Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 56 of 187
Found at i:16562747 original size:13 final size:13
Alignment explanation
Indices: 16562713--16562764 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
16562703 AGGAGAGTCC
16562713 ATTAGATTAATTTA
1 ATTAG-TTAATTTA
*
16562727 GGTTAGTTAATTTA
1 -ATTAGTTAATTTA
*
16562741 ATTAGTTAATTAA
1 ATTAGTTAATTTA
*
16562754 AATA-TTAATTT
1 ATTAGTTAATTT
16562765 GGATTCGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 8 0.25
15 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:16566615 original size:20 final size:20
Alignment explanation
Indices: 16566590--16566629 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16566580 TGATGCCAGC
16566590 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
16566610 CATACATGTATTATACGCAT
1 CATACATGTATTATACGCAT
16566630 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
CATACATGTATTATACGCAT
Found at i:16593354 original size:17 final size:18
Alignment explanation
Indices: 16593325--16593366 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
16593315 GCCCCATAGC
*
16593325 CAGATACAGAAAGAATAT
1 CAGATACAGAAAGAATAA
*
16593343 CAGATA-AGAAAGATTAA
1 CAGATACAGAAAGAATAA
16593360 CAGATAC
1 CAGATAC
16593367 CAGAGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.17
Consensus pattern (18 bp):
CAGATACAGAAAGAATAA
Found at i:16600924 original size:24 final size:24
Alignment explanation
Indices: 16600897--16600943 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16600887 TTTTTATAAT
*
16600897 TTTTTTAGA-TTTTAAATATTTTTA
1 TTTTCTAGATTTTTAAA-ATTTTTA
*
16600921 TTTTCTATATTTTTAAAATTTTT
1 TTTTCTAGATTTTTAAAATTTTT
16600944 CATTGACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTCTAGATTTTTAAAATTTTTA
Found at i:16602223 original size:2 final size:2
Alignment explanation
Indices: 16602216--16602247 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16602206 CAAAGAAGTG
16602216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16602248 TTTATGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16605549 original size:2 final size:2
Alignment explanation
Indices: 16605542--16605579 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16605532 TAGTATATGA
16605542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16605580 TTGAGTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16605956 original size:17 final size:17
Alignment explanation
Indices: 16605926--16605959 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16605916 TTTATAAAAA
*
16605926 AATAAAATATTTATATT
1 AATAAAATAATTATATT
*
16605943 AATAAGATAATTATATT
1 AATAAAATAATTATATT
16605960 TGAAACTCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATAAAATAATTATATT
Found at i:16610098 original size:18 final size:18
Alignment explanation
Indices: 16610048--16610100 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
16610038 CAAAAATAAC
16610048 TAAATAAATA-ATTAAAAA
1 TAAA-AAATATATTAAAAA
16610066 TCATAAAAAT-T-TTAAAAA
1 T-A-AAAAATATATTAAAAA
16610084 TAAAAAATATATTAAAA
1 TAAAAAATATATTAAAA
16610101 TGATTCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 15 0.50
19 5 0.17
20 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAATATATTAAAAA
Found at i:16611523 original size:2 final size:2
Alignment explanation
Indices: 16611518--16611575 Score: 71
Period size: 2 Copynumber: 27.5 Consensus size: 2
16611508 TATCACCCTG
* *
16611518 AT AT AT AT AT AT AT AT CACC CT GAT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -A-T AT -AT AT AT AT AT AT AT AT AT AT
16611561 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
16611576 ATTAACTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16611531 original size:21 final size:22
Alignment explanation
Indices: 16611505--16611556 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
16611495 CCATCCGTGC
16611505 ATATATCACCCTGATATATATAT
1 ATATATCACCCTGA-ATATATAT
16611528 ATATATCACCCTGATATATATAT
1 ATATATCACCCTGA-ATATATAT
16611551 ATATAT
1 ATATAT
16611557 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (22 bp):
ATATATCACCCTGAATATATAT
Found at i:16611628 original size:18 final size:18
Alignment explanation
Indices: 16611602--16611636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16611592 AATATTGAGC
16611602 CGAGCTCGAGCTCGAGTT
1 CGAGCTCGAGCTCGAGTT
* *
16611620 CGAGTTCGAGCTTGAGT
1 CGAGCTCGAGCTCGAGT
16611637 ACAAAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
CGAGCTCGAGCTCGAGTT
Found at i:16612735 original size:34 final size:35
Alignment explanation
Indices: 16612691--16612757 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16612681 CAGTAAAATG
16612691 TTTTCCGTAAAATAATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* * *
16612725 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
16612758 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:16614252 original size:18 final size:18
Alignment explanation
Indices: 16614229--16614266 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16614219 TCAATTGAAA
16614229 AAATGCACAAATTTAAAC
1 AAATGCACAAATTTAAAC
*
16614247 AAATGCACAACTTTAAAC
1 AAATGCACAAATTTAAAC
16614265 AA
1 AA
16614267 CAGCAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATGCACAAATTTAAAC
Found at i:16614879 original size:16 final size:16
Alignment explanation
Indices: 16614858--16614891 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16614848 GGACGGAGAG
*
16614858 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
16614874 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
16614890 GA
1 GA
16614892 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:16616381 original size:55 final size:54
Alignment explanation
Indices: 16616319--16616487 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 54
16616309 TAACCACTTA
*
16616319 CGGTTTGTCGATTTACGATTGCAACCCTATACTTATAAGATTTTTCAGAATCTT
1 CGGTTTGTCGATTTACAATTGCAACCCTATACTTATAAGATTTTTCAGAATCTT
* ** * ** *
16616373 CGGGTTTGTTGATTTACAATCACAACCTTGCAGTT-TCAAGATTTTT-AGAATCTT
1 C-GGTTTGTCGATTTACAATTGCAACCCTATACTTAT-AAGATTTTTCAGAATCTT
* * * * *
16616427 ACGGTTTGCCAATTTACAATTGCAACCCTATACTTACACGA-TTTTCAGAAACTT
1 -CGGTTTGTCGATTTACAATTGCAACCCTATACTTATAAGATTTTTCAGAATCTT
16616481 CTGGTTT
1 C-GGTTT
16616488 TTTTACAATC
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
53 5 0.06
54 49 0.55
55 35 0.39
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (54 bp):
CGGTTTGTCGATTTACAATTGCAACCCTATACTTATAAGATTTTTCAGAATCTT
Found at i:16616444 original size:54 final size:55
Alignment explanation
Indices: 16616355--16616638 Score: 203
Period size: 54 Copynumber: 5.3 Consensus size: 55
16616345 CTATACTTAT
** *
16616355 AAGATTTTTCAGAATCTT-CGGGTTTGTTGATTTACAATCACAACCTTGCAGTTTC
1 AAGATTTTT-AGAATCTTACGGGTTTGCCGATTTACAATCACAACCTTGCACTTTC
* ** * ** *
16616410 AAGATTTTTAGAATCTTAC-GGTTTGCCAATTTACAATTGCAACCCTATACTTAC
1 AAGATTTTTAGAATCTTACGGGTTTGCCGATTTACAATCACAACCTTGCACTTTC
* * * * * *
16616464 ACGATTTTCAGAAACTT-CTGGTTT----TTTTACAATCACAACCTTGCACTTCC
1 AAGATTTTTAGAATCTTACGGGTTTGCCGATTTACAATCACAACCTTGCACTTTC
* ** *
16616514 ATGATTTTTAGAATCTTAC-GGTTCACCGATTTACAATCGCAACCTTGCAC-TTC
1 AAGATTTTTAGAATCTTACGGGTTTGCCGATTTACAATCACAACCTTGCACTTTC
* ** * ** *
16616567 TAAGATTTTTAGAATCTTAC-AGTTCACTGATTTA-AGATCGTAACCTTGCACTTCC
1 -AAGATTTTTAGAATCTTACGGGTTTGCCGATTTACA-ATCACAACCTTGCACTTTC
* *
16616622 AAAATTATTAGAATCTT
1 AAGATTTTTAGAATCTT
16616639 GTGATTCGTT
Statistics
Matches: 185, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
50 37 0.20
51 1 0.01
53 4 0.02
54 131 0.71
55 12 0.06
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (55 bp):
AAGATTTTTAGAATCTTACGGGTTTGCCGATTTACAATCACAACCTTGCACTTTC
Found at i:16616536 original size:104 final size:108
Alignment explanation
Indices: 16616315--16616557 Score: 332
Period size: 104 Copynumber: 2.3 Consensus size: 108
16616305 GTAGTAACCA
* * * *
16616315 CTTACGGTTTGTCGATTTACGATTGCAACCCTATACTTATAAGATTTTTCAGAATCTTCGGGTTT
1 CTTACGGTTTGCCGATTTACAATTGCAACCCTATACTTACAAGATTTTTCAGAAACTTCGGGTTT
* *
16616380 GTTGATTTACAATCACAACCTTGCAGTTTCAAGATTTTTAGAAT
66 GTT-ATTTACAATCACAACCTTGCACTTCCAAGATTTTTAGAAT
* * *
16616424 CTTACGGTTTGCCAATTTACAATTGCAACCCTATACTTACACGA-TTTTCAGAAACTTCTGG-TT
1 CTTACGGTTTGCCGATTTACAATTGCAACCCTATACTTACAAGATTTTTCAGAAACTTCGGGTTT
*
16616487 -TT-TTTACAATCACAACCTTGCACTTCCATGATTTTTAGAAT
66 GTTATTTACAATCACAACCTTGCACTTCCAAGATTTTTAGAAT
** *
16616528 CTTACGGTTCACCGATTTACAATCGCAACC
1 CTTACGGTTTGCCGATTTACAATTGCAACC
16616558 TTGCACTTCT
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
104 62 0.52
106 2 0.02
107 2 0.02
108 15 0.12
109 39 0.32
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (108 bp):
CTTACGGTTTGCCGATTTACAATTGCAACCCTATACTTACAAGATTTTTCAGAAACTTCGGGTTT
GTTATTTACAATCACAACCTTGCACTTCCAAGATTTTTAGAAT
Found at i:16616661 original size:54 final size:54
Alignment explanation
Indices: 16616500--16616695 Score: 166
Period size: 54 Copynumber: 3.6 Consensus size: 54
16616490 TTACAATCAC
* ** * * *
16616500 AACCTTGCACTTCCATGATTTTTAGAATCTTACG-GTTCACCGATTTACA-ATCGC
1 AACCTTGCACTTCCAAGA-TTTTAGAATCTTGTGAGTTCACTGAGTTA-AGATCGT
* ** *
16616554 AACCTTGCACTTCTAAGATTTTTAGAATCTT-ACAGTTCACTGATTTAAGATCGT
1 AACCTTGCACTTCCAAGA-TTTTAGAATCTTGTGAGTTCACTGAGTTAAGATCGT
* ** *
16616608 AACCTTGCACTTCCAAAATTATTAGAATCTTGTGA-TTCGTTGAGTTAATATCGT
1 AACCTTGCACTTCCAAGATT-TTAGAATCTTGTGAGTTCACTGAGTTAAGATCGT
* * *
16616662 AACCTTGTACTTACAAGATTTTCATAATCTTGTG
1 AACCTTGCACTTCCAAGATTTT-AGAATCTTGTG
16616696 GTCTACTGAT
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
53 5 0.04
54 113 0.95
55 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (54 bp):
AACCTTGCACTTCCAAGATTTTAGAATCTTGTGAGTTCACTGAGTTAAGATCGT
Found at i:16621487 original size:20 final size:23
Alignment explanation
Indices: 16621438--16621487 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
16621428 ATAAGTTATG
*
16621438 ATAATAAATTATAATATTTTTTT
1 ATAATAAATTATAATATTATTTT
16621461 ATAAATAAA-TAT-ATA-TATTTT
1 AT-AATAAATTATAATATTATTTT
16621482 ATAATA
1 ATAATA
16621488 TATAGTATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 7 0.28
22 3 0.12
23 5 0.20
24 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATAAATTATAATATTATTTT
Found at i:16625503 original size:26 final size:27
Alignment explanation
Indices: 16625452--16625504 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
16625442 ATTATAGCAC
* *
16625452 AAATCAGTCATTTACCCTAGAGGGGCA
1 AAATCAGTCATTTACCCTACAAGGGCA
*
16625479 AAAT-AGTCATTTACCCTCCAAGGGCA
1 AAATCAGTCATTTACCCTACAAGGGCA
16625505 TTACGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTACAAGGGCA
Found at i:16628988 original size:21 final size:21
Alignment explanation
Indices: 16628962--16629009 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
16628952 ATGAAGAAGA
16628962 AAGAAATAAAAAAGATTAAAG
1 AAGAAATAAAAAAGATTAAAG
*
16628983 AAGAAATAAAAAATATTAAAG
1 AAGAAATAAAAAAGATTAAAG
16629004 AAGAAA
1 AAGAAA
16629010 GAACTAACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (21 bp):
AAGAAATAAAAAAGATTAAAG
Found at i:16629563 original size:45 final size:45
Alignment explanation
Indices: 16629499--16629592 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
16629489 AAATATGAAC
16629499 ATTTACAGAGAAAATATAAAAATATATTAGAGATTGGTCTAGTAA
1 ATTTACAGAGAAAATATAAAAATATATTAGAGATTGGTCTAGTAA
16629544 ATTTACAGAGAAAATATAAAAATATATTAGAGATTGGTCTAGTAA
1 ATTTACAGAGAAAATATAAAAATATATTAGAGATTGGTCTAGTAA
16629589 ATTT
1 ATTT
16629593 GTCGAATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (45 bp):
ATTTACAGAGAAAATATAAAAATATATTAGAGATTGGTCTAGTAA
Found at i:16636920 original size:28 final size:29
Alignment explanation
Indices: 16636889--16636945 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
16636879 GCTATTTAAT
16636889 TTTAACTA-AAAATAATTTAAATA-TAAAA
1 TTTAA-TAGAAAATAATTTAAATATTAAAA
* *
16636917 TTTAATAGAAAATATTTTTAATATTAAAA
1 TTTAATAGAAAATAATTTAAATATTAAAA
16636946 AAGTAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.08
28 18 0.72
29 5 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTAATAGAAAATAATTTAAATATTAAAA
Found at i:16637938 original size:3 final size:3
Alignment explanation
Indices: 16637930--16637954 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16637920 TTACTATTTG
