Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 29 of 259
Found at i:8282235 original size:10 final size:10
Alignment explanation
Indices: 8282220--8282281 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
8282210 TAATTCTAGG
8282220 ATTTAT-TTT
1 ATTTATCTTT
8282229 CATTTATCTTT
1 -ATTTATCTTT
8282240 ATTTATCTTT
1 ATTTATCTTT
*
8282250 AATTATCTTT
1 ATTTATCTTT
8282260 ATTTAT-TTGT
1 ATTTATCTT-T
8282270 ATTTATCATTT
1 ATTTATC-TTT
8282281 A
1 A
8282282 GAATTTCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
9 2 0.04
10 37 0.80
11 5 0.11
12 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:8286796 original size:24 final size:23
Alignment explanation
Indices: 8286769--8286894 Score: 110
Period size: 24 Copynumber: 5.3 Consensus size: 23
8286759 TTACTAGATA
8286769 TGCGGATTTAAGTGGCACTATGTG
1 TGCGGATTTAA-TGGCACTATGTG
* *
8286793 TGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
** *
8286817 TGCATATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
*
8286841 TGCGTATATGTAA-GGCACTATGTG
1 TGCGGAT-T-TAATGGCACTATGTG
* *
8286865 TGCGGAATTATTTGGCACTATGTG
1 TGCGGATTTA-ATGGCACTATGTG
*
8286889 TACGGA
1 TGCGGA
8286895 GTTGAATCGT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 81 0.92
25 3 0.03
26 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (23 bp):
TGCGGATTTAATGGCACTATGTG
Found at i:8286881 original size:48 final size:48
Alignment explanation
Indices: 8286781--8286889 Score: 155
Period size: 48 Copynumber: 2.3 Consensus size: 48
8286771 CGGATTTAAG
* * * * *
8286781 TGGCACTATGTGTGCGTATTTGTATGGCACTATGTGTGCATATTTGTA
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATA
* *
8286829 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCGGAATTATT
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATA
8286877 TGGCACTATGTGT
1 TGGCACTATGTGT
8286890 ACGGAGTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATA
Found at i:8293117 original size:14 final size:13
Alignment explanation
Indices: 8293098--8293128 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
8293088 GGCTAATGGT
8293098 TAAAATAAATAAAA
1 TAAAATAAAT-AAA
8293112 TAAAATAAATAAA
1 TAAAATAAATAAA
8293125 TAAA
1 TAAA
8293129 TAGGAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:8293545 original size:24 final size:23
Alignment explanation
Indices: 8293518--8293609 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 23
8293508 AGATATGCAG
8293518 ATTTAAGTGGCACTATGTGTGCGT
1 ATTTAA-TGGCACTATGTGTGCGT
*
8293542 ATTTGTATGGCACTATGTGTGCGT
1 ATTT-AATGGCACTATGTGTGCGT
*
8293566 ATATGTAA-GGCACTATGTGTGCGG
1 AT-T-TAATGGCACTATGTGTGCGT
* *
8293590 AATTATTTGGCACTATGTGT
1 ATTTA-ATGGCACTATGTGT
8293610 ACGGAGTTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 2 0.03
23 1 0.02
24 51 0.88
25 3 0.05
26 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (23 bp):
ATTTAATGGCACTATGTGTGCGT
Found at i:8297344 original size:5 final size:5
Alignment explanation
Indices: 8297334--8297395 Score: 65
Period size: 5 Copynumber: 12.6 Consensus size: 5
8297324 GCAACCCAAT
* * * *
8297334 TTTTA TTTTA TTTTA TTTTA GTTTG TTTTA GTTTG TTTTA TTTTA --TTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
8297382 TTTTA TTATTA TTT
1 TTTTA TT-TTA TTT
8297396 ATTATTTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 3 0.07
5 38 0.83
6 5 0.11
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:8297635 original size:15 final size:15
Alignment explanation
Indices: 8297617--8297646 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8297607 GATGCTGATT
8297617 TGGTTGTTGCTGCCC
1 TGGTTGTTGCTGCCC
8297632 TGGTTGTTGCTGCCC
1 TGGTTGTTGCTGCCC
8297647 ATATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.33, T:0.40
Consensus pattern (15 bp):
TGGTTGTTGCTGCCC
Found at i:8299006 original size:10 final size:10
Alignment explanation
Indices: 8298983--8299044 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
8298973 TAATTATAGG
*
8298983 ATTTATTTTC
1 ATTTATTTTT
8298993 ATTT-TTATTT
1 ATTTATT-TTT
*
8299003 ATTTATATTT
1 ATTTATTTTT
* *
8299013 AATTATCTTT
1 ATTTATTTTT
*
8299023 ATTTATTTGT
1 ATTTATTTTT
8299033 ATTTATCTTTT
1 ATTTAT-TTTT
8299044 A
1 A
8299045 GAATTTCATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
9 2 0.05
10 34 0.83
11 5 0.12
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:8299008 original size:20 final size:19
Alignment explanation
Indices: 8298961--8299030 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 19
8298951 ATTAAGGATT
*
8298961 TTTATTTAGATTTAATTATA
1 TTTATTTA-TTTTAATTATA
** * *
8298981 -GGATTTATTTTCATTTTTA
1 TTTATTTATTTT-AATTATA
*
8299000 TTTATTTATATTTAATTATC
1 TTTATTTAT-TTTAATTATA
8299020 TTTATTTATTT
1 TTTATTTATTT
8299031 GTATTTATCT
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
20 19 0.51
21 3 0.08
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTATTTATTTTAATTATA
Found at i:8299038 original size:20 final size:20
Alignment explanation
Indices: 8299000--8299042 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
8298990 TTCATTTTTA
8299000 TTTATTTATATTTAATTATC
1 TTTATTTATATTTAATTATC
*
8299020 TTTATTTAT-TTGTATTTATC
1 TTTATTTATATT-TAATTATC
8299040 TTT
1 TTT
8299043 TAGAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTATATTTAATTATC
Found at i:8300547 original size:46 final size:44
Alignment explanation
Indices: 8300488--8300602 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
8300478 ACAGGACAGA
* *
8300488 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
8300534 ACAGGATTGAGCCATGTAAGCCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8300578 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8300603 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8300594 original size:44 final size:45
Alignment explanation
Indices: 8300488--8300621 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
8300478 ACAGGACAGA
* * *
8300488 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
8300534 ACAGGATTGAGCCATGTAAGCCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
8300578 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8300622 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:8307072 original size:14 final size:14
Alignment explanation
Indices: 8307053--8307079 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8307043 GAGGAGAGCT
8307053 CAAGGTCTTTTCAA
1 CAAGGTCTTTTCAA
8307067 CAAGGTCTTTTCA
1 CAAGGTCTTTTCA
8307080 TTCTATTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (14 bp):
CAAGGTCTTTTCAA
Found at i:8310320 original size:20 final size:20
Alignment explanation
Indices: 8310295--8310333 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8310285 TTAACGGGAC
8310295 TGCTGATGTGGCAAGTTAAT
1 TGCTGATGTGGCAAGTTAAT
*
8310315 TGCTGATGTGGCCAGTTAA
1 TGCTGATGTGGCAAGTTAA
8310334 CTTGTCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (20 bp):
TGCTGATGTGGCAAGTTAAT
Found at i:8311479 original size:20 final size:20
Alignment explanation
Indices: 8311454--8311491 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8311444 CAATATGGCA
8311454 AGTTAACTAGCCACATCAAC
1 AGTTAACTAGCCACATCAAC
*
8311474 AGTTAACTTGCCACATCA
1 AGTTAACTAGCCACATCA
8311492 GCGGTCCCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (20 bp):
AGTTAACTAGCCACATCAAC
Found at i:8313492 original size:29 final size:24
Alignment explanation
Indices: 8313437--8313484 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8313427 TATGCTGCAG
8313437 TATCCCTATAGGCAAATAAAATCA
1 TATCCCTATAGGCAAATAAAATCA
8313461 TATCCCTATAGGCAAATAAAATCA
