Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 17 of 74
Found at i:4429868 original size:15 final size:16
Alignment explanation
Indices: 4429829--4429946 Score: 69
Period size: 16 Copynumber: 7.0 Consensus size: 16
4429819 CTATTAAAGT
4429829 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
* *
4429845 TTATAAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
4429860 ATATTAAAAAATAGTTA
1 ATATT-AAAATTATTTA
*
4429877 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TATTTA
4429897 ATATTAAAATATTATGTTA
1 ATATT-AAA-ATTAT-TTA
* *
4429916 ATATAAAAAATATTTA
1 ATATTAAAATTATTTA
* *
4429932 A-AATAAAACTATTTA
1 ATATTAAAATTATTTA
4429947 TTAATCTTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
15 17 0.22
16 20 0.25
17 9 0.11
18 12 0.15
19 12 0.15
20 9 0.11
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:4429982 original size:18 final size:17
Alignment explanation
Indices: 4429959--4430073 Score: 90
Period size: 18 Copynumber: 7.2 Consensus size: 17
4429949 AATCTTTATG
4429959 TTATTTATTAATAGTATA
1 TTATTTATTAATA-TATA
4429977 TTATTTATTAAT-T-TA
1 TTATTTATTAATATATA
*
4429992 TTA-TTA-T-A-ACAT-
1 TTATTTATTAATATATA
*
4430004 TTATTAATTAATATAATA
1 TTATTTATTAATAT-ATA
4430022 TTATTTATT-A-ATATA
1 TTATTTATTAATATATA
*
4430037 TTA--TATTAATAGTTTA
1 TTATTTATTAATA-TATA
4430053 TTATTTATTAATATAATA
1 TTATTTATTAATAT-ATA
4430071 TTA
1 TTA
4430074 ATTTTATGTA
Statistics
Matches: 77, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
12 4 0.05
13 8 0.10
14 5 0.06
15 13 0.17
16 10 0.13
17 4 0.05
18 33 0.43
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATTTATTAATATATA
Found at i:4429994 original size:45 final size:45
Alignment explanation
Indices: 4429959--4430073 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 45
4429949 AATCTTTATG
* *
4429959 TTATTTATTAATAGT-ATATTATTTATTAATTTATTATTATAACAT
1 TTATTAATTAATA-TAATATTATTTATTAATTTATTAATATAACAT
* *
4430004 TTATTAATTAATATAATATTATTTATTAATATATT-ATATTAATAGT
1 TTATTAATTAATATAATATTATTTATTAATTTATTAATA-TAACA-T
4430050 TTATTATTTATTAATATAATATTA
1 TTATTA---ATTAATATAATATTA
4430074 ATTTTATGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
44 3 0.05
45 35 0.58
46 7 0.12
49 15 0.25
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (45 bp):
TTATTAATTAATATAATATTATTTATTAATTTATTAATATAACAT
Found at i:4430655 original size:13 final size:13
Alignment explanation
Indices: 4430637--4430662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4430627 ACAGTTTTTA
4430637 GAAAATAAAAAAT
1 GAAAATAAAAAAT
4430650 GAAAATAAAAAAT
1 GAAAATAAAAAAT
4430663 ATTTTCTCAA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
GAAAATAAAAAAT
Found at i:4431167 original size:20 final size:19
Alignment explanation
Indices: 4431133--4431170 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4431123 TACATCAGTA
4431133 AAATCAAAATCAAATAATC
1 AAATCAAAATCAAATAATC
*
4431152 AAATCATAAATTAAATAAT
1 AAATCA-AAATCAAATAAT
4431171 TACATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATCAAAATCAAATAATC
Found at i:4431177 original size:28 final size:28
Alignment explanation
Indices: 4431146--4431199 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
4431136 TCAAAATCAA
*
4431146 ATAATCAAATCATAAATTAA-ATAATTAC
1 ATAAT-AAATAATAAATTAACATAATTAC
*
4431174 ATAATAAATAATAATTTAACATAATT
1 ATAATAAATAATAAATTAACATAATT
4431200 CGATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAATAAATAATAAATTAACATAATTAC
Found at i:4431542 original size:14 final size:15
Alignment explanation
Indices: 4431525--4431560 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4431515 ATCAAGAATT
4431525 TTTTTTTCTTG-AAA
1 TTTTTTTCTTGTAAA
*
4431539 TTTTTTTCTTGTAAG
1 TTTTTTTCTTGTAAA
4431554 TTTTTTT
1 TTTTTTT
4431561 GTCCATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (15 bp):
TTTTTTTCTTGTAAA
Found at i:4436308 original size:16 final size:16
Alignment explanation
Indices: 4436289--4436320 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4436279 AACAAAAGAC
*
4436289 AAAAAAAAGAAGGAAA
1 AAAAAAAAGAAAGAAA
4436305 AAAAAAAAGAAAGAAA
1 AAAAAAAAGAAAGAAA
4436321 CCCAAAGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAA
Found at i:4438017 original size:2 final size:2
Alignment explanation
Indices: 4438010--4438048 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4438000 CAGAATTAGA
4438010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4438049 CACTTTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4450393 original size:19 final size:19
Alignment explanation
Indices: 4450369--4450410 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
4450359 TGAGTTTTGT
*
4450369 TATTTATGTCAACTCAAAC
1 TATTTATATCAACTCAAAC
4450388 TATTTATATCAACTCAAAC
1 TATTTATATCAACTCAAAC
4450407 TATT
1 TATT
4450411 CTACCTTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTTATATCAACTCAAAC
Found at i:4455932 original size:11 final size:11
Alignment explanation
Indices: 4455918--4456037 Score: 77
Period size: 11 Copynumber: 10.7 Consensus size: 11
4455908 TTTATAAATT
4455918 ATTTAAATTAA
1 ATTTAAATTAA
*
4455929 ATTTAAATAAA
1 ATTTAAATTAA
*
4455940 ATTTAAATTTA
1 ATTTAAATTAA
4455951 ATTT-AATT-A
1 ATTTAAATTAA
* *
4455960 TTATTGAATTAA
1 AT-TTAAATTAA
4455972 ATTTAAATTTAA
1 ATTTAAA-TTAA
* *
4455984 ATAATTTAATT-C
1 AT--TTAAATTAA
4455996 ATGATTAAATTAA
1 AT--TTAAATTAA
*
4456009 ATTTAAA-TAT
1 ATTTAAATTAA
* *
4456019 TTTTATATTAA
1 ATTTAAATTAA
4456030 ATTTAAAT
1 ATTTAAAT
4456038 AATTCATAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
9 2 0.02
10 13 0.15
11 44 0.52
12 17 0.20
13 4 0.05
14 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:4455936 original size:6 final size:6
Alignment explanation
Indices: 4455918--4455985 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
4455908 TTTATAAATT
* *
4455918 ATTTAA A-TTAA ATTTAA A-TAAA ATTTAA ATTT-A ATTTAA TTATTATTGA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --A-T-TTAA
4455967 A-TTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA AT
4455986 AATTTAATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 18 0.36
6 26 0.52
8 2 0.04
9 1 0.02
10 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:4455974 original size:21 final size:19
Alignment explanation
Indices: 4455914--4456035 Score: 63
Period size: 21 Copynumber: 6.1 Consensus size: 19
4455904 ATTATTTATA
*
4455914 AATTATTTAAATTAAATTT
1 AATTATTTTAATTAAATTT
* * *
4455933 AAATAAAATTTAAATTTAATTT
1 -AAT--TATTTTAATTAAATTT
4455955 AATTATTATTGAATTAAATTT
1 AATTATT-TT-AATTAAATTT
*
4455976 AA--A-TTTAAAT-AATTT
1 AATTATTTTAATTAAATTT
*
4455991 AATTCATGATTAAATTAAATTT
1 AATT-AT--TTTAATTAAATTT
*
4456013 AAATATTTTTATATTAAATTT
1 AATTA-TTTTA-ATTAAATTT
4456034 AA
1 AA
