7 0.25
15 9 0.32
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAGAAAA
Found at i:16488449 original size:39 final size:39
Alignment explanation
Indices: 16488405--16488495 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
16488395 GTAGTTTTTC
** * *
16488405 TTAATTTTTAAAGTTATATGGCTAAGTTTTAGAGGTGTT
1 TTAATTTTTAAAGTTATATACCTAAGTTTTAGAGGAGTA
* * * *
16488444 TTAATTTTTAAAGTTGTTTACCTTAGTTTTAGGGGAGTA
1 TTAATTTTTAAAGTTATATACCTAAGTTTTAGAGGAGTA
16488483 TTAATTTTTAAAG
1 TTAATTTTTAAAG
16488496 CTATGTGTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (39 bp):
TTAATTTTTAAAGTTATATACCTAAGTTTTAGAGGAGTA
Found at i:16488619 original size:39 final size:38
Alignment explanation
Indices: 16488448--16488653 Score: 153
Period size: 39 Copynumber: 5.3 Consensus size: 38
16488438 GGTGTTTTAA
* ** ** *
16488448 TTTTTAAAGTTGTTTACCTTAGTTTTAGGGGAGTATTAA
1 TTTTTAAAGTTGTAT-CCTTAGTTTTAGAAGAGCCTTAT
* * *
16488487 TTTTTAAAGCTATGTGT-CTCATTTTTAGAAGAGCCTTAT
1 TTTTTAAAG-T-TGTATCCTTAGTTTTAGAAGAGCCTTAT
* * * * * *
16488526 TTTTAAAAGTTGTGTGCTTTGTTTTAGAGGAACCTTATT
1 TTTTTAAAGTTGTATCCTTAGTTTTAGAAGAGCCTTA-T
*
16488565 TTTTTAAAAGTTGTATCCCTTAGTTTTGGAAGAGCCTTAT
1 TTTTT-AAAGTTGTAT-CCTTAGTTTTAGAAGAGCCTTAT
* * * * *
16488605 TTTTTAAAGTTGTATGCCTCAATTTTAGAAAAGCTTTAA
1 TTTTTAAAGTTGTAT-CCTTAGTTTTAGAAGAGCCTTAT
16488644 TTTTTAAAGT
1 TTTTTAAAGT
16488654 CGTGTACCTC
Statistics
Matches: 133, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
37 5 0.04
38 17 0.13
39 74 0.56
40 16 0.12
41 21 0.16
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (38 bp):
TTTTTAAAGTTGTATCCTTAGTTTTAGAAGAGCCTTAT
Found at i:16488893 original size:6 final size:6
Alignment explanation
Indices: 16488884--16489003 Score: 52
Period size: 6 Copynumber: 20.3 Consensus size: 6
16488874 TATATTGTTA
* * * *
16488884 TTTATT TTTATT TTTATT TTATAAT TTTA-T GTTATA TTTATC TTTA-T
1 TTTATT TTTATT TTTATT TT-TATT TTTATT TTTATT TTTATT TTTATT
* * ** * * *
16488931 TTTATC TTTATC AATATA TTTATA TTTA-T TTTA-T TTTACTT CTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
* * *
16488978 TATCTT TTGA-T TTTATT TATTATT TT
1 TTTATT TTTATT TTTATT T-TTATT TT
16489004 ATCTTTACTA
Statistics
Matches: 86, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
5 21 0.24
6 50 0.58
7 15 0.17
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTATT
Found at i:16488894 original size:30 final size:29
Alignment explanation
Indices: 16488854--16488935 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
16488844 ATGCCAATAT
*
16488854 TGTT-TTTTTATATTGTTTTATATATTGTTA
1 TGTTATTTTTATATTATTTTATA-ATT-TTA
*
16488884 T-TTATTTTTATTTTTATTTTATAATTTTA
1 TGTTATTTTTA-TATTATTTTATAATTTTA
* *
16488913 TGTTATATTTATCTTTATTTTAT
1 TGTTATTTTTAT-ATTATTTTAT
16488936 CTTTATCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 7 0.16
30 28 0.62
31 10 0.22
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (29 bp):
TGTTATTTTTATATTATTTTATAATTTTA
Found at i:16496274 original size:29 final size:27
Alignment explanation
Indices: 16496241--16496298 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
16496231 ATTTTGTTTG
*
16496241 AAATAAAAGCTTATTTATATACAATTAAA
1 AAATAAAAACTTATTTA-ATACAA-TAAA
* *
16496270 AAATAAAAATTTATTTAGTACAATAAA
1 AAATAAAAACTTATTTAATACAATAAA
16496297 AA
1 AA
16496299 TGTAAGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 5 0.19
29 15 0.58
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
AAATAAAAACTTATTTAATACAATAAA
Found at i:16497541 original size:17 final size:17
Alignment explanation
Indices: 16497521--16497565 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
16497511 ATATTTTTAA
*
16497521 AATTATTATAATAATTT
1 AATTATTAAAATAATTT
16497538 AATTATTGAAAATAATTT
1 AATTATT-AAAATAATTT
16497556 -ATTATTAAAA
1 AATTATTAAAA
16497566 ATGATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 13 0.50
18 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
AATTATTAAAATAATTT
Found at i:16497566 original size:17 final size:18
Alignment explanation
Indices: 16497521--16497572 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
16497511 ATATTTTTAA
*
16497521 AATTATT-ATAATAATTT
1 AATTATTAAAAATAATTT
*
16497538 AATTATTGAAAATAATTT
1 AATTATTAAAAATAATTT
*
16497556 -ATTATTAAAAATGATTT
1 AATTATTAAAAATAATTT
16497573 TATCACTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
AATTATTAAAAATAATTT
Found at i:16502173 original size:13 final size:13
Alignment explanation
Indices: 16502139--16502181 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
16502129 ATGAACGAAG
*
16502139 AAAGAGAAATGAAA
1 AAAGAG-AATAAAA
16502153 AAAGAGAA-AAAA
1 AAAGAGAATAAAA
16502165 AAAGAAGAATAAAA
1 AAAG-AGAATAAAA
16502179 AAA
1 AAA
16502182 TAAAGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.27
13 6 0.23
14 13 0.50
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (13 bp):
AAAGAGAATAAAA
Found at i:16502310 original size:15 final size:16
Alignment explanation
Indices: 16502290--16502320 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16502280 GAGAGAAGAG
16502290 ATAAAGAAG-AAGAAA
1 ATAAAGAAGAAAGAAA
16502305 ATAAAGAAGAAAGAAA
1 ATAAAGAAGAAAGAAA
16502321 GAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
ATAAAGAAGAAAGAAA
Found at i:16502321 original size:26 final size:24
