Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 282 of 313
Found at i:86092062 original size:8 final size:8
Alignment explanation
Indices: 86092049--86092082 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
86092039 CATAATATAT
86092049 ATATTTTC
1 ATATTTTC
86092057 ATATTTTC
1 ATATTTTC
86092065 ATATTTT-
1 ATATTTTC
86092072 ATGATTTTC
1 AT-ATTTTC
86092081 AT
1 AT
86092083 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:86092144 original size:23 final size:23
Alignment explanation
Indices: 86092113--86092157 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
86092103 TGTAATTTTC
* *
86092113 ATGTGTATTTGTTTATTTTTTAT
1 ATGTCTATTTGTTTATGTTTTAT
*
86092136 ATGTCTATTTTTTTATGTTTTA
1 ATGTCTATTTGTTTATGTTTTA
86092158 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (23 bp):
ATGTCTATTTGTTTATGTTTTAT
Found at i:86092491 original size:108 final size:109
Alignment explanation
Indices: 86092295--86092607 Score: 511
Period size: 109 Copynumber: 2.9 Consensus size: 109
86092285 AAATATTTCT
* ** * *
86092295 AAATGAGGCAATGTTTTGCGTTTGGAAGGTCGAGAAAACATGCCCTAAAGTGTTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
86092360 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* *
86092403 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
86092468 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* *
86092512 AAATAAGGCAATGTTTTACGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
86092577 TTTCTCGTTCAACCAAATAGCTAAACATCCT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCT
86092608 CTTGAATTTA
Statistics
Matches: 189, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
108 91 0.48
109 98 0.52
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
Found at i:86093686 original size:6 final size:6
Alignment explanation
Indices: 86093671--86093703 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
86093661 AGTTCTATTT
86093671 AATT-A AATTCA AATTCA AATTCA AATTCA AATT
1 AATTCA AATTCA AATTCA AATTCA AATTCA AATT
86093704 TTAAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTCA
Found at i:86098531 original size:29 final size:29
Alignment explanation
Indices: 86098498--86098614 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
86098488 TGTAATTTTT
*
86098498 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
86098527 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
86098557 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
86098586 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
86098615 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:86098553 original size:30 final size:30
Alignment explanation
Indices: 86098513--86098614 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
86098503 ATTTAGGATT
*
86098513 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
86098543 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
86098573 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
86098603 AAAATGCAATTT
1 AAAATGAAATTT
86098615 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:86098638 original size:17 final size:17
Alignment explanation
Indices: 86098612--86098648 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
86098602 CAAAATGCAA
86098612 TTTTTATTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
*
86098629 TTTTTTTTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
86098646 TTT
1 TTT
86098649 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTTTAAAT
Found at i:86106067 original size:26 final size:28
Alignment explanation
Indices: 86106038--86106103 Score: 73
Period size: 32 Copynumber: 2.3 Consensus size: 28
86106028 ATCAATAGTT
*
86106038 ATTTATGT-TTA-GTTTTTGGATATTGA
1 ATTTATGTATTATGCTTTTGGATATTGA
86106064 ATTTATGTGCGAATTATGCTTTTGGATATTGA
1 ATTTATGT----ATTATGCTTTTGGATATTGA
86106096 ATTTATGT
1 ATTTATGT
86106104 GTAATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.24
31 3 0.09
32 22 0.67
ACGTcount: A:0.24, C:0.03, G:0.20, T:0.53
Consensus pattern (28 bp):
ATTTATGTATTATGCTTTTGGATATTGA
Found at i:86116830 original size:24 final size:23
Alignment explanation
Indices: 86116792--86116849 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
86116782 ATCACTTAAA
*
86116792 AATTAAATATATATAAATATTTT-T
1 AATTAAAT-TTTATAAAT-TTTTGT
*
86116816 AATTAATATTTTATATATTTTTGT
1 AATTAA-ATTTTATAAATTTTTGT
86116840 AATTAAATTT
1 AATTAAATTT
86116850 AAATTTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.27
24 20 0.67
25 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTAAATTTTATAAATTTTTGT
Found at i:86116855 original size:20 final size:21
Alignment explanation
Indices: 86116805--86116855 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 21
86116795 TAAATATATA
86116805 TAAATATTTTTAATTAATATTT
1 TAAAT-TTTTTAATTAATATTT
86116827 TATATATTTTTGTAATTAA-A-TT
1 TA-A-ATTTTT-TAATTAATATTT
86116849 TAAATTT
1 TAAATTT
86116856 AGAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 6 0.23
23 6 0.23
24 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TAAATTTTTTAATTAATATTT
Found at i:86119491 original size:15 final size:15
Alignment explanation
Indices: 86119467--86119500 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
86119457 AACAATTATG
* *
86119467 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
86119482 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
86119497 ATAA
1 ATAA
86119501 CAAAAATAAA
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:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:86120181 original size:30 final size:31
Alignment explanation
Indices: 86120128--86120191 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
86120118 AATTAAAAAT
**
86120128 ATGTACGTATGTATATATTTATAT-AACAAA
1 ATGTACGTATGTATATACATATATAAACAAA
* *
86120158 ATGTATGTATGTATGTACATATATACAACAAA
1 ATGTACGTATGTATATACATATATA-AACAAA
86120190 AT
1 AT
86120192 TTGAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 20 0.71
32 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (31 bp):
ATGTACGTATGTATATACATATATAAACAAA
Found at i:86122033 original size:128 final size:129
Alignment explanation
Indices: 86121721--86122035 Score: 431
Period size: 129 Copynumber: 2.5 Consensus size: 129
86121711 TATGAGAATG
* * * * * * *
86121721 AGATTTGTAGTTTTAG-TCCG-TTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCT
1 AGATCTGTGGTTTTAGATCCGCTT-CACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCT
*
86121784 GCTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTACAACTTCAGAGAGATA
65 GCTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
* * * *
86121849 AGATCTGTGATTTTCGATCCGCTTCACTGCCAGTACAGGAAAATAGGATTGTTTTTTTTCGTCTG
1 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCTG
* ** *
86121914 CTCCACTACTGCTTAGGGAGATAAGACTT-GATGTGATCTGCTCCACTACTGCTT-AGGGAGATA
66 CTCCACTACTGCTTAGGGAGATAAGA-TTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
*
86121977 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGGTTTTTTT
1 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTT
86122036 GTTTTTTGTT
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 75 0.46
129 85 0.52
130 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (129 bp):
AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCTG
CTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
Found at i:86126021 original size:3 final size:3
Alignment explanation
Indices: 86126015--86126043 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
86126005 TTATCTTCTT
86126015 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
86126044 TTTCTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:86126477 original size:15 final size:17
Alignment explanation
Indices: 86126440--86126479 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
86126430 TGTGTAAATA
86126440 ATTTTTA-TGTGTTTAT
1 ATTTTTATTGTGTTTAT
*
86126456 ATATTTATTGT-TTTAT
1 ATTTTTATTGTGTTTAT
86126472 -TTTTTATT
1 ATTTTTATT
86126480 TAAAAAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTTTATTGTGTTTAT
Found at i:86131657 original size:54 final size:54
Alignment explanation
Indices: 86131598--86131701 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
86131588 GACACAACAG
*
86131598 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCGGTAATGGAACGAGCAA
1 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGAGCAA
86131652 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGA
1 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGA
86131702 ATGAACCACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (54 bp):
CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGAGCAA
Found at i:86144295 original size:34 final size:34
Alignment explanation
Indices: 86144252--86144320 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
86144242 TTAAACTGAC
86144252 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
1 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
86144286 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
1 TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
86144320 T
1 T
86144321 TCACAAGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (34 bp):
TCGATTCACCGAAGCGAATAAGGAATAATTTAGA
Found at i:86144637 original size:6 final size:6
Alignment explanation
Indices: 86144628--86144657 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