4456036 ATAATTCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.09
16 3 0.04
17 2 0.03
18 2 0.03
19 4 0.05
20 7 0.09
21 31 0.39
22 23 0.29
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTATTTTAATTAAATTT
Found at i:4455974 original size:32 final size:34
Alignment explanation
Indices: 4455931--4456016 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 34
4455921 TAAATTAAAT
* *
4455931 TTAAATAAAATTTAAATT-TAATTTAATT-ATTA
1 TTAAATTAAATTTAAATTATAATTTAATTCATGA
*
4455963 TTGAATTAAATTTAAATTTAAATAATTTAATTCATGA
1 TTAAATTAAATTTAAA-TT--ATAATTTAATTCATGA
4456000 TTAAATTAAATTTAAAT
1 TTAAATTAAATTTAAAT
4456017 ATTTTTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 14 0.31
33 2 0.04
36 11 0.24
37 18 0.40
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (34 bp):
TTAAATTAAATTTAAATTATAATTTAATTCATGA
Found at i:4456036 original size:32 final size:32
Alignment explanation
Indices: 4455919--4456037 Score: 84
Period size: 32 Copynumber: 3.6 Consensus size: 32
4455909 TTATAAATTA
* *
4455919 TTTAAATTAAATTTAAATAAAATTTAAATTTAATT
1 TTTATATTAAATTTAAATTAAATTTAAA--T-ATT
* *
4455954 TAATTATTATTGAA-TTAAATTTAAATTTAAATA-A
1 T--TTA-TATTAAATTTAAA-TTAAATTTAAATATT
*
4455988 TTTA-ATT-CATGATTAAATTAAATTTAAATATT
1 TTTATATTAAAT--TTAAATTAAATTTAAATATT
4456020 TTTATATTAAATTTAAAT
1 TTTATATTAAATTTAAAT
4456038 AATTCATAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 23
0.69 0.07 0.24
Matches are distributed among these distances:
29 1 0.01
30 3 0.04
31 13 0.19
32 18 0.27
33 3 0.04
34 3 0.04
35 2 0.03
36 1 0.01
37 8 0.12
38 15 0.22
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (32 bp):
TTTATATTAAATTTAAATTAAATTTAAATATT
Found at i:4456070 original size:18 final size:19
Alignment explanation
Indices: 4456047--4456094 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
4456037 TAATTCATAA
4456047 ATTTAATTAAAATTTTA-T
1 ATTTAATTAAAATTTTATT
* * *
4456065 ATTTAAATATATTTTTATT
1 ATTTAATTAAAATTTTATT
4456084 ATTTTAATTAA
1 A-TTTAATTAA
4456095 TAAAATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 2 0.09
20 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTAATTAAAATTTTATT
Found at i:4456173 original size:25 final size:25
Alignment explanation
Indices: 4456115--4456173 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
4456105 TGAATTCAAA
4456115 TTTAAATATAAATAATTAAAATTTT
1 TTTAAATATAAATAATTAAAATTTT
* *
4456140 ATTAAATATAAA-AATTAAATTTATT
1 TTTAAATATAAATAATTAAAATT-TT
*
4456165 TTTATATAT
1 TTTAAATAT
4456174 TAATCAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTAAATATAAATAATTAAAATTTT
Found at i:4456955 original size:20 final size:19
Alignment explanation
Indices: 4456920--4456964 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4456910 AAGAGATTAA
*
4456920 TTAAATAAAAATTAAAAGT
1 TTAAATAAAAATTAAAAAT
*
4456939 TTAATTAAAATATTAAAAAT
1 TTAAATAAAA-ATTAAAAAT
4456959 TTAAAT
1 TTAAAT
4456965 GATTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTAAATAAAAATTAAAAAT
Found at i:4456955 original size:27 final size:27
Alignment explanation
Indices: 4456925--4456977 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4456915 ATTAATTAAA
*
4456925 TAAAAA-TTAAAAGTTTAATTAAAATAT
1 TAAAAATTTAAAAGATT-ATTAAAATAT
*
4456952 TAAAAATTTAAATGATTATTAAAATA
1 TAAAAATTTAAAAGATTATTAAAATA
4456978 ATCTGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
TAAAAATTTAAAAGATTATTAAAATAT
Found at i:4466577 original size:13 final size:13
Alignment explanation
Indices: 4466556--4466585 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4466546 ATTGCTTCTA
*
4466556 ATTTTTTGAAGGT
1 ATTTATTGAAGGT
4466569 ATTTATTGAAGGT
1 ATTTATTGAAGGT
4466582 ATTT
1 ATTT
4466586 TTGGCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (13 bp):
ATTTATTGAAGGT
Found at i:4466955 original size:13 final size:13
Alignment explanation
Indices: 4466921--4466955 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4466911 AATTCGTTCT
*
4466921 AATTTTTTAAAAG
1 AATTTTTTGAAAG
4466934 AATTTTTTGAAAG
1 AATTTTTTGAAAG
*
4466947 CATTTTTTG
1 AATTTTTTG
4466956 CATAATACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (13 bp):
AATTTTTTGAAAG
Found at i:4468528 original size:28 final size:28
Alignment explanation
Indices: 4468491--4468611 Score: 132
Period size: 28 Copynumber: 4.6 Consensus size: 28
4468481 TTAAATATTG
4468491 TGGTTTGCTGAATGGTATTGTATGATAT
1 TGGTTTGCTGAATGGTATTGTATGATAT
*
4468519 TGTTTTGCTGAATGGTATTGTATGATAT
1 TGGTTTGCTGAATGGTATTGTATGATAT
**
4468547 TGGTTTATTGAATGGT-TTGCTA--A-A-
1 TGGTTTGCTGAATGGTATTG-TATGATAT
*
4468571 TGGTTTGCTGAATGGTATT-TCTGA-A-
1 TGGTTTGCTGAATGGTATTGTATGATAT
*
4468596 TGGTTTCCTGAATGGT
1 TGGTTTGCTGAATGGT
4468612 GTTTCTAAAC
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.01
24 14 0.17
25 20 0.25
26 1 0.01
27 3 0.04
28 42 0.52
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.46
Consensus pattern (28 bp):
TGGTTTGCTGAATGGTATTGTATGATAT
Found at i:4468564 original size:12 final size:12
Alignment explanation
Indices: 4468555--4468611 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 12
4468545 ATTGGTTTAT
4468555 TGAATGGTTTGC
1 TGAATGGTTTGC
*
4468567 TAAATGGTTTGC
1 TGAATGGTTTGC
*
4468579 TGAATGGTATTTC
1 TGAATGGT-TTGC
*
4468592 TGAATGGTTTCC
1 TGAATGGTTTGC
4468604 TGAATGGT
1 TGAATGGT
4468612 GTTTCTAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
12 29 0.73
13 11 0.28
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (12 bp):
TGAATGGTTTGC
Found at i:4470301 original size:21 final size:21
Alignment explanation
Indices: 4470257--4470301 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4470247 ATAAGTTTAA
* *
4470257 TATTAATTTGTTTATTATATT
1 TATTAATTTGTTTATAATACT
4470278 TATTAATTTGATTT-TAATACT
1 TATTAATTTG-TTTATAATACT
4470299 TAT
1 TAT
4470302 ATTTCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TATTAATTTGTTTATAATACT
Found at i:4471094 original size:26 final size:26
Alignment explanation
Indices: 4471062--4471140 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
4471052 TATGCAAGAG
*
4471062 ATAGTTTTATATAATTTTATGATCAC
1 ATAGTTTTATATGATTTTATGATCAC
4471088 ATAGTTTTATATGATTTTATGATCAC
1 ATAGTTTTATATGATTTTATGATCAC
4471114 ATAGTTTTATATGATTTTATGATCAC
1 ATAGTTTTATATGATTTTATGATCAC
4471140 A
1 A
4471141 CCATTCAAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (26 bp):
ATAGTTTTATATGATTTTATGATCAC
Found at i:4472036 original size:125 final size:128
Alignment explanation
Indices: 4471820--4472060 Score: 298
Period size: 125 Copynumber: 1.9 Consensus size: 128
4471810 ACCAAAACTG
* *
4471820 CATTCAATAATCCCATCTAAAAATTTATTATGTGGATTATTAAAGGCATTTTGGGTCAAAAATAC
1 CATTCAATAATCCCATCTAAAAATTTATTATGTGGATTATTAAAGGCACTTTCGGTCAAAAATAC
* *
4471885 ATTCAAGAATTCGTTCAAACT-TTTTT-TATAGATTATTGAAA-GTATTTTTTACAAAAACCAC
