Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 294 of 373
Found at i:99712403 original size:22 final size:22
Alignment explanation
Indices: 99712360--99712403 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
99712350 TTGAAAGTAC
* *
99712360 AAAAGAATATTTTATGTTTGTG
1 AAAAAAATATTTTATGTGTGTG
99712382 AAAAAAATATTTCTAT-TGTGTG
1 AAAAAAATATTT-TATGTGTGTG
99712404 GACAAGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (22 bp):
AAAAAAATATTTTATGTGTGTG
Found at i:99714140 original size:8 final size:8
Alignment explanation
Indices: 99714101--99714133 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
99714091 AAAGATCCTC
99714101 TCTTTTTT
1 TCTTTTTT
99714109 TCTTTTTT
1 TCTTTTTT
99714117 TCTTTTTT
1 TCTTTTTT
99714125 TCTTTTTT
1 TCTTTTTT
99714133 T
1 T
99714134 GTCTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:99714140 original size:16 final size:16
Alignment explanation
Indices: 99714105--99714140 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
99714095 ATCCTCTCTT
*
99714105 TTTTTCTTTTTTTCTT
1 TTTTTCTTTTTTTCTC
*
99714121 TTTTTCTTTTTTTGTC
1 TTTTTCTTTTTTTCTC
99714137 TTTT
1 TTTT
99714141 AATCTTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTC
Found at i:99715392 original size:23 final size:23
Alignment explanation
Indices: 99715364--99715457 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
99715354 ATGTGTGTAT
* *
99715364 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
99715387 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
99715410 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
99715433 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
99715456 CT
1 CT
99715458 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:99717552 original size:23 final size:23
Alignment explanation
Indices: 99717524--99717617 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
99717514 ATGTGTGTAT
* *
99717524 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
99717547 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
99717570 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
99717593 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
99717616 CT
1 CT
99717618 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:99721716 original size:18 final size:18
Alignment explanation
Indices: 99721669--99721716 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
99721659 ATTGCTTCCC
*
99721669 AAAAGCATTTTTAAGTCA
1 AAAAGCACTTTTAAGTCA
*
99721687 AAAAGCATTTTTAAGTCA
1 AAAAGCACTTTTAAGTCA
*
99721705 AAAAGTACTTTT
1 AAAAGCACTTTT
99721717 GAGTAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (18 bp):
AAAAGCACTTTTAAGTCA
Found at i:99721716 original size:19 final size:18
Alignment explanation
Indices: 99721669--99721709 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
99721659 ATTGCTTCCC
99721669 AAAAGCATTTTTAAGTCA
1 AAAAGCATTTTTAAGTCA
99721687 AAAAGCATTTTTAAGTCA
1 AAAAGCATTTTTAAGTCA
99721705 AAAAG
1 AAAAG
99721710 TACTTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAAGCATTTTTAAGTCA
Found at i:99728913 original size:12 final size:11
Alignment explanation
Indices: 99728896--99728935 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
99728886 TTTATAAAAA
99728896 TTTTAATATATT
1 TTTTAATA-ATT
99728908 TTTTAATAATT
1 TTTTAATAATT
99728919 TTTT-ATGAATT
1 TTTTAAT-AATT
99728930 TTTTAA
1 TTTTAA
99728936 GAGTACCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 15 0.58
12 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:99729470 original size:33 final size:33
Alignment explanation
Indices: 99729433--99729499 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
99729423 ATAATATAAC
99729433 ATGTTATTCAATCAAAGATAACAAGGTTTAAAA
1 ATGTTATTCAATCAAAGATAACAAGGTTTAAAA
99729466 ATGTTATTCAATCAAAGATAACAAGGTTTAAAA
1 ATGTTATTCAATCAAAGATAACAAGGTTTAAAA
99729499 A
1 A
99729500 ATTAACATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (33 bp):
ATGTTATTCAATCAAAGATAACAAGGTTTAAAA
Found at i:99732528 original size:23 final size:22
Alignment explanation
Indices: 99732481--99732528 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
99732471 GTGCCACATG
99732481 TTAAAAAATTATTTTTTTTAATA
1 TTAAAAAATTATTTTTTTT-ATA
*
99732504 TTAAAATATTTATTTTATTTT-TA
1 TTAAAA-AATTATTTT-TTTTATA
99732527 TT
1 TT
99732529 TCTTTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAAAAAATTATTTTTTTTATA
Found at i:99733910 original size:34 final size:35
Alignment explanation
Indices: 99733852--99733918 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
99733842 CAAACACCAG
99733852 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
99733887 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
99733919 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:99741080 original size:16 final size:18
Alignment explanation
Indices: 99741041--99741082 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
99741031 AAAATTAATA
99741041 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
99741058 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
99741075 A-ATTTATA
1 ATATTTATA
99741083 ACATATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:99751078 original size:8 final size:8
Alignment explanation
Indices: 99751055--99751094 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
99751045 AAAAAATATA
99751055 TATAAAAT
1 TATAAAAT
*
99751063 TAAAAAAAT
1 T-ATAAAAT
99751072 TATAAAAT
1 TATAAAAT
99751080 TATAAAAT
1 TATAAAAT
99751088 TATAAAA
1 TATAAAA
99751095 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TATAAAAT
Found at i:99751097 original size:19 final size:19
Alignment explanation
Indices: 99751038--99751095 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
99751028 AAACTCATTA
99751038 AAAATCTAAAAAATATATAT
1 AAAAT-TAAAAAATATATAT
99751058 AAAATTAAAAAA-AT-TAT
1 AAAATTAAAAAATATATAT
*
99751075 AAAATTATAAAAT-TATA-
1 AAAATTAAAAAATATATAT
99751092 AAAA
1 AAAA
99751096 AAATAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 19 0.54
18 4 0.11
19 7 0.20
20 5 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTAAAAAATATATAT
Found at i:99751101 original size:25 final size:25
Alignment explanation
Indices: 99751055--99751103 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
99751045 AAAAAATATA
*
99751055 TATAAAATTAAAAAAATTATAAAAT
1 TATAAAATTAAAAAAATAATAAAAT
99751080 TATAAAATTATAAAAAA-AATAAAA
1 TATAAAATTA-AAAAAATAATAAAA
99751104 ATAAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
TATAAAATTAAAAAAATAATAAAAT
Found at i:99751513 original size:19 final size:19
Alignment explanation
Indices: 99751470--99751514 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
99751460 TGAGTTTTGA
*
99751470 GATTTATTTATTTATTTAT
1 GATTTTTTTATTTATTTAT
*
99751489 GATTTTTTTAGTTTTTTTAT
1 GATTTTTTTA-TTTATTTAT
99751509 -ATTTTT
1 GATTTTT
99751515 AAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (19 bp):
GATTTTTTTATTTATTTAT
Found at i:99752910 original size:17 final size:17
Alignment explanation
Indices: 99752888--99752939 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
99752878 CACTTGTTCA
99752888 TTTTATATTTCTTTTAG
1 TTTTATATTTCTTTTAG
99752905 TTTTATA-TTC----A-
1 TTTTATATTTCTTTTAG
*
99752916 TTCTATATTTCTTTTAG
1 TTTTATATTTCTTTTAG
99752933 TTTTATA
1 TTTTATA
99752940 ACATGTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
16 4 0.15
17 13 0.48
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTATATTTCTTTTAG
Found at i:99752916 original size:28 final size:28
Alignment explanation
Indices: 99752884--99752939 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
99752874 TTCTCACTTG
*
99752884 TTCATTTTATATTTCTTTTAGTTTTATA
1 TTCATTCTATATTTCTTTTAGTTTTATA
99752912 TTCATTCTATATTTCTTTTAGTTTTATA
1 TTCATTCTATATTTCTTTTAGTTTTATA
99752940 ACATGTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (28 bp):
TTCATTCTATATTTCTTTTAGTTTTATA
Found at i:99754430 original size:39 final size:39
Alignment explanation
Indices: 99754387--99754467 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
99754377 TTTTGTGTTC
99754387 TTTCGTTAAACCCAAAAATAAAGACATATGTCACGTAGA
1 TTTCGTTAAACCCAAAAATAAAGACATATGTCACGTAGA
99754426 TTTCGTTAAACCCAAAAATAAAGACATATGTCACGTAGA
1 TTTCGTTAAACCCAAAAATAAAGACATATGTCACGTAGA
99754465 TTT
1 TTT
99754468 TGCTACAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (39 bp):
TTTCGTTAAACCCAAAAATAAAGACATATGTCACGTAGA
Found at i:99757365 original size:27 final size:27
Alignment explanation
Indices: 99757335--99757398 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
99757325 TTTTGCTAGG
*
99757335 ACACTAAGCACGTGATAGTCT-TCTGGA
1 ACACTAAGCACGGGATAGTCTGTC-GGA
*
99757362 ACACTAAACACGGGATAGTCTGTCGGA
1 ACACTAAGCACGGGATAGTCTGTCGGA
99757389 ACACTAAGCA
1 ACACTAAGCA
99757399 GGGGTGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (27 bp):
ACACTAAGCACGGGATAGTCTGTCGGA
Found at i:99759893 original size:25 final size:24
Alignment explanation
Indices: 99759861--99759923 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
99759851 TTCTTTTTGT
* *
99759861 ATTAATTTAACTTTATTTATTTTA
1 ATTAATTTAAATTTATTCATTTTA
99759885 ATTATATTTAAATTTATTCATTTTA
1 ATTA-ATTTAAATTTATTCATTTTA
*
99759910 ATTAGATTTTAATT
1 ATTA-ATTTAAATT
99759924 AAGGGGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTAATTTAAATTTATTCATTTTA
Found at i:99770971 original size:46 final size:46
Alignment explanation
Indices: 99770826--99770997 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
99770816 TTGGTAAGGT
* * * * * *
99770826 GCCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCAA
1 GCCGATGCCATGTCCCAAACA-TGTCTTACACTGGCTAACATCTCGA
* ** * *
99770873 GTCGATGCCACATCCCAAACATGGTCTTACACT-GATAATCACCTCGTA
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTAA-CATCTCG-A
* *
99770921 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
1 GCCGATGCCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGA
*
99770966 GGCCGATG-CATGTCCTAAACATGTCTTACACT
1 -GCCGATGCCATGTCCCAAACATGTCTTACACT
99770998 AGCACTTGTC
Statistics
Matches: 100, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 48 0.48
47 44 0.44
48 7 0.07
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGA
Found at i:99770987 original size:93 final size:94
Alignment explanation
Indices: 99770826--99770997 Score: 233
Period size: 93 Copynumber: 1.8 Consensus size: 94
99770816 TTGGTAAGGT
*
99770826 GCCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCAAGTCGATGCCACATCCCAA
1 GCCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCAAGCCGATGCCACATCCCAA
99770891 ACATGGTCTTACACTGATAATCACCTCGTA
66 ACAT-GTCTTACACTGATAATCACCTCGTA
* * * * ** *
99770921 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGAGGCCGATG-CATGTCCTA