86144618 ACCCGCATCC
86144628 GCACCA GCACCA GCACCA GCACCA GCACCA
1 GCACCA GCACCA GCACCA GCACCA GCACCA
86144658 TGGGCCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
GCACCA
Found at i:86146507 original size:20 final size:19
Alignment explanation
Indices: 86146469--86146508 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
86146459 AAGATTGGAT
* *
86146469 TGTTAAAAAAAGTTTAAAA
1 TGTTAAAAAAAATTGAAAA
86146488 TGTTAAAAAAAAATTGAAAA
1 TGTT-AAAAAAAATTGAAAA
86146508 T
1 T
86146509 TTTGATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (19 bp):
TGTTAAAAAAAATTGAAAA
Found at i:86151179 original size:19 final size:19
Alignment explanation
Indices: 86151157--86151212 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
86151147 TTTAGTCTCA
86151157 TTTTTTTATTTTTTATTTG
1 TTTTTTTATTTTTTATTTG
**
86151176 TTTTTTGT-TTTAATATTTG
1 TTTTTT-TATTTTTTATTTG
***
86151195 TTTTAAAATTTTTTATTT
1 TTTTTTTATTTTTTATTT
86151213 AATGAAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTTATTTTTTATTTG
Found at i:86151830 original size:27 final size:27
Alignment explanation
Indices: 86151766--86151831 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
86151756 CGAATATAAT
* *
86151766 AAATATATATTTTATTTTTTTAATTTTA
1 AAATAAAT-TTTTAATTTTTTAATTTTA
*
86151794 AAAT-ACTTTTTAATTTTTT-ATTTTCA
1 AAATAAATTTTTAATTTTTTAATTTT-A
86151820 AAATAAATTTTT
1 AAATAAATTTTT
86151832 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.16
26 16 0.50
27 7 0.22
28 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
AAATAAATTTTTAATTTTTTAATTTTA
Found at i:86152900 original size:16 final size:16
Alignment explanation
Indices: 86152869--86152901 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
86152859 TAAATAATTA
86152869 AATATGTATGTTTAAT
1 AATATGTATGTTTAAT
86152885 AATAT-TATGTTATAAT
1 AATATGTATGTT-TAAT
86152901 A
1 A
86152902 TTTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AATATGTATGTTTAAT
Found at i:86153441 original size:22 final size:22
Alignment explanation
Indices: 86153416--86153460 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
86153406 TTTACTTTCT
86153416 CAAGCTCCTTCAATTCTTTGGA
1 CAAGCTCCTTCAATTCTTTGGA
86153438 CAAGCTCCTTCAATTCTTTGGA
1 CAAGCTCCTTCAATTCTTTGGA
86153460 C
1 C
86153461 GTTAGTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (22 bp):
CAAGCTCCTTCAATTCTTTGGA
Found at i:86153870 original size:17 final size:17
Alignment explanation
Indices: 86153850--86153882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86153840 ATTTAATATA
*
86153850 TATATTTGATTAAAAAG
1 TATATTTAATTAAAAAG
86153867 TATATTTAATTAAAAA
1 TATATTTAATTAAAAA
86153883 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:86156600 original size:5 final size:5
Alignment explanation
Indices: 86156590--86156620 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
86156580 GTAAGCTAAA
86156590 TGCAC TGCAC TGCAC TGCAC TGCAC TGCAC T
1 TGCAC TGCAC TGCAC TGCAC TGCAC TGCAC T
86156621 ATACTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.23
Consensus pattern (5 bp):
TGCAC
Found at i:86157303 original size:30 final size:30
Alignment explanation
Indices: 86157264--86157326 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
86157254 ACTTATTTTA
86157264 TTGTGAATTTTGTTATTATTTTAAAAACAT
1 TTGTGAATTTTGTTATTATTTTAAAAACAT
* * * *
86157294 TTGTTAATTTTGTTATTGTTTTAGAGACAT
1 TTGTGAATTTTGTTATTATTTTAAAAACAT
86157324 TTG
1 TTG
86157327 CTTATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTGAATTTTGTTATTATTTTAAAAACAT
Found at i:86158669 original size:28 final size:28
Alignment explanation
Indices: 86158629--86158754 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
86158619 TGATTTTCGA
* *
86158629 CACTACGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
86158657 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
86158685 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
86158713 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
86158741 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
86158755 ACTTATTAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:86159970 original size:22 final size:23
Alignment explanation
Indices: 86159925--86159971 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
86159915 GAAAAGTTAA
*
86159925 TGTATATATGCTGCCCAAATTTT
1 TGTATATATACTGCCCAAATTTT
*
86159948 TGTATATATACTGTCC-AATTTT
1 TGTATATATACTGCCCAAATTTT
86159970 TG
1 TG
86159972 GTGTGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (23 bp):
TGTATATATACTGCCCAAATTTT
Found at i:86161281 original size:3 final size:3
Alignment explanation
Indices: 86161273--86161303 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
86161263 CTTCACCATC
86161273 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
86161304 AACATTGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:86164680 original size:18 final size:18
Alignment explanation
Indices: 86164653--86164727 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
86164643 ACACCTTTAA
*
86164653 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
86164671 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
86164689 GCATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
86164707 GTATACGGGAATAGTACC
1 GTATACGTGAATAGTACC
86164725 GTA
1 GTA
86164728 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:86171133 original size:10 final size:11
Alignment explanation
Indices: 86171097--86171133 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
86171087 AAAAAAATAA
86171097 AAAAAGTATTTT
1 AAAAA-TATTTT
86171109 AAAAATATTTT
1 AAAAATATTTT
86171120 -AAAAT-TTTT
1 AAAAATATTTT
86171129 AAAAA
1 AAAAA
86171134 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 9 0.38
11 6 0.25
12 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:86172409 original size:16 final size:16
Alignment explanation
Indices: 86172378--86172410 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
86172368 TAAATAATTA
86172378 AATATGTATGTTTAAT
1 AATATGTATGTTTAAT
86172394 AATAT-TATGTTATAAT
1 AATATGTATGTT-TAAT
86172410 A
1 A
86172411 TTTATTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AATATGTATGTTTAAT
Found at i:86173346 original size:17 final size:17
Alignment explanation
Indices: 86173326--86173358 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86173316 ATTTAATATA
*
86173326 TATATTTGATTAAAAAG
1 TATATTTAATTAAAAAG
86173343 TATATTTAATTAAAAA
1 TATATTTAATTAAAAA
86173359 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:86177104 original size:30 final size:30
Alignment explanation
Indices: 86177070--86177132 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
86177060 ACTTATTTTA
86177070 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
86177100 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
86177130 TTG
1 TTG
86177133 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:86178084 original size:3 final size:3
Alignment explanation
Indices: 86178076--86178126 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
86178066 AAGCTTCACC
86178076 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
86178124 ATA
1 ATA
86178127 CATTGCTACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:86178893 original size:16 final size:15
Alignment explanation
Indices: 86178865--86178894 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
86178855 ATATTAAAAT
86178865 TTAAATTATTATTAC
1 TTAAATTATTATTAC
86178880 TTAAATTAATTATTA
1 TTAAATT-ATTATTA
86178895 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATTATTATTAC
Found at i:86179822 original size:17 final size:18
Alignment explanation
Indices: 86179792--86179832 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
86179782 AAGTTGGTGG
86179792 TTTTTTATTCTAATCTTAT
1 TTTTTTATTCTAAT-TTAT
*
86179811 TTTTTTA-T-TAATTTCT
1 TTTTTTATTCTAATTTAT
86179827 TTTTTT
1 TTTTTT
86179833 TATAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 1 0.05
19 7 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTATTCTAATTTAT
Found at i:86183098 original size:19 final size:20
Alignment explanation
Indices: 86183066--86183103 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
86183056 TAAATTACTC
*
86183066 ATCTTAGATTAATTGAGTTA
1 ATCTTAGATTAATTAAGTTA
86183086 ATCTTAG-TTAATTAAGTT
1 ATCTTAGATTAATTAAGTT
86183104 GTTGGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
ATCTTAGATTAATTAAGTTA
Found at i:86184542 original size:17 final size:17
Alignment explanation
Indices: 86184520--86184553 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
86184510 ATCCACTAAT
*
86184520 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
86184537 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
86184554 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:86189361 original size:16 final size:15
Alignment explanation
Indices: 86189332--86189366 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
86189322 TATTTAAAAT
86189332 TTAAAATTATTATTA
1 TTAAAATTATTATTA
86189347 TTAAAATTA--ATTA
1 TTAAAATTATTATTA
86189360 TTAAAAT
1 TTAAAAT
86189367 AAAAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
15 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAAATTATTATTA
Found at i:86189381 original size:35 final size:35