Alignment explanation
Indices: 16502283--16502330 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
16502273 TTCGAGAGAG
* *
16502283 AGAAGAGATAAAGAAGAAGAAAATAA
1 AGAAGAAAGAAAGAA-AA-AAAATAA
16502309 AGAAGAAAGAAAGAAAAAAAAT
1 AGAAGAAAGAAAGAAAAAAAAT
16502331 TGAAAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 2 0.10
26 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (24 bp):
AGAAGAAAGAAAGAAAAAAAATAA
Found at i:16504954 original size:9 final size:8
Alignment explanation
Indices: 16504934--16505013 Score: 53
Period size: 7 Copynumber: 10.0 Consensus size: 8
16504924 CCACAGTGGG
*
16504934 TGAAAGAA
1 TGAAAAAA
16504942 TGAAGAAAA
1 TGAA-AAAA
16504951 TGAAAAAA
1 TGAAAAAA
16504959 -GAAAAAA
1 TGAAAAAA
16504966 --AAAGAAA
1 TGAAA-AAA
16504973 -GAAAAAA
1 TGAAAAAA
*
16504980 GAGAAAAAA
1 -TGAAAAAA
*
16504989 TAAAAAAAAA
1 T--GAAAAAA
16504999 TGAAAAAA
1 TGAAAAAA
16505007 -GAAAAAA
1 TGAAAAAA
16505014 AAGATGAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
6 3 0.05
7 20 0.33
8 17 0.28
9 14 0.23
10 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (8 bp):
TGAAAAAA
Found at i:16504968 original size:10 final size:10
Alignment explanation
Indices: 16504953--16505015 Score: 67
Period size: 10 Copynumber: 6.2 Consensus size: 10
16504943 GAAGAAAATG
16504953 AAAAAAGAAA
1 AAAAAAGAAA
16504963 AAAAAAGAAA
1 AAAAAAGAAA
16504973 GAAAAAAGAGAA
1 -AAAAAAGA-AA
*
16504985 AAAATA-AAA
1 AAAAAAGAAA
*
16504994 AAAAATGAAA
1 AAAAAAGAAA
16505004 AAAGAAA-AAA
1 AAA-AAAGAAA
16505014 AA
1 AA
16505016 GATGAAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.13
10 22 0.49
11 15 0.33
12 2 0.04
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:16504974 original size:34 final size:31
Alignment explanation
Indices: 16504936--16505013 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
16504926 ACAGTGGGTG
* *
16504936 AAAGAATGAAG-AAAATGAAAAAAGAAAAAA
1 AAAGAAAGAAGAAAAAAGAAAAAAGAAAAAA
* *
16504966 AAAGAAAGAA-AAAAGAGAAAAAATAAAAAA
1 AAAGAAAGAAGAAAAAAGAAAAAAGAAAAAA
*
16504996 AAATGAAAAAAGAAAAAA
1 AAA-GAAAGAAGAAAAAA
16505014 AAGATGAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 28 0.72
31 6 0.15
32 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (31 bp):
AAAGAAAGAAGAAAAAAGAAAAAAGAAAAAA
Found at i:16504986 original size:18 final size:18
Alignment explanation
Indices: 16504947--16505032 Score: 85
Period size: 18 Copynumber: 5.1 Consensus size: 18
16504937 AAGAATGAAG
16504947 AAAATGAAAAAAGAAAAA
1 AAAATGAAAAAAGAAAAA
16504965 AAAA-G---AAAG-AAAA
1 AAAATGAAAAAAGAAAAA
* *
16504978 AAGA-GAAAAAATAAAAA
1 AAAATGAAAAAAGAAAAA
16504995 AAAATGAAAAAAGAAAAA
1 AAAATGAAAAAAGAAAAA
**
16505013 AAAGATGAAAGGAGAAAAA
1 AAA-ATGAAAAAAGAAAAA
16505032 A
1 A
16505033 GAAAGACTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
13 8 0.14
14 4 0.07
16 3 0.05
17 8 0.14
18 19 0.34
19 14 0.25
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAATGAAAAAAGAAAAA
Found at i:16504993 original size:27 final size:27
Alignment explanation
Indices: 16504936--16505015 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
16504926 ACAGTGGGTG
*
16504936 AAAGAATGAAGAAAATGAAAAAAGAAAAAA
1 AAAGAAAGAA-AAAA-GAAAAAA-AAAAAA
*
16504966 AAAGAAAGAAAAAAGAGAAAAAATAAAA
1 AAAGAAAGAAAAAAGA-AAAAAAAAAAA
*
16504994 AAA-AATGAAAAAAGAAAAAAAA
1 AAAGAAAGAAAAAAGAAAAAAAA
16505016 GATGAAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.13
27 11 0.24
28 10 0.22
29 9 0.20
30 9 0.20
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (27 bp):
AAAGAAAGAAAAAAGAAAAAAAAAAAA
Found at i:16505014 original size:9 final size:9
Alignment explanation
Indices: 16504953--16505017 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
16504943 GAAGAAAATG
16504953 AAAAAAGAAA
1 AAAAAAG-AA
16504963 AAAAAAGAAA
1 AAAAAAG-AA
*
16504973 GAAAAAAGAG
1 -AAAAAAGAA
*
16504983 AAAAAATAA
1 AAAAAAGAA
*
16504992 AAAAAA-ATG
1 AAAAAAGA-A
16505001 AAAAAAGAA
1 AAAAAAGAA
16505010 AAAAAAGA
1 AAAAAAGA
16505018 TGAAAGGAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
8 1 0.02
9 27 0.57
10 12 0.26
11 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:16505036 original size:7 final size:7
Alignment explanation
Indices: 16504947--16505013 Score: 68
Period size: 7 Copynumber: 9.7 Consensus size: 7
16504937 AAGAATGAAG
*
16504947 AAAATGA
1 AAAAAGA
16504954 AAAAAGA
1 AAAAAGA
16504961 AAAAA-A
1 AAAAAGA
16504967 AAGAAAGA
1 AA-AAAGA
16504975 AAAAAGA
1 AAAAAGA
16504982 GAAAAA-A
1 -AAAAAGA
*
16504989 TAAAA-A
1 AAAAAGA
*
16504995 AAAATGA
1 AAAAAGA
16505002 AAAAAGA
1 AAAAAGA
16505009 AAAAA
1 AAAAA
16505014 AAGATGAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
6 11 0.22
7 32 0.63
8 8 0.16
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:16506377 original size:43 final size:44
Alignment explanation
Indices: 16506328--16506434 Score: 112
Period size: 43 Copynumber: 2.4 Consensus size: 44
16506318 CTTCAAACCA
*
16506328 AAATGAAAAGTTTTGAACTTTTGGATATGAATATCCAAA-AT-TT
1 AAATGAAAAGTTTTGAACTTTTGAATATGAAT-TCCAAATATGTT
* *
16506371 AAATGAAAAGCTTT-ATACTTTTTGAATGTGAATTCCAAATATGTT
1 AAATGAAAAGTTTTGA-AC-TTTTGAATATGAATTCCAAATATGTT
** *
16506416 AAATGTGAACTTTTGAACT
1 AAATGAAAAGTTTTGAACT
16506435 CAGATGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
42 1 0.02
43 21 0.40
44 15 0.29