66 ATTCAAGAATCCATTCAAACTATTTTTCTATAGATTATT-AAAGGTATTTTTTACAAAAACCAC
* *
4471946 CATT-AATAATCCC-TCATGAAAATTTATTGAT-TGGATTATTGAAGGCACTTTCGGTCAAAAAT
1 CATTCAATAATCCCATC-TAAAAATTTATT-ATGTGGATTATTAAAGGCACTTTCGGTCAAAAAT
* * * * *
4472008 GCCTTTAAGAATCCATTCCATA-TATTTTTCTATGGATTATTAAAGGTATTTTT
64 ACATTCAAGAATCCATT-CAAACTATTTTTCTATAGATTATTAAAGGTATTTTT
4472061 CTGGTGAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
124 2 0.02
125 61 0.62
126 17 0.17
127 18 0.18
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (128 bp):
CATTCAATAATCCCATCTAAAAATTTATTATGTGGATTATTAAAGGCACTTTCGGTCAAAAATAC
ATTCAAGAATCCATTCAAACTATTTTTCTATAGATTATTAAAGGTATTTTTTACAAAAACCAC
Found at i:4472177 original size:12 final size:14
Alignment explanation
Indices: 4472142--4472177 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
4472132 AACAAACCTA
4472142 AAATAATCCATTAC
1 AAATAATCCATTAC
4472156 AAATAATCCATT-C
1 AAATAATCCATTAC
4472169 AAA-AATCCA
1 AAATAATCCA
4472178 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAATCCATTAC
Found at i:4481096 original size:201 final size:200
Alignment explanation
Indices: 4480561--4481316 Score: 716
Period size: 201 Copynumber: 3.8 Consensus size: 200
4480551 GAATTTATCA
* * * * ** *
4480561 TGACAATAAAATAAAACATCATCTTATG--TT-TTTTTGTAACATTAGTTTTCATCAATTTTTTA
1 TGACAATAAAATCAAACATCACCTTATGCTTTATTTTTGTGACGTTAGTTTTCATCAGCTATTTA
* * * * *
4480623 TAAAAAAAAATA-ATTGAAA-GTTATAATCGTCACAAAA-AAATAAGAAAATATGATATATTAGT
66 TAAAAAAGAATACATT-AAAGGTTATAATCGTCACAAAATAAATGATAAAATCTGATATATTAAT
* * * * * * ** * *
4480685 GACGAAAGTTAATTCATCACAGTCTTAGCGACGA-AATTATTGTCACCAATGATTGTAAAATAA-
130 GACAAAAGGTAAATCATCACAATATT-G-GAAGACAATTATTGTCAAAAATGATTATAAGATAAT
** *
4480748 GATTTACCT
193 G-TCAAACT
* * * * *
4480757 TGACAATAAAATCAAACATC-CATTTATGCTTTAATTTTTATGACGTTAGTTTTCGTTAGCCATT
1 TGACAATAAAATCAAACATCAC-CTTATGCTTT-ATTTTTGTGACGTTAGTTTTCATCAGCTATT
* * * * * *
4480821 TATGAACAAAA-ACGT-CATTAAAGGGTATAACCATAACAAAATAAATGATAAAATCTAATATAT
64 TAT-AA-AAAAGA-ATACATTAAAGGTTATAATCGTCACAAAATAAATGATAAAATCTGATATAT
* * * * * *
4480884 TATTAACAAAAGGTAAATCGTCATAATATTGGAAGCACAATTATTATCATAAATGATTATAAGAT
126 TAATGACAAAAGGTAAATCATCACAATATTGGAAG-ACAATTATTGTCAAAAATGATTATAAGAT
4480949 AATGTCAAACT
190 AATGTCAAACT
*
4480960 TGACAATAAAATCAAACATCACCTTATGCTTT-TTTTTGTGACGTTAGTTTTCGTCAGCTATTTA
1 TGACAATAAAATCAAACATCACCTTATGCTTTATTTTTGTGACGTTAGTTTTCATCAGCTATTTA
* *
4481024 TAAAAAAGAATACTATTAAAGGTTATAATTGTCACAAAATAAATGATAAAATCTGATAGATTAAT
66 TAAAAAAGAATAC-ATTAAAGGTTATAATCGTCACAAAATAAATGATAAAATCTGATATATTAAT
* * * * *
4481089 GACAAAAGATAAATCATCATAGTATTGGTAATACAATTATTGTCACAAAATAATTATAAGATAAT
130 GACAAAAGGTAAATCATCACAATATTGG-AAGACAATTATTGTCA-AAAATGATTATAAGATAAT
*
4481154 GTCAAACG
193 GTCAAACT
* * * * *
4481162 TGACTATAAAATCAAACATCACATTATGCTTTATATTTGGTGACGTTA-ATTTCATTAGCTATTT
1 TGACAATAAAATCAAACATCACCTTATGCTTTAT-TTTTGTGACGTTAGTTTTCATCAGCTATTT
* * *
4481226 ATGAAAAAATG--T-CATTAAAGGTTATAATTGTCACAAAATAAATGATTAAATTTGATATATTA
65 AT-AAAAAA-GAATACATTAAAGGTTATAATCGTCACAAAATAAATGATAAAATCTGATATATTA
*
4481288 ATGAAAAAAGGTAAATCATCACAATATTG
128 ATGACAAAAGGTAAATCATCACAATATTG
4481317 ATGACATAAT
Statistics
Matches: 462, Mismatches: 74, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
196 24 0.05
198 2 0.00
199 5 0.01
200 28 0.06
201 189 0.41
202 81 0.18
203 112 0.24
204 20 0.04
205 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (200 bp):
TGACAATAAAATCAAACATCACCTTATGCTTTATTTTTGTGACGTTAGTTTTCATCAGCTATTTA
TAAAAAAGAATACATTAAAGGTTATAATCGTCACAAAATAAATGATAAAATCTGATATATTAATG
ACAAAAGGTAAATCATCACAATATTGGAAGACAATTATTGTCAAAAATGATTATAAGATAATGTC
AAACT
Found at i:4481576 original size:12 final size:12
Alignment explanation
Indices: 4481559--4481585 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4481549 TTGTAAATTT
4481559 TTTTATTTCAGA
1 TTTTATTTCAGA
4481571 TTTTATTTCAGA
1 TTTTATTTCAGA
4481583 TTT
1 TTT
4481586 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTTATTTCAGA
Found at i:4483915 original size:119 final size:114
Alignment explanation
Indices: 4483726--4484183 Score: 462
Period size: 119 Copynumber: 3.9 Consensus size: 114
4483716 AAATTCTCGA
4483726 GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGCTTTCCAAAAAAAATATTTTTGAGGAA
1 GAAAAA-TTGAAAGTATCAATTTTCCTTAAAAATAAAG-TTT-C-AAAAAAATATTTTTGAGGAA
* *
4483790 AAGTTGAAAGTATCAATATTTCTTGAAAATAAGCTTTCCAAAAAATATTTTTTAG
62 AAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TTTTCAAAAAATA-TTTTTAG
* * *
4483845 GAAAAATTAAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATTTTTTTTTGAGGAAA
1 GAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC-AAAAAAA--TATTTTTGAGGAAA
* * * *
4483910 AGTTGAAAATATCAATTTTTC-TCAAAATTAAAGTTTTCAATAAATATTTTTGG
63 AGTTGAAAGTATCAATTTTTCTTGAAAA-T-AAGTTTTCAAAAAATATTTTTAG
* * * * *
4483963 GAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAGTTTC-CAAAAATATTTTTGGGGAAAAG
1 GAAAAATTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTCAAAAAAATATTTTTGAGGAAAAG
* * *
4484026 TTGAAAGTATC-ATTTTTCCTTAAAAATAAATTTTCAAAAAA-AGGTTTTGAG
65 TTGAAAGTATCAATTTTT-CTTGAAAATAAGTTTTCAAAAAATA--TTTTTAG
* * * * * *
4484077 GAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAGTTTCTAAAAAATGGATTTTTTTGAGGAA
1 GAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC-AAAAAA---ATATTTTTGAGGAA
* *
4484142 AAGTTGAAAGCATCAATTTTTCTT-AGAAACAAGTTTTCAAAA
62 AAGTTGAAAGTATCAATTTTTCTTGA-AAATAAGTTTTCAAAA
4484184 GTTTCTAAAA
Statistics
Matches: 291, Mismatches: 30, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
112 1 0.00
113 18 0.06
114 67 0.23
115 8 0.03
116 9 0.03
117 12 0.04
118 73 0.25
119 94 0.32
120 9 0.03
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (114 bp):
GAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAATATTTTTGAGGAAAAGT
TGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCAAAAAATATTTTTAG
Found at i:4483980 original size:57 final size:58
Alignment explanation
Indices: 4483728--4484183 Score: 466
Period size: 57 Copynumber: 7.8 Consensus size: 58
4483718 ATTCTCGAGA
* *
4483728 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGCTTTCCAAAAAAAATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAG-TTTTC--AAAAAATATTTTTGAGG
* * * *
4483788 AAAAGTTGAAAGTATCAATATTTCTTGAAAAT-AAGCTTTCCAAAAAATATTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAG-TTTTCAAAAAATATTTTTGAGG
* * * *
4483846 AAAAATTAAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAATTTTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTC--AAAAAA--TATTTTTGAGG
* * * *
4483907 AAAAGTTGAAAATATCAATTTTTCTCAAAATTAAAGTTTTCAATAAATATTTTTG-GG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAATATTTTTGAGG
* * * *