Alignment explanation
Indices: 86189305--86189381 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 35
86189295 TATTTTTCAA
*
86189305 TAATA-TATTAAGAATATTATTTAAAATTTAAAAT
1 TAATATTATTAAGAATATTATTTAAAATTAAAAAT
*
86189339 TATTATTATTAA-AATTAATTA-TTAAAA-TAAAAAT
1 TAATATTATTAAGAA-T-ATTATTTAAAATTAAAAAT
86189373 GTAATATTA
1 -TAATATTA
86189382 AATAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
34 12 0.33
35 20 0.56
36 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (35 bp):
TAATATTATTAAGAATATTATTTAAAATTAAAAAT
Found at i:86189516 original size:17 final size:17
Alignment explanation
Indices: 86189484--86189519 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
86189474 ATAATATTTT
**
86189484 TTATTAATATTTTAATA
1 TTATTAATATAATAATA
86189501 TTATTAATATAATAATA
1 TTATTAATATAATAATA
86189518 TT
1 TT
86189520 GGACTTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTAATATAATAATA
Found at i:86189676 original size:18 final size:21
Alignment explanation
Indices: 86189636--86189682 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
86189626 AAAAATAAAC
86189636 TTATTTTCTGTTAATCTATAA
1 TTATTTTCTGTTAATCTATAA
*
86189657 TT-TTTTTTGTTAATC-A-AA
1 TTATTTTCTGTTAATCTATAA
86189675 TTATTTTC
1 TTATTTTC
86189683 ATGAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 5 0.22
20 12 0.52
21 2 0.09
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTTTCTGTTAATCTATAA
Found at i:86193171 original size:29 final size:28
Alignment explanation
Indices: 86193117--86193180 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
86193107 TAGCAAACAC
*
86193117 ATTAAAA-TGAAATAATATAAAATATAT
1 ATTAAAAGTGAAATAATATAAAATATAA
*
86193144 ATTAAAAGTGATAAT-ATATATATATATAA
1 ATTAAAAGTGA-AATAATATA-AAATATAA
*
86193173 ATTTAAAG
1 ATTAAAAG
86193181 ATAGTGGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 7 0.23
28 8 0.26
29 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (28 bp):
ATTAAAAGTGAAATAATATAAAATATAA
Found at i:86201150 original size:37 final size:37
Alignment explanation
Indices: 86201100--86201173 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
86201090 TCTTCCTTTA
86201100 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
1 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
86201137 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
1 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
86201174 CACCAGTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (37 bp):
GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
Found at i:86203122 original size:18 final size:16
Alignment explanation
Indices: 86203090--86203125 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
86203080 ATGGGATGAG
86203090 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
86203106 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
86203124 AA
1 AA
86203126 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:86203725 original size:18 final size:16
Alignment explanation
Indices: 86203702--86203737 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
86203692 GTTTAAAATT
86203702 TTTAATTAATTAAATTTA
1 TTTAATTAA--AAATTTA
86203720 TTTAATTAAAAATTTA
1 TTTAATTAAAAATTTA
86203736 TT
1 TT
86203738 CTTATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTAAAAATTTA
Found at i:86214834 original size:25 final size:24
Alignment explanation
Indices: 86214789--86214835 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
86214779 AAAACTTGGC
*
86214789 ATTTTTCTAATTTGACTTTTAATT
1 ATTTTTCTAATTTGAATTTTAATT
86214813 ATTTTATCTAATTT-AATATTTAA
1 ATTTT-TCTAATTTGAAT-TTTAA
86214836 ACTCAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTTCTAATTTGAATTTTAATT
Found at i:86218856 original size:98 final size:98
Alignment explanation
Indices: 86218677--86218873 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
86218667 GTACAATAAA
* *
86218677 ACTTTAAAGGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* *
86218742 CCTTTAGAATCTCAAACTCAGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
* *
86218775 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
*
86218840 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
86218873 A
1 A
86218874 TTATTTTTAG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:86220347 original size:19 final size:19
Alignment explanation
Indices: 86220323--86220435 Score: 190
Period size: 19 Copynumber: 5.8 Consensus size: 19
86220313 AATCATATAT
86220323 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
86220342 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
86220361 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
86220380 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
86220401 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
86220420 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
86220436 CTCAAAAATT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 69 0.78
21 19 0.22
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:86220406 original size:40 final size:40
Alignment explanation
Indices: 86220323--86220434 Score: 210
Period size: 40 Copynumber: 2.9 Consensus size: 40
86220313 AATCATATAT
86220323 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
86220361 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
86220401 TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
86220435 CCTCAAAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 28 0.39
40 44 0.61
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:86220407 original size:59 final size:56
Alignment explanation
Indices: 86220316--86220435 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 56
86220306 ATTACAAAAT
*
86220316 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
*
86220371 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
86220430 CATATC
1 CATATC
86220436 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 5 0.08
56 2 0.03
57 11 0.19
59 41 0.69
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:86220544 original size:29 final size:30
Alignment explanation
Indices: 86220485--86220542 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
86220475 TCCGAGCCTT
*
86220485 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
86220515 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
86220543 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:86220772 original size:13 final size:13
Alignment explanation
Indices: 86220754--86220785 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
86220744 TTTCCAGCAA
86220754 TTATGAATTTATT
1 TTATGAATTTATT
86220767 TTATGAATTTATT
1 TTATGAATTTATT
*
86220780 TGATGA
1 TTATGA
86220786 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:86220960 original size:50 final size:50
Alignment explanation
Indices: 86220880--86221064 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
86220870 ATTTGGGTAA
*
86220880 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
86220930 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
86220980 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
86221030 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
86221065 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:86222624 original size:45 final size:44
Alignment explanation
Indices: 86222573--86222675 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 44
86222563 CTAGTGCTTT
*
86222573 AATCTATTCCACTGCGACTGC-AGGGAGATAAGACT-T-ACAATCTTC
1 AATCTATTCCACT--GAATGCTAGGGAGATAAGA-TATGA-AATCTTC
*
86222618 AATCTATTCCACT-AATGCTTAGGGAGATAATATATGAAATCTTC
1 AATCTATTCCACTGAATGC-TAGGGAGATAAGATATGAAATCTTC
86222662 AATCTATTCCACTG
1 AATCTATTCCACTG
86222676 TTGTCCAGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
42 4 0.08
43 1 0.02
44 32 0.63
45 14 0.27
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (44 bp):
AATCTATTCCACTGAATGCTAGGGAGATAAGATATGAAATCTTC
Found at i:86222817 original size:132 final size:132
Alignment explanation
Indices: 86222625--86223158 Score: 915
Period size: 132 Copynumber: 4.0 Consensus size: 132
86222615 TTCAATCTAT
* * *
86222625 TCCACTAATGCTTAGGGAGATAATATATGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
86222690 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
86222755 GC
131 GC
* *
86222757 TCCACTACTGTTTAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
86222822 AGAATTGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
86222887 GC
131 GC
* * * *
86222889 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATATATTCCACTGTTGTCCAAGGAAAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
*
86222954 AGAATTACTGGCCTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
86223019 GC
131 GC
* *
86223021 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTTTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* *
86223086 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCATATTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
86223151 GC
131 GC
86223153 TCCACT
1 TCCACT
86223159 GTCAATGCAG
Statistics
Matches: 375, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GC
Found at i:86222818 original size:44 final size:44
Alignment explanation
Indices: 86222593--86223082 Score: 140
Period size: 44 Copynumber: 11.1 Consensus size: 44
86222583 ACTGCGACTG
* *