1 GCCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATC-AAGCCGATGCCACATCCCA
99770983 AACATGTCTTACACT
65 AACATGTCTTACACT
99770998 AGCACTTGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 10 0.15
93 31 0.46
94 20 0.29
95 7 0.10
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
GCCGATGTCATGTCCCAGACACGGTCTTACACTGGCTCACATATCAAGCCGATGCCACATCCCAA
ACATGTCTTACACTGATAATCACCTCGTA
Found at i:99778625 original size:46 final size:46
Alignment explanation
Indices: 99778540--99778710 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
99778530 TCTCGTAACC
* * *
99778540 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCAAGTCTCGAGGCT
* * *
99778586 GATGCATGTCCCAGACATGTCTTACACTAGCACAAGTCTCAATG-T
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCAAGTCTCGAGGCT
* * * * * * *
99778631 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCA-TAAT-GTGGCC
1 -GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-AAGT-CTCGAGGCT
*
99778680 GATGCATGTCCCAGACATGTCTTATACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
99778711 CTACACACAA
Statistics
Matches: 99, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 53 0.54
47 24 0.24
48 19 0.19
49 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCAAGTCTCGAGGCT
Found at i:99778664 original size:94 final size:92
Alignment explanation
Indices: 99778539--99778710 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
99778529 ATCTCGTAAC
* * * * *
99778539 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGT-CTCGAGGCTGATGCATGTCCCAGAC
1 CGATGCATATCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAGAC
99778602 ATGTCTTACACTAGCACAAGTCTCAATGT
64 ATGTCTTACACTAGCACAAGTCTCAATGT
*
99778631 CGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATG-CATATCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
*
99778696 ATGTCTTATACTAGC
64 ATGTCTTACACTAGC
99778711 CTACACACAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 12 0.17
94 50 0.72
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (92 bp):
CGATGCATATCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACAAGTCTCAATGT
Found at i:99780861 original size:38 final size:38
Alignment explanation
Indices: 99780818--99780894 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
99780808 AATAGTGACC
*
99780818 AAAAGTAGGCAAAGACTATTAAATTGGTCAAAAATTTT
1 AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAATTTT
* *
99780856 AAAAGTAGGCAGAGACCATTAAATTGGTTAAAAATTTT
1 AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAATTTT
99780894 A
1 A
99780895 CTTTTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.29
Consensus pattern (38 bp):
AAAAGTAGGCAAAGACCATTAAATTGGTCAAAAATTTT
Found at i:99783046 original size:14 final size:13
Alignment explanation
Indices: 99783023--99783054 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
99783013 GGAATATCAA
99783023 AACAATAATTAAG
1 AACAATAATTAAG
99783036 AACACATAATTAAG
1 AACA-ATAATTAAG
99783050 AACAA
1 AACAA
99783055 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:99792718 original size:29 final size:29
Alignment explanation
Indices: 99792686--99792793 Score: 123
Period size: 29 Copynumber: 3.7 Consensus size: 29
99792676 TGCATGTTGT
99792686 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * * *
99792715 TTGGGCCTGATGGGCTATACGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
*
99792744 TTTGGGCCTAATGGGTCATATG-A-ATGAGA
1 -TTGGGCCTAATGGGCCATATGAATATGA-A
99792773 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
99792794 CATGTATGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.03
28 20 0.30
29 27 0.41
30 17 0.26
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:99798276 original size:29 final size:29
Alignment explanation
Indices: 99798244--99798348 Score: 126
Period size: 29 Copynumber: 3.7 Consensus size: 29
99798234 CATGTGATTG
99798244 GGGCCTAATGGGCCATATGAATATGAATT
1 GGGCCTAATGGGCCATATGAATATGAATT
* * * *
99798273 GGGCCTGATGGGCTATACGAATGTGAATT
1 GGGCCTAATGGGCCATATGAATATGAATT
*
99798302 GGGCCTGATGGGCCATATG-A-ATGAGATT
1 GGGCCTAATGGGCCATATGAATATGA-ATT
99798330 GGGCC-AAGTGGGCCATATG
1 GGGCCTAA-TGGGCCATATG
99798349 CATGTATGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.06
28 20 0.30
29 42 0.64
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGCCTAATGGGCCATATGAATATGAATT
Found at i:99799749 original size:21 final size:21
Alignment explanation
Indices: 99799724--99799766 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
99799714 GTTATTGAGA
99799724 AGGAAGTAGTTGCT-ACAGAAG
1 AGGAAGTAGTTGCTGA-AGAAG
*
99799745 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTAGTTGCTGAAGAAG
99799766 A
1 A
99799767 AGAAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (21 bp):
AGGAAGTAGTTGCTGAAGAAG
Found at i:99799777 original size:21 final size:20
Alignment explanation
Indices: 99799753--99799791 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
99799743 AGAGGAAGTT
*
99799753 GTTGCTGAAGAAGAAGAAAAA
1 GTTGCTGAAAAAG-AGAAAAA
*
99799774 GTTGTTGAAAAAGAGAAA
1 GTTGCTGAAAAAGAGAAA
99799792 GAAAAAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.03, G:0.28, T:0.18
Consensus pattern (20 bp):
GTTGCTGAAAAAGAGAAAAA
Found at i:99803586 original size:28 final size:28
Alignment explanation
Indices: 99803546--99803600 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
99803536 TCTCACTTGC
*
99803546 TCATACTATATTTGTTTTAGTTTTATAT
1 TCATACTATATTTCTTTTAGTTTTATAT
*
99803574 TCATATTATATTTCTTTTAGTTTTATA
1 TCATACTATATTTCTTTTAGTTTTATA
99803601 ACAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (28 bp):
TCATACTATATTTCTTTTAGTTTTATAT
Found at i:99805378 original size:40 final size:38
Alignment explanation
Indices: 99805293--99805389 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 38
99805283 GCGTTTGGCC
* * *
99805293 AAAAAACGCTGCAAAAGTTATATATTAGTGGCGCTTTA
1 AAAAAACGCCGCAAAAGTTAGAGATTAGTGGCGCTTTA
99805331 AAGAAAACGCCGCTAAAAGTTAGAGATATAGTGGCGCTTGTTA
1 AA-AAAACGCCGC-AAAAGTTAGAGAT-TAGTGGCGC-T-TTA
* *
99805374 AAAACACACCGCAAAA
1 AAAAAACGCCGCAAAA
99805390 TATCACTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
38 2 0.04
39 9 0.18
40 11 0.22
41 13 0.27
42 9 0.18
43 5 0.10
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (38 bp):
AAAAAACGCCGCAAAAGTTAGAGATTAGTGGCGCTTTA
Found at i:99806587 original size:15 final size:15
Alignment explanation
Indices: 99806569--99806600 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99806559 TTTAATTTAG
99806569 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
99806584 AAGATAAATATATAT
1 AAGATAAATATAAAT
99806599 AA
1 AA
99806601 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:99807435 original size:37 final size:37
Alignment explanation
Indices: 99807383--99807499 Score: 180
Period size: 37 Copynumber: 3.2 Consensus size: 37
99807373 AATCTCCCTG
* * *
99807383 TGCATTGCAACCCATCTCCTCTATCGCCTTCTCCCCA
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
* * *
99807420 TGCATCGCAAACCATCCCCTCCATCGCCTTCGCCCCG
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
99807457 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
1 TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
99807494 TGCATC
1 TGCATC
99807500 TGCTACATAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.16, C:0.49, G:0.11, T:0.24
Consensus pattern (37 bp):
TGCATCGCAACCCATCTCCTCCATCGCCTTCGCCCCA
Found at i:99808849 original size:14 final size:14
Alignment explanation
Indices: 99808830--99808858 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99808820 CTATAATAAT
99808830 TATATGAAGTAAAA
1 TATATGAAGTAAAA
99808844 TATATGAAGTAAAA
1 TATATGAAGTAAAA
99808858 T
1 T
99808859 TATACTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TATATGAAGTAAAA
Found at i:99810269 original size:19 final size:17
Alignment explanation
Indices: 99810228--99810261 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99810218 AATGTTTCTA
99810228 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
99810245 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
99810262 TTTTTCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:99810299 original size:9 final size:9
Alignment explanation
Indices: 99810285--99810555 Score: 82
Period size: 9 Copynumber: 30.8 Consensus size: 9
99810275 CCAGCAACTC
99810285 ACATAATTT
1 ACATAATTT
99810294 ACATAA--T
1 ACATAATTT
*
99810301 ACATAACTT
1 ACATAATTT
99810310 ACATAATTT
1 ACATAATTT
*
99810319 --A-AAGTT
1 ACATAATTT
99810325 -CA-AATTT
1 ACATAATTT
*
99810332 -CATAACTT
1 ACATAATTT
99810340 ACATAATTT
1 ACATAATTT
* *
99810349 ACTTAACTT
1 ACATAATTT
99810358 ACATAA--T
1 ACATAATTT
*
99810365 ACATAACTT
1 ACATAATTT
*
99810374 ATATAATTT
1 ACATAATTT
*
99810383 AAAGATCAAATTT
1 --ACAT--AATTT
*
99810396 -CATAACTT
1 ACATAATTT
*
99810404 ACATGA--T
1 ACATAATTT
*
99810411 ACATAACTT
1 ACATAATTT
99810420 ACATAATTT
1 ACATAATTT
99810429 AAAGACCA-AATTT
1 ----A-CATAATTT
*
99810442 -CATAAGTT
1 ACATAATTT
99810450 ACATAATTT
1 ACATAATTT
*
99810459 ACATAACTT
1 ACATAATTT
99810468 ACATAATAATT
1 ACATAAT--TT
* *
99810479 -TA-AAGTT
1 ACATAATTT
99810486 -CA-AATTT
1 ACATAATTT
*
99810493 -CATAACTT
1 ACATAATTT
99810501 ACATAATTT
1 ACATAATTT
99810510 AAAGACCA-AATTT
1 ----A-CATAATTT
*
99810523 -CATAAGTT
1 ACATAATTT
99810531 ACATAATTT
1 ACATAATTT
*
99810540 ACATAACTT
1 ACATAATTT
99810549 ACATAAT
1 ACATAAT
99810556 AATTTAAAGT
Statistics
Matches: 200, Mismatches: 30, Indels: 64
0.68 0.10 0.22
Matches are distributed among these distances:
6 4 0.02
7 41 0.20
8 20 0.10
9 106 0.53
10 3 0.01
11 5 0.03
13 17 0.09
14 4 0.02
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:99810306 original size:16 final size:16
Alignment explanation
Indices: 99810285--99810426 Score: 89
Period size: 16 Copynumber: 9.0 Consensus size: 16
99810275 CCAGCAACTC
*
99810285 ACATAATTTACATAAT
1 ACATAACTTACATAAT
99810301 ACATAACTTACATAAT
1 ACATAACTTACATAAT
** *
99810317 TTA-AAGTT-CA-AATT
1 ACATAACTTACATAA-T
*
99810331 TCATAACTTACATAATTT
1 ACATAACTTACATAA--T
*
99810349 ACTTAACTTACATAAT
1 ACATAACTTACATAAT
*
99810365 ACATAACTTATATAAT
1 ACATAACTTACATAAT
** **
99810381 TTA-AAGAT-CA-AATT
1 ACATAACTTACATAA-T
* *
99810395 TCATAACTTACATGAT
1 ACATAACTTACATAAT
99810411 ACATAACTTACATAAT
1 ACATAACTTACATAAT
99810427 TTAAAGACCA
Statistics
Matches: 96, Mismatches: 21, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.04
14 9 0.09
15 14 0.15
16 51 0.53
17 3 0.03
18 15 0.16
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (16 bp):
ACATAACTTACATAAT
Found at i:99810338 original size:30 final size:30
Alignment explanation
Indices: 99810302--99810618 Score: 223
Period size: 30 Copynumber: 10.5 Consensus size: 30
99810292 TTACATAATA