45 14 0.27
46 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.38
Consensus pattern (44 bp):
AAATGAAAAGTTTTGAACTTTTGAATATGAATTCCAAATATGTT
Found at i:16506777 original size:42 final size:42
Alignment explanation
Indices: 16506699--16506778 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
16506689 TATCAAGTAG
* * * *
16506699 CAATTTATTTTTCAAAAGTTGTGGTGTCTTTATTTAGAGAAA
1 CAATTTATTGTTCAAAAGTTGTGGAGCCTCTATTTAGAGAAA
*
16506741 CAATTTATTGTTCAAAAGTTGTGGAGCCTCTGTTTAGA
1 CAATTTATTGTTCAAAAGTTGTGGAGCCTCTATTTAGA
16506779 AGAGCTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (42 bp):
CAATTTATTGTTCAAAAGTTGTGGAGCCTCTATTTAGAGAAA
Found at i:16506812 original size:43 final size:44
Alignment explanation
Indices: 16506755--16507132 Score: 380
Period size: 43 Copynumber: 8.8 Consensus size: 44
16506745 TTATTGTTCA
* * * *
16506755 AAAGTTGTGGAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTTC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* *
16506799 -AAGTCGTTGAGCCTCTACTTAGAGGAACTTTGTTTA-TTTTTC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* * *
16506841 TAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGTTTATTTTTCC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* *
16506885 AAA-TCGTTGAGCCTCTACTTAGAGAAGCTTTGTTTATTTTTTC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* * * * *
16506928 AAAGTTGTTGAGCCTCTGTTTAGAGGAGGTTTG-TTA-TTGTCC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* * * *
16506970 AAAGTTGTTGAGCTTCTATTTAGAGGAGCTTTATTTATTTTTCC
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
* * **
16507014 AAAAGTCATTGAGCCTCTGA-TTAGAAGAGC--CATTTA--TTTTC
1 -AAAGTCGTTGAGCCTCT-ATTTAGAGGAGCTTTGTTTATTTTTTC
* * * * * *
16507055 AAGGTCGTAGAGCCTTTGTTTAGAGAAGCTTTGTTTATTTGTTTT
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTT-TTTC
*
16507100 AAAGTCGTTGAACCTCTATTTAGAGGAGCTTTG
1 AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
16507133 ATCAAAATTT
Statistics
Matches: 276, Mismatches: 45, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
40 21 0.08
41 4 0.01
42 43 0.16
43 117 0.42
44 37 0.13
45 53 0.19
46 1 0.00
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.42
Consensus pattern (44 bp):
AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTC
Found at i:16506965 original size:129 final size:131
Alignment explanation
Indices: 16506764--16507132 Score: 423
Period size: 129 Copynumber: 2.8 Consensus size: 131
16506754 AAAAGTTGTG
* ** *
16506764 GAGCCTCTGTTTAGAAGAGCTTTGTTTATTTTTTC-AAGTCGTTGAGCCTCTACTTAGAGGAACT
1 GAGCCTCT-ATTAGAAGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCT
* *
16506828 TTGTTTATTTTTCTAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGTTTATTTTTCC-AAA-TCG
65 TTGTTTATTTTTCTAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCCAAAAGTCA
16506891 TT
130 TT
* *
16506893 GAGCCTCTACTTAG-AGAAGCTTTGTTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGG
1 GAGCCTCTA-TTAGAAG-AGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* * * * * *
16506957 TTTG-TTATTGTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTTATTTATTTTTCCAAAAGTC
64 TTTGTTTATTTTTCTAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCCAAAAGTC
16507021 ATT
129 ATT
** * * * *
16507024 GAGCCTCTGATTAGAAGAGC--CATTTA--TTTTCAAGGTCGTAGAGCCTTTGTTTAGAGAAGCT
1 GAGCCTCT-ATTAGAAGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCT
* *
16507085 TTGTTTATTTGTTTTAAAGTCGTTGAACCTCTATTTAGAGGAGCTTTG
65 TTGTTTATTT-TTCT-AAGTCGTTGAGCCTCTATTTAGAGGAGCTTTG
16507133 ATCAAAATTT
Statistics
Matches: 200, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
127 32 0.16
128 7 0.04
129 81 0.41
130 58 0.29
131 19 0.09
132 3 0.01
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (131 bp):
GAGCCTCTATTAGAAGAGCTTTGTTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
TGTTTATTTTTCTAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCCAAAAGTCAT
T
Found at i:16507370 original size:3 final size:3
Alignment explanation
Indices: 16507341--16507423 Score: 60
Period size: 3 Copynumber: 25.7 Consensus size: 3
16507331 TGTATCTTAT
* *
16507341 TTA TTA TTTA TTTA TTTA TTG TTA TTA TTA TTA TTA TTA TTTA TTA ATA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
16507390 -TA TATA TTT TTA TCTA TTA ATA TATA TTA TTA TT
1 TTA T-TA TTA TTA T-TA TTA TTA T-TA TTA TTA TT
16507424 TATCTATTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
2 2 0.03
3 42 0.63
4 23 0.34
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16507384 original size:10 final size:10
Alignment explanation
Indices: 16507337--16507471 Score: 80
Period size: 10 Copynumber: 13.2 Consensus size: 10
16507327 ATTTTGTATC
16507337 TTATTTATTA
1 TTATTTATTA
16507347 TTTATTTATTTA
1 -TTATTTA-TTA
*
16507359 TT-GTTATTA
1 TTATTTATTA
16507368 TTA-TTATTA
1 TTATTTATTA
16507377 TTATTTATTAA
1 TTATTTATT-A
* *
16507388 TATATATATTT
1 T-TATTTATTA
*
16507399 TTATCTATTA
1 TTATTTATTA
* *
16507409 ATATATATTA
1 TTATTTATTA
16507419 TTATTTATCTA
1 TTATTTAT-TA
*
16507430 TTAATGTA-TA
1 TT-ATTTATTA
*
16507440 TGAATTT-TTA
1 T-TATTTATTA
* *
16507450 TTATTAACTA
1 TTATTTATTA
*
16507460 TTATCTATTA
1 TTATTTATTA
16507470 TT
1 TT
16507472 TATCTATTGG
Statistics
Matches: 96, Mismatches: 18, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