86222593 CAGGGAGATAAGA-CTTACAATCTTCAATCTATTCCACTAATG-C
1 CAGGGAGATAAGATC-TGCAATCTTCAATCTATTCCACTATTGTC
* * * * *
86222636 TTAGGGAGATAATATATGAAATCTTCAATCTATTCCACTGTTGTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* *** * * ***
86222681 CAGGGA-AGT-AGAAT-TACTGGCTTCAATGTACTCCACTATAACC
1 CAGGGAGA-TAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * * ** * *
86222724 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGTT
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * *
86222769 TAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTGTTGTC
1 CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
*** * * ***
86222813 CAGGGA-AGT-AGAAT-TGCTGGCTTCAATGTACTCCACTATAACC
1 CAGGGAGA-TAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * ** ** *
86222856 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG-C
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * *
86222900 TTAGGGAGATAAGATCTGAAATCTTTAATATATTCCACTGTTGTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * *** * * * ***
86222945 CAAGGAAAT-AGAAT-TACTGGCCTCAATGTACTCCACTATAACC
1 CAGGGAGATAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * * ** *
86222988 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG-C
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * *
86223032 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTTTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
86223077 CAGGGA
1 CAGGGA
86223083 AGTAGAATTA
Statistics
Matches: 299, Mismatches: 127, Indels: 40
0.64 0.27 0.09
Matches are distributed among these distances:
43 60 0.20
44 185 0.62
45 54 0.18
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
Found at i:86228204 original size:98 final size:98
Alignment explanation
Indices: 86228050--86228267 Score: 436
Period size: 98 Copynumber: 2.2 Consensus size: 98
86228040 AAAGGAACAC
86228050 CCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTTTAGAATCTCAA
1 CCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTTTAGAATCTCAA
86228115 ACTCGGAATATTTCCCTTACTTTACAAGAACCT
66 ACTCGGAATATTTCCCTTACTTTACAAGAACCT
86228148 CCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTTTAGAATCTCAA
1 CCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTTTAGAATCTCAA
86228213 ACTCGGAATATTTCCCTTACTTTACAAGAACCT
66 ACTCGGAATATTTCCCTTACTTTACAAGAACCT
86228246 CCACTTATCCAAGATTTAAGAA
1 CCACTTATCCAAGATTTAAGAA
86228268 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 120 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (98 bp):
CCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTTTAGAATCTCAA
ACTCGGAATATTTCCCTTACTTTACAAGAACCT
Found at i:86229137 original size:72 final size:71
Alignment explanation
Indices: 86228957--86229154 Score: 208
Period size: 72 Copynumber: 2.8 Consensus size: 71
86228947 AAAATAAGCA
* * *
86228957 TTAGCGGCGTTTTACTG-AAAGCGCCGC--AAAAACCAAAGACAAACGATGCCGTTTCTGAGTTT
1 TTAGCGGCGTTTT--TGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTT
86229019 TTGGGGAT
64 TTGGGGAT
* * ****
86229027 TTAGCGACGTTTTT-AATCAAGCGCCACTAATTTTCCTAAGACAAACGGTGCCGTTTCGGTAGTT
1 TTAGCGGCGTTTTTGAA--AAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGG-AGTT
86229091 TTT-GGGAT
63 TTTGGGGAT
* *
86229099 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTT
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTT
86229155 TCCAAGCTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
68 2 0.02
70 20 0.19
72 72 0.70
73 7 0.07
74 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (71 bp):
TTAGCGGCGTTTTTGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTTTT
GGGGAT
Found at i:86229998 original size:13 final size:13
Alignment explanation
Indices: 86229976--86230017 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
86229966 TGAGTTTGGG
* *
86229976 GTTTAAGGTTTGA
1 GTTTAGGGTTTTA
86229989 GTTTAGGGTTTTA
1 GTTTAGGGTTTTA
*
86230002 G-CTAGGGTTTTA
1 GTTTAGGGTTTTA
86230014 GTTT
1 GTTT
86230018 GGAAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTTA
Found at i:86230174 original size:14 final size:14
Alignment explanation
Indices: 86230146--86230234 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
86230136 TTCCCAAAAA
86230146 TATGGTTTA-GGTT
1 TATGGTTTAGGGTT
86230159 TATGGTTTAGGGTT
1 TATGGTTTAGGGTT
** *
86230173 TACAGTTTAGAGTT
1 TATGGTTTAGGGTT
86230187 TA-GAGTTTTA-GGTT
1 TATG-G-TTTAGGGTT
** *
86230201 TGGGGTTTAGGATT
1 TATGGTTTAGGGTT
* * *
86230215 TAAGATTTAAGGTT
1 TATGGTTTAGGGTT
86230229 TATGGT
1 TATGGT
86230235 ATATATATTG
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
13 13 0.23
14 39 0.68
15 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (14 bp):
TATGGTTTAGGGTT
Found at i:86230201 original size:21 final size:19
Alignment explanation
Indices: 86230149--86230230 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 19
86230139 CCAAAAATAT
86230149 GGTTTAGGTTTATGGTTTAG
1 GGTTTAGGTTTA-GGTTTAG
*
86230169 GGTTTACAGTTTAGAGTTTAG
1 GGTTTA-GGTTTAG-GTTTAG
* *
86230190 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTT-AGGTTTAG
* *
86230211 GATTTAAGATTTAAGGTTTA
1 GGTTT-AGGTTT-AGGTTTA
86230231 TGGTATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.22
21 32 0.65
22 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (19 bp):
GGTTTAGGTTTAGGTTTAG
Found at i:86230871 original size:115 final size:116
Alignment explanation
Indices: 86230669--86230908 Score: 378
Period size: 115 Copynumber: 2.1 Consensus size: 116
86230659 GGCGCTTCAG
* * **
86230669 AAAAAACGTCGCTAAAGGTCATATATTACCGGCGTTTTGTGAAGAAACGCCACAAAATTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
*
86230734 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT-T
66 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
* *
86230784 AAAAAATGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCAC-AAATTGCCTTT
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATT-CCTTT
*
86230848 AACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
65 AACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
86230900 -AAAAACGCC
1 AAAAAACGCC
86230909 ACAAATTCGC
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 5 0.04
115 108 0.95
116 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (116 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
Found at i:86231312 original size:261 final size:261
Alignment explanation
Indices: 86230770--86231480 Score: 1151
Period size: 261 Copynumber: 2.7 Consensus size: 261
86230760 TTGTTTTCTT
*
86230770 TTAGTGGCGCATTTAAAAAAT-GCCGCTAAAA-GTGATATATTACCGGCGTTTTACGAAGAAACG
1 TTAGTGGCGCATTT-GAAAATCGCCGC-AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACG
* * * *
86230833 CCACAAATTGCCTTTAACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATT
64 CCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
* * * * * *
86230898 ATAAAAACGCCACAAAT-TCGCAAATCACGAGCTGAGGAAACGGTGTCGTTTCCTTTTTTTATTA
129 ATAAAAACGCCACAAATATTG---TTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTA
* *
86230962 GTGGCGCTTTAGCTAAAGCGCCGCAACAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
191 GTGGCGCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
*
86231027 TTGTTA
256 TTGATA
* *
86231033 TTAGTGGCGCAGTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTATGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
86231098 AGAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
86231163 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
131 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
86231228 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
196 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
86231293 A
261 A
86231294 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
86231359 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
** *
86231424 AAAAACGCCACAAATATT-TATTAATAGCTGAGGAAACGGCGCCGTTTCCTATTTTTA
131 AAAAACGCCACAAATATTGT-TTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTA
86231481 TTAGCTGAAG
Statistics
Matches: 419, Mismatches: 25, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
260 1 0.00
261 282 0.67
262 9 0.02
263 125 0.30
264 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (261 bp):
TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
A
Found at i:86238352 original size:21 final size:21
Alignment explanation
Indices: 86238326--86238396 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
86238316 CTACAACTTA
* *
86238326 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
86238347 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
86238368 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
86238389 AAGCAGAG
1 AAGCAGAG
86238397 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:86238639 original size:14 final size:14
Alignment explanation
Indices: 86238620--86238653 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
86238610 ATTGCTATTG
86238620 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
86238634 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
86238648 TTTGCT
1 GTTGCT
86238654 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:86238770 original size:40 final size:41
Alignment explanation
Indices: 86238720--86239051 Score: 189
Period size: 42 Copynumber: 7.9 Consensus size: 41
86238710 GTTTTTGTAT
* * *