16637930 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
16637955 AAGTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:16640513 original size:21 final size:19
Alignment explanation
Indices: 16640478--16640517 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
16640468 AAATATTTTC
16640478 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCC-GAAA
*
16640498 AGTAAATTATTTTTCCGAAA
1 AGTAAATCA-TTTTCCGAAA
16640518 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
AGTAAATCATTTTCCGAAA
Found at i:16642310 original size:15 final size:15
Alignment explanation
Indices: 16642268--16642300 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16642258 GTATGCTAAG
16642268 ATAATAATAATAACA
1 ATAATAATAATAACA
16642283 ATAATAATAATAACA
1 ATAATAATAATAACA
16642298 ATA
1 ATA
16642301 GTAAAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAATAATAATAACA
Found at i:16643150 original size:11 final size:12
Alignment explanation
Indices: 16643130--16643158 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
16643120 TTACAAAATG
16643130 AAAATGAAAAGA
1 AAAATGAAAAGA
16643142 AAAAT-AAAAGA
1 AAAATGAAAAGA
16643153 AAAATG
1 AAAATG
16643159 CTCCCCCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (12 bp):
AAAATGAAAAGA
Found at i:16646473 original size:44 final size:44
Alignment explanation
Indices: 16646424--16646522 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
16646414 ATCTGCTCTG
*
16646424 TTGCAACTTCAAAGAGAT-GAGATCTA-TGGTTTTAATCCACTCCA
1 TTGCAACTTCAAAGAGATAG-GAT-TATTGGCTTTAATCCACTCCA
* **
16646468 TTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 TTGCAACTTCAAAGAGATAGGATTATTGGCTTTAATCCACTCCA
*
16646512 ATGCAACTTCA
1 TTGCAACTTCA
16646523 GGGAGGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 2 0.04
44 45 0.94
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
TTGCAACTTCAAAGAGATAGGATTATTGGCTTTAATCCACTCCA
Found at i:16646723 original size:132 final size:132
Alignment explanation
Indices: 16646480--16646724 Score: 355
Period size: 132 Copynumber: 1.9 Consensus size: 132
16646470 GCAACTTCAA
* * * * * * *
16646480 GGAGATAGGATTATTGGCTTTAATCTGCTCCAATGCAACTTCAGGGAGGTAAAATCTGTCATCTT
1 GGAGATAGAATTACTGGCTTCAATCTACTCCAATGCAACCTCAGGGAGGTAAAATCCGCCATCTT
* * **
16646545 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTATTCCACTGCTACCC
66 CAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAACTTCAATCTATTCCACTGCTACCC
16646610 AG
131 AG
* * *
16646612 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTT
1 GGAGATAGAATTACTGGCTTCAATCTACTCCAATGCAACCTCAGGGAGGTAAAATCCGCCATCTT
*
16646677 CAATCTGCTCCACTACTGTTTAAGGAGATAAGATCTGTAAACTTCAAT
66 CAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAACTTCAAT
16646725 TTGTTCAACT
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 98 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATCTACTCCAATGCAACCTCAGGGAGGTAAAATCCGCCATCTT
CAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAACTTCAATCTATTCCACTGCTACCC
AG
Found at i:16646780 original size:50 final size:50
Alignment explanation
Indices: 16646718--16647086 Score: 303
Period size: 50 Copynumber: 7.4 Consensus size: 50
16646708 GATCTGTAAA
* *
16646718 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * *** * *
16646768 CTTCAATCTGTTCCACCGCACTGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * * *
16646818 CTTCAATCTTTTTAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * *** * * *
16646868 CTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCATTGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTAG
* * * *
16646918 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * *** * * *
16646968 CTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTAG
* * * *
16647018 CTTCAATCTTTTTAA-TGGCAATATCAGGGAAACCAGATTCGCCGTCGTAG
1 CTTCAATCTGTTCAACT-GCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* *
16647068 CTTCAATTTGTTCTACTGC
1 CTTCAATCTGTTCAACTGC
16647087 CGCCCAGGGA
Statistics
Matches: 233, Mismatches: 80, Indels: 12
0.72 0.25 0.04
Matches are distributed among these distances:
49 3 0.01
50 227 0.97
51 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
Found at i:16646851 original size:100 final size:100
Alignment explanation
Indices: 16646734--16647086 Score: 591
Period size: 100 Copynumber: 3.5 Consensus size: 100
16646724 TTTGTTCAAC
* * * *
16646734 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACTG-TCAGGGA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGA
16646798 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
16646834 TGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
16646899 GTAAGATCCGCCATTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
16646934 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
16646999 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * *
16647034 GGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATTTGTTCTACTGC
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGC
16647087 CGCCCAGGGA
Statistics
Matches: 239, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 238 1.00
101 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:16647305 original size:132 final size:131
Alignment explanation
Indices: 16647068--16648505 Score: 1386
Period size: 132 Copynumber: 10.7 Consensus size: 131
16647058 GCCGTCGTAG
* * * * *
16647068 CTTCAATTTGTTCTACTGCCGCCCAGGG-AGATATAATTACTGGCTTCAATGTACTCCACTGTAA
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
16647132 CCTCAGGGAGGTAAAATTCACCATCTTTGATCTACTCCACTACTGCTTGGGGAGACAAGATCTGA
65 CCACAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGA
16647197 AAT
129 AAT
* *
16647200 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCCTCAATGTACTCCATTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
16647265 CATAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16647330 AT
130 AT
* * *
16647332 CTTCAATCTATTCCACCGCTGCCTAGGGAAGTAGAATTACTGGCCTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
16647397 CACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTTGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16647462 AT
130 AT
* * *
16647464 CTTCAATCTATTCCACCGCTGCCTAGGGAAGTAGAATTACTGGCCTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
16647529 CACAGGGAGGTAAAATTCACCTTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16647594 AT
130 AT
* *
16647596 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAAAATTACTGGCCTCAATTGTACTTCCACTGTA
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA-TGTAC-TCCACTGTA
* * * *
16647661 ACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTTGGGAGACCAGATTTT
64 ACCACAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGA-TCT
16647726 GAAAT
127 GAAAT
* * *
16647731 CTTCAATCTATTCCACTGTTTGTCCACGGGAAAGTACAATTACTGGCTTCAATGTACTCCACTGT
1 CTTCAATCTATTCCACTG-CTGCCCA-GGG-AAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
16647796 AACCACAGGGAGGTAAAATCACCATCTTTGATCTGCTCCACTACTGCTTGGCGAGACAATATTTG
63 AACCACAGGGAGGTAAAATTACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTG
16647861 AAAT
128 AAAT
***********************************************
16647865 CTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 CT----------------TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
************************************* *
16647930 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTTTGATCTGCTCCACTACTGCTTAGG
50 TGTACTCCACTGTAACCACAGGGAGGTAAAATTACCATCTTTGATCTGCTCCACTACTGCTTGGG
16647995 GAGACAAGATCTGAAAT
115 GAGACAAGATCTGAAAT
* * *
16648012 CTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
16648077 CTCAGGGAGGTAAAATTCACCATCTTTGATCTACTCCACTACTGCTTGGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16648142 AT
130 AT
16648144 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
*
16648209 CACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16648274 AT
130 AT
*
16648276 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
*
16648341 CACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
66 CACAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
16648406 AT
130 AT
*
16648408 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTTCACTGTAAC
1 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
16648473 CAC-GAGGAGGTAAAATCTGCCATCTTCGATCTG
66 CACAG-GGAGGTAAAAT-TACCATCTTTGATCTG
16648506 ATTCACTGTC
Statistics
Matches: 1053, Mismatches: 224, Indels: 58
0.79 0.17 0.04
Matches are distributed among these distances:
131 2 0.00
132 804 0.76
133 9 0.01
134 74 0.07
135 62 0.06
136 32 0.03
137 8 0.01
138 19 0.02
147 43 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.27
Consensus pattern (131 bp):
CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
CACAGGGAGGTAAAATTACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
T
Found at i:16648536 original size:45 final size:45
Alignment explanation
Indices: 16648487--16648629 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
16648477 AGGAGGTAAA
* *
16648487 ATCTGCCATCTTCGATCTGATTCACTGTCTATGCAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAG
* * * ** * *
16648532 ATCTGCTATCTTCAACCTGCTCCACTGTCTCCG-AGGGAGGCGAG
1 ATCTGCTATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAG
* * * * * *
16648576 GT-TGGTGTCTTCGATCTGCTTCACTATCGATGCAGGAAGGCAAT
1 ATCTGCTATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAG
*
16648620 ATCTGTTATC
1 ATCTGCTATC
16648630 ATCACTGATC
Statistics
Matches: 71, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 21 0.30
44 19 0.27
45 31 0.44
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAG
Found at i:16649893 original size:8 final size:7
Alignment explanation
Indices: 16649849--16649890 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
16649839 TTAGCCTCTC
16649849 CATTTTT
1 CATTTTT
16649856 -ACTTTTT
1 CA-TTTTT
16649863 CATTTTT
1 CATTTTT
16649870 CA-TTTT
1 CATTTTT
16649876 CATCTTTT
1 CAT-TTTT
16649884 CATTTTT
1 CATTTTT
16649891 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:16657879 original size:20 final size:21
Alignment explanation
Indices: 16657854--16657901 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16657844 TTTTGAATCA
16657854 AATTTTAATCAAGTTAAAA-T
1 AATTTTAATCAAGTTAAAACT
**
16657874 AATTTTAATTGAGTTAAAACT
1 AATTTTAATCAAGTTAAAACT
16657895 -ATTTTAA
1 AATTTTAA
16657902 AACAAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
AATTTTAATCAAGTTAAAACT
Found at i:16660093 original size:30 final size:29
Alignment explanation
Indices: 16660039--16660102 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
16660029 ATACACATTA
*
16660039 AAAAAAATTTAAAAATAGACATAAATATAT
1 AAAAAAATTCAAAAATAGACATAAA-ATAT
* * * *
16660069 AAAAAAATTCAAAATTATATATAAAATCT
1 AAAAAAATTCAAAAATAGACATAAAATAT
16660098 AAAAA
1 AAAAA
16660103 CAACATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAAAATTCAAAAATAGACATAAAATAT
Found at i:16660584 original size:15 final size:15
Alignment explanation
Indices: 16660566--16660596 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16660556 AATTATTTTT
16660566 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
16660581 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
16660596 T
1 T
16660597 TCTAAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:16661013 original size:21 final size:22
Alignment explanation
Indices: 16660989--16661033 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16660979 ACATTATTAG
* *
16660989 AATACCTA-TTTAGAATTTTAT
1 AATACATATTTTAAAATTTTAT
*
16661010 AATATATATTTTAAAATTTTAT
1 AATACATATTTTAAAATTTTAT
16661032 AA
1 AA
16661034 AAAATTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
AATACATATTTTAAAATTTTAT
Found at i:16661063 original size:25 final size:25
Alignment explanation
Indices: 16661014--16661061 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
16661004 TTTTATAATA
*
16661014 TATATTTTAAAATTTTATAAAAAAT
1 TATATTTTAAAATTTTAAAAAAAAT
*
16661039 TATA-TTTAAACTTTTAAAAAAAA
1 TATATTTTAAAATTTTAAAAAAAA
16661062 ATACAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATTTTAAAATTTTAAAAAAAAT
Found at i:16661070 original size:25 final size:24
Alignment explanation
Indices: 16661019--16661070 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