9 17 0.18
10 49 0.51
11 16 0.17
12 14 0.15
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (10 bp):
TTATTTATTA
Found at i:16507440 original size:48 final size:45
Alignment explanation
Indices: 16507366--16507479 Score: 144
Period size: 48 Copynumber: 2.5 Consensus size: 45
16507356 TTATTGTTAT
*
16507366 TATTATTATTA-TTATTTATTAATATAT-ATATTTTTATCTATTAA-
1 TATTATTATTATTTATCTATTAATATATGA-ATTTTTAT-TATTAAC
16507410 TATATATTATTATTTATCTATTAATGTATATGAATTTTTATTATTAAC
1 TAT-TATTATTATTTATCTATTAA--TATATGAATTTTTATTATTAAC
16507458 TATTATCTATTATTTATCTATT
1 TATTAT-TATTATTTATCTATT
16507480 GGTATATACA
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
44 3 0.05
45 8 0.13
46 10 0.16
47 9 0.15
48 31 0.50
49 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (45 bp):
TATTATTATTATTTATCTATTAATATATGAATTTTTATTATTAAC
Found at i:16507450 original size:28 final size:24
Alignment explanation
Indices: 16507352--16507479 Score: 128
Period size: 22 Copynumber: 5.5 Consensus size: 24
16507342 TATTATTTAT
* *
16507352 TTATTTAT-TGTTATTAT-TATTA
1 TTATTTATCTATTAATATATATTA
*
16507374 TTA-TTATTTATTAATATATA-TA
1 TTATTTATCTATTAATATATATTA
16507396 TT-TTTATCTATTAATATATATTA
1 TTATTTATCTATTAATATATATTA
* *
16507419 TTATTTATCTATTAATGTATATGAA
1 TTATTTATCTATTAATATATAT-TA
16507444 TT-TTTAT-TATTAACTAT-TATCTA
1 TTATTTATCTATTAA-TATATAT-TA
16507467 TTATTTATCTATT
1 TTATTTATCTATT
16507480 GGTATATACA
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
21 4 0.04
22 30 0.34
23 18 0.20
24 30 0.34
25 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATTTATCTATTAATATATATTA
Found at i:16507777 original size:13 final size:14
Alignment explanation
Indices: 16507754--16507782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16507744 CAAGATTGTG
16507754 TTTAGAATTTTTTT
1 TTTAGAATTTTTTT
16507768 TTTA-AATTTTTTT
1 TTTAGAATTTTTTT
16507781 TT
1 TT
16507783 AATTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTAGAATTTTTTT
Found at i:16508502 original size:57 final size:58
Alignment explanation
Indices: 16508330--16508605 Score: 323
Period size: 58 Copynumber: 4.8 Consensus size: 58
16508320 AAATTTCAAA
* * * *
16508330 AAAAAATATTTTTAAGGAAAAGATAAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* *
16508388 AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAACTAAGTTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
** *
16508446 AAAAAATATTTTCAAGAAAAAGTTGAAATTATCAA-TTTTCTTTGAAAATAA-TTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTTCT
* *
16508503 AAAAAA-AGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAGAAATTAAAG-TTT-T
1 AAAAAATA---TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAAT-AAGTTTTCT
* *
16508562 AGAAAAACATTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTG
1 A-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
16508606 TACAAAAGCA
Statistics
Matches: 192, Mismatches: 15, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
56 1 0.01
57 41 0.21
58 105 0.55
59 30 0.16
60 14 0.07
61 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:16510389 original size:20 final size:21
Alignment explanation
Indices: 16510351--16510401 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
16510341 AGTGGCATAT
*
16510351 TTAATTAATCATAAAATT-AA
1 TTAATTAATTATAAAATTAAA
**
16510371 TTAATTAATTATATGATTAAA
1 TTAATTAATTATAAAATTAAA
*
16510392 TTAAATAATT
1 TTAATTAATT
16510402 TCATTAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATTAATTATAAAATTAAA
Found at i:16512393 original size:81 final size:81
Alignment explanation
Indices: 16512299--16512462 Score: 292
Period size: 81 Copynumber: 2.0 Consensus size: 81
16512289 AGGAAATGAG
*
16512299 TTGGGTGGGTCATGGATAGACAAGAACTAGACTAACCGTTGGCCCAAGAAAACAGCACAATCAAC
1 TTGGGTGGGTCATGGACAGACAAGAACTAGACTAACCGTTGGCCCAAGAAAACAGCACAATCAAC
16512364 ATTAAAATCTCTTTCA
66 ATTAAAATCTCTTTCA
* * *
16512380 TTGGGTGGGTCATGGGCAGACAAGAACTATACTAATCGTTGGCCCAAGAAAACAGCACAATCAAC
1 TTGGGTGGGTCATGGACAGACAAGAACTAGACTAACCGTTGGCCCAAGAAAACAGCACAATCAAC
16512445 ATTAAAATCTCTTTCA
66 ATTAAAATCTCTTTCA
16512461 TT
1 TT
16512463 CTAATAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (81 bp):
TTGGGTGGGTCATGGACAGACAAGAACTAGACTAACCGTTGGCCCAAGAAAACAGCACAATCAAC
ATTAAAATCTCTTTCA
Found at i:16513104 original size:15 final size:15
Alignment explanation
Indices: 16513070--16513104 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
16513060 TAAAATTTTT
16513070 ATTATTTTTTAATAA
1 ATTATTTTTTAATAA
*
16513085 A-TATTTTTTTATAA
1 ATTATTTTTTAATAA
16513099 ATTATT
1 ATTATT
16513105 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTTTTAATAA
Found at i:16515618 original size:23 final size:23
Alignment explanation
Indices: 16515575--16515618 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16515565 TTATGTTGTT
*
16515575 ATTTAAAAAATAATATTTAATAA
1 ATTTAAAAAATAATATATAATAA
*
16515598 ATTTAAAATTATAAT-TATAAT
1 ATTTAAAA-AATAATATATAAT
16515619 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAAAAAATAATATATAATAA
Found at i:16519836 original size:16 final size:16
Alignment explanation
Indices: 16519815--16519863 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
16519805 TAGGTTTTTC
16519815 TTTTTTTT--TTTGAT
1 TTTTTTTTGCTTTGAT
16519829 TTTTTTTTGCTTTGAT
1 TTTTTTTTGCTTTGAT