86238720 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-T
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
* *
86238760 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTG--AA
* * ***
86238804 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * ***
86238846 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * * * * ***
86238888 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGC-GTTTGAA
* * ***
86238930 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * * * * ***
86238972 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGC-GTTTGAA
* *
86239014 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
86239052 TTTTCTAAGC
Statistics
Matches: 243, Mismatches: 42, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
40 32 0.13
41 6 0.02
42 171 0.70
44 34 0.14
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
Found at i:86238823 original size:44 final size:40
Alignment explanation
Indices: 86238720--86238882 Score: 146
Period size: 40 Copynumber: 3.9 Consensus size: 40
86238710 GTTTTTGTAT
* * * *
86238720 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGA
*
86238760 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTAG---A
* * ***
86238804 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG--TTAGA
** * *
86238846 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTT
86238883 TTTTTCTAAG
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
40 34 0.33
41 3 0.03
42 31 0.30
44 32 0.31
45 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGA
Found at i:86238873 original size:42 final size:42
Alignment explanation
Indices: 86238809--86239095 Score: 409
Period size: 42 Copynumber: 6.8 Consensus size: 42
86238799 GAAAAAAAAA
* **
86238809 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTC-TAAG
*
86238851 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
86238893 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-CTAAG
*
86238935 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
86238977 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-CTAAG
*
86239019 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
86239061 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
86239096 GTTTGTAAAC
Statistics
Matches: 219, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.01
42 210 0.96
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:86238897 original size:84 final size:83
Alignment explanation
Indices: 86238722--86239095 Score: 464
Period size: 84 Copynumber: 4.5 Consensus size: 83
86238712 TTTTGTATAA
* * * * * * * *
86238722 AAGCGCCACTAAAGAACATGTTCTTTTGCGGC-GTTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTAAAACGCCGCTAAAGAACATGTTCT
*******
86238786 TTAGCGGCGATTAGAAAAAA
66 TTAGCGGCG-TT-TTTTTCT
* * * * *
86238806 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT-AAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTT--TTTAAAACGCCGCTAAAGAACATGTT
86238870 CTTTAGCGGCGTTTTTTTCT
64 CTTTAGCGGCGTTTTTTTCT
*
86238890 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTA-AAACGCCGCTAAAGAACATGTTC
86238955 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTTCT
*
86238974 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTA-AAACGCCGCTAAAGAACATGTTC
86239039 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTTCT
* *
86239058 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTT
86239096 GTTTGTAAAC
Statistics
Matches: 259, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
82 2 0.01
84 221 0.85
85 5 0.02
86 30 0.12
87 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTAAAACGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTTCT
Found at i:86240036 original size:42 final size:43
Alignment explanation
Indices: 86239917--86240101 Score: 257
Period size: 43 Copynumber: 4.3 Consensus size: 43
86239907 TTTTCATGAC
* * *
86239917 CTTTAGCTGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
* *
86239960 CTTTAGCGGCATTTGTGGGAAAAGCGCTGCTAAAGGTCATGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
* *
86240003 CTTTAGCGGCGTTTGT-GGAAAAGCGTCGCTAAAGGTTATGCT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
* *
86240045 CTTTAGCGGCGTTTTTGGGAAAAGCCCCGCTAAAGGTCATGACT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG-CT
*
86240089 -TTTAGCTGCGTTT
1 CTTTAGCGGCGTTT
86240102 ATTTCTAAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 38 0.30
43 86 0.68
44 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCT
Found at i:86240054 original size:85 final size:87
Alignment explanation
Indices: 86239910--86240101 Score: 275
Period size: 85 Copynumber: 2.3 Consensus size: 87
86239900 TTTTTATTTT
* *
86239910 TCATGAC-CTTTAGCTGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTT
1 TCATGACTCTTTAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCATTT
* *
86239974 GTGGGAAAAGCGCTGCTAAAGG
66 GTGGGAAAAGCCCCGCTAAAGG
* * * *
86239996 TCATG-CTCTTTAGCGGCGTTTGT-GGAAAAGCGTCGCTAAAGGTTATGCTCTTTAGCGGCGTTT
1 TCATGACTCTTTAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCATTT
*
86240059 TTGGGAAAAGCCCCGCTAAAGG
66 GTGGGAAAAGCCCCGCTAAAGG
86240081 TCATGACT-TTTAGCTGCGTTT
1 TCATGACTCTTTAGCTGCGTTT
86240102 ATTTCTAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
85 73 0.78
86 21 0.22
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (87 bp):
TCATGACTCTTTAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGCATTT
GTGGGAAAAGCCCCGCTAAAGG
Found at i:86240416 original size:41 final size:41
Alignment explanation
Indices: 86240357--86240555 Score: 206
Period size: 41 Copynumber: 4.9 Consensus size: 41
86240347 TGACCTTTCG
* *
86240357 GGGCTTTTAGCAGTGTTTTTGAAAAAGCGCCGCTAATGATC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATC
* * ** *
86240398 GGGCTTTTAGCGGCGTTTTTTAAATAGCGCCATTAA-GATT
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATC
* * *
86240438 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTAA
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGAT-C
* * * * * *
86240480 GAGC-TGTAGCGGCGTTTTTTAAAATGCGCTGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATC
*
86240520 TGGCTTTTAGCGGCGTTTTT-AAGAAAGCGCCGCTAA
1 GGGCTTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAA
86240556 AACATTTTAT
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 40 0.31
41 87 0.67
42 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATC
Found at i:86240492 original size:81 final size:83
Alignment explanation
Indices: 86240357--86240555 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 83
86240347 TGACCTTTCG
* * * * *
86240357 GGGCTTTTAGCAGTGTTTTTGAAAAAGCGCCGCTAATGATCGGGCTTTTAGCGGCGTTTTTT-AA
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATAGAGCTTGTAGCGGCGTTTTTTAAA
*
86240421 ATAGCGCCATTAA-GAT-T
66 AT-GCGCCACTAATGATCT
* *
86240438 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTAAGAGC-TGTAGCGGCGTTTTTTAA
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGAT-AGAGCTTGTAGCGGCGTTTTTTAA
** *
86240502 AATGCGCTGCTAATGCTCT
65 AATGCGCCACTAATGATCT
86240521 -GGCTTTTAGCGGCGTTTTT-AAGAAAGCGCCGCTAA
1 GGGCTTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAA
86240556 AACATTTTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
81 60 0.59
82 40 0.40
83 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (83 bp):
GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGATAGAGCTTGTAGCGGCGTTTTTTAAA
ATGCGCCACTAATGATCT
Found at i:86241130 original size:21 final size:21
Alignment explanation
Indices: 86241105--86241158 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
86241095 TAAATAAGGT
86241105 TTAGGGGTTAGTAGTTAGAGG
1 TTAGGGGTTAGTAGTTAGAGG
*
86241126 TTAGGGGTTTAG-GGTTAGAGG
1 TTAGGGG-TTAGTAGTTAGAGG
* *
86241147 TTAAGAGTTAGT
1 TTAGGGGTTAGT
86241159 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGAGG
Found at i:86241141 original size:14 final size:14
Alignment explanation
Indices: 86241101--86241174 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
86241091 ATATTAAATA
86241101 AGGTTTAGGGGTTAG
1 AGGTTTA-GGGTTAG
86241116 TA-G-TTAGAGGTTAG
1 -AGGTTTAG-GGTTAG
*
86241130 GGGTTTAGGGTTAG
1 AGGTTTAGGGTTAG
* *
86241144 AGGTTAAGAGTTAG
1 AGGTTTAGGGTTAG
* *
86241158 TGATTTAGGGTTTAG
1 AGGTTTAGGG-TTAG
86241173 AG
1 AG
86241175 ACTCGGGGTC
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
13 1 0.02
14 33 0.73
15 10 0.22
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
AGGTTTAGGGTTAG
Found at i:86241275 original size:7 final size:7
Alignment explanation
Indices: 86241263--86241308 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
86241253 ATTGTAAAAG
86241263 AGGGGTT
1 AGGGGTT
86241270 AGGGGTT
1 AGGGGTT
*
86241277 AGAGGTT
1 AGGGGTT
* *
86241284 AAGGATT
1 AGGGGTT
86241291 AGGGGTT
1 AGGGGTT
86241298 AGGGGTT
1 AGGGGTT
86241305 AGGG
1 AGGG
86241309 ATATACTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.52, T:0.26
Consensus pattern (7 bp):
AGGGGTT
Found at i:86250474 original size:24 final size:23
Alignment explanation
Indices: 86250431--86250475 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
86250421 AAACTTGACA
*
86250431 TTTTTCTAATTTGACTTTTAATT
1 TTTTTCTAATTTGAATTTTAATT
86250454 TTTTATCTAATTT-AATATTTAA
1 TTTT-TCTAATTTGAAT-TTTAA
86250476 ACTCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTCTAATTTGAATTTTAATT
Found at i:86255566 original size:31 final size:31
Alignment explanation
Indices: 86255518--86255581 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
86255508 GTAACTAGAT
* * *
86255518 TATTCAAAAGTTTTCATTTGAGTCATTGAAC
1 TATTAAAAAATTTTCATTTAAGTCATTGAAC
*
86255549 TATTAAAAAATTTTCATTTAATTCATTGAAC
1 TATTAAAAAATTTTCATTTAAGTCATTGAAC
86255580 TA
1 TA
86255582 CTTGAAAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
TATTAAAAAATTTTCATTTAAGTCATTGAAC
Found at i:86259628 original size:39 final size:39
Alignment explanation
Indices: 86259569--86259646 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
86259559 TTTATGAAAT
86259569 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
1 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
* *
86259608 GAAATAGAGATAGGAACTATGGCAGAGGAGGAACATAAA
1 GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
86259647 ATATGTGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.29, T:0.12
Consensus pattern (39 bp):
GAAACAGAGATAGGAACTATGGCAGACGAGGAACATAAA
Found at i:86261410 original size:42 final size:42
Alignment explanation
Indices: 86261359--86261729 Score: 600
Period size: 42 Copynumber: 8.8 Consensus size: 42
86261349 GTTTACAAAC
* *
86261359 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
86261401 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
86261443 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
86261485 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * * *
86261527 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
86261569 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
86261611 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
86261653 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
86261695 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
86261730 NNNNNNNNNN
Statistics
Matches: 305, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
41 3 0.01
42 299 0.98
43 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:86269365 original size:11 final size:11
Alignment explanation
Indices: 86269349--86269388 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
86269339 GATGATAATA
86269349 CATTAGTTACC
1 CATTAGTTACC
86269360 CATTAGTTACC
1 CATTAGTTACC
*
86269371 CACTAGTTACC
1 CATTAGTTACC
86269382 CA-TAGTT
1 CATTAGTT
86269389 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:86269934 original size:14 final size:14
Alignment explanation
Indices: 86269915--86269944 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
86269905 CACGAACAGC
86269915 AAGATGATTAACTA
1 AAGATGATTAACTA
86269929 AAGATGATTAACTA
1 AAGATGATTAACTA
86269943 AA
1 AA
86269945 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:86271290 original size:27 final size:27
Alignment explanation
Indices: 86271258--86271309 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
86271248 TCTTACTTTT
* *
86271258 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
86271285 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
86271310 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:86271400 original size:8 final size:10
Alignment explanation
Indices: 86271377--86271413 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
86271367 TAATAACTAT
86271377 ATATATATCC
1 ATATATATCC
*
86271387 ATATATATTC
1 ATATATATCC
86271397 ATATATATCC
1 ATATATATCC
86271407 ATATATA
1 ATATATA
86271414 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:86272432 original size:82 final size:82
Alignment explanation
Indices: 86272313--86272571 Score: 482
Period size: 82 Copynumber: 3.2 Consensus size: 82
86272303 GCTACCGGAA
*
86272313 AAAACGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
86272378 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
86272395 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
86272460 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
*
86272477 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAATTTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
* *
86272542 TTACGGCGTTTTCCCTT
66 TTGCGGCGTTTTACCTT
86272559 AAAACGCCACTAA
1 AAAACGCCACTAA
86272572 TAGAGTACAC
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 173 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTGCGGCGTTTTACCTT
Found at i:86274511 original size:28 final size:27
Alignment explanation
Indices: 86274432--86274513 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
86274422 AATATGATTT
* * *
86274432 TATTAATTCATATTTTTAATGGCATTAAA
1 TATTAATTTATAATTTTAA--GAATTAAA
* *
86274461 TATTATTTTTTAATTTTAGAGAATTAATA
1 TATTAATTTATAATTTTA-AGAATTAA-A
86274490 TATTAATTTATAATTTTAAGAATT
1 TATTAATTTATAATTTTAAGAATT
86274514 GAAAAGTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.27
29 31 0.70
30 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
TATTAATTTATAATTTTAAGAATTAAA
Found at i:86274764 original size:44 final size:43
Alignment explanation
Indices: 86274697--86274968 Score: 271
Period size: 43 Copynumber: 6.3 Consensus size: 43
86274687 GTTTTTACCG
* *
86274697 ACAAACGCCTCTAAAGACTAGGACCTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* *
86274740 ACAAATGCTGCTAAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCT-AAAGACCAGGACCTTTAGCGGCGCTTTCCCC
*
86274784 ACAAACACCGCTAAAGACCAGGACCTTTAGCGGCGC-TTCCCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * * * ***
86274826 ACACACGCCACTATAGACCAAGACCTTTAGCGGCGCTTTTGTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * ** ***
86274869 ACAAACGCCACTATAGACCACAACCTTTAGCGGCGCTTTTGTC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
* * * * * * *
86274912 ACAAATGTCGCTATAGAGCA-AACCTTTAGCGACGCTTCTCGCC
1 ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTT-TCCCC
86274955 A-AAACGCCGCTAAA
1 ACAAACGCCGCTAAA
86274969 AACATATCAT
Statistics
Matches: 198, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 63 0.32
43 96 0.48
44 39 0.20
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
Found at i:86274887 original size:85 final size:86
Alignment explanation
Indices: 86274697--86274906 Score: 260
Period size: 85 Copynumber: 2.4 Consensus size: 86
86274687 GTTTTTACCG
* * * ** *
86274697 ACAAACGCCTCTAAAGACTAGGACCTTTAGCGGCGCTTTCCCCACAAATGCTGCTAAAAGACCAG
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGC-TTCCCCACAAACGCCACTAAAAGACCAA
86274762 GACCTTTAGCGGCGCTTTCCCC
65 GACCTTTAGCGGCGCTTTCCCC
* * * *
86274784 ACAAACACCGCTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACACACGCCACT-ATAGACCAAG
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACAAACGCCACTAAAAGACCAAG
***
86274848 ACCTTTAGCGGCGCTTTTGTC
66 ACCTTTAGCGGCGCTTTCCCC
* **
86274869 ACAAACGCCACTATAGACCACAACCTTTAGCGGCGCTT
1 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTT
86274907 TTGTCACAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
85 59 0.56
86 14 0.13
87 33 0.31
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (86 bp):
ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTCCCCACAAACGCCACTAAAAGACCAAG
ACCTTTAGCGGCGCTTTCCCC
Found at i:86274937 original size:85 final size:84
Alignment explanation
Indices: 86274719--86274948 Score: 237
Period size: 85 Copynumber: 2.7 Consensus size: 84
86274709 AAAGACTAGG
* *
86274719 ACCTTTAGCGGCGCTTTCCCCACAAATGCTGCTAAAAGACCAGGACCTTTAGCGGCGCTTTCCCC
1 ACCTTTAGCGGCGCTTTCCCCACAAATGC-GCT-ATAGACCA-AACCTTTAGCGGCGCTTTCCCC
* **
86274784 ACAAACACCGCTAAAGACCAGG
63 ACAAACACCACTAAAGACCACA
* * * ***
86274806 ACCTTTAGCGGCGC-TTCCCCACACACGCCACTATAGACCAAGACCTTTAGCGGCGCTTTTGTCA
1 ACCTTTAGCGGCGCTTTCCCCACAAATG-CGCTATAGACCAA-ACCTTTAGCGGCGCTTTCCCCA
* *
86274870 CAAACGCCACTATAGACCACA
64 CAAACACCACTAAAGACCACA
*** * *
86274891 ACCTTTAGCGGCGCTTTTGTCACAAATGTCGCTATAGAGCAAACCTTTAGCGACGCTT
1 ACCTTTAGCGGCGCTTTCCCCACAAATG-CGCTATAGACCAAACCTTTAGCGGCGCTT
86274949 CTCGCCAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
85 71 0.60
86 32 0.27
87 15 0.13
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (84 bp):
ACCTTTAGCGGCGCTTTCCCCACAAATGCGCTATAGACCAAACCTTTAGCGGCGCTTTCCCCACA
AACACCACTAAAGACCACA
Found at i:86277452 original size:7 final size:7
Alignment explanation
Indices: 86277433--86277480 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
86277423 ACTAATTAAT
*
86277433 CTAAACC
1 CTAACCC
86277440 CTAACCC
1 CTAACCC
*
86277447 CCAA-CC
1 CTAACCC
* *
86277453 CGAATCC
1 CTAACCC
86277460 CTAACCC
1 CTAACCC
86277467 CTAACCC
1 CTAACCC
86277474 CTAACCC
1 CTAACCC
86277481 ATAAACCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.31, C:0.54, G:0.02, T:0.12
Consensus pattern (7 bp):
CTAACCC
Found at i:86278070 original size:41 final size:41
Alignment explanation
Indices: 86278008--86278257 Score: 367
Period size: 41 Copynumber: 6.1 Consensus size: 41
86277998 GTAAAATATT
* * *
86278008 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAACCGTCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
86278049 TAAAACCCTGAACATTAGCGGCGCTTCTTCAAAAGCGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
86278090 TAAATCCCTGAGCATTCGCGGCGCTTCTTTAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
86278131 TAAAACCCTGAGCATTAGCGGTGCTTATTCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* *
86278172 TAAAGCCCTAAGCATTAGCGGCGCTTCATT-AAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTC-TTCAAAAACGCCGC