16661009 TAATATATAT
* * *
16661019 TTTAAAATTTTATAAAAAATTATA
1 TTTAAAATTTTAAAAAAAAATAAA
*
16661043 TTTAAACTTTTAAAAAAAAATACAA
1 TTTAAAATTTTAAAAAAAAATA-AA
16661068 TTT
1 TTT
16661071 TTTAAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAAAATTTTAAAAAAAAATAAA
Found at i:16661094 original size:11 final size:11
Alignment explanation
Indices: 16661063--16661105 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
16661053 TAAAAAAAAA
16661063 TACAA-TTTTT
1 TACAATTTTTT
*
16661073 TA-AATAATTTT
1 TACAAT-TTTTT
16661084 TACAATTTTTT
1 TACAATTTTTT
16661095 TACAATTTTTT
1 TACAATTTTTT
16661106 CTAATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 2 0.07
10 2 0.07
11 21 0.75
12 3 0.11
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (11 bp):
TACAATTTTTT
Found at i:16661198 original size:20 final size:19
Alignment explanation
Indices: 16661161--16661241 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 19
16661151 TTTTTTGTAA
16661161 ATTTTTTTATAATTTATAT
1 ATTTTTTTATAATTTATAT
*
16661180 -TTTTTTTCTAGA-TTATAT
1 ATTTTTTTATA-ATTTATAT
*
16661198 ATATTTTTATGAATTTTTATAT
1 ATTTTTTTAT-AA--TTTATAT
*
16661220 ATTTATTTCTAT-TTTTATAT
1 ATTT-TTT-TATAATTTATAT
16661240 AT
1 AT
16661242 CTAATTTGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
18 15 0.31
19 9 0.18
20 10 0.20
22 9 0.18
23 3 0.06
24 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTTATAATTTATAT
Found at i:16661223 original size:10 final size:10
Alignment explanation
Indices: 16661195--16661241 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
16661185 TTCTAGATTA
16661195 TATATATTTT
1 TATATATTTT
16661205 TATGA-ATTTT
1 TAT-ATATTTT
16661215 TATATATTTAT
1 TATATATTT-T
*
16661226 T-TCTATTTT
1 TATATATTTT
16661235 TATATAT
1 TATATAT
16661242 CTAATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 3 0.10
10 25 0.81
11 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TATATATTTT
Found at i:16662492 original size:3 final size:3
Alignment explanation
Indices: 16662472--16662506 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
16662462 ATTTCAATAG
*
16662472 TAT TAT CAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
16662507 TCTATACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16662585 original size:8 final size:8
Alignment explanation
Indices: 16662572--16662600 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16662562 TACATGTACA
16662572 TATTTTTT
1 TATTTTTT
16662580 TA-TTTTT
1 TATTTTTT
16662587 TATTTTTT
1 TATTTTTT
16662595 TATTTT
1 TATTTT
16662601 CATAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:16662592 original size:15 final size:15
Alignment explanation
Indices: 16662572--16662600 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16662562 TACATGTACA
16662572 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
16662587 TATTTTTTTATTTT
1 TATTTTTTTATTTT
16662601 CATAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:16662751 original size:12 final size:12
Alignment explanation
Indices: 16662734--16662758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16662724 TTTTATATTA
16662734 TATTTATACATT
1 TATTTATACATT
16662746 TATTTATACATT
1 TATTTATACATT
16662758 T
1 T
16662759 TGTAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTATACATT
Found at i:16663084 original size:10 final size:11
Alignment explanation
Indices: 16663069--16663106 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
16663059 TGTCTCGTTT
16663069 TTTATTTT-TC
1 TTTATTTTATC
16663079 TTTATTTTAT-
1 TTTATTTTATC
16663089 TTTATTTTATC
1 TTTATTTTATC
16663100 GTTTATT
1 -TTTATT
16663107 GGATTATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 18 0.72
11 1 0.04
12 6 0.24
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTATTTTATC
Found at i:16665457 original size:27 final size:25
Alignment explanation
Indices: 16665426--16665484 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
16665416 TTTATTAGGG
16665426 GTAAAATCGACAAAAATTTTACCAGA
1 GTAAAATCGAC-AAAATTTTACCAGA
* * *
16665452 GATAAAATTGTCAAAATTTTACTAGA
1 G-TAAAATCGACAAAATTTTACCAGA
16665478 GTAAAAT
1 GTAAAAT
16665485 TAAGGTGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 8 0.28
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (25 bp):
GTAAAATCGACAAAATTTTACCAGA
Found at i:16670400 original size:18 final size:18
Alignment explanation
Indices: 16670357--16670400 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
16670347 AAATATTCAT
* *
16670357 AAGAATATTTTAAAATTTT
1 AAGAA-ATTTTAAAAATTC
*
16670376 AAAAAATTTTAAAAATTC
1 AAGAAATTTTAAAAATTC
16670394 AAGAAAT
1 AAGAAAT
16670401 GATAAATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
AAGAAATTTTAAAAATTC
Found at i:16674395 original size:21 final size:21
Alignment explanation
Indices: 16674371--16674418 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16674361 CCGTGTAACC
* *
16674371 CAGTTACACGAGTGTTTCCCT
1 CAGTTACACGAGCGTGTCCCT
* *
16674392 CAGTCACACGGGCGTGTCCCT
1 CAGTTACACGAGCGTGTCCCT
16674413 CAGTTA
1 CAGTTA
16674419 AACGGCCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (21 bp):
CAGTTACACGAGCGTGTCCCT
Found at i:16690079 original size:25 final size:25
Alignment explanation
Indices: 16690051--16690182 Score: 110
Period size: 25 Copynumber: 5.3 Consensus size: 25
16690041 GCCATAATTT
*
16690051 GTAAGCTTCTCTGAGCTGAAATACG
1 GTAAGCTTCTCCGAGCTGAAATACG
* **
16690076 GTAAGCTCCTCCGAGCTGAAATAAA
1 GTAAGCTTCTCCGAGCTGAAATACG
* * *
16690101 ATAAGCTTATCCAAGCTGAAATACG
1 GTAAGCTTCTCCGAGCTGAAATACG
*
16690126 GTAAGC-TCATACGAGCTGAGAAT-CG
1 GTAAGCTTC-TCCGAGCTGA-AATACG
* *
16690151 GTAAGC-TCTCATGAGCTGTAAAT-TG
1 GTAAGCTTCTC-CGAGCTG-AAATACG
16690176 GTAAGCT
1 GTAAGCT
16690183 CATACTAGTT
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.02
25 79 0.93
26 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
GTAAGCTTCTCCGAGCTGAAATACG
Found at i:16690168 original size:50 final size:50
Alignment explanation
Indices: 16690051--16690187 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 50
16690041 GCCATAATTT
* *
16690051 GTAAGCTTCTC-TGAGCTGAAATACGGTAAGCTCCTCCGAGCTGAAATAAA
1 GTAAGC-TCTCATGAGCTGAAATACGGTAAGCTCATACGAGCTGAAATAAA
* * **
16690101 ATAAGCT-T-ATCCAAGCTGAAATACGGTAAGCTCATACGAGCTGAGAAT-CG
1 GTAAGCTCTCAT--GAGCTGAAATACGGTAAGCTCATACGAGCTGA-AATAAA
*
16690151 GTAAGCTCTCATGAGCTGTAAAT-TGGTAAGCTCATAC
1 GTAAGCTCTCATGAGCTG-AAATACGGTAAGCTCATAC
16690188 TAGTTGTGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
48 2 0.03
49 1 0.01
50 58 0.82
51 8 0.11
52 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (50 bp):
GTAAGCTCTCATGAGCTGAAATACGGTAAGCTCATACGAGCTGAAATAAA
Found at i:16695386 original size:2 final size:2
Alignment explanation
Indices: 16695379--16695405 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16695369 CCTAACTCGT
16695379 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16695406 GCTAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16699710 original size:20 final size:20
Alignment explanation
Indices: 16699673--16699740 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
16699663 TCTTTCTTTC
*
16699673 TTTCTTTCTTCTTACTTTTGT
1 TTTCTTT-TTCTTCCTTTTGT
16699694 TTTCTTTTTCTTCCTTTTGCT
1 TTTCTTTTTCTTCCTTTTG-T
*
16699715 TTT-TTCTTTGCTTCTCTTTTAT
1 TTTCTT-TTT-CTTC-CTTTTGT
16699737 TTTC
1 TTTC
16699741 CGCTTGGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 13 0.32
21 14 0.35
22 8 0.20
23 5 0.12
ACGTcount: A:0.03, C:0.21, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTCTTTTTCTTCCTTTTGT
Found at i:16699733 original size:23 final size:22
Alignment explanation
Indices: 16699668--16699734 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
16699658 ATTTTTCTTT
16699668 CTTTCTTTCTTTCTTCTTACTTTTG
1 CTTT-TTTCTTTCTTC-T-CTTTTG
16699693 -TTTTCTT-TTTCTTC-CTTTTG
1 CTTTT-TTCTTTCTTCTCTTTTG
16699713 CTTTTTTCTTTGCTTCTCTTTT
1 CTTTTTTCTTT-CTTCTCTTTT
16699735 ATTTTCCGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 8 0.22
21 7 0.19
22 4 0.11
23 13 0.35
24 5 0.14
ACGTcount: A:0.01, C:0.22, G:0.04, T:0.72
Consensus pattern (22 bp):
CTTTTTTCTTTCTTCTCTTTTG
Found at i:16700434 original size:63 final size:63
Alignment explanation
Indices: 16700261--16700459 Score: 208
Period size: 63 Copynumber: 3.2 Consensus size: 63
16700251 GTTGTGTGTT
*
16700261 AGGCCGTGTGACTCACTATTTACCT-TTAAGGACCACAC-GAGCTAGAGACACAAGCATGTGTCC
1 AGGCCGTGTGACTCACTATTTA-CTATTAAAGACCACACTG-GCTAGAGACACAAGCATGTGTCC
* * * * ** *
16700324 AAGCTGTGTGACTCACTATTTACCATTAAAGACCA-AATAAACTAGAGACACCAGCATGTGTCC
1 AGGCCGTGTGACTCACTATTTACTATTAAAGACCACACT-GGCTAGAGACACAAGCATGTGTCC
* ** * **
16700387 AGGCCGTATGACTCACTATTTGTTATTAAAGACCACACTGGCCAGAGACACGGGCATGTGT-C
1 AGGCCGTGTGACTCACTATTTACTATTAAAGACCACACTGGCTAGAGACACAAGCATGTGTCC
*
16700449 AGGTCGTGTGA
1 AGGCCGTGTGA
16700460 GACGTACGGA
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
62 12 0.11
63 96 0.87
64 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (63 bp):
AGGCCGTGTGACTCACTATTTACTATTAAAGACCACACTGGCTAGAGACACAAGCATGTGTCC
Found at i:16709261 original size:21 final size:20
Alignment explanation
Indices: 16709236--16709275 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16709226 TTAAAAATTC
16709236 ATTATATATGTTTTATTTTAG
1 ATTATATAT-TTTTATTTTAG
*
16709257 ATTATTTATTTTTATTTTA
1 ATTATATATTTTTATTTTA
16709276 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTATATATTTTTATTTTAG
Found at i:16713587 original size:126 final size:126
Alignment explanation
Indices: 16713362--16714035 Score: 596
Period size: 140 Copynumber: 5.0 Consensus size: 126
16713352 TTTTGGAGCA
** * * *
16713362 ACACTTTCCTAAATGTTGGGATATGCTTGTCGACATATACTTTGGCCAACTCTTTTTATAAGAGT
1 ACACTTTCCTAAATGTTGGGATAAACTTGTCGATATACACTTTGGCCAACTCTTTATATAAGAGT
*
16713427 TGGGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
* *
16713488 ACACTTTCCTAAGTGTTGGGATAAACTTGTCGATATACATTTTGGCCAACTCTTTATATAAGAGT
1 ACACTTTCCTAAATGTTGGGATAAACTTGTCGATATACACTTTGGCCAACTCTTTATATAAGAGT
16713553 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGTCAACAC
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACAC----T----A-
16713618 TTTTGGGCCG
122 ---T--GCCG
* * * *
16713628 ACACTTTCCTAAATGTTGGGATAGACTTGCCAATATACACTTTGGCCAATTCTTTATATAAGAGT
1 ACACTTTCCTAAATGTTGGGATAAACTTGTCGATATACACTTTGGCCAACTCTTTATATAAGAGT
* *
16713693 TGGGATATGCATGCCTAAGGCAAAGCTTAAAGAAGAGTCGGCTTTGTCCAACACTATGCCG
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
* * *
16713754 ACACTTTTAGGCTGACACTTTGCTAAGTGTTGGGATAGACTTGTTGATATACACTTTGGCCAAC-
1 ACAC--TT----T----C----CTAAATGTTGGGATAAACTTGTCGATATACACTTTGGCCAACT
* * * * * ** *
16713818 CTTTTGTATACGAGTTAGGATATGCATGCCTAAGACAACGCTTAATTAAGAGTAAGCTTTGTTCA
52 C-TTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
16713883 ACACTATGCCG
116 ACACTATGCCG
* * ** *
16713894 ATACTTTTGGGCCAACGCTTTCCTAAATGTTGGGATAAACTTG-CTAACATATGCTTTGGTCAAC
1 --A---------C-A--CTTTCCTAAATGTTGGGATAAACTTGTC-GATATACACTTTGGCCAAC
* * ** * * * *
16713958 TCTTTGTATAAGGGTCAGGATATGCATACCTAAGGCAACGTTTAAATAAGAGTCGGCTTTATCTA
51 TCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
16714023 ACACTATGCCG
116 ACACTATGCCG
16714034 AC
1 AC
16714036 TAGTGTCATA
Statistics
Matches: 452, Mismatches: 51, Indels: 87
0.77 0.09 0.15
Matches are distributed among these distances:
126 119 0.26
128 3 0.01
129 1 0.00
130 1 0.00
132 2 0.00
134 1 0.00
136 2 0.00
138 2 0.00
139 1 0.00
140 311 0.69
141 1 0.00
142 1 0.00
144 1 0.00
148 1 0.00
151 1 0.00
152 3 0.01
154 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (126 bp):
ACACTTTCCTAAATGTTGGGATAAACTTGTCGATATACACTTTGGCCAACTCTTTATATAAGAGT
TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
Found at i:16713736 original size:140 final size:140
Alignment explanation
Indices: 16713484--16714035 Score: 710
Period size: 140 Copynumber: 3.9 Consensus size: 140
16713474 CCAACACTAT
* * * *
16713484 GCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCGATATACATTTTGGCCAACTCTTTATATAA
1 GCCGACACTTTCCTAAATGTTGGGATAAACTTGCCAATATACACTTTGGCCAACTCTTTATATAA
* * *
16713549 GAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGTCA
66 GAGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
16713614 ACACTTTTGG
131 ACACTTTTGG
* *