1 TATCCCTATAGGCAAATAAAATCA
8313485 CATCATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (24 bp):
TATCCCTATAGGCAAATAAAATCA
Found at i:8319628 original size:20 final size:20
Alignment explanation
Indices: 8319603--8319640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8319593 GCAAAGTCGT
8319603 TTTAGGGTTTTAGTTAGTAG
1 TTTAGGGTTTTAGTTAGTAG
* *
8319623 TTTAGGTTTTTATTTAGT
1 TTTAGGGTTTTAGTTAGT
8319641 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (20 bp):
TTTAGGGTTTTAGTTAGTAG
Found at i:8327791 original size:15 final size:15
Alignment explanation
Indices: 8327756--8327807 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8327746 TTAAGAATTT
*
8327756 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8327770 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8327784 TATTTAATAATAAT-
1 TATTTAATTATAATA
8327798 TATGTTAATT
1 TAT-TTAATT
8327808 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8327841 original size:120 final size:120
Alignment explanation
Indices: 8327694--8327923 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
8327684 TTTGAGTAAA
8327694 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
8327759 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
8327814 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
8327879 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
8327924 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:8327889 original size:61 final size:61
Alignment explanation
Indices: 8327704--8327891 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
8327694 TTATAGTATC
8327704 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
8327765 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
8327824 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
8327885 ATATATT
1 ATATATT
8327892 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:8327906 original size:16 final size:16
Alignment explanation
Indices: 8327885--8327926 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8327875 TTATTAAATT
*
8327885 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8327901 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8327916 AT-TATGTTTAA
1 ATATAT-TTTAA
8327927 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8327911 original size:15 final size:15
Alignment explanation
Indices: 8327876--8327917 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8327866 TTAAGAATTT
*
8327876 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8327890 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8327904 TATTTAATAATAAT
1 TATTTAATTATAAT
8327918 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8328163 original size:16 final size:16
Alignment explanation
Indices: 8328142--8328209 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
8328132 GATTTGCTAT
*
8328142 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
8328158 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
8328174 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8328190 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8328206 TACA
1 TACA
8328210 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8329039 original size:45 final size:45
Alignment explanation
Indices: 8328975--8329065 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
8328965 ACTAGTAAGA
8328975 ACATGGATTTCTGTCCAATTAATATGTGAACCTAATTCATTAGGT
1 ACATGGATTTCTGTCCAATTAATATGTGAACCTAATTCATTAGGT
*
8329020 ACATGGATTTTTGTCCAATTAATATGTGAACCTAATTCATTAGGT
1 ACATGGATTTCTGTCCAATTAATATGTGAACCTAATTCATTAGGT
8329065 A
1 A
8329066 TTCACATGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (45 bp):
ACATGGATTTCTGTCCAATTAATATGTGAACCTAATTCATTAGGT
Found at i:8339542 original size:16 final size:15
Alignment explanation
Indices: 8339518--8339556 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8339508 TGGATTCTCA
*
8339518 TTATATTACATAGTCT
1 TTATTTTACATAGT-T
8339534 TTATTTTACATAGTT
1 TTATTTTACATAGTT
8339549 TTAATTTT
1 TT-ATTTT
8339557 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (15 bp):
TTATTTTACATAGTT
Found at i:8342987 original size:22 final size:22
Alignment explanation
Indices: 8342962--8343003 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8342952 TGATGGATGC
*
8342962 GTATTGAGTTA-TAATATGTAAT
1 GTATT-AGTTAGTAAAATGTAAT
8342984 GTATTAGTTAGTAAAATGTA
1 GTATTAGTTAGTAAAATGTA
8343004 TGCCATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
GTATTAGTTAGTAAAATGTAAT
Found at i:8343718 original size:79 final size:81
Alignment explanation
Indices: 8343582--8343764 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
8343572 TCGAATGATG
* *
8343582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
8343646 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
8343661 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
8343723 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
8343741 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
8343765 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:8343780 original size:40 final size:40
Alignment explanation
Indices: 8343583--8343766 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
8343573 CGAATGATGT
* * * *
8343583 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
8343623 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
8343663 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8343701 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8343742 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
8343767 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:8343788 original size:79 final size:79
Alignment explanation
Indices: 8343635--8343799 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
8343625 GGACTAAGAT
* **
8343635 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
8343700 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
8343714 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
8343777 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
8343793 CCGAAGG
1 CCGAAGG
8343800 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:8351743 original size:79 final size:81
Alignment explanation
Indices: 8351607--8351789 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
8351597 TCGAATGATG
* *
8351607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
8351671 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
8351686 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
8351748 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
8351766 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
8351790 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:8351805 original size:40 final size:40
Alignment explanation
Indices: 8351608--8351791 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
8351598 CGAATGATGT
* * * *
8351608 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
8351648 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
8351688 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8351726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8351767 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
8351792 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:8351813 original size:79 final size:79
Alignment explanation
Indices: 8351660--8351824 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
8351650 GGACTAAGAT
* **
8351660 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
8351725 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