*
86278213 TAAATCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
86278254 TAAA
1 TAAA
86278258 GCCCCAAAAG
Statistics
Matches: 187, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.01
41 183 0.98
42 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAACCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
Found at i:86280210 original size:18 final size:19
Alignment explanation
Indices: 86280184--86280222 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
86280174 TACTTTTACT
* *
86280184 AATTTAAAATTTTAAA-AA
1 AATTAAAAAATTTAAATAA
86280202 AATTAAAAAATTTAAATAA
1 AATTAAAAAATTTAAATAA
86280221 AA
1 AA
86280223 AATTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAAAAATTTAAATAA
Found at i:86281246 original size:14 final size:14
Alignment explanation
Indices: 86281227--86281256 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86281217 TTAATGAAAA
*
86281227 TAAAAGTAGGGGAC
1 TAAAAGTAGAGGAC
86281241 TAAAAGTAGAGGAC
1 TAAAAGTAGAGGAC
86281255 TA
1 TA
86281257 TATTCTAAAA
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:0.47, C:0.07, G:0.30, T:0.17
Consensus pattern (14 bp):
TAAAAGTAGAGGAC
Found at i:86286320 original size:40 final size:39
Alignment explanation
Indices: 86286229--86286332 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
86286219 TCCTCGTTCA
* * * * **
86286229 AATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC
*
86286268 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC
86286307 GAATGCCTTCGGGACTTAACCCGGAT
1 -AATGCCTTCGGGACTTAACCCGGAT
86286333 ATAGTATCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 32 0.56
40 25 0.44
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC
Found at i:86286344 original size:40 final size:39
Alignment explanation
Indices: 86286194--86286411 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
86286184 AAACCACGTA
* *
86286194 CCTTCGGGATTTAA-CCGGATATAGCT-CCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCG--CACAATG
* * * * * *
86286233 CCTTCGGGACATAGCCCAGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAATG
* **
86286272 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCAC-AATG
* *
86286312 CCTTCGGGACTTAACCCGGATATAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCAC-AATG
** * * * *
86286352 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAATG
*
86286392 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
86286412 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 47 0.33
40 86 0.60
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAATG
Found at i:86286420 original size:41 final size:41
Alignment explanation
Indices: 86286343--86286420 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
86286333 ATAGTATCTC
* * *
86286343 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
86286384 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
86286421 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:86301705 original size:18 final size:18
Alignment explanation
Indices: 86301682--86301719 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
86301672 TGTTATGAAA
86301682 ATCCATATTATAATATTT
1 ATCCATATTATAATATTT
86301700 ATCCATATTATAATATTT
1 ATCCATATTATAATATTT
86301718 AT
1 AT
86301720 TTTTATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
ATCCATATTATAATATTT
Found at i:86301952 original size:30 final size:28
Alignment explanation
Indices: 86301912--86301979 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
86301902 TATCTTATAT
* *
86301912 TATA-TATATAAGATCAAAATCCATTAATA
1 TATATTATATAACAT-AAAAT-CATGAATA
* *
86301941 TATATTATATAACATAAAGTCATGCATA
1 TATATTATATAACATAAAATCATGAATA
86301969 TATATTATATA
1 TATATTATATA
86301980 GAATAAAGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.50
29 8 0.24
30 9 0.26
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATTATATAACATAAAATCATGAATA
Found at i:86302001 original size:28 final size:28
Alignment explanation
Indices: 86301942--86302007 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
86301932 CCATTAATAT
* *
86301942 ATATTATATAACATAAAGTCATGCATAT
1 ATATTATATAACATAAAGCCATGCATAC
*
86301970 ATATTATATAGA-ATAAAGCCATGCATGC
1 ATATTATATA-ACATAAAGCCATGCATAC
*
86301998 ATATAATATA
1 ATATTATATA
86302008 TGTATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (28 bp):
ATATTATATAACATAAAGCCATGCATAC
Found at i:86302008 original size:30 final size:28
Alignment explanation
Indices: 86301938--86301995 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
86301928 AAATCCATTA
*
86301938 ATATATATTATATAACATAAAGTCATGC
1 ATATATATTATATAACATAAAGCCATGC
86301966 ATATATATTATATAGA-ATAAAGCCATGC
1 ATATATATTATATA-ACATAAAGCCATGC
86301994 AT
1 AT
86301996 GCATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (28 bp):
ATATATATTATATAACATAAAGCCATGC
Found at i:86302062 original size:34 final size:34
Alignment explanation
Indices: 86302024--86302136 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 34
86302014 ATCACCCACG
86302024 TATATATATGTATATATATACAACTCCACTCATA
1 TATATATATGTATATATATACAACTCCACTCATA
* * *
86302058 TATAT-TATATATGTATATTACCAACTCC-CCCAT-
1 TATATATATGTATATATA-TA-CAACTCCACTCATA
*
86302091 T-TATATAT-TATATATATA-ACAC-CCACTAATA
1 TATATATATGTATATATATACA-ACTCCACTCATA
86302122 TATATAT-TGTATATA
1 TATATATATGTATATA
86302137 AAATAAAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
29 3 0.05
30 5 0.08
31 4 0.06
32 21 0.32
33 14 0.22
34 11 0.17
35 7 0.11
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.41
Consensus pattern (34 bp):
TATATATATGTATATATATACAACTCCACTCATA
Found at i:86302103 original size:36 final size:37
Alignment explanation
Indices: 86302026--86302105 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
86302016 CACCCACGTA
*
86302026 TATATATGTATATATATACAACTCCACTCATATATAT
1 TATATATGTATATATATACAACTCCACCCATATATAT
*
86302063 TATATATGTATAT-TA-CCAACTCC-CCCATTTATATAT
1 TATATATGTATATATATACAACTCCACCCA--TATATAT
86302099 TATATAT
1 TATATAT
86302106 ATAACACCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 3 0.08
35 7 0.18
36 16 0.41
37 13 0.33
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (37 bp):
TATATATGTATATATATACAACTCCACCCATATATAT
Found at i:86303145 original size:19 final size:19
Alignment explanation
Indices: 86303112--86303151 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
86303102 TTAAAAATGA
* *
86303112 AAAATAAATGGAAAGAAGC
1 AAAATAAAAGCAAAGAAGC
*
86303131 AAAATAAAAGCAAAGAGGC
1 AAAATAAAAGCAAAGAAGC
86303150 AA
1 AA
86303152 TGGGTGTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAATAAAAGCAAAGAAGC
Found at i:86303526 original size:65 final size:65
Alignment explanation
Indices: 86303445--86303575 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
86303435 AAAATTCGAT
*
86303445 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACTCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
86303510 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
86303575 T
1 T
86303576 ATCCAAATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (65 bp):
TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
Found at i:86304220 original size:51 final size:51
Alignment explanation
Indices: 86304164--86304271 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
86304154 CCAAACATCT
* * *
86304164 ATTCATATGAAATAAT-AGTTCTTACCAAATGAC-ATCTCATTCAAAATAATA
1 ATTCATATGAAAT-ATCAGTTCATACCAAATAACAAT-TCATGCAAAATAATA
*
86304215 GTTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
1 ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
86304266 ATTCAT
1 ATTCAT
86304272 GCTCCATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.04
51 46 0.92
52 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (51 bp):
ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:86304272 original size:17 final size:17
Alignment explanation
Indices: 86304241--86304273 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86304231 AGTTCATACC
86304241 AAATAACAATTCATGCA
1 AAATAACAATTCATGCA
*
86304258 AAATAATAATTCATGC
1 AAATAACAATTCATGC
86304274 TCCATCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (17 bp):
AAATAACAATTCATGCA
Found at i:86309387 original size:23 final size:21
Alignment explanation
Indices: 86309351--86309395 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
86309341 ATTTTAATAT
86309351 TTTAATTAATTAATTCCTAATTA
1 TTTAATTAATTAA-T-CTAATTA
86309374 TTTAATT-ATATAATCTAATTA
1 TTTAATTAAT-TAATCTAATTA
86309395 T
1 T
86309396 AGTTTTCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 10 0.48
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAATTAATTAATCTAATTA
Found at i:86309393 original size:32 final size:31
Alignment explanation
Indices: 86309324--86309394 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
86309314 TCCTAATAAA
*
86309324 AATT-ATTAATTCTAATTATTTTAATATTTT
1 AATTAATTAATTCTAATTATTTTAATATTAT
86309354 AATTAATTAATTCCTAATTA-TTTAAT-TATAT
1 AATTAATTAATT-CTAATTATTTTAATAT-TAT
86309385 AATCTAATTA
1 AAT-TAATTA
86309395 TAGTTTTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 18 0.50
32 13 0.36
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTAATTAATTCTAATTATTTTAATATTAT
Found at i:86311372 original size:28 final size:28
Alignment explanation