16713624 GCCGACACTTTCCTAAATGTTGGGATAGACTTGCCAATATACACTTTGGCCAATTCTTTATATAA
1 GCCGACACTTTCCTAAATGTTGGGATAAACTTGCCAATATACACTTTGGCCAACTCTTTATATAA
* * *
16713689 GAGTTGGGATATGCATGCCTAAGGCAAAGCTTAAAGAAGAGTCGGCTTTGTCCAACACTATGCCG
66 GAGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
*
16713754 ACACTTTTAG
131 ACACTTTTGG
* * * * *** *
16713764 GCTGACACTTTGCTAAGTGTTGGGATAGACTTGTTGATATACACTTTGGCCAAC-CTTTTGTATA
1 GCCGACACTTTCCTAAATGTTGGGATAAACTTGCCAATATACACTTTGGCCAACTC-TTTATATA
* * * ** *
16713828 CGAGTTAGGATATGCATGCCTAAGACAACGCTTAATTAAGAGTAAGCTTTGTTCAACACTATGCC
65 AGAGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
*
16713893 GATACTTTTGG
130 GACACTTTTGG
* * * * ** * *
16713904 GCCAACGCTTTCCTAAATGTTGGGATAAACTTGCTAACATATGCTTTGGTCAACTCTTTGTATAA
1 GCCGACACTTTCCTAAATGTTGGGATAAACTTGCCAATATACACTTTGGCCAACTCTTTATATAA
* * * * * *
16713969 GGGTCAGGATATGCATACCTAAGGCAACGTTTAAATAAGAGTCGGCTTTATCTAACACTATGCCG
66 GAGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
16714034 AC
131 AC
16714036 TAGTGTCATA
Statistics
Matches: 355, Mismatches: 55, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
139 1 0.00
140 353 0.99
141 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (140 bp):
GCCGACACTTTCCTAAATGTTGGGATAAACTTGCCAATATACACTTTGGCCAACTCTTTATATAA
GAGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
ACACTTTTGG
Found at i:16715482 original size:29 final size:30
Alignment explanation
Indices: 16715411--16715483 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 30
16715401 GCTTAGCTTC
16715411 TCAATTTTAAAAGTGAGAATAACTTTTTTGT
1 TCAATTTT-AAAGTGAGAATAACTTTTTTGT
* *
16715442 T--ATTCATAAAAGTGGGAATAAC-TTTTTGT
1 TCAATT--TTAAAGTGAGAATAACTTTTTTGT
16715471 TCAATTTTAAAGT
1 TCAATTTTAAAGT
16715484 TGTTATTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
29 17 0.49
30 13 0.37
31 5 0.14
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
TCAATTTTAAAGTGAGAATAACTTTTTTGT
Found at i:16717706 original size:37 final size:35
Alignment explanation
Indices: 16717647--16717998 Score: 301
Period size: 36 Copynumber: 9.6 Consensus size: 35
16717637 CGACAAGATT
* * * *
16717647 TATCTCAACTTTTTTAAGGTTGCTTTAAACGGGTC
1 TATCCCAACTTTTTTAAGGTTGCCTTAGACAGGTC
* *
16717682 TATCCCAATCTTTTTTAAAAGTTGCCTTAGACAATGTC
1 TATCCCAA-CTTTTTT-AAGGTTGCCTTAGAC-AGGTC
*
16717720 TATTCCAACCTTTTTTAAGGTTGCCTTAGACAGGTC
1 TATCCCAA-CTTTTTTAAGGTTGCCTTAGACAGGTC
* * *
16717756 TATCCCAACCTGTTTAAGGTTGCCTTAGATAGGTC
1 TATCCCAACTTTTTTAAGGTTGCCTTAGACAGGTC
* ** *
16717791 TATCCCAACCTTTATTTTTTAGGTTGTTTTAGACAATGTC
1 TATCCCAA-C--T-TTTTTAAGGTTGCCTTAGAC-AGGTC
* *
16717831 TATCCCAACTTTTTTAAGGCTGCCTTAGAC-GGCTT
1 TATCCCAACTTTTTTAAGGTTGCCTTAGACAGG-TC
* * * *
16717866 TATCCCAACCGTTTTTAAAAGTTGCCTTAGACAATGAC
1 TATCCCAA-C-TTTTTTAAGGTTGCCTTAGAC-AGGTC
** * *
16717904 TATATCAACCTTTTTAAGGTTGCCTTAAACAAGGTC
1 TATCCCAACTTTTTTAAGGTTGCCTTAGAC-AGGTC
* * * *
16717940 TATCCCAACCTTTTTAAGGTTGCCTTAGATAAGTG
1 TATCCCAACTTTTTTAAGGTTGCCTTAGACAGGTC
16717975 TATCCCAACCTTTTTTAAAGGTTG
1 TATCCCAA-CTTTTTT-AAGGTTG
16717999 GTCTTGACTA
Statistics
Matches: 254, Mismatches: 48, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
34 1 0.00
35 59 0.23
36 89 0.35
37 53 0.21
38 23 0.09
39 17 0.07
40 12 0.05
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (35 bp):
TATCCCAACTTTTTTAAGGTTGCCTTAGACAGGTC
Found at i:16717742 original size:74 final size:72
Alignment explanation
Indices: 16717629--16717998 Score: 318
Period size: 73 Copynumber: 5.1 Consensus size: 72
16717619 TTTATAAAAA
* * * * * * *
16717629 GTTGCTTTCGACAAGATTTATCTCAA-CTTTTTTAAGGTTGCTTTAAACGGGTCTATCCCAATCT
1 GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAA-CT
*
16717693 TTTTTAAAA
65 TTTTT-AAG
* * * *
16717702 GTTGCCTTAGACAATGTCTATTCCAACCTTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCT
1 GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACTT
*
16717767 GTTTAAG
66 TTTTAAG
* * * *
16717774 GTTGCCTTAGA-TAGGTCTATCCCAACCTTTATTTTTTAGGTTGTTTTAGACAATGTCTATCCCA
1 GTTGCCTTAGACAAGGTCTATCCCAACC--T-TTTTTAAGGTTGCTTTAGAC-AGGTCTATCCCA
16717838 ACTTTTTTAAG
62 ACTTTTTTAAG
* * * * * * * **
16717849 GCTGCCTTAGAC--GGCTTTATCCCAACCGTTTTTAAAAGTTGCCTTAGACAATGACTATATCAA
1 GTTGCCTTAGACAAGG-TCTATCCCAACC-TTTTTTAAGGTTGCTTTAGAC-AGGTCTATCCCAA
*
16717912 CCTTTTTAAG
63 CTTTTTTAAG
* * * * *
16717922 GTTGCCTTAAACAAGGTCTATCCCAACC-TTTTTAAGGTTGCCTTAGATAAGTGTATCCCAACCT
1 GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAA-CT
16717986 TTTTTAAAG
65 TTTTT-AAG
16717995 GTTG
1 GTTG
16717999 GTCTTGACTA
Statistics
Matches: 240, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
71 21 0.09
72 36 0.15
73 77 0.32
74 63 0.26
75 43 0.18
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (72 bp):
GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACTT
TTTTAAG
Found at i:16717961 original size:184 final size:184
Alignment explanation
Indices: 16717647--16717987 Score: 533
Period size: 184 Copynumber: 1.9 Consensus size: 184
16717637 CGACAAGATT
* * * * * *
16717647 TATCTCAACTTTTTTAAGGTTGCTTTAAACGGGTCTATCCCAATCTTTTTTAAAAGTTGCCTTAG
1 TATCCCAACTTTTTTAAGGCTGCCTTAAACGGCTCTATCCCAACCGTTTTTAAAAGTTGCCTTAG
* *
16717712 ACAATGTCTATTCCAACCTTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTGTTTAAGGTT
66 ACAATGACTATTCCAACCTTTTTTAAGGTTGCCTTAAACAGGTCTATCCCAACCTGTTTAAGGTT
*
16717777 GCCTTAGATAGGTCTATCCCAACCTTTATTTTTTAGGTTGTTTTAGACAATGTC
131 GCCTTAGATAAGTCTATCCCAACCTTTATTTTTTAGGTTGTTTTAGACAATGTC
* *
16717831 TATCCCAACTTTTTTAAGGCTGCCTTAGACGGCTTTATCCCAACCGTTTTTAAAAGTTGCCTTAG
1 TATCCCAACTTTTTTAAGGCTGCCTTAAACGGCTCTATCCCAACCGTTTTTAAAAGTTGCCTTAG
*
16717896 ACAATGACTATAT-CAACC-TTTTTAAGGTTGCCTTAAACAAGGTCTATCCCAACCTTTTTAAGG
66 ACAATGACTAT-TCCAACCTTTTTTAAGGTTGCCTTAAAC-AGGTCTATCCCAACCTGTTTAAGG
*
16717959 TTGCCTTAGATAAGTGTATCCCAACCTTT
129 TTGCCTTAGATAAGTCTATCCCAACCTTT
16717988 TTTAAAGGTT
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
183 19 0.13
184 122 0.86
185 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (184 bp):
TATCCCAACTTTTTTAAGGCTGCCTTAAACGGCTCTATCCCAACCGTTTTTAAAAGTTGCCTTAG
ACAATGACTATTCCAACCTTTTTTAAGGTTGCCTTAAACAGGTCTATCCCAACCTGTTTAAGGTT
GCCTTAGATAAGTCTATCCCAACCTTTATTTTTTAGGTTGTTTTAGACAATGTC
Found at i:16718022 original size:109 final size:108
Alignment explanation
Indices: 16717647--16718022 Score: 341
Period size: 109 Copynumber: 3.4 Consensus size: 108
16717637 CGACAAGATT
* * * * * * * *
16717647 TATCTCAA-CTTTTTTAAGGTTGCTTTAAAC-GGGTCTATCCCAATCTTTTTTAAAAGTTGCCTT
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTAGGTCTATACCAACCTTTTTT-AAGGTTGCCTT
*
16717710 AGACAATGTCTATTCCAACCTTTTTTAAGGTTGCCTTAGACAGGTC
65 AGACAATGTCTATCCCAACC-TTTTTAAGGTTGCCTTAGA-AGGTC
* * * **
16717756 TATCCCAACCTGTTT-AAGGTTGCCTTAGA-TAGGTCTATCCCAACCTTTATTTTTTAGGTTGTT
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGACTAGGTCTATACCAACC--T-TTTTTAAGGTTGCC
* * * *
16717819 TTAGACAATGTCTATCCCAACTTTTTTAAGGCTGCCTTAGACGGCTT
63 TTAGACAATGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAAGG-TC
* * * * *
16717866 TATCCCAACCGTTTTTAAAAGTTGCCTTAGACAATGACTATATCAACC-TTTTTAAGGTTGCCTT
1 TATCCCAACC-TTTTTAAAGGTTGCCTTAGACTAGGTCTATACCAACCTTTTTTAAGGTTGCCTT
* * * *
16717930 AAACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAAGTG
65 AGACAATGTCTATCCCAACCTTTTTAAGGTTGCCTTAGA-AGGTC
* * *
16717975 TATCCCAACCTTTTTTAAAGGTTGGTCTT-GACTAGGTTTTTACCAACC
1 TATCCCAACC-TTTTTAAAGGTT-GCCTTAGACTAGGTCTATACCAACC
16718023 CTTTAATAAA
Statistics
Matches: 215, Mismatches: 41, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
109 117 0.54
110 39 0.18
111 30 0.14
112 18 0.08
113 11 0.05
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (108 bp):
TATCCCAACCTTTTTAAAGGTTGCCTTAGACTAGGTCTATACCAACCTTTTTTAAGGTTGCCTTA
GACAATGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAAGGTC
Found at i:16724538 original size:13 final size:13
Alignment explanation
Indices: 16724520--16724544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16724510 TGGTGGTTTT
16724520 CTCTTTTCTTCTG
1 CTCTTTTCTTCTG
16724533 CTCTTTTCTTCT
1 CTCTTTTCTTCT
16724545 TTGAAACCTA
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:0.00, C:0.32, G:0.04, T:0.64
Consensus pattern (13 bp):
CTCTTTTCTTCTG
Found at i:16729388 original size:64 final size:64
Alignment explanation
Indices: 16729315--16729440 Score: 252
Period size: 64 Copynumber: 2.0 Consensus size: 64
16729305 AAGAAATACA
16729315 AATAAAAAACAATAGTAAAGAGAAAGAATGGGAAAAAGAAAAGGAAAGAAACAGGATGCAATGC
1 AATAAAAAACAATAGTAAAGAGAAAGAATGGGAAAAAGAAAAGGAAAGAAACAGGATGCAATGC
16729379 AATAAAAAACAATAGTAAAGAGAAAGAATGGGAAAAAGAAAAGGAAAGAAACAGGATGCAAT
1 AATAAAAAACAATAGTAAAGAGAAAGAATGGGAAAAAGAAAAGGAAAGAAACAGGATGCAAT
16729441 AACAGGGAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.62, C:0.06, G:0.23, T:0.10
Consensus pattern (64 bp):
AATAAAAAACAATAGTAAAGAGAAAGAATGGGAAAAAGAAAAGGAAAGAAACAGGATGCAATGC
Found at i:16730747 original size:51 final size:49
Alignment explanation
Indices: 16730674--16730784 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 49
16730664 TAGAAATGGA
* * *
16730674 GAAATATGAAACATTTGGAAATGATTAAGGTTTT-CTCCAAAATGAAAAT
1 GAAA-ATGAAACATTTGAAAATGAATAAGGTTTTCCTCCAAAATCAAAAT
** *
16730723 AGATAAATGAAATCATTTGAAAATGAATGTGGTTTTCCTCCAAAATCAAAGT
1 -GA-AAATGAAA-CATTTGAAAATGAATAAGGTTTTCCTCCAAAATCAAAAT
16730775 GAAAATGAAA
1 GAAAATGAAA
16730785 AATGAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
50 16 0.31
51 23 0.44
52 13 0.25
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (49 bp):
GAAAATGAAACATTTGAAAATGAATAAGGTTTTCCTCCAAAATCAAAAT
Found at i:16730788 original size:7 final size:7
Alignment explanation
Indices: 16730776--16730800 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16730766 AATCAAAGTG
16730776 AAAATGA
1 AAAATGA
16730783 AAAATGA
1 AAAATGA
16730790 AAAATGA
1 AAAATGA
16730797 AAAA
1 AAAA
16730801 GACCTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATGA
Found at i:16735080 original size:29 final size:30
Alignment explanation
Indices: 16735026--16735094 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
16735016 TTACAAGGAC
* *
16735026 TGGATCAAATTAGTCGCTCTATTATT-AAA
1 TGGATCAAATTAGTCGCTATAATATTAAAA
*
16735055 TGGATCAATTTAGTTC-CTATAATATTAAAA
1 TGGATCAAATTAG-TCGCTATAATATTAAAA
*
16735085 TGAATCAAAT
1 TGGATCAAAT
16735095 AAATCTAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (30 bp):
TGGATCAAATTAGTCGCTATAATATTAAAA
Found at i:16743726 original size:17 final size:18
Alignment explanation
Indices: 16743704--16743740 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16743694 TTATTCTTTT
16743704 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
16743721 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
16743739 AT
1 AT
16743741 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:16744477 original size:1 final size:1
Alignment explanation
Indices: 16744471--16744542 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
16744461 TTCAAACTAG
* ** * * ** ** *
16744471 AAAAAAAATAAAAAATCAAAAAAAATAAAAAAAATAAAAAAAATCAAAAAATTAAAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16744536 AAAAAAA
1 AAAAAAA
16744543 TCGAAGTCAA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:16744485 original size:9 final size:9
Alignment explanation
Indices: 16744471--16744540 Score: 99
Period size: 9 Copynumber: 7.9 Consensus size: 9
16744461 TTCAAACTAG
16744471 AAAAAAAAT
1 AAAAAAAAT
16744480 --AAAAAAT
1 AAAAAAAAT
16744487 CAAAAAAAAT
1 -AAAAAAAAT
16744497 AAAAAAAAT
1 AAAAAAAAT
16744506 AAAAAAAAT
1 AAAAAAAAT
* *
16744515 CAAAAAATT
1 AAAAAAAAT
16744524 AAAAAAAAT
1 AAAAAAAAT
16744533 AAAAAAAA
1 AAAAAAAA
16744541 AATCGAAGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
7 7 0.13
9 40 0.74
10 7 0.13
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:16744494 original size:18 final size:16
Alignment explanation
Indices: 16744471--16744542 Score: 92
Period size: 17 Copynumber: 4.2 Consensus size: 16
16744461 TTCAAACTAG
16744471 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
16744487 CAAAAAAAATAAAAAAAAT
1 -AAAAAAAAT--AAAAAAT
16744506 AAAAAAAATCAAAAAATT
1 AAAAAAAAT-AAAAAA-T
16744524 AAAAAAAATAAAAAA-
1 AAAAAAAATAAAAAAT
16744539 AAAA
1 AAAA
16744543 TCGAAGTCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