4483964 AAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAG-TTTCCAAAAATATTTTTGGGG
1 AAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAGTTTTCAAAAAATATTTTTGAGG
*
4484021 AAAAGTTGAAAGTATC-ATTTTTCCTTAAAAATAAA-TTTTCAAAAAA-AGGTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTT-CTTAAAAATAAAGTTTTCAAAAAATA-TTTTTGAGG
* * *
4484078 AAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAG-TTTCTAAAAAATGGATTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTC-AAAAAAT--A--TTTTTGAGG
* * *
4484140 AAAAGTTGAAAGCATCAATTTTTCTTAGAAA-CAAGTTTTCAAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAA
4484184 GTTTCTAAAA
Statistics
Matches: 335, Mismatches: 41, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
56 24 0.07
57 106 0.32
58 65 0.19
59 8 0.02
60 43 0.13
61 46 0.14
62 43 0.13
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAATATTTTTGAGG
Found at i:4484138 original size:233 final size:234
Alignment explanation
Indices: 4483728--4484164 Score: 573
Period size: 233 Copynumber: 1.9 Consensus size: 234
4483718 ATTCTCGAGA
4483728 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCCAAAAAAAATATTTTTGAGGAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCC--AAAAAATATTTTTGAGGAAAAG
* * * *
4483793 TTGAAAGTATCAATATTTCTTGAAAATAAGCTTTCCAAAAAATATTTTTTAGGAAAAATTAAAAG
64 TTGAAAGTATCAATATTTCTTAAAAATAAGATTTCCAAAAAATAGTTTTGAGGAAAAATTAAAAG
* * *
4483858 TATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAATATC
129 TATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAAATATTTTTTTGAGGAAAAGTTGAAAACATC
4483923 AATTTTTCTCAAAATTAAAGTTTTCAATAAATATTTTTGGG
194 AATTTTTCTCAAAATTAAAGTTTTCAATAAATATTTTTGGG
* * *
4483964 AAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAG-TTTCC-AAAAATATTTTTGGGGAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAGCTTTCCAAAAAATATTTTTGAGGAAAAG
* * * *
4484026 TTGAAAGTATC-ATTTTTCCTTAAAAATAA-ATTTTCAAAAAA-AGGTTTTGAGGAAAAGTTGAA
64 TTGAAAGTATCAATATTT-CTTAAAAATAAGATTTCCAAAAAATA-GTTTTGAGGAAAAATTAAA
* * * * * *
4484088 AGTATTAATTTTTCTTGAAATTAAAGTTTC-TAAAAAATGGATTTTTTTGAGGAAAAGTTGAAAG
127 AGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAAAT--ATTTTTTTGAGGAAAAGTTGAAAA
4484152 CATCAATTTTTCT
190 CATCAATTTTTCT
4484165 TAGAAACAAG
Statistics
Matches: 175, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
231 8 0.05
232 55 0.31
233 75 0.43
235 3 0.02
236 31 0.18
237 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (234 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCCAAAAAATATTTTTGAGGAAAAGTT
GAAAGTATCAATATTTCTTAAAAATAAGATTTCCAAAAAATAGTTTTGAGGAAAAATTAAAAGTA
TCAATTTTCCTTAAAAATAAAGTTTCAAAAAAAATATTTTTTTGAGGAAAAGTTGAAAACATCAA
TTTTTCTCAAAATTAAAGTTTTCAATAAATATTTTTGGG
Found at i:4488168 original size:20 final size:19
Alignment explanation
Indices: 4488127--4488221 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 19
4488117 ACAATGGATG
4488127 AAAAATGAGGAAAAAGAAA
1 AAAAATGAGGAAAAAGAAA
*
4488146 AAAAGATGATG-AAAA-AAA
1 AAAA-ATGAGGAAAAAGAAA
* *
4488164 TAAAA--A--AAATA-AAA
1 AAAAATGAGGAAAAAGAAA
*
4488178 AAAAATGAAAGAAAGAAGAAA
1 AAAAATG-AGGAAA-AAGAAA
4488199 AAAAATGA--AAAAATGAAA
1 AAAAATGAGGAAAAA-GAAA
4488217 AAAAA
1 AAAAA
4488222 AATCAAATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
17 4 0.07
18 18 0.30
19 11 0.18
20 7 0.11
21 10 0.16
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (19 bp):
AAAAATGAGGAAAAAGAAA
Found at i:4488172 original size:31 final size:31
Alignment explanation
Indices: 4488137--4488211 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
4488127 AAAAATGAGG
* *
4488137 AAAAAGAAAAAAAGATGATGAA-AAA-AATAAA
1 AAAAAGAAAAAAAAATGA--AAGAAAGAAGAAA
*
4488168 AAAAATAAAAAAAAATGAAAGAAAGAAGAAA
1 AAAAAGAAAAAAAAATGAAAGAAAGAAGAAA
4488199 AAAAATGAAAAAA
1 AAAAA-GAAAAAA
4488212 TGAAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.05
30 3 0.08
31 26 0.70
32 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (31 bp):
AAAAAGAAAAAAAAATGAAAGAAAGAAGAAA
Found at i:4488776 original size:20 final size:19
Alignment explanation
Indices: 4488748--4488786 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4488738 TGTGACCAAG
* *
4488748 TGGAGAATATAATGATAGAT
1 TGGACAATAAAATGA-AGAT
4488768 TGGACAATAAAATGAAGAT
1 TGGACAATAAAATGAAGAT
4488787 GAGGCAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.03, G:0.23, T:0.26
Consensus pattern (19 bp):
TGGACAATAAAATGAAGAT
Found at i:4490010 original size:42 final size:41
Alignment explanation
Indices: 4489947--4490098 Score: 164
Period size: 42 Copynumber: 3.7 Consensus size: 41
4489937 ATGATTGTTA
* * *
4489947 AGGAGTAATTTATTTTCCAAAGTCGTGGTTGCCTTTATTTAG
1 AGGAGCAATTTATTTT-CAAAGTCATGGTTGCCTCTATTTAG
* *
4489989 AGGAGCAATTTACTTTTCAAAGTCATGTTTGTCTCTATTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCATGGTTGCCTCTATTTAG
* ** **
4490031 ATGAGCAATTTATTTTTCAAAGTTGTGG-TGCCTCTGCTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCATGGTTGCCTCTATTTAG
*
4490072 AGGAGC-ATTTATTTTTAAAGTCATGGT
1 AGGAGCAATTTATTTTCAAAGTCATGGT
4490099 GCTTCTGCTA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 12 0.13
40 5 0.05
41 15 0.16
42 55 0.60
43 4 0.04
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCAAAGTCATGGTTGCCTCTATTTAG
Found at i:4490226 original size:11 final size:11
Alignment explanation
Indices: 4490207--4490241 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
4490197 AGCTTTGATC
*
4490207 AAAATTTAAAA
1 AAAAATTAAAA
4490218 AAAAATTAAAA
1 AAAAATTAAAA
4490229 AAAAA-TAAAA
1 AAAAATTAAAA
4490239 AAA
1 AAA
4490242 TTTACCTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATTAAAA
Found at i:4490445 original size:43 final size:43
Alignment explanation
Indices: 4490355--4490446 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
4490345 TATTTAGAAG
* * *
4490355 AGCTTTGTTTAATCTTCAAAATCGTTGAGCCTCTGATTAGAGG
1 AGCTTTATTTAATCTTCAAAATCGTTGAGCCTCTGATTAAAGA
* * * *
4490398 AGCTTTATTTATTTTTCAAAGTCGTTGAGCTTCT-ACTTAAAGA
1 AGCTTTATTTAATCTTCAAAATCGTTGAGCCTCTGA-TTAAAGA
4490441 AGCTTT
1 AGCTTT
4490447 GATCAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (43 bp):
AGCTTTATTTAATCTTCAAAATCGTTGAGCCTCTGATTAAAGA
Found at i:4490527 original size:88 final size:88
Alignment explanation
Indices: 4490391--4490556 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 88
4490381 GAGCCTCTGA
* * *
4490391 TTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCTTCTACTTAAAGAAGCTTTGATCAAAA-
1 TTAGAGGAACTTTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGAAGCTTTGATCAAAAT
4490455 TTAAAAAA-AAAATTACCTCTAT
66 TTAAAAAATAAAATTACCTCTAT
* * * * *
4490477 TTAGAGGAACTTTGTTTATGTTTCTCAAAGTTATTGAGCCTCTGCTTAAAGGAGTTTTGATCAAA
1 TTAGAGGAACTTTATTTAT-TTT-TCAAAGTCATTGAGCCTCTACTTAAAGAAGCTTTGATCAAA
4490542 ATTTAAAAAATAAAA
64 ATTTAAAAAATAAAA