Indices: 86311326--86311399 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
86311316 TGGCCCCTTT
*
86311326 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
86311354 -GGCCCTAATCACATTCATATGGCCCATC
1 AGGCCC-AATCACATTCATATGGCCCATC
86311382 AGGCCCAATCACATTCAT
1 AGGCCCAATCACATTCAT
86311400 GGTCATGCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 5 0.12
28 33 0.77
29 5 0.12
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:86319611 original size:12 final size:13
Alignment explanation
Indices: 86319587--86319615 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
86319577 GGGCTGTAAC
86319587 TATTGCATTTATT
1 TATTGCATTTATT
86319600 TATTGC-TTTATT
1 TATTGCATTTATT
86319612 TATT
1 TATT
86319616 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:86325475 original size:17 final size:18
Alignment explanation
Indices: 86325453--86325486 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86325443 CACATTGAAG
86325453 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
86325470 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
86325487 CTTCAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:86328728 original size:11 final size:11
Alignment explanation
Indices: 86328692--86328747 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
86328682 CATGGTATGT
86328692 ATGATATGCAC
1 ATGATATGCAC
* *
86328703 ATGACATG--T
1 ATGATATGCAC
86328712 ATGATATGCAC
1 ATGATATGCAC
*
86328723 ATGATATG--T
1 ATGATATGCAC
86328732 ATGATATGCAC
1 ATGATATGCAC
86328743 ATGAT
1 ATGAT
86328748 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:86328747 original size:20 final size:20
Alignment explanation
Indices: 86328681--86328747 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
86328671 ATTTTGATAA
*
86328681 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
86328701 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
86328721 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
86328741 ACATGAT
1 ACATGAT
86328748 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:86328823 original size:24 final size:24
Alignment explanation
Indices: 86328797--86329781 Score: 1873
Period size: 24 Copynumber: 41.0 Consensus size: 24
86328787 GAGGAAGTGC
* *
86328797 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
86328821 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
86328845 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
* *
86328869 AAAAGGGCTTATACCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
86328893 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86328917 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86328941 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86328965 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86328989 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329013 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329037 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329061 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329085 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329109 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329133 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329157 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329181 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329205 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329229 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329253 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329277 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329301 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329325 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329349 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329373 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329397 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329421 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329445 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329469 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329493 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329517 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329541 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329565 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329589 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329613 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329637 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329661 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329685 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86329709 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
86329733 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
86329757 AAAAGAGGC-TAGGCCTCCAGTTATT
1 AAAAG-GGCTTATGCC-CCAGTTATT
86329782 TGATAAAGCA
Statistics
Matches: 949, Mismatches: 10, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
24 937 0.99
25 12 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:86337886 original size:20 final size:20
Alignment explanation
Indices: 86337820--86337886 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
86337810 ATTTTGATAA
* *
86337820 ACATGGTATGTATGATATAC
1 ACATGATATGTATGATATGC
*
86337840 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
86337860 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
86337880 ACATGAT
1 ACATGAT
86337887 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:86337967 original size:24 final size:24
Alignment explanation
Indices: 86337936--86338920 Score: 1900
Period size: 24 Copynumber: 41.0 Consensus size: 24
86337926 GATGAAGTGC
* *
86337936 AAAAGGGCTTATACCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
86337960 AAAAGGGCTTATGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
86337984 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338008 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338032 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338056 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338080 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338104 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338128 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338152 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338176 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338200 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338224 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338248 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338272 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338296 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338320 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338344 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338368 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338392 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338416 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338440 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338464 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338488 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338512 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338536 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338560 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338584 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338608 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338632 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338656 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338680 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338704 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338728 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338752 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338776 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338800 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338824 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
86338848 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
86338872 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
86338896 AAAAGAGGC-TAGGCCTCCAGTTATT
1 AAAAG-GGCTTATGCC-CCAGTTATT
86338921 TGATAAAGCA
Statistics
Matches: 952, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
24 940 0.99
25 12 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:86339578 original size:12 final size:12
Alignment explanation
Indices: 86339561--86339586 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
86339551 CAACACCATG
86339561 ATTATTTGATTT
1 ATTATTTGATTT
86339573 ATTATTTGATTT
1 ATTATTTGATTT
86339585 AT
1 AT
86339587 CAAAGAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
ATTATTTGATTT
Found at i:86349252 original size:28 final size:28
Alignment explanation
Indices: 86349217--86349290 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
86349207 CAGCCCCTTT
86349217 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
86349245 -GGCCCCAATCAT-ATTCATATGGCCCATC
1 AGG-CCCAATC-TCATTCATATGGCCCATC
*
86349273 AGGCCCAATCACATTCAT
1 AGGCCCAATCTCATTCAT
86349291 GGTCATGCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 2 0.05
28 36 0.88
29 3 0.07
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCTCATTCATATGGCCCATC
Done.