99810302 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
99810332 CATAACTTACATAATTTACTTAACTTACATAA-TA
1 CATAACTTACATAATTTA---AAGTT-CA-AATTT
* *
99810366 CATAACTTATATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* ** *
99810396 CATAACTTACATGATACATAACTTACATAATTT
1 CATAACTTACATAATTTA-AAGTT-CA-AATTT
*
99810429 -A-AA--GACCA-AATTTCATAAGTTACATAATTT
1 CATAACTTA-CATAATTT-A-AAGTT-CA-AATTT
99810459 ACATAACTTACATAATAATTTAAAGTTCAAATTT
1 -CATAACTTAC---ATAATTTAAAGTTCAAATTT
**
99810493 CATAACTTACATAATTTAAAGACCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
99810523 CATAAGTTACATAATTTACA--T--AA---
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
99810546 C-TTACATA-ATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
99810574 CATAACTTACCTAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
99810604 CATAACTTACATAAT
1 CATAACTTACATAAT
99810619 ACATAACTTA
Statistics
Matches: 226, Mismatches: 32, Indels: 58
0.72 0.10 0.18
Matches are distributed among these distances:
21 9 0.04
22 4 0.02
23 2 0.01
25 2 0.01
26 2 0.01
28 1 0.00
29 10 0.04
30 120 0.53
31 8 0.04
32 4 0.02
33 21 0.09
34 26 0.12
35 5 0.02
36 5 0.02
37 2 0.01
38 5 0.02
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGTTCAAATTT
Found at i:99810413 original size:46 final size:46
Alignment explanation
Indices: 99810352--99810507 Score: 222
Period size: 46 Copynumber: 3.3 Consensus size: 46
99810342 ATAATTTACT
99810352 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
1 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
* * *
99810398 TAACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCA
1 TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
* *
99810444 TAAGTTACATAATTTACATAACTTACATAATAATTTAAAGTTCAAATTTCA
1 TAACTTACATAA--TACATAACTT--AT-ATAATTTAAAGATCAAATTTCA
99810495 TAACTTACATAAT
1 TAACTTACATAAT
99810508 TTAAAGACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
46 53 0.55
48 10 0.10
49 1 0.01
50 1 0.01
51 31 0.32
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (46 bp):
TAACTTACATAATACATAACTTATATAATTTAAAGATCAAATTTCA
Found at i:99810509 original size:81 final size:81
Alignment explanation
Indices: 99810412--99810664 Score: 426
Period size: 81 Copynumber: 3.2 Consensus size: 81
99810402 TTACATGATA
99810412 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
99810477 TTTAAAGTTCAAATTT
66 TTTAAAGTTCAAATTT
99810493 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
99810558 TTTAAAGTTCAAATTT
66 TTTAAAGTTCAAATTT
* * *
99810574 CATAACTTACCTAATTTAAAGATCAAATTTCATAACTTACATAA--TACATAACTTAC---ATAA
1 CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
* *
99810634 TTTAAAGATCAAAATT
66 TTTAAAGTTCAAATTT
99810650 CATAACTTACATAAT
1 CATAACTTACATAAT
99810665 ACATAACTTA
Statistics
Matches: 166, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
76 32 0.19
79 12 0.07
81 122 0.73
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (81 bp):
CATAACTTACATAATTTAAAGACCAAATTTCATAAGTTACATAATTTACATAACTTACATAATAA
TTTAAAGTTCAAATTT
Found at i:99810625 original size:16 final size:16
Alignment explanation
Indices: 99810604--99810695 Score: 107
Period size: 16 Copynumber: 5.9 Consensus size: 16
99810594 GATCAAATTT
99810604 CATAACTTACATAATA
1 CATAACTTACATAATA
*
99810620 CATAACTTACATAATT
1 CATAACTTACATAATA
* ** * *
99810636 TA-AAGAT-CAAAATT
1 CATAACTTACATAATA
99810650 CATAACTTACATAATA
1 CATAACTTACATAATA
99810666 CATAACTTACATAATA
1 CATAACTTACATAATA
*
99810682 CATTACTTACATAA
1 CATAACTTACATAA
99810696 CTTAATTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
14 7 0.11
15 6 0.10
16 50 0.79
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:99810627 original size:46 final size:46
Alignment explanation
Indices: 99810574--99810680 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 46
99810564 GTTCAAATTT
* *
99810574 CATAACTTACCTAATTTAAAGATCAAATTTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
99810620 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
1 CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
99810666 CATAACTTACATAAT
1 CATAACTTACATAAT
99810681 ACATTACTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.34
Consensus pattern (46 bp):
CATAACTTACATAATTTAAAGATCAAAATTCATAACTTACATAATA
Found at i:99812331 original size:13 final size:14
Alignment explanation
Indices: 99812315--99812343 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99812305 TTCTAAATAT
99812315 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
99812328 TTATAATTGTTTAA
1 TTATAATTGTTTAA
99812342 TT
1 TT
99812344 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:99812798 original size:21 final size:21
Alignment explanation
Indices: 99812756--99812799 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
99812746 ACTTAGAGTG
* *
99812756 GAGGCAGCAGCGAGGGACGCA
1 GAGGCAGCAGCAAGGCACGCA
99812777 GAGGCAGCAGCAATGGCA-GCA
1 GAGGCAGCAGCAA-GGCACGCA
99812798 GA
1 GA
99812800 AGAGAGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.32, C:0.23, G:0.43, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCAAGGCACGCA
Found at i:99813237 original size:43 final size:42
Alignment explanation
Indices: 99813169--99813249 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
99813159 TTTGTGGAAA
99813169 AAACACCGCTAAAAGCCATGACTTTTAGAGGCGATTTTTTTAC
1 AAACACCGCTAAAAGCCATGACTTTTAGAGGC-ATTTTTTTAC
* * * *
99813212 AAACGCCGCTAAAAGTCATGGCTTTTAGCGGCATTTTT
1 AAACACCGCTAAAAGCCATGACTTTTAGAGGCATTTTT
99813250 AAAATAAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 6 0.18
43 28 0.82
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
AAACACCGCTAAAAGCCATGACTTTTAGAGGCATTTTTTTAC
Found at i:99813259 original size:43 final size:43
Alignment explanation
Indices: 99813169--99813261 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 43
99813159 TTTGTGGAAA
* **
99813169 AAACACCGCTAAAAGCCATGACTTTTAGAGGCGATTTTTTTAC
1 AAACGCCGCTAAAAGCCATGACTTTTAGAGGCGATTTTTAAAC
* * * *
99813212 AAACGCCGCTAAAAGTCATGGCTTTTAGCGGC-ATTTTTAAAAT
1 AAACGCCGCTAAAAGCCATGACTTTTAGAGGCGATTTTT-AAAC
99813255 AAACGCC
1 AAACGCC
99813262 ACCAATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 6 0.14
43 36 0.86
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCATGACTTTTAGAGGCGATTTTTAAAC
Found at i:99819058 original size:20 final size:19
Alignment explanation
Indices: 99819033--99819074 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
99819023 GATTAGTTTG
*
99819033 GTAATAGGACAGTAATAATA
1 GTAATAAGACAGTAATAA-A
*
99819053 GTAATAATACAGTAATAAA
1 GTAATAAGACAGTAATAAA
99819072 GTA
1 GTA
99819075 GAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (19 bp):
GTAATAAGACAGTAATAAA
Found at i:99819081 original size:20 final size:20
Alignment explanation
Indices: 99819041--99819081 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
99819031 TGGTAATAGG
*
99819041 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
99819061 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
99819081 A
1 A
99819082 ATAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:99819154 original size:3 final size:3
Alignment explanation
Indices: 99819140--99819232 Score: 54
Period size: 3 Copynumber: 32.0 Consensus size: 3
99819130 AATGATATGT
* * * *
99819140 TAA TAA TGA TAA TAA -AA TAA -AA TAA -AA TAA CAC T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
99819184 AAA TAA TAA TAA TAG TAA TAA AAA GGTGAA -AA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA --T-AA TAA TAA TAA TAA TAA TAA
99819230 TAA
1 TAA
99819233 AAACACTATT
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
2 11 0.16
3 54 0.81
6 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:99819735 original size:13 final size:13
Alignment explanation
Indices: 99819717--99819797 Score: 74
Period size: 13 Copynumber: 6.0 Consensus size: 13
99819707 AGTGATGGAG
99819717 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
99819730 TTAGTGGGGTGTT
1 TTAGTGGGGTGGT
**
99819743 TTAGT-GGCCGGT
1 TTAGTGGGGTGGT
*
99819755 TTAGTGGGGTGTTGGAG
1 TTAGT-GGG-G-TGG-T
*
99819772 TTAATGGGGTGGT
1 TTAGTGGGGTGGT
99819785 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
99819798 ATTTGGGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
12 9 0.17
13 29 0.55
14 5 0.09
15 1 0.02
16 5 0.09
17 4 0.08
ACGTcount: A:0.10, C:0.02, G:0.49, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:99819788 original size:30 final size:30
Alignment explanation
Indices: 99819702--99819795 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
99819692 TTTGCAGGCA
* *
99819702 AGTGGAGTGATGGAGTTAGTGGGGTGGTTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
**
99819732 AGTGGGGTGTT----TTAGT-GGCCGGTTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
*
99819757 AGTGGGGTGTTGGAGTTAATGGGGTGGTTT
1 AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
99819787 AGTGGGGTG
1 AGTGGGGTG
99819796 GTATTTGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
25 18 0.35
26 5 0.10
29 4 0.08
30 25 0.48
ACGTcount: A:0.13, C:0.02, G:0.50, T:0.35
Consensus pattern (30 bp):
AGTGGGGTGTTGGAGTTAGTGGGGTGGTTT
Found at i:99819804 original size:25 final size:25
Alignment explanation
Indices: 99819721--99819804 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
99819711 ATGGAGTTAG
99819721 TGGGGTGGTTTAGTGGGGT-GT-TT
1 TGGGGTGGTTTAGTGGGGTGGTATT
** *
99819744 TAGTGGCCGGTTTAGTGGGGTGTTGGAGTT
1 T-G-GGGTGGTTTAGTGGGGTG--GTA-TT
99819774 AATGGGGTGGTTTAGTGGGGTGGTATT
1 --TGGGGTGGTTTAGTGGGGTGGTATT
99819801 TGGG
1 TGGG
99819805 TTGTGAATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 19 0.41
27 2 0.04
28 3 0.07
30 18 0.39
31 1 0.02
32 1 0.02
ACGTcount: A:0.10, C:0.02, G:0.50, T:0.38
Consensus pattern (25 bp):
TGGGGTGGTTTAGTGGGGTGGTATT
Found at i:99820258 original size:88 final size:88
Alignment explanation
Indices: 99820034--99820898 Score: 1132
Period size: 88 Copynumber: 9.9 Consensus size: 88
99820024 TTTTGTTTTA
* * * *
99820034 ATCTACTCCACTACTGCTTAGGGAGATATGATTTGTAATATT-CAGCCCGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* * * **
99820098 GAGAGATAAGGCT-A--GTCTTTA
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * * * *
99820119 ATCTACTCCGCTACAGTTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99820184 GGGGATAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
99820207 ATCTGCTCCACTACTTCTCAGGGAGATAAGATCTATAATCTT-CAGTCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* * *
99820271 GGGGGATAAGGCTCACTGTCTTTG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * *
99820295 -TCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTGTTTCCCTACTACTTA
1 AT-CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTA
*
99820359 GGGGGTTAAAGCTCACCGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * ** * *