15 4 0.08
17 21 0.41
18 19 0.37
19 7 0.14
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:16744510 original size:27 final size:26
Alignment explanation
Indices: 16744471--16744539 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 26
16744461 TTCAAACTAG
16744471 AAAAAAAAT-AAAAAATCAAAAAAAAT
1 AAAAAAAATAAAAAAATC-AAAAAAAT
*
16744497 AAAAAAAATAAAAAAAATCAAAAAATT
1 AAAAAAAAT-AAAAAAATCAAAAAAAT
16744524 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
16744540 AAATCGAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 16 0.40
27 16 0.40
28 8 0.20
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.12
Consensus pattern (26 bp):
AAAAAAAATAAAAAAATCAAAAAAAT
Found at i:16744540 original size:27 final size:28
Alignment explanation
Indices: 16744471--16744540 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 28
16744461 TTCAAACTAG
16744471 AAAAAAAAT--AAAAAATCAAAAAAAAT
1 AAAAAAAATAAAAAAAATCAAAAAAAAT
*
16744497 AAAAAAAATAAAAAAAATC-AAAAAATT
1 AAAAAAAATAAAAAAAATCAAAAAAAAT
16744524 AAAAAAAATAAAAAAAA
1 AAAAAAAATAAAAAAAA
16744541 AATCGAAGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 9 0.22
27 24 0.59
28 8 0.20
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (28 bp):
AAAAAAAATAAAAAAAATCAAAAAAAAT
Found at i:16744571 original size:6 final size:6
Alignment explanation
Indices: 16744560--16744602 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
16744550 CAAAATAGAA
16744560 AAAAAG AAAAAG AAAAA- AAGAGAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-A-AAG AAAAAG AAAAAG AAAAAG
16744603 GAGAGGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.06
6 27 0.79
7 3 0.09
8 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:16744578 original size:24 final size:25
Alignment explanation
Indices: 16744551--16744601 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
16744541 AATCGAAGTC
*
16744551 AAAATAGAA-AAAAAGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
16744575 AAAAGAGAAGAAAAAGAAAAAGAAA
1 AAAAGAGAAGAAAAAGAAAAAGAAA
16744600 AA
1 AA
16744602 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAGAAGAAAAAGAAAAAGAAA
Found at i:16747173 original size:88 final size:88
Alignment explanation
Indices: 16747011--16747989 Score: 1571
Period size: 88 Copynumber: 11.2 Consensus size: 88
16747001 GAAGATAAAA
* * *
16747011 ACACAAGCCTTGCCTC-CATCGGTTG-CAGTGGAGCTGGTT-AA-A-GAAAGATCTTGCCTTCCT
1 ACACAAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCT
16747071 GCATTGACAGCGAAGCAGGTCGAAG
64 GCATTGACAGCGAAGCAGGTCGAAG
* *
16747096 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGATGGTTGAAAACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
16747161 ATTGACAGCGAAGCAGGTCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
16747184 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
16747249 ATTGACAGCGAAGCAGGTCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
16747272 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
16747337 ATTGACAGCGAAGCAGGTCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
* *
16747360 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAAACAAAAGATCTTGCCTTCCAGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
16747425 ATTGACAGCGAAGCAGGTCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
* *
16747448 ACACAAACCTTGCCTCTCTCGGTTGTGTTGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGT
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
* *
16747513 ATTGACAGCAAAGCAGATCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
16747536 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
*
16747601 ATTGACAGCGAAGCAGGTCAAAG
66 ATTGACAGCGAAGCAGGTCGAAG
* *
16747624 ACACAAACCTTGCCTCTCTCAGTTGT-AGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTG
1 ACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTG
* * *
16747688 CATTGTCAGCGAAGCAGGTCAAAA
65 CATTGACAGCGAAGCAGGTCGAAG
* *
16747712 ACAAAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
* * * * *
16747777 GTTAACAGTGAAGCAGATCGAAA
66 ATTGACAGCGAAGCAGGTCGAAG
16747800 ACA-AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
1 ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
16747864 ATTGACAGCGAAGCAGGTCGAAG
66 ATTGACAGCGAAGCAGGTCGAAG
* *
16747887 ACACAAACCTTGCCTCTCTCGGTTGT-AGTGGAGATGGTTGAAGACAACAGATCTTGCC-TCCTT
1 ACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCC-T
* * *
16747950 GCCTTGACAGGGAAGCAGATCGAAG
64 GCATTGACAGCGAAGCAGGTCGAAG
* *
16747975 ACACCAGCCTTGCCT
1 ACACAAACCTTGCCT
16747990 TCCTGTACTG
Statistics
Matches: 840, Mismatches: 44, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
85 32 0.04
86 4 0.00
87 87 0.10
88 716 0.85
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
ACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGC
ATTGACAGCGAAGCAGGTCGAAG
Found at i:16748012 original size:44 final size:45
Alignment explanation
Indices: 16747954--16748064 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
16747944 CTCCTTGCCT
16747954 TGACAG-GGAAGCAGATCGAAGACACCAG-CCTTGCCTTCCTGTAC
1 TGACAGCGG-AGCAGATCGAAGACACCAGACCTTGCCTTCCTGTAC
* * * *
16747998 TGACAGCGGAGCAGAAT-GAAGATAGCAGATCTTGCCTTCTTGTAC
1 TGACAGCGGAGCAG-ATCGAAGACACCAGACCTTGCCTTCCTGTAC
* **
16748043 TAACAGCAAAGCAGATCGAAGA
1 TGACAGCGGAGCAGATCGAAGA
16748065 AACAACAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
44 22 0.39
45 34 0.61
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (45 bp):
TGACAGCGGAGCAGATCGAAGACACCAGACCTTGCCTTCCTGTAC
Found at i:16748256 original size:98 final size:99
Alignment explanation
Indices: 16748084--16748276 Score: 255
Period size: 98 Copynumber: 2.0 Consensus size: 99
16748074 TTTCAATTCA
* * * *
16748084 AAAGATTGAAGCTACAACAGCGGATCTTACATTCTAAGCGGTGCAGCGTAACAGATTGAAGCTAC
1 AAAGATTGAAGCCACAACAGCGAATCTTACATTCCAAGCGGTGCAGCGGAACAGATTGAAGCTAC
16748149 AACGACGGATCTCACTTCCCTGACATTGCAATCC
66 AACGACGGATCTCACTTCCCTGACATTGCAATCC
* * * * *
16748183 AAAGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCCACAACAGCGAATCTTACATTCCAAGCGGTGCAGCGGAACAGATTGAAGCTAC
* * *
16748247 AAC-AGCGGATCTTACTTTCCTGACGTTGCA
66 AACGA-CGGATCTCACTTCCCTGACATTGCA
16748277 GTGGAACAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
97 1 0.01
98 55 0.68
99 25 0.31
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (99 bp):
AAAGATTGAAGCCACAACAGCGAATCTTACATTCCAAGCGGTGCAGCGGAACAGATTGAAGCTAC
AACGACGGATCTCACTTCCCTGACATTGCAATCC
Found at i:16748285 original size:50 final size:50
Alignment explanation
Indices: 16748086--16748288 Score: 198
Period size: 50 Copynumber: 4.1 Consensus size: 50
16748076 TCAATTCAAA
* * * *
16748086 AGATTGAAGCTACAACAGCGGATCTTACATT-CTAAGCGGTGCAGCGTAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CGGTGCAGTGGAAC
* * ** * **
16748136 AGATTGAAGCTACAAC-GACGGATCTCACTTCCCTGACATTGCAATCCAA-
1 AGATTGAAGCTACAACAG-CGGATCTTACTTTCCTGACGGTGCAGTGGAAC
* * * * * *
16748185 AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGGTGCAGTGGAAC
*
16748234 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGGTGCAGTGGAAC
16748284 AGATT
1 AGATT
16748289 AAAACCACAT
Statistics
Matches: 119, Mismatches: 29, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
48 13 0.11
49 45 0.38
50 58 0.49
51 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGGTGCAGTGGAAC
Found at i:16748309 original size:50 final size:50
Alignment explanation
Indices: 16748133--16748359 Score: 154
Period size: 50 Copynumber: 4.6 Consensus size: 50
16748123 GGTGCAGCGT
* * * * * * * * **
16748133 AACAGATTGAAGCTACAACGACGGATCTCACTTCCCTGACATTGCAATCC
1 AACAGATTAAAGCCACAACGGCGAATCTTACTTTCCTGACGTTGCAGTGG
* * * * *
16748183 AA-AGATTGAGGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGG
1 AACAGATTAAAGCCACAACGGCGAATCTTACTTTCCTGACGTTGCAGTGG
* * * *
16748231 AACAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACGTTGCAGTGG
1 AACAGATTAAAGCCACAACGGCGAATCTTACTTTCCTGACGTTGCAGTGG
* * * * * * **
16748281 AACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCT-ACATTGCAGTTA
1 AACAGATTAAAGCCACAACGGCGAATCTTACTT-TCCTGACGTTGCAGTGG
* * *
16748331 AAAAGATTAAAGCCACATCGGTGAATCTT
1 AACAGATTAAAGCCACAACGGCGAATCTT
16748360 GATTAAAGCT
Statistics
Matches: 140, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
48 13 0.09
49 45 0.32
50 79 0.56
51 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (50 bp):
AACAGATTAAAGCCACAACGGCGAATCTTACTTTCCTGACGTTGCAGTGG
Found at i:16748609 original size:125 final size:125
Alignment explanation
Indices: 16748273--16748597 Score: 578
Period size: 125 Copynumber: 2.6 Consensus size: 125
16748263 TTCCTGACGT
16748273 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
16748338 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
66 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
16748398 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
16748463 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
66 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
* * * * * * * *
16748523 TGCAGTGGAACAGATTAAAGCCAAATTGGCGAATCTTGTTTCTCCGATATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
16748588 TAAAGCCACA
66 TAAAGCCACA
16748598 ATGACGAATC
Statistics
Matches: 192, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 192 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (125 bp):
TGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGAT
TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCCAAGCGA
Found at i:16748738 original size:44 final size:45
Alignment explanation
Indices: 16748632--16748888 Score: 151
Period size: 44 Copynumber: 5.8 Consensus size: 45
16748622 TTACGAGTTA
* * ** ***
16748632 CAAATCCTATCTCCCTGATA-TTACAGT-GGAGTGGATTGAAGAAC
1 CAAATCTTATCTCCCTGA-AGTTGCAGTAGGAGCAGATTGAAGGTG
* *
16748676 CAAAGTCTTATC-CTCCTGAAGATGCAGTAGG-GCAAATTGAAGGTG
1 CAAA-TCTTATCTC-CCTGAAGTTGCAGTAGGAGCAGATTGAAGGTG
* **
16748721 CAAATCTTATCTCCCTGAGGTTGCAGT-GGAGCAGATTGAAGCCG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGGAGCAGATTGAAGGTG
* * * *
16748765 -ATAATCCTATCTCCCCGAAGTTGCAG-AGGAGCGGATT-AAAGTAG
1 CA-AATCTTATCTCCCTGAAGTTGCAGTAGGAGCAGATTGAAGGT-G
* * * * **
16748809 TAGATCTTATCTCCCTGAAGTTGCAGT-GGAGCGGGTT-AAAATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGGAGCAGATTGAAGGTG
* *
16748852 -ATTGATCTTATCTCTCTGAAGTTGCAGTA-GAGCAGAT
1 CA--AATCTTATCTCCCTGAAGTTGCAGTAGGAGCAGAT
16748889 CGCATCAGAC
Statistics
Matches: 170, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 131 0.77
45 30 0.18
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGGAGCAGATTGAAGGTG
Found at i:16750829 original size:2 final size:2
Alignment explanation
Indices: 16750817--16750853 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
16750807 ATTTAGATAC
* *
16750817 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16750854 CATTTTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16765055 original size:44 final size:44
Alignment explanation
Indices: 16764913--16765061 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 44
16764903 CTTATCTTCT
*
16764913 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCCTATACCCC
1 TGAAGTTGCAGTAGAGCACATTAAAGCTACAAATCCTATACCCC
* * *
16764957 TGAAGTTGCAGT-G-GTCACATTGAATCTACCGTAGCAAATCTTAT-CTCCT
1 TGAAGTTGCAGTAGAG-CACATT-AA---AGC-TA-CAAATCCTATAC-CCC
* *
16765006 TGAAGTTGCAGTAGAGAATATTAAAGCTACAAATCCTATACCCC
1 TGAAGTTGCAGTAGAGCACATTAAAGCTACAAATCCTATACCCC
16765050 TGAAGTTGCAGT
1 TGAAGTTGCAGT
16765062 GGGTCAGGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
42 1 0.01
43 6 0.07
44 37 0.44
45 3 0.04
46 2 0.02
47 2 0.02
48 3 0.04
49 25 0.29
50 5 0.06
51 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTAGAGCACATTAAAGCTACAAATCCTATACCCC
Found at i:16765306 original size:94 final size:95
Alignment explanation
Indices: 16764849--16765306 Score: 527
Period size: 94 Copynumber: 4.9 Consensus size: 95
16764839 GTGAAACCAT
* * * * * *
16764849 AAATCTTATATCCCTGAAGTTACAGTGGGTCGGATTGAATCTACCATAGA-GAATCTTATCTTCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATA-ACAAATCTTATCTCCT
* *
16764913 TGAAGTTGCAGTAGAGC-AGATTAAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATTGAAGCTAC
* *
16764943 AAATCCTATACCCCTGAAGTTGCAGT-GGTC-ACATTGAATCTACCGTAGCAAATCTTATCTCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAATCTACCATAACAAATCTTATCTCCT