4490557 AAAACAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 17 0.25
87 3 0.04
88 36 0.53
89 8 0.12
90 4 0.06
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (88 bp):
TTAGAGGAACTTTATTTATTTTTCAAAGTCATTGAGCCTCTACTTAAAGAAGCTTTGATCAAAAT
TTAAAAAATAAAATTACCTCTAT
Found at i:4490582 original size:102 final size:104
Alignment explanation
Indices: 4490459--4490661 Score: 302
Period size: 103 Copynumber: 2.0 Consensus size: 104
4490449 TCAAAATTAA
* *
4490459 AAAAAAAATTACCTCTATTTAGAGGAACTTTGTTTATGTTTCTC-AAAGTTATTGAGCCTCTGCT
1 AAAAAAAATTACCTCTATTTAGAGGAACTTTGTTTATGGTTCTCAAAAGTCATTGAGCCTCTGCT
* *
4490523 TAAAGGAGTTTTGATCAAAATTTAAAAAATAAAAAAAAC
66 TAAAGGAGCTTTGATCAAAATTTAAAAAACAAAAAAAAC
* * * * *
4490562 AAAAAAAA-TACCTCTGTTTAGAGGAGCTTTGTTTATGGTTGTCAAAAGTCGTTGAGCCTCTGTT
1 AAAAAAAATTACCTCTATTTAGAGGAACTTTGTTTATGGTTCTCAAAAGTCATTGAGCCTCTGCT
*
4490626 TAGAGGAGCTTTGATCAAAATTTAAAAAACAAAAAA
66 TAAAGGAGCTTTGATCAAAATTTAAAAAACAAAAAA
4490662 TCCAATTGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 31 0.35
103 58 0.65
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (104 bp):
AAAAAAAATTACCTCTATTTAGAGGAACTTTGTTTATGGTTCTCAAAAGTCATTGAGCCTCTGCT
TAAAGGAGCTTTGATCAAAATTTAAAAAACAAAAAAAAC
Found at i:4493081 original size:61 final size:60
Alignment explanation
Indices: 4492948--4493359 Score: 415
Period size: 61 Copynumber: 6.8 Consensus size: 60
4492938 AAAATAATAA
* * * *
4492948 TTTCAAAAAAAAAATATTCTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
1 TTTC-AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
* *
4493009 TTTCCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCT
1 TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-T
* * *
4493070 TTTCAAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
** * * * * *
4493130 TTTCAAAAAATATTTTTTTTTGAGGAAAAGTTGAAAGTATTACTTTTCCTCGAAATTAAAGT
1 TTTCAAAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGT
* * * * * *
4493192 TTTC---AAAAAATATTTTTG-GAGAGAAGTTGAAAGTGTTAATTTTGCTTAAAAATAAAT
1 TTTCAAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
** * * *
4493249 TTTC--AAAAAAA-GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAGATTAAAGT
1 TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGT
* * * * *
4493307 TTCCAAAAAATAGATTTTATTTTAGTAAAAGTTGAAAGTATCAATTTTCCTTG
1 TTTCAAAAAA-AAATATT-TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4493360 CACAAAAGTA
Statistics
Matches: 290, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
57 39 0.13
58 47 0.16
59 3 0.01
60 65 0.22
61 97 0.33
62 8 0.03
63 31 0.11
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.37
Consensus pattern (60 bp):
TTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT
Found at i:4495392 original size:6 final size:6
Alignment explanation
Indices: 4495383--4495416 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4495373 CATGTACATC
4495383 TATATG TATATG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATA
4495417 CATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:4495395 original size:18 final size:18
Alignment explanation
Indices: 4495374--4495414 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4495364 ACATATATAC
4495374 ATGTACATCTATATGTAT
1 ATGTACATCTATATGTAT
* *
4495392 ATGTATATGTATATGTAT
1 ATGTACATCTATATGTAT
4495410 ATGTA
1 ATGTA
4495415 TACATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (18 bp):
ATGTACATCTATATGTAT
Found at i:4495422 original size:18 final size:18
Alignment explanation
Indices: 4495383--4495423 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4495373 CATGTACATC
**
4495383 TATATGTATATGTATATG
1 TATATGTATATGTATACA
4495401 TATATGTATATGTATACA
1 TATATGTATATGTATACA
4495419 TATAT
1 TATAT
4495424 ATAAATTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (18 bp):
TATATGTATATGTATACA
Found at i:4498433 original size:87 final size:87
Alignment explanation
Indices: 4498294--4498462 Score: 302
Period size: 87 Copynumber: 1.9 Consensus size: 87
4498284 ATCTACATCC
* *
4498294 GATTCAACCTATGATCCCATTATTACAATTTTGCTAGTAGCAATAAGAATTCTAATAAAATAGTC
1 GATTCAACCTATGATCCCATTATTACAATCTTGATAGTAGCAATAAGAATTCTAATAAAATAGTC
*
4498359 AATTATCGTCTTATATACATTT
66 AATTATCATCTTATATACATTT
*
4498381 GATTCAACCTATGATCCCATTATTACAATCTTGATAGTAGCAATAAGAATTCTAATAAATTAGTC
1 GATTCAACCTATGATCCCATTATTACAATCTTGATAGTAGCAATAAGAATTCTAATAAAATAGTC
4498446 AATTATCATCTTATATA
66 AATTATCATCTTATATA
4498463 AATTGGTGTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (87 bp):
GATTCAACCTATGATCCCATTATTACAATCTTGATAGTAGCAATAAGAATTCTAATAAAATAGTC
AATTATCATCTTATATACATTT
Found at i:4499512 original size:236 final size:234
Alignment explanation
Indices: 4499069--4500004 Score: 985
Period size: 236 Copynumber: 4.0 Consensus size: 234
4499059 TTACTTGGCA
* * * * * * *
4499069 GTAAAAGTTTGTTATATTTATGTTATTGTCATATAACACCAAATATTGATATGACAAAATTATAA
1 GTAAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTAATGTGACAAAATTACAA
* * * * *
4499134 TGTCATTAATAGTTAACTAAAGTATTCAATCTATGACAAAATTAATAA---CATC-AAAATTTAT
66 TGTCATTAATAGTTAACTAAAGTATTCAATTTGTGAAAAAATTAATAACGTCACCTAAAATCTAT
* *
4499195 TAGAAAAAATTTATCACAGATAAAATTTTAAATT-GATGACAAAATTATAATGTCACTTAAAATA
131 TAAAAAAAATTCATCACAGATAAAATTTTAAATTAG-TGACAAAATTATAATGTCACTTAAAATA
* * * **
4499259 AAAAATCTCATAAAAAAATTTCTCATTAAATAAATTTGGTG
195 AAAAA-ATCACAAAAAAATTTTTCACCAAATAAATTTGGTG
* * * *
4499300 GTAAAAATTTGTGAGATTTATGTTATTGTCATATAACATCATACATTAATGTGACAAAATTGCAA
1 GTAAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTAATGTGACAAAATTACAA
* * * * *
4499365 TATCATTAATACTTAACTAAGGTATTCAATTTGTGATAAAAATTAATAATGCCACCTAAAATCTA
66 TGTCATTAATAGTTAACTAAAGTATTCAATTTGTGA-AAAAATTAATAACGTCACCTAAAATCTA
* * ** *
4499430 TCAAAAAAAATTCGTCACAGATAAAATTTTAAGGTAGTGACAAAATTATAATGTCACTTCAAATA
130 TTAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAATGTCACTTAAAATA
* * *
4499495 AAAAAAGTCACAAAAAAATTTTTCACCAAATAAAATTGATA
195 AAAAAA-TCACAAAAAAATTTTTCACCAAATAAATTTGGTG
* * * * * * * *
4499536 GTAAAAGTTTATGACATTTATGTTCTTATCATATAATACCATAAAATAAAGGTGACAAAATTGCA
1 GTAAAAGTTTGTGACATTTATGTTATTGTCATATAACACCAT-ACATTAATGTGACAAAATTACA
* * *
4499601 ATGTCATTAATAGTTAACTAAAGTGTTTC-ATTTGTGAAAAAAAATTGATAACGTCACTTAAAAT
65 ATGTCATTAATAGTTAACTAAAGT-ATTCAATTTGTG--AAAAAATTAATAACGTCACCTAAAAT
* **
4499665 CTATT-AAAAAAA-TCATCACAAATAAAATTTTAAATTAGTGACAAAATT-TAAACATCA-TATA
127 CTATTAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTAT-AATGTCACT-TA
* * *
4499726 AAATAAAAACATCACAAAAAAATTTTTTACCAAATAATTTTGGTG
190 AAATAAAAAAATCACAAAAAAATTTTTCACCAAATAAATTTGGTG
* * * * * * * *
4499771 GTAAAAGTTTGTGACATTTTTATTATCGTCATATACCATCATACATTGACGTGATAAAATTACAA
1 GTAAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTAATGTGACAAAATTACAA
* * * * * * *