8351739 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
8351802 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
8351818 CCGAAGG
1 CCGAAGG
8351825 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:8354632 original size:22 final size:22
Alignment explanation
Indices: 8354604--8354646 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8354594 TGTGAAAAAG
*
8354604 AACAAAT-ATAATGAGATTGTTA
1 AACAAATAAAAAT-AGATTGTTA
8354626 AACAAATAAAAATAGATTGTT
1 AACAAATAAAAATAGATTGTT
8354647 TTGAAATCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (22 bp):
AACAAATAAAAATAGATTGTTA
Found at i:8363418 original size:23 final size:23
Alignment explanation
Indices: 8363392--8363437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8363382 TTTTTAAGTG
8363392 ATTAAAATATAATTTTATAATTT
1 ATTAAAATATAATTTTATAATTT
** * *
8363415 ATTAATTTCTAATTTTATCATTT
1 ATTAAAATATAATTTTATAATTT
8363438 TCGAATGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTAAAATATAATTTTATAATTT
Found at i:8369139 original size:31 final size:32
Alignment explanation
Indices: 8369072--8369140 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
8369062 AGATAATTAG
8369072 GTGA-CAAAAAAAGACAATTTTAAATAGTTGA
1 GTGACCAAAAAAAGACAATTTTAAATAGTTGA
8369103 GTGACCAAAAAAAGA-AA-TTTACTAATAGTTGA
1 GTGACCAAAAAAAGACAATTTTA--AATAGTTGA
8369135 -TGACCA
1 GTGACCA
8369141 TTTTGTAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
30 4 0.11
31 12 0.34
32 19 0.54
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (32 bp):
GTGACCAAAAAAAGACAATTTTAAATAGTTGA
Found at i:8371175 original size:39 final size:38
Alignment explanation
Indices: 8371080--8371175 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 38
8371070 TATATTTCTT
* *
8371080 AATTTTTATAATTTTCTTACGACTTTATAAAATTTTACA
1 AATTTTTATAATTTT-TTACAACTTTATAAAATGTTACA
* * * * * *
8371119 ATTTTTTGTTATATTTTATAATTATTATAAAATGTTACA
1 AATTTTTATAATTTTTTACAACT-TTATAAAATGTTACA
8371158 AATTTTTATAATTTTTTA
1 AATTTTTATAATTTTTTA
8371176 ATAACTTTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
38 5 0.11
39 39 0.89
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (38 bp):
AATTTTTATAATTTTTTACAACTTTATAAAATGTTACA
Found at i:8371184 original size:20 final size:20
Alignment explanation
Indices: 8371161--8371226 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
8371151 TGTTACAAAT
8371161 TTTTATAATTTTTTAATAAC
1 TTTTATAATTTTTTAATAAC
* *
8371181 TTTTA-AATATTTTTATTAAAA
1 TTTTATAAT-TTTTTAAT-AAC
* *
8371202 TTTAATAATTTTTT-GTAAC
1 TTTTATAATTTTTTAATAAC
8371221 TTTTAT
1 TTTTAT
8371227 TTTTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 10 0.27
20 13 0.35
21 11 0.30
22 3 0.08
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTTTTAATAAC
Found at i:8382739 original size:69 final size:69
Alignment explanation
Indices: 8382627--8383161 Score: 416
Period size: 69 Copynumber: 7.7 Consensus size: 69
8382617 ACAACATTCG
* * * *
8382627 TGTCATATTAAGGCTCGCAAGCGAAGAGCCTCAGCCTCTAACACAGTTAGTTAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
*
8382692 TAGT
66 TAGC
* * * * * * *
8382696 TGTCATATTAAGGTTCACAGGCGAAGAGTCACAACCTCCAACACAGTTAGTGATACCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
*
8382761 CAGC
66 TAGC
* * * * * * *
8382765 TGTCATATTAAAGCTCGCAGGCAAAGAGTCACAGCCCCCCAGCATAGTTAGTAATAGCAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAG-CCTCCAACACAGTTAGTAAGAGCAAAGCTC
*
8382830 CCATG-
65 CTA-GC
* * * ** * *
8382835 TGTTATATTAAGGCTCGCAAGCAAAGAGCCGTAGCCTCCAACACAGTTAGCGAA-AGAAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAG-TAAGAGCAAAGCTC
8382899 CTAGC
65 CTAGC
* ** * * ** * * * * * *
8382904 TATCATATTAAAACTTGTAGGTAAAAAGCCATAACC-CCAAGCATAGTTAGCAAGAGTAAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAA-CACAGTTAGTAAGAGCAAAGCTC
*
8382968 TCAAG-
65 -CTAGC
* * *
8382973 TGTCATATTAAGGCTCGCAGGCGAGGAGCCGCAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
8383038 TAGC
66 TAGC
* * * * * * * *
8383042 TGTCATATTAAGGCTCGCAGGTGAAGAGTCGCAGCCGCCAGCACAATTAGTGAA-AACGAAGCTC
1 TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGT-AAGAGCAAAGCTC
* **
8383106 CCAAT
65 CTAGC
* ** * *
8383111 TGTTATATTAAATCTCGC-GAGCGAAGAGCTACAGCCCCCAACACAGTTAGT
1 TGTCATATTAAGGCTCGCAG-GCGAAGAGCCACAGCCTCCAACACAGTTAGT
8383162 GAGAATTGAA
Statistics
Matches: 369, Mismatches: 86, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
68 11 0.03
69 290 0.79
70 67 0.18
71 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (69 bp):
TGTCATATTAAGGCTCGCAGGCGAAGAGCCACAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCC
TAGC
Found at i:8386400 original size:22 final size:22
Alignment explanation
Indices: 8386350--8386409 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
8386340 TTGTCATTCG
** *
8386350 TAGAGAATGCCAGTACTAGATA
1 TAGAGAATGTTAGTACTAGAGA
* *
8386372 TATAGAATGTTAGTACTAGGGA
1 TAGAGAATGTTAGTACTAGAGA
8386394 TAGAGAATGTTAGTAC
1 TAGAGAATGTTAGTAC
8386410 CGGAGGCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (22 bp):
TAGAGAATGTTAGTACTAGAGA
Found at i:8387162 original size:28 final size:31
Alignment explanation
Indices: 8387107--8387163 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
8387097 CATAAAATTT
* *
8387107 ATTTATTTCAAAAAATAATTTAATAAAAACA
1 ATTTATTTCAAAAAATAATTCAAGAAAAACA
8387138 ATTT-TTT-AAAAAAT-ATTCAAGAAAAA
1 ATTTATTTCAAAAAATAATTCAAGAAAAA
8387164 ACCAGTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 7 0.29
30 3 0.12
31 4 0.17
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (31 bp):
ATTTATTTCAAAAAATAATTCAAGAAAAACA
Found at i:8389895 original size:39 final size:40
Alignment explanation
Indices: 8389838--8389922 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
8389828 TTAATTACTC
* * *
8389838 ATTTTTACTAATTTATTGCATAAAAATT-TTGAACTGTTG
1 ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
* *
8389877 ATTTTTACTAATTCATTGCATATAAATTATTAAATTGATG
1 ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
8389917 ATTTTT
1 ATTTTT
8389923 TTTGGGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 26 0.65
40 14 0.35
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (40 bp):
ATTTTTACTAATTCATTGCATAAAAATTATTAAACTGATG
Found at i:8406079 original size:10 final size:10
Alignment explanation
Indices: 8406064--8406096 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8406054 GTATATAAAT
8406064 AATAATATAA
1 AATAATATAA
8406074 AATAATA-AA
1 AATAATATAA
8406083 AATATATATAA
1 AATA-ATATAA
8406094 AAT
1 AAT
8406097 GTATAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 10 0.48
11 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATATAA
Found at i:8406081 original size:20 final size:20
Alignment explanation
Indices: 8406058--8406096 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8406048 ATATATGTAT
8406058 ATAAATAATA-ATATAAAATA
1 ATAAA-AATATATATAAAATA
8406078 ATAAAAATATATATAAAAT
1 ATAAAAATATATATAAAAT
8406097 GTATAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAATATATATAAAATA
Found at i:8406087 original size:28 final size:28
Alignment explanation
Indices: 8406056--8406111 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
8406046 TGATATATGT
8406056 ATATAAATAATAATATAAAATA-ATAAAA
1 ATATAAATAA-AATATAAAATACATAAAA
* * *
8406084 ATATATATAAAATGTATAATACATAAAA
1 ATATAAATAAAATATAAAATACATAAAA
8406112 TAATATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
ATATAAATAAAATATAAAATACATAAAA
Found at i:8408780 original size:6 final size:6
Alignment explanation
Indices: 8408769--8408798 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8408759 TTATACAATG