99820383 ATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAGCCTGTTTTTCTATTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99820448 GGGGTTAAGGCTCACTGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
99820471 ATCCGCTCCACTACTGCTTAGGGAGATAACATCTGTAATTTCTAGCCTGTTTCCCTACTACTTA-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99820535 AGGGTTAAGGCTCATCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * **
99820558 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCCAGCCTATTTCCCTACTAATTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99820623 GAGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
99820646 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTATTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99820711 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* *
99820734 ATCCGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99820799 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
99820822 ATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99820887 GGGGTTAAGGCT
66 GGGGTTAAGGCT
99820899 AGTGAATTCA
Statistics
Matches: 688, Mismatches: 83, Indels: 15
0.88 0.11 0.02
Matches are distributed among these distances:
84 2 0.00
85 64 0.09
86 1 0.00
87 80 0.12
88 538 0.78
89 3 0.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (88 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
GGGGTTAAGGCTCACCGTCTTCG
Found at i:99820838 original size:351 final size:350
Alignment explanation
Indices: 99820039--99820898 Score: 1138
Period size: 351 Copynumber: 2.5 Consensus size: 350
99820029 TTTTAATCTA
* * * * *
99820039 CTCCACTACTGCTTAGGGAGATATGATTTGTAATATT-CAGCCCGTTTCCCTACTGCTTAGAGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTAGGGGG
* ** * * * *
99820103 ATAAGGCT-A-GTCTTTAATCTACTCCGCTACAGTTTAAGGAGATAAGATCTGTAATTTCCAGCC
65 TTAAGGCTCACGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCC
* * *
99820166 TGTTTCCCTACTGCTTCGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTTCTCAGGGA
130 TGTTTCCCTACTGCTT-AGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTCAGGGA
* * * ** * * *
99820231 GATAAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACTGTCTTTGT
194 GATAAGATCTACAATCTTCAGCCTATTTCCCTACTAATTAGGAGGATAAGGCTCACCGTCTTCGT
*
99820296 CCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTGTTTCCCTACTACTTAGG
259 CCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTAGG
*
99820361 GGGTTAAAGCTCACCGTCTTCGATCTG
324 GGGTTAAAGCTCACCGTCTTCGATCCG
* * ** * *
99820388 CTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAGCCTGTTTTTCTATTACTTAGGGGGT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGT
** * *
99820453 TAAGGCTCACTGTCTTCGATCCGCTCCACTACTGCTTAGGGAGATAACATCTGTAATTTCTAGCC
66 TAAGGCTCAC-GTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCC
* * * * *
99820518 TGTTTCCCTACTACTTAAGGGTTAAGGCTCATCGTCTTCGATTTGCTCCACTACTGCTTAGGGAG
130 TGTTTCCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTCAGGGAG
* *
99820583 ATAAGATCTGCAAT-TTCCAGCCTATTTCCCTACTAATTAGGAGGTTAAGGCTCACCGTCTTCGA
195 ATAAGATCTACAATCTT-CAGCCTATTTCCCTACTAATTAGGAGGATAAGGCTCACCGTCTTCG-
* * * * * *
99820647 TCC-GCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCCCTATTGCTTAG
258 TCCTGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTAG
*
99820711 GGGGTTAAGGCTCACCGTCTTCGATCCG
323 GGGGTTAAAGCTCACCGTCTTCGATCCG
*
99820739 CTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGT
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGT
*
99820804 TAAGGCTCACCGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGCAATTT-TCAGC
66 TAAGGCTCA-CGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCT-AGC
*
99820868 TTGTTTCCCTACTGCTTAGGGGGTTAAGGCT
129 CTGTTTCCCTACTGCTTA-GGGGTTAAGGCT
99820899 AGTGAATTCA
Statistics
Matches: 438, Mismatches: 64, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
348 2 0.00
349 57 0.13
350 4 0.01
351 301 0.69
352 74 0.17
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (350 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGGGGT
TAAGGCTCACGTCTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCT
GTTTCCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTCAGGGAGA
TAAGATCTACAATCTTCAGCCTATTTCCCTACTAATTAGGAGGATAAGGCTCACCGTCTTCGTCC
TGCTCCACTACTACTTAGAGAGATAAGATCTATAATTTCCAGCCTATTTCCCTACTACTTAGGGG
GTTAAAGCTCACCGTCTTCGATCCG
Found at i:99820880 original size:44 final size:44
Alignment explanation
Indices: 99820656--99820888 Score: 122
Period size: 44 Copynumber: 5.3 Consensus size: 44
99820646 ATCCGCTCCA
* * *
99820656 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTTCC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
* * * * * * * * *
99820700 CTATTGCTTAGGGGGTTAAG-GCT-CACCGTCTTC-GATCCG-CTCC
1 CTACTGCTTAGGGAGATAAGATCTGCA--ATTTTCAGCT-TGTTTCC
* * * *
99820743 ACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
* * * * * * **
99820788 CTACTGCTTAGGGGGTTAAG-GCT-CACCGTCTTC-GATCT-ACTCC
1 CTACTGCTTAGGGAGATAAGATCTGCA--ATTTTCAGCT-TGTTTCC
99820831 GCTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
99820876 CTACTGCTTAGGG
1 CTACTGCTTAGGG
99820889 GGTTAAGGCT
Statistics
Matches: 128, Mismatches: 45, Indels: 32
0.62 0.22 0.16
Matches are distributed among these distances:
42 2 0.02
43 12 0.09
44 98 0.77
45 13 0.10
46 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGCTTGTTTCC
Found at i:99821079 original size:64 final size:64
Alignment explanation
Indices: 99820970--99821094 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
99820960 TGTATCTATA
*
99820970 CTTATGCCAAATAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
* * ** * *
99821034 CTTATGTCAAAGAGTTAGGATGCTATGATCGAAATGCATCCAATGCTCCTAACTAGATGTG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
99821095 TTATGAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
Found at i:99825533 original size:24 final size:24
Alignment explanation
Indices: 99825487--99825536 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
99825477 TGTGAAGTTT
*
99825487 AATGCACATGATGCAATGCAATGC
1 AATGCAAATGATGCAATGCAATGC
*
99825511 AATGCAAATGCATGGAATG-AATGC
1 AATGCAAATG-ATGCAATGCAATGC
99825535 AA
1 AA
99825537 AAGAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (24 bp):
AATGCAAATGATGCAATGCAATGC
Found at i:99827697 original size:20 final size:19
Alignment explanation
Indices: 99827674--99827715 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
99827664 AATTAGTTTG
99827674 GTAATAAGACAGTAATAATA
1 GTAATAAGACAGTAATAA-A
*
99827694 GTAATAATACAGTAATAAA
1 GTAATAAGACAGTAATAAA
99827713 GTA
1 GTA
99827716 GAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (19 bp):
GTAATAAGACAGTAATAAA
Found at i:99827722 original size:20 final size:20
Alignment explanation
Indices: 99827682--99827722 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
99827672 TGGTAATAAG
*
99827682 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
99827702 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
99827722 A
1 A
99827723 ATAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:99827795 original size:3 final size:3
Alignment explanation
Indices: 99827781--99827974 Score: 57
Period size: 3 Copynumber: 65.0 Consensus size: 3
99827771 AATGATATGT
* * * * *
99827781 TAA TAA TGA TAA TAA -AA TAA -AA GAA -AA TAA CAC T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
99827825 TAA TAA TAA TAG TAA TAA AAA GCTGAA -AA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA --T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
99827871 AAA TAC TAT TACGT TAC TAC TAA TAA TAA TAA AAA TGAA -AA TAG TAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * *
99827918 -AA GT-A TATA GAA TAA TAG TAA -AA GTAG TAA TAA TAA TAA TAA TAA
1 TAA -TAA TA-A TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* *
99827963 TAT TAA AAA TAA
1 TAA TAA TAA TAA
99827975 CACTCTCCCC
Statistics
Matches: 140, Mismatches: 32, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
2 18 0.13
3 112 0.80
4 5 0.04
5 3 0.02
6 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:99827873 original size:20 final size:20
Alignment explanation
Indices: 99827823--99827875 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
99827813 CTATATTAAT
* *
99827823 AATAATAATAATAGTAATAA
1 AATAATAAAAATAATAATAA
* *
99827843 AA-AGCTGAAAATAATAATAA
1 AATA-ATAAAAATAATAATAA
99827863 AATAATAAAAATA
1 AATAATAAAAATA
99827876 CTATTACGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AATAATAAAAATAATAATAA
Found at i:99828372 original size:13 final size:13
Alignment explanation
Indices: 99828354--99828417 Score: 96
Period size: 13 Copynumber: 5.0 Consensus size: 13
99828344 AATGATGGAG
99828354 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
*
99828367 TTAGTGGGGTGTT
1 TTAGTGGGGTGGT
99828380 TTAGT--GGTCGGT
1 TTAGTGGGGT-GGT
99828392 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
99828405 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
99828418 ATTTGGGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
11 3 0.07
12 7 0.15
13 33 0.72
14 3 0.07
ACGTcount: A:0.08, C:0.02, G:0.50, T:0.41
Consensus pattern (13 bp):
TTAGTGGGGTGGT
Found at i:99828395 original size:25 final size:25
Alignment explanation
Indices: 99828364--99828411 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
99828354 TTAGTGGGGT
*
99828364 GGTTTAGTGGGGTGTTTTAGTGGTC
1 GGTTTAGTGGGGTGGTTTAGTGGTC
99828389 GGTTTAGTGGGGTGGTTTAGTGG
1 GGTTTAGTGGGGTGGTTTAGTGG
99828412 GGTGGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.08, C:0.02, G:0.48, T:0.42
Consensus pattern (25 bp):
GGTTTAGTGGGGTGGTTTAGTGGTC
Found at i:99828424 original size:25 final size:25
Alignment explanation
Indices: 99828354--99828417 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
99828344 AATGATGGAG
*
99828354 TTAGTGGGGTGGTTTAGTGGGGTGTT
1 TTAGTGGGGTGGTTTA-TGGGGTGGT
99828380 TTAGT--GGTCGGTTTAGTGGGGTGGT
1 TTAGTGGGGT-GGTTTA-TGGGGTGGT
99828405 TTAGTGGGGTGGT
1 TTAGTGGGGTGGT
99828418 ATTTGGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 3 0.09
25 20 0.59
26 8 0.24
27 3 0.09
ACGTcount: A:0.08, C:0.02, G:0.50, T:0.41
Consensus pattern (25 bp):
TTAGTGGGGTGGTTTATGGGGTGGT
Found at i:99828638 original size:57 final size:57
Alignment explanation
Indices: 99828550--99828663 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
99828540 AAAAAGGCTA
*
99828550 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCTCTTTCTTTAGGTAGCC
1 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
*
99828607 ATTTTGCCTGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
1 ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