* * *
16765006 TGAAGTTGCAGTAGAG-AATATTAAAGCTAC
65 TGAAGTTGCAGTGGAGCAAGATTGAAGCTAC
* * * *
16765036 AAATCCTATACCCCTGAAGTTGCAGTGGGTC-AGGTTGAATATACCATAGCAAATCTTATCTCCC
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAATCTACCATAACAAATCTTATCTCCT
* *
16765100 TGAAGTTGTAGTGGAGC-AGATTGAAGCTAA
65 TGAAGTTGCAGTGGAGCAAGATTGAAGCTAC
* * * * * * * * * *
16765130 AAATTCTATACTCTTGAAGTTGCAATGGATCGGATTGAATCTACCACAAAAAATCTTGTCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAACAAATCTTATCTCCTT
16765195 GAAGTTGCAGTGGAGCAAGA-TGAAGCTAC
66 GAAGTTGCAGTGGAGCAAGATTGAAGCTAC
* * * *
16765224 AAATTCTATACCCCTAAAGTTGCAGTGGGTCGAATAGAATCTACCACAACAAATCTTATCTCCTT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAACAAATCTTATCTCCTT
*
16765289 GAAGTTGCAATGGAGCAA
66 GAAGTTGCAGTGGAGCAA
16765307 AATGAAACAG
Statistics
Matches: 313, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
93 84 0.27
94 226 0.72
95 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (95 bp):
AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAACAAATCTTATCTCCTT
GAAGTTGCAGTGGAGCAAGATTGAAGCTAC
Found at i:16767820 original size:7 final size:6
Alignment explanation
Indices: 16767790--16767819 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
16767780 TTCTAACCCC
16767790 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
16767820 TGTTCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:16768492 original size:14 final size:14
Alignment explanation
Indices: 16768467--16768493 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16768457 ACCATTAGCC
16768467 TTATATTATTATTG
1 TTATATTATTATTG
16768481 TTATATTATTATT
1 TTATATTATTATT
16768494 ATTTTTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTG
Found at i:16768800 original size:18 final size:18
Alignment explanation
Indices: 16768753--16768796 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16768743 CTTAAAGTGC
* *
16768753 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
16768771 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
16768789 TTT-CTTTT
1 TTTACTTTT
16768797 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:16770858 original size:20 final size:19
Alignment explanation
Indices: 16770825--16770862 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16770815 GTCTCTTTAG
*
16770825 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATTT
16770844 GCATTGCATTACATGCATT
1 GCATT-CATTACATGCATT
16770863 AAAATCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (19 bp):
GCATTCATTACATGCATTT
Found at i:16773676 original size:7 final size:7
Alignment explanation
Indices: 16773664--16773710 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
16773654 CTGAGTCAAA
16773664 AAAAATG
1 AAAAATG
16773671 AAAAATG
1 AAAAATG
*
16773678 -AGAATG
1 AAAAATG
16773684 AAAAATG
1 AAAAATG
16773691 AAAAATG
1 AAAAATG
16773698 -AAAATG
1 AAAAATG
16773704 AAAAATG
1 AAAAATG
16773711 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:16773685 original size:13 final size:14
Alignment explanation
Indices: 16773664--16773710 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 14
16773654 CTGAGTCAAA
16773664 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
16773678 -AGAATGAAAAATG
1 AAAAATGAAAAATG
16773691 AAAAATG-AAAATG
1 AAAAATGAAAAATG
16773704 AAAAATG
1 AAAAATG
16773711 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 25 0.83
14 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:16773689 original size:20 final size:20
Alignment explanation
Indices: 16773664--16773710 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
16773654 CTGAGTCAAA
*
16773664 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
16773684 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
16773704 AAAAATG
1 AAAAATG
16773711 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:16775514 original size:174 final size:175
Alignment explanation
Indices: 16774966--16775579 Score: 1009
Period size: 175 Copynumber: 3.5 Consensus size: 175
16774956 GACAACGAAG
* *
16774966 CAGATCAAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
16775031 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
16775096 AGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAA
131 AGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAA
*
16775141 CAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
16775206 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAA-GATCTTATCTCTCTAAAGTTACAG
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA-TAAAGGATCTTATCTCTCTGAAGTTACAG
* *
16775270 CAGAGTAGATCGCACTAGGTCTTATTTCTCTGAGATTACAGTGGAA
130 CAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAA
*
16775316 CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGATCAGATTGAAGCTAGTAATC
1 CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
** * * *
16775381 CTATCTCCCTGAGATTA-AGTGGAGCAAATTAAAATAAAGGATTTTAACTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
*
16775445 AGAGTAGATCGCACCAGGTCTTATTTCCCTCAGATTACAGTGGAA
131 AGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAA
* * * *
16775490 CAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATCCAG-AGAT
1 CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-AT
* *
16775554 CTTATCTCCCTGAGATTACAGCGGAG
65 CCTATCTCCCTGAGATTACAGTGGAG
16775580 AAGATCGAAG
Statistics
Matches: 411, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
173 5 0.01
174 153 0.37
175 249 0.61
176 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (175 bp):
CAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
AGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAA
Found at i:16775563 original size:218 final size:219
Alignment explanation
Indices: 16775332--16775797 Score: 708
Period size: 218 Copynumber: 2.1 Consensus size: 219
16775322 GAAGAATTTC
** * * *
16775332 AGATCTTATCTCCCTGAGATTACAGCGGATCAGATTGAAG-CTAGTAATCCTATCTCCCT-GAGA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGAC-ACT-ATCCTATCTCCCTAAAG-
* * *
16775395 TTA-AGTGGAGCAAATTAAAATAAAGGATTTTAACTCTCTGAAGTTACAGTAGAGTAGATCGCAC
63 TTATAGTGGAGCAAATTAAAATAAAGGATCTTAACTCTCTGAAGTTACAGCAGAGTAGATCACAC
*
16775459 CAGGTCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
128 CAGGTCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTAAG
*
16775524 ATTACAGCGGAACAGATTGAATCCAG-
193 ATTACAGCGGAACAGATTGAAGCCAGT
16775550 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGACACTATCCTATCTCCCTAAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGACACTATCCTATCTCCCTAAAGTTA
* *
16775615 TAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAG
66 TAGTGGAGCAAATTAAAATAAAGGATCTTAACTCTCTGAAGTTACAGCAGAGTAGATCACACCAG
* *
16775680 GTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTAAGATT
131 GTCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTAAGATT
* *
16775745 ACAGCGGAGCAGATTGAAGCTAGT
196 ACAGCGGAACAGATTGAAGCCAGT
* *
16775769 A-ATCCTATCTCCCTGAGATTACAGTGGAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAG
16775798 TGGATTAAAA
Statistics
Matches: 226, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
217 16 0.07
218 208 0.92
219 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (219 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGACACTATCCTATCTCCCTAAAGTTA
TAGTGGAGCAAATTAAAATAAAGGATCTTAACTCTCTGAAGTTACAGCAGAGTAGATCACACCAG
GTCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTAAGATT
ACAGCGGAACAGATTGAAGCCAGT
Found at i:16775809 original size:175 final size:175
Alignment explanation
Indices: 16775509--16776148 Score: 963
Period size: 175 Copynumber: 3.7 Consensus size: 175
16775499 GAATTTCAGA
* * * *
16775509 TCTTATCTCCCTGAGATTACAGCGGAACAGAT---TGAA-TCCAGAGATCTTATCTCCCTGAGAT
1 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTC--AGATCTTATCTCCCTGAGAT
* * * * * *
16775570 TACAGCGGAGAAGATCGAAGAC-ACT-ATCCTATCTCCCT-AAAGTTATAGTGGAGCGAATTAAA
64 TACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAA
*
16775632 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAGG
127 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
*
16775681 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTAAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
*
16775746 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
*
16775811 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTACCAGG
131 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
*
16775856 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATATTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
*
16775921 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
* *
16775986 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAG
131 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
*
16776031 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* * * * *
16776096 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTAAGATTACAGCGGAGC
66 CAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGATTACAGTGGAGC
16776149 AGATCGAAGA
Statistics
Matches: 431, Mismatches: 29, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
172 30 0.07
173 1 0.00
174 40 0.09
175 356 0.83
176 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
Found at i:16776201 original size:218 final size:218
Alignment explanation
Indices: 16775899--16776801 Score: 1551
Period size: 218 Copynumber: 4.1 Consensus size: 218
16775889 GAAGAATTTC
* * *
16775899 AGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTG-AGA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGAAG-
*
16775962 TTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
63 TTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
*
16776027 CAAGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
128 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
16776092 ATTACAGTGGAGCAGATTGAAGCCAG
193 ATTACAGCGGAGCAGATTGAAGCCAG
*
16776118 AGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
*
16776183 TAGTGAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
66 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
* * *
16776248 GTCTTATTTCCCTGAGATTACAGTAGAACAGATCGAATAATTTCAGATCTTATCTCCCTGAGATT
131 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
16776313 ACAGCGGAGCAGATTGAAGCCAG
196 ACAGCGGAGCAGATTGAAGCCAG
*
16776336 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGATA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
* *
16776401 TAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
66 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
16776466 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
131 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
16776531 ACAGCGGAGCAGATTGAAGCCAG
196 ACAGCGGAGCAGATTGAAGCCAG
* *
16776554 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGTAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
16776619 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
66 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
*
16776684 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGATT
131 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
* *
16776749 ACAGCGGAGCCGATTGAAGCTAG
196 ACAGCGGAGCAGATTGAAGCCAG
* * *
16776772 TA-ATCCTATCTCCCTGATATTACAGTGGAG
1 -AGATCTTATCTCCCTGAGATTACAGCGGAG
16776802 TGGATTAAAA
Statistics
Matches: 650, Mismatches: 31, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
218 607 0.93
219 42 0.06
220 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (218 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATTGAAGCCAG
Found at i:16776409 original size:43 final size:44
Alignment explanation
Indices: 16774982--16776801 Score: 495
Period size: 44 Copynumber: 41.7 Consensus size: 44
16774972 AAAGAATTTC
* * *
16774982 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* * * * * *
16775026 TA-ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAAATAA
1 -AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* ** * * * *
16775069 AGGATCTTATCTTTCTGA-AGTTACAGCAGAGTAGATCGCA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * *
16775113 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * *
16775157 AGATCTTATCTCCCTGATATTACAGCGGAGCAGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* * * * * *