8408769 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
8408799 ACACACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:8413196 original size:12 final size:12
Alignment explanation
Indices: 8413179--8413211 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
8413169 ACCAATTTGT
8413179 AAAAAAAATAAA
1 AAAAAAAATAAA
8413191 AAAAAAAATAAA
1 AAAAAAAATAAA
8413203 AATAAAAAA
1 AA-AAAAAA
8413212 CACACAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:8420258 original size:22 final size:22
Alignment explanation
Indices: 8420233--8420277 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8420223 TTTAATAAAG
8420233 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* * *
8420255 AAAATATTTATAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
8420277 A
1 A
8420278 CACTCCCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:8424038 original size:22 final size:22
Alignment explanation
Indices: 8424013--8424057 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8424003 TTTAATAAAG
8424013 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
8424035 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
8424057 A
1 A
8424058 CATGGCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:8425725 original size:15 final size:14
Alignment explanation
Indices: 8425697--8425723 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8425687 AAATATGAAA
8425697 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
8425711 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
8425724 AGGATTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:8428196 original size:21 final size:22
Alignment explanation
Indices: 8428161--8428201 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8428151 TAAAAATATA
*
8428161 TAAATATTATAAAAAATATTTT
1 TAAACATTATAAAAAATATTTT
8428183 TAAACATTAT-AAAAATATT
1 TAAACATTATAAAAAATATT
8428202 AAATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAACATTATAAAAAATATTTT
Found at i:8428229 original size:16 final size:16
Alignment explanation
Indices: 8428210--8428273 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
8428200 TTAAATTGAA
*
8428210 AAATGATAAAAATATT
1 AAATTATAAAAATATT
*
8428226 AAATTTTAAAAATAATT
1 AAATTATAAAAAT-ATT
8428243 AAAATTA-AAAAATATTAT
1 -AAATTATAAAAATA-T-T
8428261 AAATTATGAAAAA
1 AAATTAT-AAAAA
8428274 AATAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 12 0.31
17 16 0.41
18 6 0.15
19 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAATTATAAAAATATT
Found at i:8428236 original size:25 final size:25
Alignment explanation
Indices: 8428180--8428247 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
8428170 TAAAAAATAT
* *
8428180 TTTTAAACATTATAAAAATATTAAA
1 TTTTAAAAATAATAAAAATATTAAA
* *
8428205 -TTGAAAAATGATAAAAATATTAAA
1 TTTTAAAAATAATAAAAATATTAAA
*
8428229 TTTTAAAAATAATTAAAAT
1 TTTTAAAAATAATAAAAAT
8428248 TAAAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 21 0.58
25 15 0.42
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (25 bp):
TTTTAAAAATAATAAAAATATTAAA
Found at i:8428360 original size:20 final size:22
Alignment explanation
Indices: 8428337--8428377 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8428327 TAAAAAACCA
8428337 ATAAAAT-TT-TAAAAAGTATT
1 ATAAAATGTTATAAAAAGTATT
*
8428357 ATAAAATGTTATAAGAAGTAT
1 ATAAAATGTTATAAAAAGTAT
8428378 AAAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAAAATGTTATAAAAAGTATT
Found at i:8431219 original size:40 final size:40
Alignment explanation
Indices: 8431168--8431245 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
8431158 ACACACCATG
*
8431168 TGGGGACAAAATCGACCCACCCATCCCTGCACACCATATA
1 TGGGGACAAAATCGACCCACCCATCCCTACACACCATATA
* * *
8431208 TGGGGATAAAATCGACCCATCCATCCCTACATACCATA
1 TGGGGACAAAATCGACCCACCCATCCCTACACACCATA
8431246 AGGTACTGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGACAAAATCGACCCACCCATCCCTACACACCATATA
Found at i:8434766 original size:11 final size:11
Alignment explanation
Indices: 8434752--8434792 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8434742 TGTTTTCTCC
8434752 CTATTTTGCTA
1 CTATTTTGCTA
*
8434763 CTATTTTACTA
1 CTATTTTGCTA
* *
8434774 TTATGTTGCTA
1 CTATTTTGCTA
8434785 CTATTTTG
1 CTATTTTG
8434793 TTATTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:8435043 original size:12 final size:11
Alignment explanation
Indices: 8435013--8435045 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
8435003 TATATATTTT
8435013 AAAATAATATA
1 AAAATAATATA
8435024 AAAATAATATA
1 AAAATAATATA
8435035 AAAATTAATAT
1 AAAA-TAATAT
8435046 GGGCGGGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATATA
Found at i:8441860 original size:59 final size:61
Alignment explanation
Indices: 8441783--8441899 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
8441773 ATCACTTTAA
** * *
8441783 TATTAAATTAATATAATATCTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAACAATAGAATATCTACTACAAGATAAACATTAGATTAAATTTAATATTAAATCT
* * *
8441842 TATTAAAACAATAGAATATTTATCTACAAGATAGACATTGGATTAAATTTAATATTAA
1 TATTAAAACAATAGAATATCTA-CTACAAGATAAACATTAGATTAAATTTAATATTAA
8441900 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 18 0.38
61 1 0.02
62 29 0.60
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (61 bp):
TATTAAAACAATAGAATATCTACTACAAGATAAACATTAGATTAAATTTAATATTAAATCT
Found at i:8441970 original size:37 final size:37
Alignment explanation
Indices: 8441910--8441980 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
8441900 GATAATCACT
*
8441910 TTAATATTAAATTAATAAAAAACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAAAACTATTAAAATAAATA
**
8441947 TTAA-ATTAAATTTAATATTAAACTATTAAAATAA
1 TTAATATTAAA-TTAATAAAAAACTATTAAAATAA
8441981 TAATATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAAAACTATTAAAATAAATA
Found at i:8448269 original size:26 final size:26
Alignment explanation
Indices: 8448240--8448320 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
8448230 TATCCGGAGC
8448240 TCCTGATTAAAGGCTCTTTGTAAGCT
1 TCCTGATTAAAGGCTCTTTGTAAGCT
* *
8448266 TCCTGATTAAAAGTTCTTTGTGAA-CT
1 TCCTGATTAAAGGCTCTTTGT-AAGCT
* *
8448292 TCCTAATT-ATGGCTCTTATG--AGCT
1 TCCTGATTAAAGGCTCTT-TGTAAGCT
8448316 TCCTG
1 TCCTG
8448321 TTATATAGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.02
24 6 0.13
25 6 0.13
26 30 0.67
27 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (26 bp):
TCCTGATTAAAGGCTCTTTGTAAGCT
Found at i:8452241 original size:22 final size:23
Alignment explanation
Indices: 8452216--8452261 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8452206 CAACCAAATC
8452216 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
8452238 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
8452261 A
1 A
8452262 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:8452267 original size:23 final size:23
Alignment explanation
Indices: 8452223--8452267 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8452213 ATCAATTCAA
*
8452223 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
8452246 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
8452268 CACATATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:8454270 original size:18 final size:18
Alignment explanation
Indices: 8454247--8454281 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8454237 GTTGTGATAA
8454247 TTATAATTATAAGTTAAT
1 TTATAATTATAAGTTAAT
*
8454265 TTATAATTATTAGTTAA
1 TTATAATTATAAGTTAA
8454282 AAAAGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTATAATTATAAGTTAAT
Found at i:8455313 original size:14 final size:14
Alignment explanation
Indices: 8455294--8455323 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8455284 TTATATCGAG
8455294 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
8455308 ACCAATCCAATTCA
1 ACCAATCCAAATCA
8455322 AC
1 AC
8455324 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:8457521 original size:10 final size:10
Alignment explanation
Indices: 8457506--8457536 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
8457496 CTGCTGGAAT
8457506 TGAAGAGAAA
1 TGAAGAGAAA
8457516 TGAAGAGAAA
1 TGAAGAGAAA
8457526 TGAAGAGAAA
1 TGAAGAGAAA
8457536 T
1 T
8457537 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:8458303 original size:55 final size:55
Alignment explanation
Indices: 8458194--8458303 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
8458184 GGATCACATG
* * * *
8458194 GCCTCACACATGACCATGTTCCCCTGTTTTCCCCTGCATTTGCGTTTTGCACACA
1 GCCTCACACATGACCATGTTCCCCTATTTTCCCCTGCATCTGCGTATTGAACACA
* * * *
8458249 GCCTCACACATGACCATGTTCCTCTATTTTCCCTTGTATCTGTGTATTGAACACA
1 GCCTCACACATGACCATGTTCCCCTATTTTCCCCTGCATCTGCGTATTGAACACA
8458304 ACATGGATCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.35
Consensus pattern (55 bp):
GCCTCACACATGACCATGTTCCCCTATTTTCCCCTGCATCTGCGTATTGAACACA
Found at i:8461160 original size:25 final size:25
Alignment explanation
Indices: 8461126--8461176 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8461116 CGATGTGAAT
8461126 GTTGTACTTTCTTAAGGTCAAGGAC
1 GTTGTACTTTCTTAAGGTCAAGGAC
8461151 GTTGTACTTTCTTAAGGTCAAGGAC
1 GTTGTACTTTCTTAAGGTCAAGGAC
8461176 G
1 G
8461177 AGGCCATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (25 bp):
GTTGTACTTTCTTAAGGTCAAGGAC
Found at i:8465843 original size:26 final size:26
Alignment explanation
Indices: 8465812--8465919 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
8465802 TGAAATGCCC
*
8465812 ATCATGGAACATTTGCCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
8465838 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
8465864 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
8465890 ATTATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
8465916 ATCA
1 ATCA
8465920 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:8465869 original size:52 final size:52
Alignment explanation
Indices: 8465812--8465919 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
8465802 TGAAATGCCC
*
8465812 ATCATGGAACATTTGCCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * * *
8465864 ATCATGGAATATTTACCTAATCCATTATTATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
8465916 ATCA
1 ATCA
8465920 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:8472891 original size:26 final size:26
Alignment explanation
Indices: 8472860--8472967 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
8472850 TGAAATGCCC
8472860 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
8472886 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
8472912 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
8472938 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
8472964 ATCA
1 ATCA
8472968 ATTTTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:8487336 original size:93 final size:93
Alignment explanation
Indices: 8487172--8487352 Score: 213
Period size: 93 Copynumber: 1.9 Consensus size: 93
8487162 AAATTAAGAG
* * * * **
8487172 GGAGAAAATTAGGGAAAATTCTTCGCAAGATTCTGAATCCCTGGTAATTAAAGTCAAGAATGAGG
1 GGAGAAAATTACGGAAAAGTCTTCACAAGATTCTGAATCCCTAGTAATTAAAACCAAGAATGAGG
*
8487237 AGTTGATTTCTGATGAGAAACCTCGTGT
66 AATTGATTTCTGATGAGAAACCTCGTGT
* * * *
8487265 GGAGAAAATTACGGAAACGTCTTCACAAGATTTTGATTCCCTAG-AAGTTAAAACCGAGAATG-G
1 GGAGAAAATTACGGAAAAGTCTTCACAAGATTCTGAATCCCTAGTAA-TTAAAACCAAGAATGAG
* *
8487328 AGAATTGATTTCTTATGGGAAACCT
65 -GAATTGATTTCTGATGAGAAACCT
8487353 AATAGGCAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (93 bp):
GGAGAAAATTACGGAAAAGTCTTCACAAGATTCTGAATCCCTAGTAATTAAAACCAAGAATGAGG
AATTGATTTCTGATGAGAAACCTCGTGT
Found at i:8504345 original size:22 final size:22
Alignment explanation
Indices: 8504317--8504360 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8504307 TGAAAGATTG
8504317 GAACACTGTTTCCATTTACTGA
1 GAACACTGTTTCCATTTACTGA
8504339 GAACACTGTTTCCATTTACTGA
1 GAACACTGTTTCCATTTACTGA
8504361 AAGTATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
GAACACTGTTTCCATTTACTGA
Found at i:8506477 original size:42 final size:42
Alignment explanation
Indices: 8506430--8506521 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
8506420 TGGCCCTTAG
* ** *
8506430 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
8506472 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
8506514 GCCCATTT
1 GCCCATTT
8506522 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:8506697 original size:25 final size:25
Alignment explanation
Indices: 8506669--8506738 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
8506659 CTCATTTAAT
8506669 AACTGGGCCAAAGCCC-TTTCTGATA
1 AACTGGGCCAAAGCCCTTTTC-GATA
* * *
8506694 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGCCAAAGCCCTTTTCGATA
*
8506719 AACTGGGGCAGAA-CCCTTTT
1 AACTGGGCCA-AAGCCCTTTT
8506739 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 34 0.87
26 5 0.13
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGCCAAAGCCCTTTTCGATA
Found at i:8507706 original size:27 final size:27
Alignment explanation
Indices: 8507658--8507714 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
8507648 GTAAATCTAC
*
8507658 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTCCAGTAATTTTGT
* *
8507685 AAACCAATGGTATTCCTA-TAATTTTTT
1 AAACCAAGGGTATTCC-AGTAATTTTGT
8507712 AAA
1 AAA
8507715 AAAGTCAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTCCAGTAATTTTGT
Found at i:8507764 original size:27 final size:26
Alignment explanation
Indices: 8507734--8507847 Score: 88
Period size: 27 Copynumber: 4.2 Consensus size: 26
8507724 GGTATTTCTA
8507734 TAATTTTGCAAATCAGGGGTATTTTGG
1 TAATTTT-CAAATCAGGGGTATTTTGG
* * *
8507761 TAATTTTAAAAAT-TGAGGGTATTTCGG
1 TAATTTT-CAAATCAG-GGGTATTTTGG
* *
8507788 TAATTTCTCAAACCAGTGGTATTTTGG
1 TAATTT-TCAAATCAGGGGTATTTTGG
** *
8507815 TAATTCTATCCTA-CAGGGGTATTTTAG
1 TAATT-T-TCAAATCAGGGGTATTTTGG
8507842 TAATTT
1 TAATTT
8507848 CACAATCGAG
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 61 0.88
28 6 0.09
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (26 bp):
TAATTTTCAAATCAGGGGTATTTTGG
Found at i:8507885 original size:27 final size:27
Alignment explanation
Indices: 8507851--8507942 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
8507841 GTAATTTCAC
8507851 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
8507878 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTTTGTA
* * *
8507905 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
8507932 AATCGAGGGTA
1 AATCGAGGGTA
8507943 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:8507968 original size:54 final size:53
Alignment explanation
Indices: 8507831--8507969 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
8507821 TATCCTACAG
* * * * *
8507831 GGGTATTTTAGTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAACTGA
1 GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
** *
8507884 GGGTAAAATGGTAATTTTGTA-AATCAAGGGTAAAACGATAATTCTATAAA-TCGA
1 GGGTAATTTGGTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GA
*
8507938 GGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAATTTGGTAATTTTACAA-TCGAGGGTA