99828664 TCGCTTTAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (57 bp):
ATTTTGCCCGGTCTTGCTGAGTCTTGACTTCTTGACGCTCCCTTTCTTTAGGTAGCC
Found at i:99828934 original size:88 final size:88
Alignment explanation
Indices: 99828711--99831157 Score: 3230
Period size: 88 Copynumber: 27.9 Consensus size: 88
99828701 TTTTGTTTCA
* * * * * * *
99828711 ATCTACTCCAGTACTGCTTAGGGAGATATGGTTTGTAATATT-CAGCCCGTTTCCCTACTACTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* * **
99828775 GGGAGATAAGGCT-A--GTCTTTA
65 GGGGGTTAAGGCTCACCGTCTTCG
* *
99828796 ATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99828861 GGGGATAAGGCTCACCATCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
99828884 ATCTGCTCTACTACTTCTCAGGGAGATAAGATCTATAATCTT-CAGTCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* *
99828948 GAGGGATAAGGCTCACCGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * *
99828972 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTTCCTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99829037 GGGGTTAAAGCTCACCGTCTTCA
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
99829060 ATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAGTTTCTAGCCTGTTTCCTTACTGCTTA-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99829124 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * *
99829147 ATCCGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99829212 GGGATTAAGGCTCACCGTGTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * * * *
99829235 ATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATTTCCAGCCTATTTTCTTATTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99829300 GGGGTTAAAGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
*
99829323 ATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCC-ACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99829387 GGGCTTAAGGCTTACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
99829410 ATCTGCTCTACTACTTCTCATGGAGATAAGATCTATAATCTT-CAGCCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
99829474 GGGGGTTAAGGCTCACCGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
*
99829498 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* * * * *
99829563 GGGTTTAGGGCTCATCATCTTCC
66 GGGGTTAAGGCTCACCGTCTTCG
* * *
99829586 ATCTGCTTCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCCAGCCTATTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTA
* *
99829650 GGGGATTAAGGCTCAACGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
* ** * *
99829674 TTCCACTCCACTACTGCTTAGGAAGATAAGATTTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99829739 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * ** * * *
99829762 ATCTGCTCTACTACTTCTCAAAGAGATAAAATCTATAATCTT-CAGTCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* *
99829826 TGGGGATAAGGCTCACCGTCTTCG
65 GGGGGTTAAGGCTCACCGTCTTCG
* *
99829850 ATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTCTAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99829915 GGGGTTAAAGCTCGCCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* *
99829938 ATCTGCTCCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCTAGCCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTA
* * *
99830002 GGGTGTTAAGGCTCAACGTCTTTG
65 GGGGGTTAAGGCTCACCGTCTTCG
*
99830026 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99830091 GGGGTTAAGGCTCACCGTGTTTG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * *
99830114 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAATTTCCAGCATATTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99830179 GGGGTTAAAGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * *
99830202 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTACCTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
99830267 GGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
** * * *
99830290 ATCCACTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTCCAACCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99830355 GGGGTTAAGGCTCACCATCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* *
99830378 ATCTGCTCCACTA-TGCTTAGAGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99830442 TGGGTTAAGGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * *
99830465 ATCTGCTCTACTACTTCTCAGGGAGATAAGATCTATAATCTT-CAGTCTGTTTCCCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTACTGCTTA
* *
99830529 GGGGGATAAGGCTCACCGTCTTTG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * *
99830553 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTCTAGCATGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* ** * * *
99830618 GTGGTTAAATCCCACTGTCTTTG
66 GGGGTTAAGGCTCACCGTCTTCG
* *
99830641 ATCTGCTCCACTACTGCTTAGGGAGATAAGAAT-TGTAGTTTCCAGCCTGTTTCTCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTA
* * * *
99830705 AGGGGTTAAGGCTCAACATCTTTG
65 GGGGGTTAAGGCTCACCGTCTTCG
* * * **
99830729 ATCCGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATATCCAATCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99830794 GGGGTTAAGGCTCACCGTCTTTG
66 GGGGTTAAGGCTCACCGTCTTCG
* * *
99830817 ATTTGCTCCACTACTGTTTAGGGAGATAAGATCTGGAATTTCCAGCCTGTTTCCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99830882 GGGGTTAAAGCTCACCGTCTTCA
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * * *
99830905 ATCCGCTCCGCTACTGCTTAGGGAGATAAAATCTGTAATTTCCAGCTTGTTTCCCTACTACTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
** *
99830970 GATGTTAAAGCTCACCGTCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * * * *
99830993 ATCCGCTCCACTACTGTTTAGGGATATAAGACCTGCAATTTCCAGCCTGTTTCCCTACTGGTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
* *
99831058 GGGGTTAAGTCTCACCATCTTCG
66 GGGGTTAAGGCTCACCGTCTTCG
* * * ** *
99831081 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTTAGCCTGTTTTCCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
*
99831146 GGGGCTAAGGCT
66 GGGGTTAAGGCT
99831158 AGTGAATTCA
Statistics
Matches: 2055, Mismatches: 286, Indels: 39
0.86 0.12 0.02
Matches are distributed among these distances:
84 2 0.00
85 64 0.03
86 1 0.00
87 246 0.12
88 1730 0.84
89 12 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTCCCTACTGCTTAG
GGGGTTAAGGCTCACCGTCTTCG
Found at i:99831330 original size:64 final size:64
Alignment explanation
Indices: 99831229--99831353 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
99831219 TGTATCTATA
*
99831229 CTTATGCCAAATAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
* * ** * *
99831293 CTTATGTCAAAGAGTTAGGATGCTATGATCGAAATGAATCCAATGCTCCTAACTATATGTG
1 CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
99831354 TTATGAATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAAGAATTAGGATAATATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATG
Found at i:99831943 original size:13 final size:13
Alignment explanation
Indices: 99831922--99831963 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
99831912 GAGTTATTGA
99831922 GGTGGTTTAGTGG
1 GGTGGTTTAGTGG
*
99831935 GGTGTTTTAGT--
1 GGTGGTTTAGTGG
99831946 GGTCGGTTTAGTGG
1 GGT-GGTTTAGTGG
99831960 GGTG
1 GGTG
99831964 TTGGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.12
12 7 0.29
13 11 0.46
14 3 0.12
ACGTcount: A:0.07, C:0.02, G:0.50, T:0.40
Consensus pattern (13 bp):
GGTGGTTTAGTGG
Found at i:99836747 original size:13 final size:13
Alignment explanation
Indices: 99836729--99836753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99836719 TCTTGTTGTT
99836729 ACAAGAACTGAAA
1 ACAAGAACTGAAA
99836742 ACAAGAACTGAA
1 ACAAGAACTGAA
99836754 TTTTTGTTTC
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:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (13 bp):
ACAAGAACTGAAA
Found at i:99836808 original size:32 final size:32
Alignment explanation
Indices: 99836772--99836837 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
99836762 TCGTTGATAT
99836772 TCCTACTATTTGGTGTTATTTGGTGTGATAAC
1 TCCTACTATTTGGTGTTATTTGGTGTGATAAC
99836804 TCCTACTATTTGGTGTTATTTGGTGTGATAAC
1 TCCTACTATTTGGTGTTATTTGGTGTGATAAC
99836836 TC
1 TC
99836838 TAGTGTTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (32 bp):
TCCTACTATTTGGTGTTATTTGGTGTGATAAC
Found at i:99837240 original size:50 final size:50
Alignment explanation
Indices: 99837186--99837285 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
99837176 TCTCCTTCGC
99837186 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
1 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
99837236 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
1 TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
99837286 GTTCATACTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (50 bp):
TTTCCTATTACCTTTTTCCATTCTTCCTTTCATTGACTAATCAGGTGGCT
Found at i:99840752 original size:59 final size:60
Alignment explanation
Indices: 99840689--99840802 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 60
99840679 TAGAGTTAGG
* * * *
99840689 ACTAAATTGATAAATTTTGTAAATGTTGAAGGCCAAATTTATT-ATTTTTTTATAATAGA
1 ACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTTATTGAATTTTTTATAATAGA
* * *
99840748 ACTAAAATGAAAAATTTTGTAAATATTGAGGGCTAAATTTGTTGAATTTTTTATA
1 ACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTTATTGAATTTTTTATA
99840803 TTTGGGATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 37 0.79
60 10 0.21
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (60 bp):
ACTAAAATGAAAAATTTTGTAAATATTGAAGGCCAAATTTATTGAATTTTTTATAATAGA
Found at i:99844404 original size:51 final size:51
Alignment explanation
Indices: 99844306--99844404 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
99844296 ATTAAGAGCA
* *
99844306 CAATTTCTAGATTATGCAATAAAAACTATTCGTCTTAATAGTACTGGTAAG
1 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGTAAG
*
99844357 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATGCTGGT
1 CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGT
99844405 GAGTTTACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (51 bp):
CAATTTCCAGATTATGCAATAAAAACTATTCGTCTTAATAATACTGGTAAG
Found at i:99845499 original size:21 final size:22
Alignment explanation
Indices: 99845473--99845513 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
99845463 CACTAGACAC
*
99845473 AGGGGC-ATACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
99845494 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
99845514 ACCAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:99846936 original size:47 final size:46
Alignment explanation
Indices: 99846793--99846958 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
99846783 GTGCCAATTC
* * * * *
99846793 CATGTCCCAGACATGGTCTTATACTA--ACACATCATGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATG
* * *