16775201 TA-ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAAATTAA
1 -AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA-CAG
* * * * * *
16775245 AGATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCG--CACTAG
1 AGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGAC-AG
* * * * * *
16775288 -G-TCTTATTTCTCTGAGATTACAGTGGAACAGATCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * *
16775332 AGATCTTATCTCCCTGAGATTACAGCGGATCAGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* * * * * *
16775376 TA-ATCCTATCTCCCTGAGATTA-AGTGGAGCAAAT-TAAAATAA
1 -AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * ** * * *
16775418 AGGATTTTAACTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * * *
16775462 -G-TCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * **
16775506 AGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATCCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* *
16775550 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGACA-
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * *
16775593 CTATCCTATCTCCCT-AAAGTTATAGTGGAGC-GAAT-TAAAATAA
1 AGATCCTATCTCCCTGAGA-TTACAGCGGAGCAG-ATCGAAGACAG
* * * * *
16775636 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC-ACA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGA-AGACAG
* * * * *
16775680 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * *
16775724 AGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* ** * * * *
16775768 TA-ATCCTATCTCCCTGAGATTACAGTGGAGTGGAT-TAAAATAA
1 -AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16775811 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGTA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * *
16775855 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A---CAG
* *
16775901 ATAT--TATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* * * * * * *
16775943 TA-ATCCTATCTCCCTGAGATTATAGTGGAGCGGAT-TAAAATAA
1 -AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * ** * * *
16775986 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CCA-
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16776029 AG-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * *
16776074 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* *
16776118 AGATCTTATCTCCCTAAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * * *
16776161 CTATCCTATCTCCCTGA-AGTTATAGTGAAGCGGAT-TAAAATAA
1 AGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16776204 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * ** * * *
16776248 -G-TCTTATTTCCCTGAGATTACAGTAGAACAGATCGAATA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * *
16776292 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
*
16776336 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * *
16776379 CTATCCTATCTCCCTGAAGA-TATAGTGGAGCGGAT-TAAAATAAA
1 AGATCCTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGA-CAG
* * ** * * *
16776423 AGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CCAG
1 AGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16776466 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * *
16776510 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
* * *
16776554 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGTAGACA-
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
** * * * * * * *
16776597 CTATCCTATCTCCCTGA-AGTTATAGTGGAGCGGAT-TAAAATAA
1 AGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16776640 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-CCAG
1 A-GATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACAG
* * * * * *
16776684 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTC
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---G
* * * *
16776728 AGATCTTATCTCCTTGAGATTACAGCGGAGCCGATTGAAG-CTAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-AG
* *
16776772 TA-ATCCTATCTCCCTGATATTACAGTGGAG
1 -AGATCCTATCTCCCTGAGATTACAGCGGAG
16776802 TGGATTAAAA
Statistics
Matches: 1291, Mismatches: 349, Indels: 271
0.68 0.18 0.14
Matches are distributed among these distances:
41 246 0.19
42 51 0.04
43 147 0.11
44 528 0.41
45 24 0.02
46 286 0.22
47 8 0.01
48 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAG
Found at i:16776427 original size:131 final size:132
Alignment explanation
Indices: 16774982--16776588 Score: 657
Period size: 131 Copynumber: 12.3 Consensus size: 132
16774972 AAAGAATTTC
* * *
16774982 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGAT
* * ** * * * ** ** * **
16775046 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAG-TTACAGCAGAGTAGA-T--CG
65 TACAGCGGAGCAGA-TCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTAAAA
* **
16775107 CACC
129 TAAA
* * * * * * * *
16775111 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAG-AATTTCAGATCTTATCTCCCTGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAG
* * *
16775175 ATTACAGCGGAGCAGATTGAAG-CTA-GTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATT
63 ATTACAGCGGAGCAGATCGAAGAC-ACG--ATCTTATCTCCCTGAAGATTACAGTGGAGCAGATT
*
16775237 AAAATTAA
125 AAAATAAA
* * * * * * * * *
16775245 AGATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCGCA-CTAG-G-TCTTATTTCTCTGAGAT
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
* * * *
16775306 TACAGTGGAACAGATCGAAGA-ATTTCAGATCTTATCTCCCTG-AGATTACAGCGGATCAGATTG
65 TACAGCGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAAGATTACAGTGGAGCAGATT-
** **
16775369 AAGCTAGT
125 AAAATAAA
* * * *** * * * *
16775377 A-ATCCTATCTCCCTGAGATTA-AGTGGAGCAAATT-AAAATAAAGGATTTTAACTCTCTGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA-
** * * * * * * * **
16775438 TTACAGTAGAGTAGATCGCA-CCA-GGTCTTATTTCCCT-CAGATTACAGTGGAACAGACCGAAG
64 TTACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGA-TTAA-
***
16775500 AATTTC
127 AATAAA
* *
16775506 AGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
* * * * *
16775571 ACAGCGGAGAAGATCGAAGACACTATCCTATCTCCCTAAAG-TTATAGTGGAGC-GAATTAAAAT
66 ACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAG-ATTAAAAT
16775634 AAA
130 AAA
* * * * * *
16775637 GGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCACA-CCAG-G-TCTTATTTCCCTGAGA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGA-AGCCAGAGATCTTATCTCCCTGAGA
* * *
16775697 TTACAGTGGAACAGATCGAAGA-ATTTCAGATCTTATCTCCCT-AAGATTACAGCGGAGCAGATT
64 TTACAGCGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAAGATTACAGTGGAGCAGATT
** **
16775760 GAAGCTAGT
125 -AAAATAAA
* * ** *** * *
16775769 A-ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA-
* * * * * * * *
16775831 TTACAGCAGAGTAGATCGTA-CCA-GGTCTTATTTCCCTG-AGATTACAGTGGAACAGATCGAAG
64 TTACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGAT-TAA-
***
16775893 AATTTC
127 AATAAA
* * *
16775899 AGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGAT
* * * ** * * * * * * ***
16775963 TATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-TCGCA
65 TACAGCGGAGCAGA-TCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTAAAA
**
16776026 -CCA
129 TAAA
* * * ** * *
16776029 AG-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTCAGATCTTATCTCCCTGAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAG
* * * * * **
16776092 ATTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCT-AAGATTACAGCGGAGCAGA-TCG
63 ATTACAGCGGAGCAGATCGAAGACA-CGATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTAA
* *
16776155 AAGACA
127 AATAAA
** * * * * * *** * *
16776161 CTATCCTATCTCCCTGA-AGTTATAGTGAAGCGGATT-AAAATAAAGGATCTTATCTCTCTGA-A
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGA
* * * * * * * * *
16776223 GTTACAGCAGAGTAGATCGCA-CCA-GGTCTTATTTCCCTG-AGATTACAGTAGAACAGATCGAA
64 -TTACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGAT-TAA
***
16776285 TAATTTC
127 -AATAAA
16776292 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
* * * *
16776357 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGA-TATAGTGGAGCGGATTAAAATA
66 ACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTAAAATA
16776421 AA
131 AA
* ** * * * *
16776423 AGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CCAG-G-TCTTATTTCCCTGAGAT
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGAT
* * * * *
16776484 TACAGTGGAACAGACCGAAGA-ATTTCAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTG
65 TACAGCGGAGCAGATCGAAGACA---C-GATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTA
*** *
16776547 AAGCCAG
126 AAATAAA
*
16776554 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
16776589 CGTAGACACT
Statistics
Matches: 1085, Mismatches: 298, Indels: 188
0.69 0.19 0.12
Matches are distributed among these distances:
127 2 0.00
128 128 0.12
129 133 0.12
130 75 0.07
131 509 0.47
132 49 0.05
133 102 0.09
134 85 0.08
135 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (132 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCGAAGACACGATCTTATCTCCCTGAAGATTACAGTGGAGCAGATTAAAATA
AA
Found at i:16776592 original size:742 final size:736
Alignment explanation
Indices: 16774981--16776545 Score: 1819
Period size: 742 Copynumber: 2.1 Consensus size: 736
16774971 CAAAGAATTT
* * * ** *
16774981 CAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGATTACAGCGGAACAGACCGAAGATAGTAATCCTATCTCCCTGAGAT
* *
16775046 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGCAGAGTAGATCGCACC
66 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTACC
* *
16775111 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATA
131 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATATTATCTCCCTGAGA
16775176 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
196 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
* * *
16775241 TTAAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCACTAGGTCTTATTTCTCTGAGAT
261 TTAAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATTTCCCTGAGAT
* *
16775306 TACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGATCAGATTGAA
326 TACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
* * * * * ** *
16775371 GCTAGTAATCCTATCTCCCTGAGATTAAGTGGAGCAAATTAAAATAAAGGATTTTAACTCTCTGA
391 GCCAGTAATCCTATCTCCCTAAGATTAAGCGGAGCAAATTAAAAGAAACGATCCTAACTCCCTGA
* *** ** * * **
16775436 AGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTCAGATTACAGTGGAACAGACCGAAGA
456 AGTTACAGTAGAGCAGATAAAAAAAGGTCTTATCTCCCTAAGATTACAGCAGAACAGACC--AGA
* * * * *
16775501 ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATCCAGAGATCTTATCTCCCTG
519 A-TCCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAATCAACAGATCTTATCTCCCTG
** * *
16775566 AGATTACAGCGGAGAAGATCGAAGACACTATCCTATCTCCCTAAAGTTATAGTGGAGCGAATTAA
583 AGATTACAGCGGAGAAGATCGAAGACAAGATCCTATCTCCCTAAAGTTACAGCGGAGCGAATTAA
* * * * * * * ** * *
16775631 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACACCAGGTCTTATTTCCCTGAG
648 AAGAAACGATCCTATCTCCCTGAAGATACAGCAGAGCAGATAACAAAAGATCTTATCTCCCTGAG
* *
16775696 ATTACAGTGGAACAGATCGAAGAATTT
713 ATTACAGTAGAACAGATC--AGAA-TC
* ** *
16775723 CAGATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGATTACAGCGGAACAGACCGAAGATAGTAATCCTATCTCCCTGAGAT
*
16775788 TACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTACC
66 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTACC
16775853 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATATTATCTCCCTGAGA
131 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATATTATCTCCCTGAGA
*
16775918 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAA
196 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
* *
16775983 -TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAAGTCTTATTTCCCTGAGA
261 TTAAA-GATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATTTCCCTGAGA
*
16776047 TTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGA
325 TTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
* * ** * * *
16776112 AGCCAG-AGATCTTATCTCCCTAAGATTACAGCGGAGCAGA-TCGAAGACACTATCCTATCTCCC
390 AGCCAGTA-ATCCTATCTCCCTAAGATTA-AGCGGAGCAAATTAAAAGAAACGATCCTAACTCCC
* * * **
16776175 TGAAGTTATAGT-GAAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGCAGAGTAG
453 TGAAGTTACAGTAG-AGCAGA-TAAAA-AAAGG-TCTTATCTCCCT-AAGATTACAGCAGAACAG
* * * * *
16776238 ATC-GCA-CCAGGTCTTATTTCCCTGAGATTACAGTAGAACAGATCGAAT-AATTTCAGATCTTA