* *
16519845 TTTTATTTG-TTTGCT
1 TTTTTTTTGCTTTGAT
16519860 TTTT
1 TTTT
16519864 ATGTTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 8 0.26
15 9 0.29
16 14 0.45
ACGTcount: A:0.06, C:0.04, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTTTTTGCTTTGAT
Found at i:16519864 original size:15 final size:14
Alignment explanation
Indices: 16519815--16519879 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
16519805 TAGGTTTTTC
16519815 TTTTT-TTTTTTGA
1 TTTTTATTTTTTGA
*
16519828 TTTTTTTTTGCTTTGA
1 TTTTTATTT--TTTGA
*
16519844 TTTTTATTTGTTTGC
1 TTTTTATTT-TTTGA
* *
16519859 TTTTTATGTTTTGT
1 TTTTTATTTTTTGA
16519873 TTTTTAT
1 TTTTTAT
16519880 ATATATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
13 5 0.11
14 14 0.32
15 12 0.27
16 13 0.30
ACGTcount: A:0.08, C:0.03, G:0.11, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTGA
Found at i:16519891 original size:14 final size:14
Alignment explanation
Indices: 16519874--16519915 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
16519864 ATGTTTTGTT
16519874 TTTTATATATATTA
1 TTTTATATATATTA
*
16519888 TTTT-TATATTTATA
1 TTTTATATATAT-TA
16519902 TTTTAATATATATT
1 TTTT-ATATATATT
16519916 TAATTGCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 1 0.04
16 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATATATATTA
Found at i:16520039 original size:21 final size:20
Alignment explanation
Indices: 16520013--16520052 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
16520003 GCATAATTGC
16520013 ATGATT-ATACTTAATTGCATG
1 ATGATTAATA-TT-ATTGCATG
16520034 ATGATTAATATTATTGCAT
1 ATGATTAATATTATTGCAT
16520053 TGTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGATTAATATTATTGCATG
Found at i:16520069 original size:11 final size:11
Alignment explanation
Indices: 16520055--16520112 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
16520045 TATTGCATTG
*
16520055 TTATTTTATTA
1 TTATTATATTA
** *
16520066 TTATTGCATGA
1 TTATTATATTA
16520077 TATATTATATTA
1 T-TATTATATTA
16520089 TTATTATATTA
1 TTATTATATTA
16520100 TTA-TATTATTA
1 TTATTA-TATTA
16520111 TT
1 TT
16520113 TCATGGTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 2 0.05
11 29 0.74
12 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (11 bp):
TTATTATATTA
Found at i:16520084 original size:18 final size:18
Alignment explanation
Indices: 16520008--16520084 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 18
16519998 ATTTTGCATA
16520008 ATTGCATGAT-TA-TACTT
1 ATTGCATGATATATTA-TT
*
16520025 AATTGCATGATGATTAATATT
1 -ATTGCATGAT-A-TATTATT
*
16520046 ATTGCATTGTTATTTTATTATT
1 ATTGCA-TG--A-TATATTATT
16520068 ATTGCATGATATATTAT
1 ATTGCATGATATATTAT
16520085 ATTATTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
18 17 0.35
19 1 0.02
20 6 0.12
21 8 0.17
22 14 0.29
23 1 0.02
24 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (18 bp):
ATTGCATGATATATTATT
Found at i:16520092 original size:8 final size:8
Alignment explanation
Indices: 16520077--16520111 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
16520067 TATTGCATGA
16520077 TATATTA-
1 TATATTAT
16520084 TATTATTAT
1 TA-TATTAT
16520093 TATATTAT
1 TATATTAT
16520101 TATATTAT
1 TATATTAT
16520109 TAT
1 TAT
16520112 TTCATGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 2 0.08
8 22 0.85
9 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATTAT
Found at i:16520125 original size:3 final size:3
Alignment explanation
Indices: 16520055--16520112 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
16520045 TATTGCATTG
*
16520055 TTA TT- TTA TTA TTA TTGCA TGA TATA TTA -TA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TT--A TTA T-TA TTA TTA TTA TTA TTA TTA TTA
16520100 TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TT
16520113 TCATGGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
2 8 0.17
3 34 0.74
4 2 0.04
5 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:16523485 original size:20 final size:22
Alignment explanation
Indices: 16523448--16523488 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16523438 AGACAGTACC
*
16523448 AAAAAAGGTGAAATGCCTAAAA
1 AAAAAAGCTGAAATGCCTAAAA
16523470 AAAAAAGCTG-AA-GCCTAAA
1 AAAAAAGCTGAAATGCCTAAA
16523489 CTATGAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.12
Consensus pattern (22 bp):
AAAAAAGCTGAAATGCCTAAAA
Found at i:16525030 original size:19 final size:20
Alignment explanation
Indices: 16525008--16525045 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
16524998 AGATGTGCAA
16525008 AAAAAAAAAAGA-AAAAAAT
1 AAAAAAAAAAGAGAAAAAAT
16525027 AAAAAAAAAAGAGAAAAAA
1 AAAAAAAAAAGAGAAAAAA
16525046 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAAAAT
Found at i:16525032 original size:21 final size:21
Alignment explanation
Indices: 16525006--16525045 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16524996 AAAGATGTGC
16525006 AAAAAAAAAAAAGAAAAAAAT
1 AAAAAAAAAAAAGAAAAAAAT
*
16525027 AAAAAAAAAAGAGAAAAAA
1 AAAAAAAAAAAAGAAAAAA
16525046 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAAAGAAAAAAAT
Found at i:16525051 original size:21 final size:21
Alignment explanation
Indices: 16525006--16525051 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
16524996 AAAGATGTGC
*
16525006 AAAAAAAAAAAAGAAAAAAAT
1 AAAAAAAAAAAAGAAAAAAAG