99846838 CATGTCCCAAACATGTCTTACACTGGCTCTTGTC-TCAA--TA-CCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AATGTAGCCGATG
*
99846884 CCATGTCCCAGACATGGTCTTACAGTAGCTCTCATAATGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTAGCCGATG
99846932 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
99846959 ACACAAACAT
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
44 9 0.09
45 17 0.18
46 18 0.19
47 31 0.32
48 19 0.20
49 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTAGCCGATG
Found at i:99846936 original size:94 final size:96
Alignment explanation
Indices: 99846692--99846955 Score: 297
Period size: 94 Copynumber: 2.8 Consensus size: 96
99846682 TATAATGACG
* * *
99846692 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CAT-TAAGTCGATGCCATGTCCCGAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGT-AGCCGATG-CATGTCCCAAAC
** *
99846755 ATGGTCTTACACTGACTTCCACGTATCCGTGCCA
64 AT-GTCTTACACTGACTTCCACGTATCAATACCA
* * * * *
99846789 ATTCCATGTCCCAGACATGGTCTTATACTA--ACACATCATGTAGCTGATGCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACAT
* ** *
99846852 GTCTTACACTGGC-T-CTTGTCTCAATACCA
66 GTCTTACACTGACTTCCACGTATCAATACCA
* * *
99846881 ATGCCATGTCCCAGACATGGTCTTACAGTAGCTCTCATAATGTAGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACAT
99846946 GTCTTACACT
66 GTCTTACACT
99846956 AGCACACAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
92 36 0.26
93 1 0.01
94 50 0.36
95 16 0.11
96 9 0.06
97 28 0.20
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCATGTAGCCGATGCATGTCCCAAACAT
GTCTTACACTGACTTCCACGTATCAATACCA
Found at i:99849787 original size:18 final size:18
Alignment explanation
Indices: 99849764--99849799 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99849754 TGCCTAGTTG
99849764 ATAATCAATTACCAACTC
1 ATAATCAATTACCAACTC
* *
99849782 ATAATCATTTATCAACTC
1 ATAATCAATTACCAACTC
99849800 TAGCCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATCAATTACCAACTC
Found at i:99854469 original size:47 final size:47
Alignment explanation
Indices: 99854400--99854617 Score: 166
Period size: 47 Copynumber: 4.7 Consensus size: 47
99854390 GGTATAATGA
* * *
99854400 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCACGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTAAGT
* * * *
99854447 CGATGCCATGTCCCAGACATGGTCTTATACT-GACACATCATG-T-AGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCACGTTAAGT
** *
99854493 CGATG-CATGTCATAGACAT-GTCTTACACTAGCTCTCATC-TCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CGTTAAGT
* *** * *
99854537 ACCGATGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTA-AGT
*
99854587 CGATG-CATGTCTCAGACAT-GTCTTACACTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG
99854618 AACACAAACA
Statistics
Matches: 135, Mismatches: 23, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
43 3 0.02
44 11 0.08
45 14 0.10
46 25 0.19
47 54 0.40
48 28 0.21
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTTAAGT
Found at i:99854563 original size:92 final size:94
Alignment explanation
Indices: 99854447--99854617 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
99854437 CACGTTAAGT
* * *
99854447 CGATGCCATGTCCCAGACATGGTCTTATACT-G-ACACATCATGTAGCCGATGCATGTCAT-AGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATAGCCGATGCATGTC-TCAGA
99854509 CATGTCTTACACTAGCTCTCATCTCAATAC
65 CATGTCTTACACTAGCTCTCATCTCAATAC
* * * *
99854539 CGATGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCATGTCTCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATAGCCGATGCATGTCTCAGAC
99854604 ATGTCTTACACTAG
66 ATGTCTTACACTAG
99854618 AACACAAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 29 0.42
93 2 0.03
94 38 0.55
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAATATAGCCGATGCATGTCTCAGAC
ATGTCTTACACTAGCTCTCATCTCAATAC
Found at i:99860703 original size:13 final size:13
Alignment explanation
Indices: 99860685--99860710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99860675 GAACCCTCCT
99860685 CCCCCCCCCCCAA
1 CCCCCCCCCCCAA
99860698 CCCCCCCCCCCAA
1 CCCCCCCCCCCAA
99860711 AAAAAAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCCCCCCCCAA
Found at i:99861720 original size:23 final size:23
Alignment explanation
Indices: 99861694--99861744 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
99861684 TGATTTTTAA
* *
99861694 ATTTTGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGACAAT
*
99861717 ATTTAGAATTATTTAGTGACAAT
1 ATTTAGAATTATTTAATGACAAT
99861740 ATTTA
1 ATTTA
99861745 AAAAATGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGACAAT
Found at i:99862199 original size:10 final size:10
Alignment explanation
Indices: 99862184--99862233 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
99862174 TAATTTTAAG
99862184 ATTTAT-TTT
1 ATTTATCTTT
99862193 CATTTATCTTT
1 -ATTTATCTTT
*
99862204 AATTATCTTT
1 ATTTATCTTT
99862214 ATTTAT-TTGT
1 ATTTATCTT-T
99862224 ATTTATCTTT
1 ATTTATCTTT
99862234 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:99862978 original size:40 final size:39
Alignment explanation
Indices: 99862934--99863024 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
99862924 TTATTTCTAT
*
99862934 TATTTTTAATTTTCAAAATCTC-A-ATCAAAATTTTTAATTC
1 TATTTTT-ATTTT--AAATCTCTAGATCAAAACTTTTAATTC
** *
99862974 TATTTTTATTTTATTTTTCTAGATCAAAACTTTTAATTC
1 TATTTTTATTTTAAATCTCTAGATCAAAACTTTTAATTC
99863013 TATTTTTTATTT
1 TA-TTTTTATTT
99863025 CTTTTCCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
37 4 0.09
38 1 0.02
39 23 0.52
40 16 0.36
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (39 bp):
TATTTTTATTTTAAATCTCTAGATCAAAACTTTTAATTC
Found at i:99865862 original size:15 final size:15
Alignment explanation
Indices: 99865842--99865884 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99865832 AGAATTTTTA
99865842 TTATTATTCT-TTATT
1 TTATTATTCTATTA-T
*
99865857 TTATTATTTTATTAT
1 TTATTATTCTATTAT
*
99865872 TTATTATTTTATT
1 TTATTATTCTATT
99865885 TTTTGGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 23 0.88
16 3 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATTCTATTAT
Found at i:99865888 original size:7 final size:8
Alignment explanation
Indices: 99865842--99865888 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
99865832 AGAATTTTTA
99865842 TTATTATT
1 TTATTATT
*
99865850 CT-TTATT
1 TTATTATT
99865857 TTATTATT
1 TTATTATT
99865865 TTATTA-T
1 TTATTATT
99865872 TTATTATT
1 TTATTATT
99865880 TTATT-TT
1 TTATTATT
99865887 TT
1 TT
99865889 GGATATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 17 0.49
8 18 0.51
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:99865895 original size:23 final size:23
Alignment explanation
Indices: 99865842--99865888 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
99865832 AGAATTTTTA
99865842 TTATTATTCT-TTATTTTATTATT
1 TTATTATT-TATTATTTTATTATT
99865865 TTATTATTTATTATTTTATT-TT
1 TTATTATTTATTATTTTATTATT
99865887 TT
1 TT
99865889 GGATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
TTATTATTTATTATTTTATTATT
Found at i:99867164 original size:96 final size:97
Alignment explanation
Indices: 99866993--99867174 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 97
99866983 TTTAAGAATG
* * * *
99866993 TGTTGGACTGAGTAACCGAGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGAT
1 TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
* *
99867058 ATGTTTTTAAG-AAAAATAAAAATTAGGAGTA
66 ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
* *
99867089 TGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
99867154 ATATTCTTAAGCAACAATAAA
66 ATATTCTTAAGCAAAAATAAA
99867175 TAAATAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
96 68 0.89
97 8 0.11
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
TGTTGGACTGAGTAACCGAGGTGAAGTGCTTGACTATCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
Found at i:99867214 original size:21 final size:21
Alignment explanation
Indices: 99867172--99867216 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
99867162 AAGCAACAAT
* **
99867172 AAATAAATAAATAAATTTAAA
1 AAATAAAAAAATAAATAGAAA
99867193 AAATAAAAAAATAAATAGAAA
1 AAATAAAAAAATAAATAGAAA
99867214 AAA
1 AAA
99867217 ATAGATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAAAAAATAAATAGAAA
Found at i:99867854 original size:10 final size:10
Alignment explanation
Indices: 99867839--99867888 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
99867829 TAATTTTAAG
99867839 ATTTAT-TTT
1 ATTTATCTTT
99867848 CATTTATCTTT
1 -ATTTATCTTT
*
99867859 AATTATCTTT
1 ATTTATCTTT
99867869 ATTTAT-TTGT
1 ATTTATCTT-T
99867879 ATTTATCTTT
1 ATTTATCTTT
99867889 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:99869012 original size:38 final size:38
Alignment explanation
Indices: 99868945--99869021 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
99868935 TACCAAGACC
* *
99868945 TTCCTCTTCCCACTTTCCACAATTCCATTTAATCCATT
1 TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
* * *
99868983 TTCCACTTTCCACTTTCCACTATTTCATTTAAACCATT
1 TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
99869021 T
1 T
99869022 ATGTTCAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.00, T:0.44
Consensus pattern (38 bp):
TTCCACTTCCCACTTTCCACAATTCCATTTAAACCATT
Found at i:99872311 original size:25 final size:25
Alignment explanation
Indices: 99872277--99872342 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
99872267 TAGGCCTATT
99872277 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
99872302 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
99872327 TTCACAGCTCGTGTGA
1 TTCACAGCTCGTGTGA
99872343 ACATACATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:99875334 original size:30 final size:30
Alignment explanation
Indices: 99875300--99875358 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
99875290 CTTAACTCAG
99875300 ACTTTGGAAAAATTACAATTTTGCCCCTAA
1 ACTTTGGAAAAATTACAATTTTGCCCCTAA
* * * * *
99875330 ACTTTTGCATATTTACACTTTTGCCCCTA
1 ACTTTGGAAAAATTACAATTTTGCCCCTA
99875359 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:99895788 original size:48 final size:48
Alignment explanation
Indices: 99895717--99895812 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
99895707 TCCTCTTGTA
99895717 TGTTGACCTTGGCACTTGGCAGCCCATTCACAATAGTACCCCCTGGTT
1 TGTTGACCTTGGCACTTGGCAGCCCATTCACAATAGTACCCCCTGGTT
99895765 TGTTGACCTTGGCACTTGGCAGCCCATTCACAATAGTACCCCCTGGTT
1 TGTTGACCTTGGCACTTGGCAGCCCATTCACAATAGTACCCCCTGGTT
99895813 CAGAATGAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (48 bp):
TGTTGACCTTGGCACTTGGCAGCCCATTCACAATAGTACCCCCTGGTT
Found at i:99898609 original size:28 final size:26
Alignment explanation
Indices: 99898565--99898623 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
99898555 ATATTTTCAT
99898565 TATATTATTTTAATATTTAATAATTTTA