513 ACCAGAATCCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAATCAA---CAGATCTTA
* * * * *
16776300 TCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCT-GAGATTACAGCGG
575 TCTCCCTGAGATTACAGCGGAGAAGATCGAAGACA-AGATCCTATCTCCCTAAAG-TTACAGCGG
** * * * ** * *
16776364 AGC-AGA-TCGAAGACACTATCCTATCTCCCTGAAGATATAGTGGAGCGGATTAAAATAAAAGAT
638 AGCGA-ATTAAAAGAAACGATCCTATCTCCCTGAAGATACAGCAGAGCAGA-T--AACAAAAGAT
* ** *
16776427 CTTATCTCTCTGA-AGTTACAGTAGAGTAGATC-GCA-C
699 CTTATCTCCCTGAGA-TTACAGTAGAACAGATCAGAATC
* * * * * *
16776463 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCAGATCTTATCTCCCTGA
1 CAGATCTTATCTCCCTAAGATTACAGCGGAACAGACCGAAGATA-GT-A-ATCCTATCTCCCTGA
* *
16776527 GATTACAGCGGAGCAGATT
63 GATTACAGTGGAGCGGATT
16776546 GAAGCCAGAG
Statistics
Matches: 698, Mismatches: 104, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
739 2 0.00
740 71 0.10
741 7 0.01
742 525 0.75
743 35 0.05
744 4 0.01
745 52 0.07
746 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (736 bp):
CAGATCTTATCTCCCTAAGATTACAGCGGAACAGACCGAAGATAGTAATCCTATCTCCCTGAGAT
TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTACC
AGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATATTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
TTAAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATTTCCCTGAGAT
TACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
GCCAGTAATCCTATCTCCCTAAGATTAAGCGGAGCAAATTAAAAGAAACGATCCTAACTCCCTGA
AGTTACAGTAGAGCAGATAAAAAAAGGTCTTATCTCCCTAAGATTACAGCAGAACAGACCAGAAT
CCAGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAATCAACAGATCTTATCTCCCTGAGA
TTACAGCGGAGAAGATCGAAGACAAGATCCTATCTCCCTAAAGTTACAGCGGAGCGAATTAAAAG
AAACGATCCTATCTCCCTGAAGATACAGCAGAGCAGATAACAAAAGATCTTATCTCCCTGAGATT
ACAGTAGAACAGATCAGAATC
Found at i:16776865 original size:175 final size:174
Alignment explanation
Indices: 16776554--16776878 Score: 431
Period size: 175 Copynumber: 1.9 Consensus size: 174
16776544 TTGAAGCCAG
*
16776554 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGTAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
* * * * *
16776619 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
66 CAGTGGAGCGGATTAAAATAAAGAATCATATCTCTCTAAAGTTACAGCAGAGTAGATCGCACCAA
* *
16776684 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC
131 GTCTTATCTCACTGAGATTACAGTGGAACAGACCGAAGAATTTC
* * * * *
16776728 AGATCTTATCTCCTTGAGATTACAGCGGAGCCGATTGAAG-CTAGTAATCCTATCTCCCTGATA-
1 AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGA-AG
* * **
16776791 TTACAGTGGAGTGGATTAAAATAAAGAATCATATAC-CTCTAAAGTTACAGTAGAGTAGATCGTT
63 TTACAGTGGAGCGGATTAAAATAAAGAATCATAT-CTCTCTAAAGTTACAGCAGAGTAGATCGCA
*
16776855 TCAAGTCTTATCTCACTGAGATTA
127 CCAAGTCTTATCTCACTGAGATTA
16776879 TAGCGGAGCA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
173 1 0.01
174 37 0.29
175 89 0.69
176 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGATCACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAGAATCATATCTCTCTAAAGTTACAGCAGAGTAGATCGCACCAA
GTCTTATCTCACTGAGATTACAGTGGAACAGACCGAAGAATTTC
Found at i:16776886 original size:129 final size:128
Alignment explanation
Indices: 16776724--16777025 Score: 428
Period size: 129 Copynumber: 2.3 Consensus size: 128
16776714 GACCGAAGAA
* *
16776724 TTTCAGATCTTATCTCCTTGAGATTACAGCGGAGCCGATTGAAGCTAGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCC-TGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGA
* * *
16776789 TATTACAGTGGAGTGGATTAAAATAAAGAATCATATAC-CTCTAAAGTTACAGTAGAGTAGATCG
65 GATTACAATGGAGCGGATTAAAATAAAGAATCATAT-CTCTCTAAAGTTACAGTAGAGTAGATCG
* *
16776853 TTTCA-AGTCTTATCTCACTGAGATTATAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCTCTG
1 TTTCAGA-TCTTATCTC-CTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTG
* * *
16776917 AGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
64 AGATTACAATGGAGCGGATTAAAATAAAGAATCATATCTCTCTAAAGTTACAGTAGAGTAGATCG
* * *
16776982 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAG
1 TTTCAGATCTTATCT-CCTGAGATTACAGCGGAGCAGATTGAAG
16777026 ATAGAAGATC
Statistics
Matches: 154, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
128 2 0.01
129 149 0.97
130 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (128 bp):
TTTCAGATCTTATCTCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAG
ATTACAATGGAGCGGATTAAAATAAAGAATCATATCTCTCTAAAGTTACAGTAGAGTAGATCG
Found at i:16777055 original size:46 final size:46
Alignment explanation
Indices: 16777007--16777179 Score: 238
Period size: 46 Copynumber: 3.8 Consensus size: 46
16776997 CCCTGAGATT
*
16777007 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTT
1 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTG
*
16777053 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTTCTGTATTTG
1 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTG
* * * * *
16777099 GCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATATTTG
1 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTG
* * * * *
16777145 GCAGTGAAGTAGATCGAAGATTGCAGATCCTGTCT
1 ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCT
16777180 CCCTAATCAG
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (46 bp):
ACAGTGGAGTAGATCGAAGATAGAAGATCTTGTCTTCCTGTATTTG
Found at i:16778191 original size:6 final size:6
Alignment explanation
Indices: 16778175--16778216 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
16778165 TTCTAACCCC
16778175 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
16778217 TTGTTCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:16778226 original size:18 final size:18
Alignment explanation
Indices: 16778175--16778226 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
16778165 TTCTAACCCC
*
16778175 TTTTTATTTTTTATTTTTA
1 TTTTTA-TTTTCATTTTTA
*
16778194 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTTTA
16778212 TTTTT-TTGTTCATTT
1 TTTTTATT-TTCATTT
16778227 ATTTATATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 2 0.06
18 23 0.74
19 6 0.19
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTCATTTTTA
Found at i:16778901 original size:14 final size:14
Alignment explanation
Indices: 16778876--16778902 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16778866 ACCATTAGCC
16778876 TTATATTATTATTG
1 TTATATTATTATTG
16778890 TTATATTATTATT
1 TTATATTATTATT
16778903 TTTTTTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTG
Found at i:16779005 original size:24 final size:23
Alignment explanation
Indices: 16778974--16779018 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16778964 TATACATACC
* *
16778974 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
16778997 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
16779019 CTTCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:16779210 original size:18 final size:18
Alignment explanation
Indices: 16779163--16779206 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16779153 CTTAAAGTGC
* *
16779163 TTTAATTTTATTTGTTTA
1 TTTACTTTTATTTGTTGA
16779181 TTTACTTTTATTTGTTGA
1 TTTACTTTTATTTGTTGA
16779199 TTT-CTTTT
1 TTTACTTTT
16779207 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTACTTTTATTTGTTGA
Found at i:16780910 original size:43 final size:43
Alignment explanation
Indices: 16780844--16780967 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
16780834 AGCTCGTACA
* * * * * *
16780844 ATGCCAACGTCCGAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGTAAACACAGACCG
* * **
16780887 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAAACACAGGTCG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGTAAACACAGACCG
**
16780930 ATGCCAATGTCCCAAACGTGGTCTTACACAAAAACACA
1 ATGCCAATGTCCCAAACGTGGTCTTACACGTAAACACA
16780968 TATCGGAATC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.97
44 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGTAAACACAGACCG
Found at i:16781791 original size:6 final size:6
Alignment explanation
Indices: 16781780--16781818 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
16781770 TAGCTTGTTC
16781780 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
16781819 ACATTCGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:16786185 original size:16 final size:17
Alignment explanation
Indices: 16786153--16786186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16786143 TTTTGTAGAT
16786153 ATTAATATTTATTTTAA
1 ATTAATATTTATTTTAA
*
16786170 ATTAATGTTT-TTTTAA
1 ATTAATATTTATTTTAA
16786186 A
1 A
16786187 AGAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTAATATTTATTTTAA
Found at i:16791056 original size:22 final size:19
Alignment explanation
Indices: 16791009--16791058 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
16790999 ATAATATCTT
16791009 TTTTATAATTATTATATTTA
1 TTTTAT-ATTATTATATTTA
16791029 TATTTATATTATATAATATTTAA
1 T-TTTATATTAT-T-ATATTT-A
16791052 TTTTATA
1 TTTTATA
16791059 AAATCCACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 12 0.46
23 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATATTATTATATTTA
Found at i:16793188 original size:51 final size:51
Alignment explanation
Indices: 16793130--16793243 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
16793120 CATGTCCCCT
16793130 ACCCGTGTGACTCCAAGTCTAAACTCAGGGAGTTACACAACCTAGACACAC
1 ACCCGTGTGACTCCAAGTCTAAACTCAGGGAGTTACACAACCTAGACACAC
* * * * *
16793181 ACCCGTGTGACTCCAAGTCTTAACTTAGGGAGTTACACGACCTGGATACAC
1 ACCCGTGTGACTCCAAGTCTAAACTCAGGGAGTTACACAACCTAGACACAC
*
16793232 TCCCGTGTGACT
1 ACCCGTGTGACT
16793244 TACCCGTATG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (51 bp):
ACCCGTGTGACTCCAAGTCTAAACTCAGGGAGTTACACAACCTAGACACAC
Found at i:16796415 original size:29 final size:28
Alignment explanation
Indices: 16796322--16796421 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 28
16796312 CAAAAAATAA
*
16796322 AAATTACATTTTAACCCCTAATATT-TTG
1 AAATTACATTTTAA-CCCTAATTTTCTTG
** * *
16796350 TAAATTACATTCGAGCCTCTAAACTTTCTAT-
1 -AAATTACATTTTAACC-CT-AATTTTCT-TG
16796381 AAATTACATTTTAACCCTATATTTTCTTG
1 AAATTACATTTTAACCCTA-ATTTTCTTG
*
16796410 AAATTATATTTT
1 AAATTACATTTT
16796422 TGCCCCAGAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 4 0.07
29 32 0.58
30 17 0.31
31 1 0.02
32 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAATTTTCTTG
Found at i:16796812 original size:4 final size:4
Alignment explanation
Indices: 16796805--16796863 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
16796795 TAGCAGCCAA
16796805 AAAG AAAG -AAG AGAAG AAAG AAAAG AAA- AAAG AGAAG AAAG AAAAG
1 AAAG AAAG AAAG A-AAG AAAG -AAAG AAAG AAAG A-AAG AAAG -AAAG
* *
16796851 AGAG AGAG AAAG A
1 AAAG AAAG AAAG A
16796864 GAAGCGGGCG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 6 0.13
4 25 0.53
5 16 0.34
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:16796821 original size:12 final size:12
Alignment explanation
Indices: 16796806--16796867 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
16796796 AGCAGCCAAA
16796806 AAGAAAGAAGAG
1 AAGAAAGAAGAG
16796818 AAGAAAG-A-A-
1 AAGAAAGAAGAG
*
16796827 AAGAAAAAAGAG
1 AAGAAAGAAGAG
*
16796839 AAGAAAGAAAAG
1 AAGAAAGAAGAG
*
16796851 AGAGAGAGAAAGAG
1 A-AGAAAG-AAGAG
16796865 AAG
1 AAG
16796868 CGGGCGCGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 2 0.05
12 18 0.45
13 7 0.17
14 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAGAG
Found at i:16796828 original size:21 final size:21
Alignment explanation
Indices: 16796804--16796860 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
16796794 ATAGCAGCCA
16796804 AAAAGAAAGAAGAGAAGAAAG
1 AAAAGAAAGAAGAGAAGAAAG
*
16796825 AAAAGAAAAAAGAGAAGAAAG
1 AAAAGAAAGAAGAGAAGAAAG
*
16796846 AAAAGAGAG-AGAGAA
1 AAAAGAAAGAAGAGAA
16796861 AGAGAAGCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAAGAGAAGAAAG
Found at i:16796840 original size:14 final size:15
Alignment explanation
Indices: 16796807--16796863 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
16796797 GCAGCCAAAA
* *
16796807 AGAAAGAAGAGAAGAA
1 AGAAAGAA-AAAAGAG
16796823 AGAAAAGAAAAAAGAG
1 AG-AAAGAAAAAAGAG
16796839 AAGAAAGAAAAGAGAGAG
1 -AGAAAGAAAA-A-AGAG
16796857 AGAAAGA
1 AGAAAGA
16796864 GAAGCGGGCG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 15 0.43
17 16 0.46
18 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAAAAGAG
Done.