8507970 TTTCAATAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
52 2 0.03
53 16 0.23
54 50 0.72
55 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (53 bp):
GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
Found at i:8510188 original size:42 final size:42
Alignment explanation
Indices: 8510141--8510234 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
8510131 TATGGCCTTT
** *
8510141 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
1 AAGCCCATTTCAATATCACATGTAATACCAATGAATGTATGC
8510183 AAGCCCATTTCAATATCACATGTAATACCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGTAATACCAATGAATGTATGC
8510225 AAGCCCATTT
1 AAGCCCATTT
8510235 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGTAATACCAATGAATGTATGC
Found at i:8510410 original size:25 final size:25
Alignment explanation
Indices: 8510382--8510451 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
8510372 CTCTTTTAAT
*
8510382 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
8510407 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
*
8510432 AACTGGGGTAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
8510452 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:8511399 original size:27 final size:27
Alignment explanation
Indices: 8511369--8511420 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8511359 GTAAATCTAC
*
8511369 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTCCAATAATTTTGT
* *
8511396 AAACCAATGGTATTCCTATAATTTT
1 AAACCAAGGGTATTCCAATAATTTT
8511421 AAAAAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTCCAATAATTTTGT
Found at i:8511465 original size:27 final size:27
Alignment explanation
Indices: 8511427--8511478 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
8511417 TTTTAAAAAA
8511427 AAGTCAAGGGTATTTAT-GTAATTTTGT
1 AAGTCAAGGGTATTT-TGGTAATTTTGT
8511454 AAGTCAAGGGTATTTTGGTAATTTT
1 AAGTCAAGGGTATTTTGGTAATTTT
8511479 AAAAATTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (27 bp):
AAGTCAAGGGTATTTTGGTAATTTTGT
Found at i:8511637 original size:27 final size:27
Alignment explanation
Indices: 8511565--8511629 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
8511555 ATTTCATAAT
8511565 TGAGGGTAAAATGGTAATTTTGTAAAC
1 TGAGGGTAAAATGGTAATTTTGTAAAC
*
8511592 TAAGGGTAAAATGGTAATTTTGTAAA-
1 TGAGGGTAAAATGGTAATTTTGTAAAC
8511618 TCGAGGGTAAAA
1 T-GAGGGTAAAA
8511630 CGATAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (27 bp):
TGAGGGTAAAATGGTAATTTTGTAAAC
Found at i:8517709 original size:13 final size:13
Alignment explanation
Indices: 8517681--8517720 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
8517671 TGTGGTTTTT
*
8517681 TGAAAACGA-AAA
1 TGAAAATGAGAAA
*
8517693 TGAAAATGAGGAA
1 TGAAAATGAGAAA
8517706 TGAAAATGAGAAA
1 TGAAAATGAGAAA
8517719 TG
1 TG
8517721 GATTCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.57, C:0.03, G:0.25, T:0.15
Consensus pattern (13 bp):
TGAAAATGAGAAA
Found at i:8519113 original size:13 final size:13
Alignment explanation
Indices: 8519095--8519119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8519085 TCAGTTTGTA
8519095 TAAATTAAAATGT
1 TAAATTAAAATGT
8519108 TAAATTAAAATG
1 TAAATTAAAATG
8519120 AATTGGGATT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAATTAAAATGT
Found at i:8521722 original size:2 final size:2
Alignment explanation
Indices: 8521715--8521743 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8521705 TATTATGATA
8521715 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8521744 TAAGTTGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8537549 original size:24 final size:24
Alignment explanation
Indices: 8537515--8537565 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8537505 ATGTTTTACT
*
8537515 ACACGGACAGCCACACGGGCGGCC
1 ACACGGACAGCCACACGGGCAGCC
* *
8537539 ACACGGCCAGCCACATGGGCAGCC
1 ACACGGACAGCCACACGGGCAGCC
8537563 ACA
1 ACA
8537566 TGCCCGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.41, G:0.29, T:0.02
Consensus pattern (24 bp):
ACACGGACAGCCACACGGGCAGCC
Found at i:8537567 original size:12 final size:12
Alignment explanation
Indices: 8537515--8537565 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
8537505 ATGTTTTACT
*
8537515 ACACGGACAGCC
1 ACACGGGCAGCC
*
8537527 ACACGGGCGGCC
1 ACACGGGCAGCC
*
8537539 ACACGGCCAGCC
1 ACACGGGCAGCC
*
8537551 ACATGGGCAGCC
1 ACACGGGCAGCC
8537563 ACA
1 ACA
8537566 TGCCCGTGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.27, C:0.41, G:0.29, T:0.02
Consensus pattern (12 bp):
ACACGGGCAGCC
Found at i:8541248 original size:40 final size:40
Alignment explanation
Indices: 8541189--8541418 Score: 245
Period size: 40 Copynumber: 5.8 Consensus size: 40
8541179 TTGACACTAC
* * * *
8541189 TTTCAGTAAAATCAGTAGGTATGGCTCTATAGAGCATTCT
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
* * *
8541229 TTTTAGTAAATTCAGTAGGTATGGCGT-GATAGATCATAC-
1 TTTCAGTAAATTCAGTAGGTATGGC-TCAATAGAGCATACA
* *
8541268 TTTCAGTAGAA-TCTGTAGGTATGGTTCAATA-ACGCATACA
1 TTTCAGTA-AATTCAGTAGGTATGGCTCAATAGA-GCATACA
* *
8541308 TTTCAGTAAATTTAGTAGGTATGGCTCAATAGCGCATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
* * *
8541348 TTTCAGTATATTCAGTAGGTATTGCTCAACAGCA-CATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAG-AGCATACA
* *
8541388 TTTCAATAGATTCAGTAGGTATGGCTCAATA
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATA
8541419 ACGTATAAGT
Statistics
Matches: 159, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 29 0.18
40 127 0.80
41 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
Found at i:8541318 original size:79 final size:79
Alignment explanation
Indices: 8541186--8541418 Score: 254
Period size: 79 Copynumber: 2.9 Consensus size: 79
8541176 TCATTGACAC
* * * *
8541186 TACTTTCAGTAAAATCAGTAGGTATGGCTCTATAGA-GCATTCTTTTTAGTAAATTCAGTAGGTA
1 TACTTTCAGTAAAATCAGTAGGTATGGCTCAATA-ACGCATACATTTCAGTAAATTCAGTAGGTA
* *
8541250 TGGCGT-GATAGATCA
65 TGGC-TCAATAGAGCA
* * * *
8541265 TACTTTCAGTAGAATCTGTAGGTATGGTTCAATAACGCATACATTTCAGTAAATTTAGTAGGTAT
1 TACTTTCAGTAAAATCAGTAGGTATGGCTCAATAACGCATACATTTCAGTAAATTCAGTAGGTAT
*
8541330 GGCTCAATAGCGCA
66 GGCTCAATAGAGCA
* * * * * * * *
8541344 TACATTTCAGTATATTCAGTAGGTATTGCTCAACAGCACATACATTTCAATAGATTCAGTAGGTA
1 TAC-TTTCAGTAAAATCAGTAGGTATGGCTCAATAACGCATACATTTCAGTAAATTCAGTAGGTA
8541409 TGGCTCAATA
65 TGGCTCAATA
8541419 ACGTATAAGT
Statistics
Matches: 129, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 67 0.52
80 60 0.47
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (79 bp):
TACTTTCAGTAAAATCAGTAGGTATGGCTCAATAACGCATACATTTCAGTAAATTCAGTAGGTAT
GGCTCAATAGAGCA
Found at i:8543898 original size:20 final size:20
Alignment explanation
Indices: 8543873--8543915 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8543863 ATTTTGAATC
8543873 TGTTTGTGAGTTAATTCACT
1 TGTTTGTGAGTTAATTCACT
8543893 TGTTTGTGAGTTAATTCACT
1 TGTTTGTGAGTTAATTCACT
8543913 TGT
1 TGT
8543916 GACATTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (20 bp):
TGTTTGTGAGTTAATTCACT
Found at i:8547770 original size:3 final size:3
Alignment explanation
Indices: 8547762--8547796 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8547752 CTAAATCCTC
8547762 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8547797 GTTGGTTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8557029 original size:11 final size:11
Alignment explanation
Indices: 8556969--8557041 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
8556959 TCCTAACACA
*
8556969 TATTAAACATAA
1 TATTAAA-ATAT
8556981 TATTAAAATAT
1 TATTAAAATAT
*