1 TATATTATTTTAATA-TTAA-AATTTTA
* *
99898593 TATATT-TTTTATTTATTAAAATTTTT
1 TATATTATTTTA-ATATTAAAATTTTA
99898619 TATAT
1 TATAT
99898624 AGTCATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.39
27 9 0.32
28 8 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATATTATTTTAATATTAAAATTTTA
Found at i:99926543 original size:44 final size:43
Alignment explanation
Indices: 99926491--99927515 Score: 796
Period size: 44 Copynumber: 23.5 Consensus size: 43
99926481 AGCAGATCGA
* *
99926491 AGATTTGGCGTCTCTGTATTAGACGG-GAAACAAATCGAAGAAGC
1 AGATTTGGCGTCTCTGTATT-GACGGAG-AGCAGATCGAAGAAGC
*
99926535 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAAGC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAG-AAGC
* * * * *
99926579 ACATCTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * *
99926623 AGATTTGGCGTCTCTATATTAGACGGGGAGCAGATTGAAGAAGC
1 AGATTTGGCGTCTCTGTATT-GACGGAGAGCAGATCGAAGAAGC
* * * *
99926667 AGATTTTGCATCTCTGTATTGGCAGAGAGCAGATC-AGAGATAGC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGA-AGA-AGC
* ** * *
99926711 AGATTTGGCGTCTTTGTATTGATAGAGAGCAGATTGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * * * *
99926755 AGATGTGTCGTCTCTGTATTGACAGAGAACAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * * *
99926799 AAATTTGGCTTTTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAG-C
* ** * *
99926843 AGATTTGGCGTCTTTGTATTGACAAAGAGCAGATTGAAGATGAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA--AGC
* * *
99926888 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAG-C
* * * *
99926932 AGATTTGGCTTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGTC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AG-C
* * * * ****
99926977 -GATTCGACATCTTTGTATTGTTAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* *
99927020 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * *
99927064 AGATTT-G-G---C---ATTGGCAGAGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* ** *
99927100 AGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * * * *
99927144 AGATTTGGCATTTCTGTATTGACAGAGAGCAAATCAAAGATATC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * **
99927188 ATATTTGACGTCTCTGTATTGGCAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * *
99927232 AGATTTGGCGTCTCTGTATTGACAGAGAGCAAATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * *
99927276 AGATTTGTCGTCTTTGTATTGACAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
** ** * *
99927320 AGATTTATCGTCTCTGTATTGACAAAGAGTAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * * * * *
99927364 AGATTTGGCGTCTCTATATTGACAGAGGGTAGATTGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAG-C
* * * *
99927408 AGATTTGACGTCTCTGTATTGACAGAGAGCAGATTGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-AGC
* * *
99927452 AGATTTGGTGTCTCTGTATTGACAGAG-GACAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACGGAGAG-CAGATCGAAGAAG-C
* * *
99927496 AGATTCGGCTTCTCCGTATT
1 AGATTTGGCGTCTCTGTATT
99927516 AGGCAAGGAG
Statistics
Matches: 815, Mismatches: 141, Indels: 50
0.81 0.14 0.05
Matches are distributed among these distances:
36 31 0.04
37 1 0.00
38 1 0.00
39 1 0.00
41 1 0.00
42 2 0.00
43 32 0.04
44 689 0.85
45 57 0.07
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (43 bp):
AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAGC
Found at i:99926645 original size:132 final size:133
Alignment explanation
Indices: 99926491--99927515 Score: 1099
Period size: 132 Copynumber: 7.8 Consensus size: 133
99926481 AGCAGATCGA
* * *
99926491 AGATTTGGCGTCTCTGTATTAGAC-GGGAAACAAATCGAAGA-AGCAGATTTGGCGTCTCTGTAT
1 AGATTTGGCGTCTCTGTATT-GACAGAG-AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
* * * * * *
99926554 TGACGGAGAGCAGATCAAAGAAAGCACATCTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGA
64 TGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA
99926619 TAGA-
129 TAGAC
* * * * * *
99926623 AGATTTGGCGTCTCTATATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTTGCATCTCTGTATT
1 AGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
* * * *
99926687 GGCAGAGAGCAGATC-AGAGATAGCAGATTTGGCGTCTTTGTATTGATAGAGAGCAGATTGAAGA
65 GACAGAGAGCAGATCGA-AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA
99926751 TA-AC
129 TAGAC
* * * * * * * *
99926755 AGATGTGTCGTCTCTGTATTGACAGAGAACAGATCAAAGATAACAAATTTGGCTTTTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * *
99926820 ACAGAGAGCAGATCGAAGAT-GACAGATTTGGCGTCTTTGTATTGACAAAGAGCAGATTGAAGAT
66 ACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
99926884 -GAAC
130 AG-AC
* * *
99926888 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-GACAGATTTGGCTTCTCTGTATG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATT
* * * * * ** *
99926952 GTCAGAGAGCAGATCGAAGATAGTC-GATTCGACATCTTTGTATTGTTAAAGAGCAGATCGAAGA
65 GACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA
99927016 TAG-C
129 TAGAC
*
99927020 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTT-G-G---C---ATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * * *
99927077 GCAGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATA
66 ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
99927142 -AC
131 GAC
* * * * * * *
99927144 AGATTTGGCATTTCTGTATTGACAGAGAGCAAATCAAAGATATCATATTTGACGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * *
99927209 GCAAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAAATCAAAGATA
66 ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
99927274 -AC
131 GAC
* * * **
99927276 AGATTTGTCGTCTTTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTATCGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * * * * *
99927341 ACAAAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGGGTAGATTGAAGAT-
66 ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
99927405 GAC
131 GAC
* * * *
99927408 AGATTTGACGTCTCTGTATTGACAGAGAGCAGATTGAAGATAACAGATTTGGTGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * *
99927473 ACAGAG-GACAGATCGAAGAT-GACAGATTCGGCTTCTCCGTATT
66 ACAGAGAG-CAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATT
99927516 AGGCAAGGAG
Statistics
Matches: 761, Mismatches: 107, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
124 103 0.14
126 1 0.00
127 1 0.00
129 1 0.00
131 20 0.03
132 517 0.68
133 115 0.15
134 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (133 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
ACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
GAC
Found at i:99926667 original size:88 final size:87
Alignment explanation
Indices: 99926491--99927515 Score: 970
Period size: 88 Copynumber: 11.7 Consensus size: 87
99926481 AGCAGATCGA
* * * *
99926491 AGATTTGGCGTCTCTGTATTAGAC-GGGAAACAAATCGAAGA-AGCAGATTTGGCGTCTCTGTAT
1 AGATTTGGCGTCTCTGTATT-GACAGAG-AGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTAT
* *
99926554 TGACGGAGAGCAGATCAAAGAAAGC
64 TGACAGAGAGCAGATCGAAG-AAGC
* * * *
99926579 ACATCTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTATATTA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATT-
* * *
99926644 GACGGGGAGCAGATTGAAGAAGC
65 GACAGAGAGCAGATCGAAGAAGC
* * * * *
99926667 AGATTTTGCATCTCTGTATTGGCAGAGAGCAGATC-AGAGATAGCAGATTTGGCGTCTTTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA-AGATAGAAGATTTGGCGTCTCTGTATT
* * *
99926731 GATAGAGAGCAGATTGAAGATAAC
65 GACAGAGAGCAGATCGAAGA-AGC
* * * * * * *
99926755 AGATGTGTCGTCTCTGTATTGACAGAGAACAGATCAAAGATA-ACAAATTTGGCTTTTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATT
*
99926819 GACAGAGAGCAGATCGAAGATGAC
65 GACAGAGAGCAGATCGAAGAAG-C
* * * *
99926843 AGATTTGGCGTCTTTGTATTGACAAAGAGCAGATTGAAGAT-GAACAGATTTGGCATCTCTGTAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAG-A-AGATTTGGCGTCTCTGTAT
*
99926907 TGACAGAGAGCAGATCGAAGATGAC
64 TGACAGAGAGCAGATCGAAGAAG-C
* * * ** * * * *
99926932 AGATTTGGCTTCTCTGTATGGTCAGAGAGCAGATCGAAGATAGTCGATTCGACATCTTTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
** *
99926997 TTAAAGAGCAGATCGAAGATAGC
66 ACAGAGAGCAGATCGAAGA-AGC
* *
99927020 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTT-G-G---C---ATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
* * *
99927077 GCAGAGAGTAGATCGAAGATAGT
66 ACAGAGAGCAGATCGAAGA-AGC
* * * *
99927100 AGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATA-ACAGATTTGGCATTTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATT
* * *
99927164 GACAGAGAGCAAATCAAAGATATC
65 GACAGAGAGCAGATCGAAGA-AGC
* * * * *
99927188 ATATTTGACGTCTCTGTATTGGCAAAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
* * *
99927253 ACAGAGAGCAAATCAAAGATAAC
66 ACAGAGAGCAGATCGAAGA-AGC
* * **
99927276 AGATTTGTCGTCTTTGTATTGACAGAGAGCAGATCGAAGATA-ACAGATTTATCGTCTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATT
* * *
99927340 GACAAAGAGTAGATCGAAGATAAC
65 GACAGAGAGCAGATCGAAGA-AGC
* * * * *
99927364 AGATTTGGCGTCTCTATATTGACAGAGGGTAGATTGAAGAT-GACAGATTTGACGTCTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA-AGATTTGGCGTCTCTGTATT
* *
99927428 GACAGAGAGCAGATTGAAGATAAC
65 GACAGAGAGCAGATCGAAGA-AGC
* * * *
99927452 AGATTTGGTGTCTCTGTATTGACAGAG-GACAGATCGAAGAT-GACAGATTCGGCTTCTCCGTAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAAGATAGA-AGATTTGGCGTCTCTGTAT
99927515 T
64 T
99927516 AGGCAAGGAG
Statistics
Matches: 788, Mismatches: 124, Indels: 50
0.82 0.13 0.05
Matches are distributed among these distances:
80 68 0.09
81 1 0.00
85 1 0.00
87 33 0.04
88 588 0.75
89 96 0.12
90 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (87 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
ACAGAGAGCAGATCGAAGAAGC
Found at i:99927077 original size:36 final size:36
Alignment explanation
Indices: 99927037--99927108 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
99927027 GCGTCTCTGT
99927037 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
1 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
* *
99927073 ATTGGCAGAGAGTAGATCGAAGATAGTAGATTTGGC
1 ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
99927109 GTCTCTGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (36 bp):
ATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGC
Found at i:99929078 original size:20 final size:19
Alignment explanation
Indices: 99929040--99929081 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
99929030 TTTATTTTAC
99929040 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
99929059 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
99929079 TAT
1 TAT
99929082 TATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:99929107 original size:24 final size:24
Alignment explanation
Indices: 99929079--99929172 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
99929069 TTATTATATA
*