4499836 TGTTATTCATAATTAACTAAAGTGTTCAATTTGTGACAAAAATTAACAACATCACTTAAAATCTA
66 TGTCATTAATAGTTAACTAAAGTATTCAATTTGTGA-AAAAATTAATAACGTCACCTAAAATCTA
** * * * * * *
4499901 TTAGGAAAAATTCATCATAGATAAAATTTTAAATTGGTAATAAAATTATAATGTCACCTAAAAGA
130 TTAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAATGTCACTTAAAATA
*
4499966 AAAAACATCACAAAAATA-TTTTCGACCAAATAAATTTGG
195 AAAAA-ATCACAAAAAAATTTTTC-ACCAAATAAATTTGG
4500005 CAGCAAGATT
Statistics
Matches: 582, Mismatches: 102, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
231 86 0.15
232 12 0.02
233 30 0.05
234 49 0.08
235 117 0.20
236 204 0.35
237 55 0.09
238 28 0.05
239 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (234 bp):
GTAAAAGTTTGTGACATTTATGTTATTGTCATATAACACCATACATTAATGTGACAAAATTACAA
TGTCATTAATAGTTAACTAAAGTATTCAATTTGTGAAAAAATTAATAACGTCACCTAAAATCTAT
TAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAATGTCACTTAAAATAA
AAAAATCACAAAAAAATTTTTCACCAAATAAATTTGGTG
Found at i:4502895 original size:140 final size:141
Alignment explanation
Indices: 4502634--4502913 Score: 375
Period size: 140 Copynumber: 2.0 Consensus size: 141
4502624 TGTATGGGAG
* * *
4502634 ACACTAAGAATGGAAGAAAACTTCATTACATAAACTAGCACATTATCACCAAATCAAAAAAAGAT
1 ACACTAAGAATGAAAGAAAACTTCAGTACATAAACTAGCACATCATCACCAAATCAAAAAAAGAT
* * * * *
4502699 ATAGGCCTTGGTATTAAACATTATATGCCTCAAAACTTAGCCCTCCTTACTAAACTTAGCTAGAG
66 AGAAGCCTTGGTATTAAACATTATAAGCCCCAAAACATAGCCCTCCTTACTAAACTTAGCTAGAG
4502764 ACTATTACATC
131 ACTATTACATC
* * * *
4502775 ACACTAAGAATAGAAAG-AAACTTCAGTGCATAAACTAGCACATCATCTCTAAATC-AAAAAGGA
1 ACACTAAGAAT-GAAAGAAAACTTCAGTACATAAACTAGCACATCATCACCAAATCAAAAAAAGA
* * * * *
4502838 TAGAAGCCTTGGTATTAAACGTTCTAAGCCCCAAAACATGGCCCTCCTTACTAAACTTAGTTGGA
65 TAGAAGCCTTGGTATTAAACATTATAAGCCCCAAAACATAGCCCTCCTTACTAAACTTAGCTAGA
*
4502903 GATTATTACAT
130 GACTATTACAT
4502914 TAACCTAATG
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
140 72 0.60
141 44 0.37
142 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (141 bp):
ACACTAAGAATGAAAGAAAACTTCAGTACATAAACTAGCACATCATCACCAAATCAAAAAAAGAT
AGAAGCCTTGGTATTAAACATTATAAGCCCCAAAACATAGCCCTCCTTACTAAACTTAGCTAGAG
ACTATTACATC
Found at i:4508521 original size:129 final size:129
Alignment explanation
Indices: 4508342--4508587 Score: 377
Period size: 129 Copynumber: 1.9 Consensus size: 129
4508332 GATGAGCCAG
* * * *
4508342 ATACAATTAGTTTTAAGCAAAGATAGCAATCTTTTTTACCTTAGAATGTTAAACAGAGTAAGCAG
1 ATACAATTAATTTTAAGCAAAGATAGCAATCTTCTTTACCTGAGAATGTTAAACAGAATAAGCAG
* **
4508407 TCCTCTCTACCAGAGAGTATTGAGTA-AGGGTAGCTACCTTTGAAATCAAGTAATGATTAGCCGA
66 TCCTCTATACCAGAGAGTATTGAGTACA-GGTAGCTACCTTCAAAATCAAGTAATGATTAGCCGA
* * * *
4508471 ATACAATTAATTTTAAGCAAAGGTAGCAATCTTCTTTACCTGAGAGTGTTAAACAGAATGAGTAG
1 ATACAATTAATTTTAAGCAAAGATAGCAATCTTCTTTACCTGAGAATGTTAAACAGAATAAGCAG
4508536 TCCTCTATACCAGAGAGTATTGAGTACAGGTAGCTACCTTCAAAATCAAGTA
66 TCCTCTATACCAGAGAGTATTGAGTACAGGTAGCTACCTTCAAAATCAAGTA
4508588 GTGAAGAGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 104 0.99
130 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (129 bp):
ATACAATTAATTTTAAGCAAAGATAGCAATCTTCTTTACCTGAGAATGTTAAACAGAATAAGCAG
TCCTCTATACCAGAGAGTATTGAGTACAGGTAGCTACCTTCAAAATCAAGTAATGATTAGCCGA
Found at i:4509489 original size:7 final size:7
Alignment explanation
Indices: 4509476--4509510 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4509466 TTTAATATGT
4509476 AACATGC
1 AACATGC
*
4509483 GACATGC
1 AACATGC
*
4509490 GACATGC
1 AACATGC
4509497 AACATGC
1 AACATGC
4509504 AACATGC
1 AACATGC
4509511 TAAATAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.37, C:0.29, G:0.20, T:0.14
Consensus pattern (7 bp):
AACATGC
Found at i:4509942 original size:21 final size:22
Alignment explanation
Indices: 4509903--4509952 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4509893 TTGAGTTCGC
*
4509903 TATTTTGTTTTGTTCTTTATTT
1 TATTTTGTTTTCTTCTTTATTT
*
4509925 TATTTTTTTTTCTT-TTTATTT
1 TATTTTGTTTTCTTCTTTATTT
4509946 TGATTTT
1 T-ATTTT
4509953 ATAATTTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (22 bp):
TATTTTGTTTTCTTCTTTATTT
Found at i:4511094 original size:13 final size:14
Alignment explanation
Indices: 4511078--4511117 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
4511068 TTTTTTTTCA
4511078 TTTTT-TAT-TTAT
1 TTTTTATATATTAT
4511090 TTTTTATATATTAT
1 TTTTTATATATTAT
*
4511104 TTTTAAT-TATTAT
1 TTTTTATATATTAT
4511117 T
1 T
4511118 ATTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 10 0.40
14 10 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATATATTAT
Found at i:4511391 original size:17 final size:15
Alignment explanation
Indices: 4511350--4511397 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 15
4511340 TTTTCTTCTT
4511350 TAAATAATAATAAAA
1 TAAATAATAATAAAA
4511365 TAAATAAATAAATAAAA
1 TAAAT-AAT-AATAAAA
*
4511382 TAGTATAATAATAAAA
1 TA-AATAATAATAAAA
4511398 ATGCTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.17
16 10 0.34
17 12 0.41
18 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAATAATAATAAAA
Found at i:4511564 original size:15 final size:15
Alignment explanation
Indices: 4511522--4511575 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
4511512 AGATGTTGGG
*
4511522 TAATTATTAAA-TAA
1 TAATTAATAAATTAA
4511536 TAA-TAATAAAATTAA
1 TAATTAAT-AAATTAA
4511551 -AAGTTAATAAATTAA
1 TAA-TTAATAAATTAA
4511566 TAATTAATAA
1 TAATTAATAA
4511576 TAAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
15 17 0.50
16 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TAATTAATAAATTAA
Found at i:4511689 original size:7 final size:7
Alignment explanation
Indices: 4511679--4511718 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
4511669 GTAGTTTCTT
4511679 TAAACCC
1 TAAACCC
*
4511686 TAAAACC
1 TAAACCC
*
4511693 AAAACCC
1 TAAACCC
4511700 TAAACCC
1 TAAACCC
*
4511707 TAAACCT
1 TAAACCC
4511714 TAAAC
1 TAAAC
4511719 ATCCAAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:4514033 original size:21 final size:21
Alignment explanation
Indices: 4514007--4514047 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4513997 ATGTGATAAA
4514007 AAAAAAGTGTTTTTCCTTCTC
1 AAAAAAGTGTTTTTCCTTCTC
* * *
4514028 AAAAAATTTTTTTTCTTTCT
1 AAAAAAGTGTTTTTCCTTCT
4514048 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (21 bp):
AAAAAAGTGTTTTTCCTTCTC
Found at i:4516290 original size:55 final size:55
Alignment explanation
Indices: 4516222--4516329 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
4516212 AAAAAGATAT
*
4516222 TTTTGATAATAGAATTCATATCATGCATTTTTTACTTCTAGTAATTAATAAAAGG
1 TTTTGATAATAGAATTCATATCATGCATTTCTTACTTCTAGTAATTAATAAAAGG
*
4516277 TTTTGATAATAGAATTCATATCATGCATTTCTTACTTCTGGTAATTAATAAAA
1 TTTTGATAATAGAATTCATATCATGCATTTCTTACTTCTAGTAATTAATAAAA