8556992 TA-T-AAATGT
1 TATTAAAATAT
8557001 TATT-AAATAT
1 TATTAAAATAT
* *
8557011 TATGAAAATAA
1 TATTAAAATAT
8557022 TATTAAAATAT
1 TATTAAAATAT
*
8557033 TATAAAAAT
1 TATTAAAAT
8557042 TTAGAAAGGA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
9 7 0.14
10 10 0.20
11 27 0.53
12 7 0.14
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:8563504 original size:18 final size:18
Alignment explanation
Indices: 8563483--8563518 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8563473 CAATTAAACC
8563483 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
8563501 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
8563519 TAAATAAATC
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:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:8563579 original size:18 final size:18
Alignment explanation
Indices: 8563558--8563592 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8563548 TAATTTAAAA
8563558 TATAAATTTATTAATATG
1 TATAAATTTATTAATATG
8563576 TATAAATTTATTAATAT
1 TATAAATTTATTAATAT
8563593 ATGTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATAAATTTATTAATATG
Found at i:8563599 original size:18 final size:18
Alignment explanation
Indices: 8563557--8563599 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
8563547 ATAATTTAAA
8563557 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
8563575 GTATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
8563593 ATGTAAA
1 ATATAAA
8563600 AACAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:8563720 original size:19 final size:19
Alignment explanation
Indices: 8563675--8563712 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8563665 CATCTAAACA
8563675 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
8563694 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
8563713 TCCAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:8563988 original size:23 final size:22
Alignment explanation
Indices: 8563943--8563989 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
8563933 TGTGTAATAA
*
8563943 TTTTTTTAATTTTAATATAATT
1 TTTTTTTAATTTTAATAGAATT
* *
8563965 TTTTTTCTAATTTTTATAGCATT
1 TTTTTT-TAATTTTAATAGAATT
8563988 TT
1 TT
8563990 AATAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTTTAATTTTAATAGAATT
Found at i:8564288 original size:12 final size:13
Alignment explanation
Indices: 8564256--8564288 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8564246 CATCATTTCC
8564256 CCACGTCAACTTG
1 CCACGTCAACTTG
8564269 CCACGTCAAC-TG
1 CCACGTCAACTTG
*
8564281 CCATGTCA
1 CCACGTCA
8564289 GCACGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (13 bp):
CCACGTCAACTTG
Found at i:8565413 original size:76 final size:76
Alignment explanation
Indices: 8565279--8565568 Score: 323
Period size: 76 Copynumber: 3.8 Consensus size: 76
8565269 TCAGATCTTG
* ** * * * * * * *
8565279 CCACTAAGTCTTTTCAAATAATATGCCACATAGGCTTGTCAGGTAACTCATCGCAAAGGCTTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
*
8565344 AAATAAATTCA
66 AGATAAATTCA
* * * *
8565355 CCACTAAGGCTTCCCAAATAAAACACTACATAGGCTTTTCAAGCAACT-GGCTATAAAGGCTTTC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTC-ACAAAGGCTTTC
8565419 CAGATAAATTCA
65 CAGATAAATTCA
* * * * *
8565431 TCATTAAGGCTTCCCAAAT-ATACGCCACATAGGCTTTTCAGGTAACTCGTCACAAAGGCTTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
* **
8565495 AGATAATTTTG
66 AGATAAATTCA
* * *
8565506 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTTAGGTAACTCGTCACAAAGGCTTT
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTT
8565569 GTGTGGTTTG
Statistics
Matches: 180, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
75 61 0.34
76 119 0.66
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (76 bp):
CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
AGATAAATTCA
Found at i:8565489 original size:25 final size:25
Alignment explanation
Indices: 8565456--8565568 Score: 68
Period size: 25 Copynumber: 4.5 Consensus size: 25
8565446 AAATATACGC
* * *
8565456 CACATAGGCTTTTCAGGTAACTCGT
1 CACAAAGGCTTTCCAGATAACTCGT
* * *
8565481 CACAAAGGCTTTCCAGATAATTTTGC
1 CACAAAGGCTTTCCAGATAA-CTCGT
* * *
8565507 CACTAAGGCTTCCCAAATAA-TACG-
1 CACAAAGGCTTTCCAGATAACT-CGT
* ** *
8565531 CTACATAGGCTTTTTAGGTAACTCGT
1 C-ACAAAGGCTTTCCAGATAACTCGT
8565557 CACAAAGGCTTT
1 CACAAAGGCTTT
8565569 GTGTGGTTTG
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
24 2 0.03
25 42 0.65
26 21 0.32
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (25 bp):
CACAAAGGCTTTCCAGATAACTCGT
Found at i:8569634 original size:33 final size:33
Alignment explanation
Indices: 8569591--8569743 Score: 207
Period size: 33 Copynumber: 4.6 Consensus size: 33
8569581 TTTCTATTTA
* *
8569591 GTGTGCTGGTTGGATTAGTTCTTATGAGCATTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* * *
8569624 GTGTGATGGTTGGTTTAGCTCTTATAAGCGTTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8569657 GTGTGATGGTTGGTTTAGCTCTTATGAGAATTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8569690 GTGTGATGGTTGGATTAGCTTTTATGAGCATTA
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8569723 GTGTGATGGATGGATTGGCTC
1 GTGTGATGGTTGGATTAGCTC
8569744 AAGTGAGCAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 105 1.00
ACGTcount: A:0.17, C:0.08, G:0.34, T:0.41
Consensus pattern (33 bp):
GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
Found at i:8576500 original size:102 final size:102
Alignment explanation
Indices: 8576319--8576522 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
8576309 AAAAAAATAA
*
8576319 GATATTTATTAATTACATCAAAGTTTCAAAACAACATATGACATTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
*
8576384 AGACAAACTCTACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
*
8576421 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
8576486 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
8576523 ACTCCAATGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (102 bp):
GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACATTAAAACTTTAAACTTTATTAA
AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
Found at i:8577603 original size:23 final size:23
Alignment explanation
Indices: 8577577--8577652 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
8577567 AAACTTCGCA
* *
8577577 ACAAGGGCATTATAGAATACGCC
1 ACAAAGGCATTATAGAATAAGCC
* * * *
8577600 ACAAAGGTATTACAAAATATGCC
1 ACAAAGGCATTATAGAATAAGCC
* *
8577623 ATAAAGGCATCATAGAATAAGCC
1 ACAAAGGCATTATAGAATAAGCC
8577646 ACAAAGG
1 ACAAAGG
8577653 TTTTCCAGAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (23 bp):
ACAAAGGCATTATAGAATAAGCC
Found at i:8579939 original size:12 final size:12
Alignment explanation
Indices: 8579922--8579947 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8579912 ATTAGATTCC
8579922 ATTTATTATTTT
1 ATTTATTATTTT
8579934 ATTTATTATTTT
1 ATTTATTATTTT
8579946 AT
1 AT
8579948 AACTCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTATTATTTT
Found at i:8581778 original size:76 final size:76
Alignment explanation
Indices: 8581682--8581894 Score: 237
Period size: 76 Copynumber: 2.8 Consensus size: 76
8581672 CTCAAATCTT
* * * * * **
8581682 GCCACTAAGACTTCCCAAATAATATGTTACATAGGCTTTTTAGGTGACTTGCCACAAAGGCAATC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
*
8581747 CAGATAAATTA
66 CAGATAAACTA
* * ***
8581758 TCTACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGTTTTC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
*
8581823 CAGATAAACTC
66 CAGATAAACTA
* * ** * * *
8581834 GCCACTAAGGCTTTCCAAATCATACACCATATAGGCTTTTCAAGTAACTCGCCACAAAGGC