* *
16525027 AAAAAAAAAAGAGAAAAAAGG
1 AAAAAAAAAAAAGAAAAAAAG
16525048 AAAA
1 AAAA
16525052 TTTAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAAGAAAAAAAG
Found at i:16526030 original size:14 final size:14
Alignment explanation
Indices: 16526011--16526052 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
16526001 CATGCCTAGA
16526011 TCATGCAAAAATAT
1 TCATGCAAAAATAT
*
16526025 TCATGCAAAAAT-G
1 TCATGCAAAAATAT
*
16526038 TCATGCAAATATAT
1 TCATGCAAAAATAT
16526052 T
1 T
16526053 AATTACCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (14 bp):
TCATGCAAAAATAT
Found at i:16526064 original size:20 final size:20
Alignment explanation
Indices: 16526039--16526136 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
16526029 GCAAAAATGT
16526039 CATGCAAATATATTAATTAC
1 CATGCAAATATATTAATTAC
** *
16526059 CATGC-AATA-A-TAACAAT
1 CATGCAAATATATTAATTAC
* * *
16526076 CTTGTAAATATA-TAA-TAT
1 CATGCAAATATATTAATTAC
* *
16526094 CATGC-AATAATATAAAGTAC
1 CATGCAAAT-ATATTAATTAC
*
16526114 CATGCAAATATATTAATAAC
1 CATGCAAATATATTAATTAC
16526134 CAT
1 CAT
16526137 TCATTCAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
17 10 0.17
18 13 0.22
19 10 0.17
20 23 0.39
21 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (20 bp):
CATGCAAATATATTAATTAC
Found at i:16526170 original size:18 final size:17
Alignment explanation
Indices: 16526147--16526192 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 17
16526137 TCATTCAAAT
16526147 ATATAATCATGCAACCAA
1 ATATAATCATGCAA-CAA
16526165 ATATAATCA--C-ACAA
1 ATATAATCATGCAACAA
16526179 ATATAATCATGCAA
1 ATATAATCATGCAA
16526193 TTATGCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.48
15 1 0.04
16 2 0.08
17 1 0.04
18 9 0.36
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.24
Consensus pattern (17 bp):
ATATAATCATGCAACAA
Found at i:16526442 original size:22 final size:23
Alignment explanation
Indices: 16526414--16526459 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16526404 ACATGCAATT
* *
16526414 AAATATAT-AATCATGGAAATAA
1 AAATATATAAACCATGCAAATAA
16526436 AAATATATAAACCATGCAAATAA
1 AAATATATAAACCATGCAAATAA
16526459 A
1 A
16526460 TATGTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.24
Consensus pattern (23 bp):
AAATATATAAACCATGCAAATAA
Found at i:16526457 original size:131 final size:127
Alignment explanation
Indices: 16526277--16526514 Score: 289
Period size: 131 Copynumber: 1.8 Consensus size: 127
16526267 TATGTCATAT
* * * ** *
16526277 CATGCAATAAATATAAAATTATGCAATAATAATAAATAAATGTGCAAATAAATATATTAATT-AT
1 CATGCAATAAATATAAAATCATGAAATAAAAATAAATAAACATGCAAATAAATAT-GTAATTAAT
*
16526341 CATACAATCACACAAATAAATAAATTAATAATCATGCAATTAACAATGTAAATCATGCAAATAA
65 -ATACAATCACACAAATAAATAAATTAATAATCAAGCAATTAACAATGTAAATCATGCAAATAA
* *
16526405 CATGCAATTAAATATATAATCATGGAAATAAAAATATATAAACCATGCAAATAAATATGTAATTA
1 CATGCAA-TAAATATAAAATCAT-GAAATAAAAATAAATAAA-CATGCAAATAAATATGTAATT-
* ** * *
16526470 AATATATAATCATGCAAATAAATATATTAATAATCAAGCAGTTAA
62 AATATACAATCACACAAATAAATAAATTAATAATCAAGCAATTAA
16526515 ATAAATTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
128 7 0.08
129 13 0.14
130 20 0.22
131 49 0.54
132 2 0.02
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.29
Consensus pattern (127 bp):
CATGCAATAAATATAAAATCATGAAATAAAAATAAATAAACATGCAAATAAATATGTAATTAATA
TACAATCACACAAATAAATAAATTAATAATCAAGCAATTAACAATGTAAATCATGCAAATAA
Found at i:16526475 original size:55 final size:54
Alignment explanation
Indices: 16526368--16526496 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 54
16526358 AAATAAATTA
* * * *
16526368 ATAATCATGC-AATTAACA-ATGTAAATCATGCAAATAACATGCAATTAAATAT
1 ATAATCATGCAAATAAAAATATATAAACCATGCAAATAACATGCAATTAAATAT
* * *
16526420 ATAATCATGGAAATAAAAATATATAAACCATGCAAATAAATATGTAATTAAATAT
1 ATAATCATGCAAATAAAAATATATAAACCATGCAAAT-AACATGCAATTAAATAT
*
16526475 ATAATCATGCAAATAAATATAT
1 ATAATCATGCAAATAAAAATAT
16526497 TAATAATCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 9 0.14
53 6 0.09
54 15 0.23
55 35 0.54
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.29
Consensus pattern (54 bp):
ATAATCATGCAAATAAAAATATATAAACCATGCAAATAACATGCAATTAAATAT
Found at i:16526502 original size:24 final size:24
Alignment explanation
Indices: 16526475--16526584 Score: 118
Period size: 24 Copynumber: 4.6 Consensus size: 24
16526465 AATTAAATAT
16526475 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* ** *
16526499 ATAATCAAGCAGTTAAATAAATTA
1 ATAATCATGCAAATAAATATATTA
*
16526523 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
16526545 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
*
16526570 ATAATCATACAAATA
1 ATAATCATGCAAATA
16526585 TATTAATAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
22 1 0.01
23 15 0.21
24 53 0.76
25 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:16526570 original size:47 final size:45
Alignment explanation
Indices: 16526512--16526628 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 45
16526502 ATCAAGCAGT
* * *
16526512 TAAATAAATTAATAATCATGC-AATCAAATTAAATATAATCATACAAA
1 TAAATATATTAATAATCATACAAAT-AAATT-AATA-AATCACACAAA
* *
16526559 TAAATATATTAATAATCATACAAATATATTAATAAATCACATAAA
1 TAAATATATTAATAATCATACAAATAAATTAATAAATCACACAAA
* *
16526604 TAAAAATATTAATAATGCAAACAAA
1 TAAATATATTAATAAT-CATACAAA