99929079 TATTATTTTTACTTATTCGCTGTT
1 TATTATTATTACTTATTCGCTGTT
* **
99929103 TATTATTATTATTTA-TCTATGTTT
1 TATTATTATTACTTATTCGCTG-TT
99929127 TATTTATATTATTTTTACTTATTCGCTGTT
1 TA--T-TATTA---TTACTTATTCGCTGTT
*
99929157 TATTATTATTATTTAT
1 TATTATTATTACTTAT
99929173 CTATGTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
23 4 0.07
24 24 0.44
26 1 0.02
27 10 0.19
28 1 0.02
30 10 0.19
31 4 0.07
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.65
Consensus pattern (24 bp):
TATTATTATTACTTATTCGCTGTT
Found at i:99929115 original size:30 final size:30
Alignment explanation
Indices: 99929079--99929170 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 30
99929069 TTATTATATA
99929079 TATTATTTTTACTTATTCGCTGTTTATTAT
1 TATTATTTTTACTTATTCGCTGTTTATTAT
*
99929109 TATTATTTAT-C-TA-T-G-T-TTTATT-T
1 TATTATTTTTACTTATTCGCTGTTTATTAT
99929132 ATATTATTTTTACTTATTCGCTGTTTATTAT
1 -TATTATTTTTACTTATTCGCTGTTTATTAT
99929163 TATTATTT
1 TATTATTT
99929171 ATCTATGTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
23 1 0.02
24 15 0.29
25 2 0.04
26 3 0.06
27 2 0.04
28 3 0.06
29 2 0.04
30 23 0.44
31 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (30 bp):
TATTATTTTTACTTATTCGCTGTTTATTAT
Found at i:99929135 original size:54 final size:54
Alignment explanation
Indices: 99929072--99929190 Score: 229
Period size: 54 Copynumber: 2.2 Consensus size: 54
99929062 AAATGATTTA
*
99929072 TTATATATATTATTTTTACTTATTCGCTGTTTATTATTATTATTTATCTATGTT
1 TTATTTATATTATTTTTACTTATTCGCTGTTTATTATTATTATTTATCTATGTT
99929126 TTATTTATATTATTTTTACTTATTCGCTGTTTATTATTATTATTTATCTATGTT
1 TTATTTATATTATTTTTACTTATTCGCTGTTTATTATTATTATTTATCTATGTT
99929180 TTATTTATATT
1 TTATTTATATT
99929191 TTATAATATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.65
Consensus pattern (54 bp):
TTATTTATATTATTTTTACTTATTCGCTGTTTATTATTATTATTTATCTATGTT
Found at i:99929190 original size:24 final size:24
Alignment explanation
Indices: 99929101--99929184 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
99929091 TTATTCGCTG
99929101 TTTATTATTATTATTTATCTATGT
1 TTTATTATTATTATTTATCTATGT
*
99929125 TTTATT-TATATTATTTTTACTTATTCGCT
1 TTTATTAT-TATTATTTAT-C-TA-T-G-T
99929154 GTTTATTATTATTATTTATCTATGT
1 -TTTATTATTATTATTTATCTATGT
99929179 TTTATT
1 TTTATT
99929185 TATATTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
23 1 0.02
24 21 0.42
25 2 0.04
26 3 0.06
27 2 0.04
28 3 0.06
29 2 0.04
30 15 0.30
31 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.67
Consensus pattern (24 bp):
TTTATTATTATTATTTATCTATGT
Found at i:99929213 original size:20 final size:21
Alignment explanation
Indices: 99929188--99929231 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
99929178 TTTTATTTAT
99929188 ATTTTA-TA-ATATATTATATC
1 ATTTTACTATATATATTAT-TC
99929208 ATTTTACTATATATATTATTC
1 ATTTTACTATATATATTATTC
99929229 ATT
1 ATT
99929232 ATATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTACTATATATATTATTC
Found at i:99929245 original size:9 final size:10
Alignment explanation
Indices: 99929159--99929254 Score: 56
Period size: 10 Copynumber: 9.4 Consensus size: 10
99929149 TCGCTGTTTA
99929159 TTATTAT-TAT
1 TTATTATAT-T
*
99929169 TTATCTATGTT
1 TTAT-TATATT
99929180 TTATTTATATT
1 TTA-TTATATT
* *
99929191 TTATAATATA
1 TTATTATATT
99929201 TTA-TATCATT
1 TTATTAT-ATT
*
99929211 TTACTATATATA
1 TTA-T-TATATT
*
99929223 TTATT-CATT
1 TTATTATATT
*
99929232 ATATTAT-TT
1 TTATTATATT
99929241 TTATTATATT
1 TTATTATATT
99929251 TTAT
1 TTAT
99929255 AGTACTTCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
9 16 0.24
10 24 0.36
11 16 0.24
12 7 0.11
13 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:99929246 original size:14 final size:14
Alignment explanation
Indices: 99929199--99929250 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
99929189 TTTTATAATA
*
99929199 TATTATATCA-TTT
1 TATTATATTATTTT
*
99929212 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
99929228 CATTATATTATTTT
1 TATTATATTATTTT
99929242 TATTATATT
1 TATTATATT
99929251 TTATAGTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:99935648 original size:26 final size:25
Alignment explanation
Indices: 99935605--99935681 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
99935595 TATAAATCTT
* *
99935605 AAATATTTTTTAAGTAATTAATATA
1 AAATATTTTTAAAATAATTAATATA
* *
99935630 AATTATTTTTAAAATTAATGTTATA-A
1 AAATATTTTTAAAA-TAAT-TAATATA
99935656 AAATATTTTTAAAA-AATTGAATATA
1 AAATATTTTTAAAATAATT-AATATA
99935681 A
1 A
99935682 TCATAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 6 0.14
25 13 0.31
26 18 0.43
27 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATATTTTTAAAATAATTAATATA
Found at i:99935699 original size:31 final size:31
Alignment explanation
Indices: 99935663--99935748 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
99935653 TAAAAATATT
* *
99935663 TTTAAAAAATTGAATATAATCATAAATGAG-A
1 TTTAAATAATTTAATATAATCATAAATG-GTA
*
99935694 TTTAAATAATTTAATATAATGATAAATGGTA
1 TTTAAATAATTTAATATAATCATAAATGGTA
99935725 TTTAAATAATTTAATATAATCATA
1 TTTAAATAATTTAATATAATCATA
99935749 TATAAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATCATAAATGGTA
Found at i:99936861 original size:126 final size:126
Alignment explanation
Indices: 99936644--99937182 Score: 873
Period size: 126 Copynumber: 4.3 Consensus size: 126
99936634 AAAAGCTTCT
*
99936644 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
99936709 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * *
99936770 ACGTGGACGCTCTTTTGCTATAATAGTATCTGAAAGAATAATTTTGAGAAGATGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
99936835 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
99936896 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
99936961 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * **
99937022 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAAAAGACATGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
99937087 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
99937148 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
99937183 TAACTTGGGC
Statistics
Matches: 382, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 378 0.99
127 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:99940320 original size:116 final size:116
Alignment explanation
Indices: 99940144--99940758 Score: 1072
Period size: 116 Copynumber: 5.3 Consensus size: 116
99940134 TTTATATTTT
* *
99940144 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTT-TCATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCT-ATTTTATT
* * *
99940208 AAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
99940260 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
*
99940325 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
99940376 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTT-TCATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCT-ATTTTATT
99940440 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
99940492 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
*
99940557 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
99940608 ATTACATGAAATAATATAAAAATATTCGAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
* *
99940673 AAAATATAAAAGTAAATTACAATTATTTTATTTAAAGCAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
99940724 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
99940759 TGTACAAATA
Statistics
Matches: 481, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
115 1 0.00
116 479 1.00
117 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCTATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:99941171 original size:16 final size:17
Alignment explanation
Indices: 99941150--99941184 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
99941140 AAAAGGAAAC
99941150 ATAT-AAGGGCTAGGAT
1 ATATAAAGGGCTAGGAT
99941166 ATATAAAAGGGCTAGGAT
1 ATAT-AAAGGGCTAGGAT
99941184 A
1 A
99941185 CGTACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.23
Consensus pattern (17 bp):
ATATAAAGGGCTAGGAT
Found at i:99941811 original size:7 final size:7
Alignment explanation
Indices: 99941801--99941827 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
99941791 GTTAAATAAA
99941801 AAATACT
1 AAATACT
99941808 AAATACT
1 AAATACT
99941815 AAATACT
1 AAATACT
99941822 AAATAC
1 AAATAC
99941828 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:99941812 original size:14 final size:14
Alignment explanation
Indices: 99941793--99941826 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99941783 AAATATTAGT
99941793 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
99941807 TAAATACTAAATAC
1 TAAATAAAAAATAC
99941821 TAAATA
1 TAAATA
99941827 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:99942948 original size:15 final size:15
Alignment explanation
Indices: 99942928--99942958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99942918 TTTTTATTTT
*
99942928 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
99942943 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
99942958 A
1 A
99942959 GCTTTTTTGA
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:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:99942997 original size:22 final size:22
Alignment explanation
Indices: 99942985--99943034 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
99942975 TAACGAGAGT
99942985 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
99943007 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
99943027 TTTGAGAG
1 TTTGAGAG
99943035 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:99943008 original size:11 final size:11
Alignment explanation
Indices: 99942985--99943036 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
99942975 TAACGAGAGT
*
99942985 TTTGAGAGGAA
1 TTTGAGAGAAA
*
99942996 TTTAAGAGAAA
1 TTTGAGAGAAA
99943007 TTTGAGAG--A
1 TTTGAGAGAAA
99943016 TTTGAGAGAAA
1 TTTGAGAGAAA
99943027 TTTGAGAGAA
1 TTTGAGAGAA
99943037 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:99943048 original size:31 final size:31
Alignment explanation
Indices: 99942985--99943048 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
99942975 TAACGAGAGT
* *
99942985 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
99943016 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
99943047 TT
1 TT
99943049 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:99944767 original size:16 final size:16
Alignment explanation
Indices: 99944746--99944778 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
99944736 CATAAGCTAA
99944746 AGTTACCCCAAAAAAG
1 AGTTACCCCAAAAAAG
99944762 AGTTACCCCAAAAAAG
1 AGTTACCCCAAAAAAG
99944778 A
1 A
99944779 ATAGCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (16 bp):
AGTTACCCCAAAAAAG
Done.