1 GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGC
8581895 TTTACTTTGT
Statistics
Matches: 113, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 113 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (76 bp):
GCCACTAAGGCTTCCCAAATAATACGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
CAGATAAACTA
Found at i:8581813 original size:25 final size:25
Alignment explanation
Indices: 8581785--8581897 Score: 70
Period size: 25 Copynumber: 4.5 Consensus size: 25
8581775 AATAATACGT
**
8581785 CACATAGGCTTTTCAGGTAACTCAC
1 CACATAGGCTTTTCAAATAACTCAC
* * *
8581810 CACAAAGG-TTTTCCAGATAAACTCGC
1 CACATAGGCTTTT-CAAAT-AACTCAC
* *
8581836 CAC-TAAGGCTTTCCAAATCA-TACAC
1 CACAT-AGGCTTTTCAAATAACT-CAC
* * *
8581861 CATATAGGCTTTTCAAGTAACTCGC
1 CACATAGGCTTTTCAAATAACTCAC
*
8581886 CACAAAGGCTTT
1 CACATAGGCTTT
8581898 ACTTTGTTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
24 5 0.08
25 40 0.61
26 18 0.27
27 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (25 bp):
CACATAGGCTTTTCAAATAACTCAC
Found at i:8585151 original size:45 final size:46
Alignment explanation
Indices: 8585099--8585187 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
8585089 TTCTATTTTG
* * *
8585099 AGAAAACCACATTCATTTCCAAATGATTT-CATTTCTCTATTTCAT
1 AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTCAT
* * *
8585144 AGAAAACCATAATCAATTCTAAATGTTTTCCATTTCTCCATTTC
1 AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTC
8585188 TATTCATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 24 0.65
46 13 0.35
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.39
Consensus pattern (46 bp):
AGAAAACCACAATCAATTCCAAATGATTTCCATTTCTCCATTTCAT
Found at i:8596237 original size:15 final size:16
Alignment explanation
Indices: 8596219--8596248 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8596209 ATTACTTAAT
8596219 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
8596234 TTAAAATTTATTATT
1 TTAAAATTTATTATT
8596249 AAAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:8596602 original size:9 final size:9
Alignment explanation
Indices: 8596588--8596621 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8596578 GTTTTCGAAT
8596588 TCGAATAAC
1 TCGAATAAC
8596597 TCGAATAAC
1 TCGAATAAC
* *
8596606 TTGAATAAT
1 TCGAATAAC
8596615 TCGAATA
1 TCGAATA
8596622 TCAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8596704 original size:30 final size:30
Alignment explanation
Indices: 8596670--8596754 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
8596660 AAACCTTTTT
*
8596670 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
8596700 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
*
8596730 ACTTTCCCCCCAAAACTTTTACTCC
1 ACTTTCCCCTCAAAACTTTTACTCC
8596755 CTTTCCATCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTCCCCTCAAAACTTTTACTCCTTCCC
Found at i:8599148 original size:16 final size:16
Alignment explanation
Indices: 8599123--8599153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8599113 TGAGATTAAC
8599123 TGTAAAGAAGCTAAAT
1 TGTAAAGAAGCTAAAT
*
8599139 TGTAATGAAGCTAAA
1 TGTAAAGAAGCTAAA
8599154 CATAGTAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
TGTAAAGAAGCTAAAT
Found at i:8601117 original size:46 final size:46
Alignment explanation
Indices: 8600855--8601116 Score: 364
Period size: 46 Copynumber: 5.7 Consensus size: 46
8600845 GCCATAGTGC
* * *
8600855 CTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGGTAT
* ** *
8600901 CTTTCAACCATGGTCTTATTTTTTTCATGTCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
*
8600947 CTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
* * *
8600993 CTTCCAACCATGGTCTTATTCATTTTATATCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
* * * *
8601039 CTTTCAATCATGGTCTTACACATTTCATATCAGGTTGTCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
*
8601085 CTTTCAACCATGGTCTTACACATTTCATATCA
1 CTTTCAACCATGGTCTTACTCATTTCATATCA
8601117 GAGAGCACAC
Statistics
Matches: 197, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 193 0.98
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
Found at i:8603259 original size:11 final size:11
Alignment explanation
Indices: 8603243--8603287 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
8603233 CTTTATATAC
8603243 TAATAAAATAT
1 TAATAAAATAT
8603254 TAATAAAATATAT
1 TAAT-AAA-ATAT
*
8603267 TATTAAAATAT
1 TAATAAAATAT
8603278 TAATAAAATA
1 TAATAAAATA
8603288 ATATTTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.57
12 6 0.20
13 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:8603273 original size:24 final size:24
Alignment explanation
Indices: 8603237--8603292 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
8603227 TTCTTTCTTT
*
8603237 ATATACTAATAAAATATTAATAAA
1 ATATATTAATAAAATATTAATAAA
*
8603261 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATATTAATAAA
8603285 ATAATATT
1 AT-ATATT
8603293 TATCTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATATTAATAAAATATTAATAAA
Found at i:8609577 original size:22 final size:20
Alignment explanation
Indices: 8609549--8609590 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
8609539 TGCGACAGTT
8609549 ATTAAAAGAAAGAAGGAAAAAA
1 ATTAAAAGAAA-AA-GAAAAAA
*
8609571 ATTAAAAGGAAAAGAAAAAA
1 ATTAAAAGAAAAAGAAAAAA
8609591 GAGGAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (20 bp):
ATTAAAAGAAAAAGAAAAAA
Found at i:8621722 original size:20 final size:21
Alignment explanation
Indices: 8621694--8621735 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8621684 ATTAAATTTA
* *
8621694 AATTTTAAAAA-AATAAAAAT
1 AATTATAAAAAGAAAAAAAAT
8621714 AATTATAAAAAGAAAAAAAAT
1 AATTATAAAAAGAAAAAAAAT
8621735 A
1 A
8621736 TAAGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AATTATAAAAAGAAAAAAAAT
Found at i:8622584 original size:6 final size:6
Alignment explanation
Indices: 8622573--8622599 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8622563 TTGGAATATC
8622573 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
8622600 CTTCTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:8625754 original size:32 final size:32
Alignment explanation
Indices: 8625713--8625776 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8625703 TGGGTTACTC
8625713 AATTTTGGAATTTGATAATTTAAGTTATTCTT
1 AATTTTGGAATTTGATAATTTAAGTTATTCTT
8625745 AATTTTGGAATTTGATAATTTAAGTTATTCTT
1 AATTTTGGAATTTGATAATTTAAGTTATTCTT
8625777 TTTGTTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (32 bp):
AATTTTGGAATTTGATAATTTAAGTTATTCTT
Found at i:8636490 original size:16 final size:16
Alignment explanation
Indices: 8636469--8636499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8636459 TAGTCTCAAT
8636469 CACAAATAAACTTTCA
1 CACAAATAAACTTTCA
*
8636485 CACAAATAACCTTTC
1 CACAAATAAACTTTC
8636500 CCTACATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (16 bp):
CACAAATAAACTTTCA
Found at i:8641744 original size:61 final size:61
Alignment explanation
Indices: 8641666--8641795 Score: 260
Period size: 61 Copynumber: 2.1 Consensus size: 61
8641656 AACCCTCCAC
8641666 TAAATTTTCGTCTTTTAGCATTTGAAATTTGATTTTTTTAAAATTATTTTAAAAATTAACA
1 TAAATTTTCGTCTTTTAGCATTTGAAATTTGATTTTTTTAAAATTATTTTAAAAATTAACA
8641727 TAAATTTTCGTCTTTTAGCATTTGAAATTTGATTTTTTTAAAATTATTTTAAAAATTAACA
1 TAAATTTTCGTCTTTTAGCATTTGAAATTTGATTTTTTTAAAATTATTTTAAAAATTAACA
8641788 TAAATTTT
1 TAAATTTT
8641796 ATTGACGTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (61 bp):
TAAATTTTCGTCTTTTAGCATTTGAAATTTGATTTTTTTAAAATTATTTTAAAAATTAACA
Done.