16526629 AATATTAGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
45 24 0.39
46 11 0.18
47 23 0.38
48 3 0.05
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (45 bp):
TAAATATATTAATAATCATACAAATAAATTAATAAATCACACAAA
Found at i:16526629 original size:21 final size:21
Alignment explanation
Indices: 16526542--16526635 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
16526532 CAATCAAATT
* *
16526542 AAATA-TAATCATACAAATAA
1 AAATATTAATAATACAAACAA
* *
16526562 ATATATTAATAAT-CATACAA
1 AAATATTAATAATACAAACAA
* *
16526582 ATATATTAATAAATCACATAAATAA
1 AAATATTAAT-AAT-AC--AAACAA
*
16526607 AAATATTAATAATGCAAACAA
1 AAATATTAATAATACAAACAA
16526628 AAATATTA
1 AAATATTA
16526636 GGAAAATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
20 19 0.32
21 22 0.37
23 2 0.03
24 3 0.05
25 13 0.22
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.30
Consensus pattern (21 bp):
AAATATTAATAATACAAACAA
Found at i:16527341 original size:14 final size:13
Alignment explanation
Indices: 16527308--16527343 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
16527298 CCAAAAAAAT
16527308 AAAATTAAACCAA
1 AAAATTAAACCAA
*
16527321 AAAATTAAACTAA
1 AAAATTAAACCAA
16527334 AAATATTAAA
1 AAA-ATTAAA
16527344 ATACAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATTAAACCAA
Found at i:16527901 original size:127 final size:125
Alignment explanation
Indices: 16527720--16528095 Score: 439
Period size: 127 Copynumber: 3.0 Consensus size: 125
16527710 CCCCACAACC
** * * *
16527720 CCCACAACTAAACCTTTGAAACTTTAAAAAATAAACTACTCTCCCACAATTGAGGCTTTGAAGCT
1 CCCACAACTAAGGCTTTGAAACTTTAAAAAATAAAATACTCTCCCATAACTGAGGCTTTGAA-CT
* * *
16527785 TTTGAAAATAATATACTCCCCCACAACTAAGGCTTTAGAACTTTTGAAAAATAAAATGCTCA
65 TTTGAAAATAAAATGCTCTCCCACAACTAAGGCTTTAGAACTTTTG-AAAATAAAATGCTCA
* ** * * * **
16527847 CTCTTAACTGAGGCTTTGAAACTTTAAAAAATAAAATGCACTCATATAACTGAGGCTTTGAAACT
1 CCCACAACTAAGGCTTTGAAACTTTAAAAAATAAAATACTCTCCCATAACTGAGGCTTTG-AACT
* * * * *
16527912 TTTGAAAATAAAATGCTCTCCCACAACTTAGGCTTCAAAACTTTTGGAAAATAAAAAGCTCC
65 TTTGAAAATAAAATGCTCTCCCACAACTAAGGCTTTAGAACTTTT-GAAAATAAAATGCTCA
* * * * * *
16527974 CCCACAACTAAGGCTTTGAAACTTTGAAAAATAAAAAACTCCCCCATAACTAATGCTTTGAAATT
1 CCCACAACTAAGGCTTTGAAACTTTAAAAAATAAAATACTCTCCCATAACTGAGGCTTTGAACTT
*
16528039 TTAAAAAATAAAATGCTCTCCCACAACTAAGGCTTT-GACACTTTTGAAAATAAAATG
66 TT-GAAAATAAAATGCTCTCCCACAACTAAGGCTTTAGA-ACTTTTGAAAATAAAATG
16528096 TGATCATTCT
Statistics
Matches: 205, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
126 18 0.09
127 184 0.90
128 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (125 bp):
CCCACAACTAAGGCTTTGAAACTTTAAAAAATAAAATACTCTCCCATAACTGAGGCTTTGAACTT
TTGAAAATAAAATGCTCTCCCACAACTAAGGCTTTAGAACTTTTGAAAATAAAATGCTCA
Found at i:16528093 original size:84 final size:85
Alignment explanation
Indices: 16527718--16528095 Score: 354
Period size: 85 Copynumber: 4.5 Consensus size: 85
16527708 TCCCCCACAA
** * * * * * * *
16527718 CCCCCACAACTAAACCTTTGAAAC-TTTAAAAAATAAACTACTCTCCCACAATTGAGGCTTTGAA
1 CCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTAAGGCTTTGAA
* * * *
16527782 GCTTTT-GAAAATAATATACT
66 -ATTTTAAAAAATAAAATGCT
* * *
16527802 CCCCCACAACTAAGGCTTT-AGAACTTTTGAAAAATAAAATGCTCACTCTTAACTGAGGCTTTGA
1 CCCCCACAACTAAGGCTTTGA-AACTTTTGAAAAATAAAATGCTCACCCATAACTAAGGCTTTGA
* *
16527866 AACTTTAAAAAATAAAATGCA
65 AATTTTAAAAAATAAAATGCT
* ** * * * * * **
16527887 CTCATATAACTGAGGCTTTGAAACTTTTG-AAAATAAAATGCTCTCCCACAACTTAGGCTTCAAA
1 CCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTAAGGCTTTGAA
** *
16527951 ACTTTTGGAAAATAAAAAGCT
66 A-TTTTAAAAAATAAAATGCT
** * *
16527972 CCCCCACAACTAAGGCTTTGAAAC-TTTGAAAAATAAAAAACTCCCCCATAACTAATGCTTTGAA
1 CCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTAAGGCTTTGAA
16528036 ATTTTAAAAAATAAAATGCT
66 ATTTTAAAAAATAAAATGCT
* *
16528056 CTCCCACAACTAAGGCTTTGACACTTTTG-AAAATAAAATG
1 CCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATG
16528096 TGATCATTCT
Statistics
Matches: 234, Mismatches: 53, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
83 1 0.00
84 103 0.44
85 129 0.55
86 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (85 bp):
CCCCCACAACTAAGGCTTTGAAACTTTTGAAAAATAAAATGCTCACCCATAACTAAGGCTTTGAA
ATTTTAAAAAATAAAATGCT
Found at i:16528093 original size:169 final size:169
Alignment explanation
Indices: 16527720--16528095 Score: 472
Period size: 169 Copynumber: 2.2 Consensus size: 169
16527710 CCCCACAACC
** ** * * ** *
16527720 CCCACAACTAAACCTTTGAAACTTTAAAAAATAAACTACTCTCCCACAATTGAGGCTTTGAAGCT
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCCACAATTGAGGCTTCAAAACT
* ** *
16527785 TTTGAAAATAATATACTCCCCCACAACTAAGGCTTTAGAACTTTTGAAAAATAAAATGCTCACTC
66 TTTGAAAATAATAAACTCCCCCACAACTAAGGCTTTAGAACTTTTGAAAAATAAAAAACTCACCC
* *
16527850 TTAACTGAGGCTTTGAAACTTTAAAAAATAAAATGCACT
131 ATAACTAAGGCTTTGAAACTTTAAAAAATAAAATGCACT
** * *
16527889 CATATAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCCACAACTT-AGGCTTCAAAAC
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCCACAA-TTGAGGCTTCAAAAC
16527953 TTTTGGAAAATAA-AAAGCTCCCCCACAACTAAGGCTTT-GAAAC-TTTGAAAAATAAAAAACTC
65 TTTT-GAAAATAATAAA-CTCCCCCACAACTAAGGCTTTAG-AACTTTTGAAAAATAAAAAACTC
* * * *
16528015 CCCCATAACTAATGCTTTGAAATTTTAAAAAATAAAATGCTCT