4516330 AGTTCAATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (55 bp):
TTTTGATAATAGAATTCATATCATGCATTTCTTACTTCTAGTAATTAATAAAAGG
Found at i:4520332 original size:26 final size:26
Alignment explanation
Indices: 4520303--4520353 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4520293 TCTGTGCATC
4520303 ATGA-AAAGGACATTTGCATGTACATT
1 ATGATAAA-GACATTTGCATGTACATT
* *
4520329 ATGATAAAGACATTTGTATTTACAT
1 ATGATAAAGACATTTGCATGTACAT
4520354 CTACATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
ATGATAAAGACATTTGCATGTACATT
Found at i:4520572 original size:18 final size:18
Alignment explanation
Indices: 4520546--4520589 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4520536 GCATTCTTGT
* *
4520546 ATTCACATTGATATTTGC
1 ATTCGCATTGACATTTGC
*
4520564 ATTCGCATTGACATTTTC
1 ATTCGCATTGACATTTGC
*
4520582 ATTAGCAT
1 ATTCGCAT
4520590 CATTTAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTCGCATTGACATTTGC
Found at i:4521011 original size:22 final size:22
Alignment explanation
Indices: 4520979--4521031 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4520969 AGAATTCGAG
*
4520979 ATTTTTAAGACTTTCGAGCAAA
1 ATTTTTAAGACCTTCGAGCAAA
* *
4521001 ATTTTTGAGACCTTCGAGTAAA
1 ATTTTTAAGACCTTCGAGCAAA
4521023 ATATTTTAA
1 AT-TTTTAA
4521032 ATTTTTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTTTTAAGACCTTCGAGCAAA
Found at i:4521109 original size:105 final size:107
Alignment explanation
Indices: 4520871--4521123 Score: 309
Period size: 105 Copynumber: 2.4 Consensus size: 107
4520861 CCATCCAAAT
* *
4520871 AAATTTTTAAGACCTTCAAGCATAATTTTTAAGACCTTTG-GACAAAACATTTTAAATTTTTAAA
1 AAATTTTTAAGACCTTCGAGCATAATTTTTAAGACCTTCGAGACAAAACATTTTAAATTTTTAAA
* * *
4520935 GTTTTAATGCCTGTAATGTATGAGGAGCATTTAAAGAATTCG
66 GTTTCAATGCCTCTAATGTATGAGGAGCATTCAAAGAATTCG
* * * * * *
4520977 AGATTTTTAAGACTTTCGAGCAAAATTTTTGAGACCTTCGAG-TAAAATATTTTAAATTTTTAAA
1 AAATTTTTAAGACCTTCGAGCATAATTTTTAAGACCTTCGAGACAAAACATTTTAAATTTTTAAA
* * *
4521041 G-TTCGATGCCTCTAATACGT-T-AGGAGCATTCAAAGATTTTG
66 GTTTCAATGCCTCTAAT--GTATGAGGAGCATTCAAAGAATTCG
* *
4521082 AAATTTTTAAGACCTTCGGGCATAATTTTTAAGACCTCCGAG
1 AAATTTTTAAGACCTTCGAGCATAATTTTTAAGACCTTCGAG
4521124 CATAATTACT
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
105 65 0.52
106 56 0.45
107 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (107 bp):
AAATTTTTAAGACCTTCGAGCATAATTTTTAAGACCTTCGAGACAAAACATTTTAAATTTTTAAA
GTTTCAATGCCTCTAATGTATGAGGAGCATTCAAAGAATTCG
Found at i:4521111 original size:22 final size:22
Alignment explanation
Indices: 4521083--4521141 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
4521073 AAGATTTTGA
* *
4521083 AATTTTTAAGACCTTCGGGCAT
1 AATTTTTAAGACCTCCGAGCAT
4521105 AATTTTTAAGACCTCCGAGCAT
1 AATTTTTAAGACCTCCGAGCAT
**
4521127 AATTACTAAGACCTC
1 AATTTTTAAGACCTC
4521142 TAAGTAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (22 bp):
AATTTTTAAGACCTCCGAGCAT
Found at i:4521238 original size:22 final size:22
Alignment explanation
Indices: 4521192--4521249 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4521182 ATGTATGGGG
*
4521192 AAGACTTTCGGGCACAATTTCT
1 AAGACTTTCGGGCACAACTTCT
*
4521214 AAGATTTTCGGGCACAACCTT-T
1 AAGACTTTCGGGCACAA-CTTCT
* *
4521236 AAGACCTCCGGGCA
1 AAGACTTTCGGGCA
4521250 AAAGATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (22 bp):
AAGACTTTCGGGCACAACTTCT
Found at i:4521370 original size:22 final size:21
Alignment explanation
Indices: 4521313--4521371 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
4521303 GATGTTCAGT
*
4521313 TTTTAAGACC-TCTAGGCATAA
1 TTTTAAGACCTTC-GGGCATAA
4521334 TTTCTAAGACCTTCGGGCATAA
1 TTT-TAAGACCTTCGGGCATAA
4521356 TCTTTAAGACCTTCGG
1 T-TTTAAGACCTTCGG
4521372 ACAAAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.09
22 27 0.79
23 4 0.12
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (21 bp):
TTTTAAGACCTTCGGGCATAA
Found at i:4523679 original size:44 final size:44
Alignment explanation
Indices: 4523531--4523813 Score: 274
Period size: 44 Copynumber: 6.5 Consensus size: 44
4523521 CTTTAAACAA
* **
4523531 AAGCTCCACAACTTTCAAAAAAT-AATATGGCTCCTCTAAATAG
1 AAGCTCAACAACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
* * * * * **
4523574 AGGCTTAACGACTTT-AAAAAATAAATAAAGTTTCTCTAAGCA-
1 AAGCTCAACAACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
* * *
4523616 AAGACTGAA-AGAC-TTCAAAAAATAAATAAAGCTCCTTTAAGTAG
1 AAG-CTCAACA-ACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
* * *
4523660 AAGCTCAAAAACTTTCAAAAAATAAATAAAGCTCATCTAAACAG
1 AAGCTCAACAACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
* ** *
4523704 AGGCTCAATGACTTTCAAAAAATAAATAAAGCTCTTCTAAATA-
1 AAGCTCAACAACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
*
4523747 AAGGCTCAACAACTTTCAAAAAATAAAT-AAGACTCCTCTAAATTG
1 AA-GCTCAACAACTTTCAAAAAATAAATAAAG-CTCCTCTAAATAG
* *
4523792 AAACTCAACAACTTTAAAAAAA
1 AAGCTCAACAACTTTCAAAAAA
4523814 ATCATTAAAG
Statistics
Matches: 196, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
42 11 0.06
43 63 0.32
44 120 0.61
45 2 0.01
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (44 bp):
AAGCTCAACAACTTTCAAAAAATAAATAAAGCTCCTCTAAATAG
Found at i:4524883 original size:10 final size:10
Alignment explanation
Indices: 4524850--4524883 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
4524840 CTTTTTTCAT
4524850 TTTTTTTAAA
1 TTTTTTTAAA
4524860 TTTTTTTAAA
1 TTTTTTTAAA
4524870 --TTTTTAAA
1 TTTTTTTAAA
4524878 TTTTTT
1 TTTTTT
4524884 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:4527368 original size:6 final size:6
Alignment explanation
Indices: 4527357--4527440 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
4527347 TTCGAATGGC
* * *
4527357 TTTTAT TTTTAT TTTTAT TATTTA- ATATAT ATTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * **
4527405 TTTAAT TTTT-T TTCTAT TAATAT TTTTAT TATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT
4527441 CTGCTTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
5 7 0.11
6 47 0.75
7 9 0.14
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:4527457 original size:21 final size:20
Alignment explanation
Indices: 4527427--4527474 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4527417 TCTATTAATA
*
4527427 TTTTTA-TTATTTATCTGCTT
1 TTTTTATTTATCTAT-TGCTT
*
4527447 TTTTTATTTATCTATTTCTT
1 TTTTTATTTATCTATTGCTT
4527467 TTATTTAT
1 TT-TTTAT
4527475 CTAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTATTTATCTATTGCTT
Found at i:4527463 original size:34 final size:32
Alignment explanation
Indices: 4527390--4527507 Score: 98
Period size: 34 Copynumber: 3.6 Consensus size: 32
4527380 AATATATATT
* *
4527390 TATTTTTATT-TTTATTTTAATTTTTTTTCTATTAA
1 TATTTTTATTATTTA-TCTAATTTTTTTT-TA-T-C