127 ACCCATAACTAAGGCTTTGAAACTTTAAAAAATAAAATGCACT
*
16528058 CCCACAACTAAGGCTTTGACACTTTTGAAAATAAAATG
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATG
16528096 TGATCATTCT
Statistics
Matches: 175, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
169 141 0.81
170 34 0.19
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (169 bp):
CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCTCCCACAATTGAGGCTTCAAAACT
TTTGAAAATAATAAACTCCCCCACAACTAAGGCTTTAGAACTTTTGAAAAATAAAAAACTCACCC
ATAACTAAGGCTTTGAAACTTTAAAAAATAAAATGCACT
Found at i:16528095 original size:42 final size:42
Alignment explanation
Indices: 16527720--16528095 Score: 362
Period size: 42 Copynumber: 8.9 Consensus size: 42
16527710 CCCCACAACC
** ** * *
16527720 CCCACAACTAAACCTTTGAAACTTTAAAAAATAAACTACTCT
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
* * * * * *
16527762 CCCACAATTGAGGCTTTGAAGCTTTTGAAAATAATATACTCC
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
*
16527804 CCCACAACTAAGGCTTT-AGAACTTTTGAAAAATAAAATGCTCA
1 CCCACAACTAAGGCTTTGA-AACTTTTG-AAAATAAAATGCTCT
* ** * ** *
16527847 CTCTTAACTGAGGCTTTGAAACTTTAAAAAATAAAATGCACT
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
** * *
16527889 CATATAACTGAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
* ** * *
16527931 CCCACAACTTAGGCTTCAAAACTTTTGGAAAATAAAAAGCTCC
1 CCCACAACTAAGGCTTTGAAACTTTT-GAAAATAAAATGCTCT
** *
16527974 CCCACAACTAAGGCTTTGAAAC-TTTGAAAAATAAAAAACTCC
1 CCCACAACTAAGGCTTTGAAACTTTTG-AAAATAAAATGCTCT
* * *
16528016 CCCATAACTAATGCTTTGAAA-TTTTAAAAAATAAAATGCTCT
1 CCCACAACTAAGGCTTTGAAACTTTT-GAAAATAAAATGCTCT
*
16528058 CCCACAACTAAGGCTTTGACACTTTTGAAAATAAAATG
1 CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATG
16528096 TGATCATTCT
Statistics
Matches: 274, Mismatches: 52, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 203 0.74
43 68 0.25
44 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (42 bp):
CCCACAACTAAGGCTTTGAAACTTTTGAAAATAAAATGCTCT
Found at i:16528284 original size:13 final size:13
Alignment explanation
Indices: 16528266--16528290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16528256 TTCCAAACAT
16528266 ATGCAATGAATGC
1 ATGCAATGAATGC
16528279 ATGCAATGAATG
1 ATGCAATGAATG
16528291 AAAAGATTTT
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:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:16529035 original size:22 final size:21
Alignment explanation
Indices: 16529003--16529049 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
16528993 TTAGTTTAGG
*
16529003 TTTT-CTTTTTTCCTCTTTATT
1 TTTTACTTTTTTACT-TTTATT
*
16529024 TTTTACTTTTTTACTTTTTTT
1 TTTTACTTTTTTACTTTTATT
16529045 TTTTA
1 TTTTA
16529050 ACATCTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTACTTTTTTACTTTTATT
Found at i:16535186 original size:22 final size:22
Alignment explanation
Indices: 16535161--16535322 Score: 62
Period size: 22 Copynumber: 7.2 Consensus size: 22
16535151 TTGGATGCAA
16535161 AATCCTAAAATTTTTGAATGAG
1 AATCCTAAAATTTTTGAATGAG
* * *
16535183 AATCTTTAAAGTTTTGAAT-ATG
1 AATCCTAAAATTTTTGAATGA-G
* * **
16535205 AAGCCATAAAGTTTTTGAAAAAG
1 AATCC-TAAAATTTTTGAATGAG
* * * *
16535228 AA-CCTTTGAAA-CTTTGGATGTG
1 AATCC--TAAAATTTTTGAATGAG
* * *
16535250 AATCTTTAAAATTTTTTAAATGTG
1 AATC-CTAAAA-TTTTTGAATGAG
* * * *
16535274 AATCTTTGAAA-TTTTGGATGTG
1 AATC-CTAAAATTTTTGAATGAG
16535296 AATCCTAAAATTTTTTGAATGAG
1 AATCCTAAAA-TTTTTGAATGAG
16535319 AATC
1 AATC
16535323 TTTATAATTT
Statistics
Matches: 101, Mismatches: 29, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
21 5 0.05
22 47 0.47
23 30 0.30
24 19 0.19
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (22 bp):
AATCCTAAAATTTTTGAATGAG
Found at i:16535272 original size:24 final size:24
Alignment explanation
Indices: 16535240--16535333 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
16535230 CCTTTGAAAC
*
16535240 TTTGGATGTGAATCTTTAAAATTT
1 TTTGAATGTGAATCTTTAAAATTT
* *
16535264 TTTAAATGTGAATCTTTGAAA--T
1 TTTGAATGTGAATCTTTAAAATTT
* *
16535286 TTTGGATGTGAATC-CTAAAATTT
1 TTTGAATGTGAATCTTTAAAATTT
* *
16535309 TTTGAATGAGAATCTTTATAATTT
1 TTTGAATGTGAATCTTTAAAATTT
16535333 T
1 T
16535334 GGTTGTGAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.07
22 13 0.23
23 13 0.23
24 26 0.46
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (24 bp):
TTTGAATGTGAATCTTTAAAATTT
Found at i:16535341 original size:45 final size:45
Alignment explanation
Indices: 16535132--16535342 Score: 223
Period size: 45 Copynumber: 4.7 Consensus size: 45
16535122 GAACTTTTCA
**
16535132 AATGAGAATCTTTGAAATTTTGGATGCAAAATCCTAAAA-TTTTTG
1 AATGAGAATCTTTGAAATTTTGGATG-TGAATCCTAAAATTTTTTG
* * * *
16535177 AATGAGAATCTTT-AAAGTTTTGAATATGAAGCC-ATAAAGTTTTTG
1 AATGAGAATCTTTGAAA-TTTTGGATGTGAATCCTA-AAATTTTTTG
** * * * *
16535222 AAAAAGAACCTTTGAAACTTTGGATGTGAATCTTTAAAATTTTTTA
1 AATGAGAATCTTTGAAATTTTGGATGTGAATC-CTAAAATTTTTTG
*
16535268 AATGTGAATCTTTGAAATTTTGGATGTGAATCCTAAAATTTTTTG
1 AATGAGAATCTTTGAAATTTTGGATGTGAATCCTAAAATTTTTTG
*
16535313 AATGAGAATCTTT-ATAATTTTGGTTGTGAA
1 AATGAGAATCTTTGA-AATTTTGGATGTGAA
16535343 ATATTAAAGT
Statistics
Matches: 135, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 84 0.62
46 38 0.28
47 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (45 bp):
AATGAGAATCTTTGAAATTTTGGATGTGAATCCTAAAATTTTTTG
Done.