**
4527425 TATTTTTATTATTTATCTGCTTTTTTTATTTATC
1 TATTTTTATTATTTATCT-AATTTTTT-TTTATC
4527459 TATTTCTT-TTATTTATCTAATTTTTTTTTATC
1 TATTT-TTATTATTTATCTAATTTTTTTTTATC
**
4527491 TATTAATA-TATTTATCT
1 TATTTTTATTATTTATCT
4527508 TTTTATTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
31 10 0.14
32 10 0.14
33 6 0.09
34 15 0.21
35 15 0.21
36 12 0.17
37 2 0.03
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.70
Consensus pattern (32 bp):
TATTTTTATTATTTATCTAATTTTTTTTTATC
Found at i:4527468 original size:17 final size:16
Alignment explanation
Indices: 4527425--4527494 Score: 88
Period size: 17 Copynumber: 4.2 Consensus size: 16
4527415 TTTCTATTAA
4527425 TATTTTTATTATTTATC
1 TATTTTT-TTATTTATC
*
4527442 TGCTTTTTTTATTTATC
1 T-ATTTTTTTATTTATC
4527459 TATTTCTTTTATTTATC
1 TATTT-TTTTATTTATC
*
4527476 TAATTTTTT-TTTATC
1 TATTTTTTTATTTATC
4527491 TATT
1 TATT
4527495 AATATATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.19
16 7 0.15
17 26 0.55
18 5 0.11
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (16 bp):
TATTTTTTTATTTATC
Found at i:4527913 original size:12 final size:12
Alignment explanation
Indices: 4527896--4527979 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 12
4527886 TTAATGTTCT
4527896 TTTATTTTTATC
1 TTTATTTTTATC
*
4527908 TTTA-TTTTATT
1 TTTATTTTTATC
*
4527919 TTTATTTTTATT
1 TTTATTTTTATC
4527931 TTTA-TTTTA-C
1 TTTATTTTTATC
4527941 TTT-TTTTTATC
1 TTTATTTTTATC
*
4527952 TTTATTTTCA-C
1 TTTATTTTTATC
4527963 TTT-TATTTTAT-
1 TTTAT-TTTTATC
4527974 TTTATT
1 TTTATT
4527980 ATTTTATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.15
11 31 0.51
12 21 0.34
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:4527915 original size:17 final size:16
Alignment explanation
Indices: 4527895--4527989 Score: 93
Period size: 17 Copynumber: 5.6 Consensus size: 16
4527885 TTTAATGTTC
*
4527895 TTTTATTTTTATCTTTA
1 TTTTA-TTTTATTTTTA
4527912 TTTTATTTTTATTTTTA
1 TTTTA-TTTTATTTTTA
*
4527929 TTTTTATTTTACTTTT-
1 -TTTTATTTTATTTTTA
*
4527945 TTTTATCTTTATTTTCA
1 TTTTAT-TTTATTTTTA
4527962 CTTTTATTTTATTTTATTA
1 -TTTTATTTTA-TTT-TTA
4527981 TTTTATTTT
1 TTTTATTTT
4527990 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
15 6 0.09
16 7 0.10
17 29 0.43
18 23 0.34
19 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:4527916 original size:5 final size:5
Alignment explanation
Indices: 4527895--4527989 Score: 88
Period size: 6 Copynumber: 17.8 Consensus size: 5
4527885 TTTAATGTTC
4527895 TTTTA TTTTTA TCTTTA TTTTA TTTTTA TTTTTA TTTTTA TTTTA CTTTT-
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA -TTTTA -TTTTA TTTTA -TTTTA
4527945 TTTTA TCTTTA TTTTCA CTTTTA TTTTA TTTTA --TTA TTTTA TTTT
1 TTTTA T-TTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4527990 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 0, Indels: 19
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 31 0.39
6 38 0.47
7 4 0.05
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4527994 original size:17 final size:16
Alignment explanation
Indices: 4527912--4527993 Score: 64
Period size: 16 Copynumber: 5.1 Consensus size: 16
4527902 TTTATCTTTA
*
4527912 TTTTATTTTTATTTTTAT
1 TTTTA-TTTTA-TTTTCT
*
4527930 TTTTATTTTACTTT-T
1 TTTTATTTTATTTTCT
*
4527945 TTTTATCTTTATTTTCAC
1 TTTTAT-TTTATTTTC-T
4527963 TTTTATTTTA--TT-T
1 TTTTATTTTATTTTCT
*
4527976 TATTATTTTATTTTCT
1 TTTTATTTTATTTTCT
4527992 TT
1 TT
4527994 AAATAAAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
13 9 0.17
15 11 0.21
16 12 0.23
17 9 0.17
18 11 0.21
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTCT
Found at i:4528212 original size:56 final size:57
Alignment explanation
Indices: 4528014--4528279 Score: 247
Period size: 56 Copynumber: 4.6 Consensus size: 57
4528004 TAAAAATATA
* *
4528014 TTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
1 TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCTAAAAAAG
* * * * *
4528071 TTTTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAATA
1 -----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTTTCTAAAAAA-G
* ** * *
4528135 TTTTTCAAAAAAAGTTGAAAGTATCAATTTTTCTTTAAAAT-AATTTT-TAAAAAAGG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCTAAAAAA-G
* *
4528191 TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAGTTTTC--AAAAA-
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAA-TTTTCTAAAAAAG
* *
4528246 TATTTTGGGGAAAAGTTGAAAGTATCAATCTTCC
1 T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
4528280 CTGCACAAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.01
56 70 0.41
57 11 0.06
58 6 0.03
59 35 0.20
62 37 0.22
63 12 0.07
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (57 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTCTAAAAAAG
Found at i:4532200 original size:11 final size:11
Alignment explanation
Indices: 4532186--4532233 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
4532176 AAAATGGATG
4532186 AAAAATGAGAA
1 AAAAATGAGAA
*
4532197 AAAAATGATAA
1 AAAAATGAGAA
**
4532208 AAAAAAAAGAA
1 AAAAATGAGAA
4532219 AAAAA-GAGAA
1 AAAAATGAGAA
4532229 AAAAA
1 AAAAA
4532234 GAAAGAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (11 bp):
AAAAATGAGAA
Found at i:4532213 original size:13 final size:12
Alignment explanation
Indices: 4532195--4532269 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
4532185 GAAAAATGAG
*
4532195 AAAAAAATGATAA
1 AAAAAAAAGA-AA
4532208 AAAAAAAAGAAA
1 AAAAAAAAGAAA
4532220 AAAAGAGAAA-AAA
1 AAAA-A-AAAGAAA
*
4532233 AGAAAGAAAGAAGA
1 A-AAAAAAAGAA-A
*
4532247 AAAAATAAGAAA
1 AAAAAAAAGAAA
*
4532259 ATGAAAAAAGA
1 A-AAAAAAAGA
4532270 GATATTCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
12 11 0.22
13 31 0.62
14 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:4532220 original size:21 final size:20
Alignment explanation
Indices: 4532196--4532269 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 20
4532186 AAAAATGAGA
*
4532196 AAAAAATGATAAAAAAAAAAG
1 AAAAAA-GAAAAAAAAAAAAG
*
4532217 AAAAAAAGAGAAAAAAAGAAAG
1 -AAAAAAGA-AAAAAAAAAAAG
*
4532239 AAAGAAGAAAAAATAAGAAAATG
1 AAAAAAGAAAAAA-AA-AAAA-G
4532262 AAAAAAGA
1 AAAAAAGA
4532270 GATATTCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.12
21 11 0.26
22 19 0.44
23 8 0.19
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAAAG
Found at i:4532232 original size:18 final size:19
Alignment explanation
Indices: 4532209--4532251 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
4532199 AAATGATAAA
4532209 AAAAAAAGAAAAAAAG-AG
1 AAAAAAAGAAAAAAAGAAG
*
4532227 AAAAAAAGAAAGAAAGAAG
1 AAAAAAAGAAAAAAAGAAG
4532246 AAAAAA
1 AAAAAA
4532252 TAAGAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAGAAG
Found at i:4532267 original size:8 final size:7
Alignment explanation
Indices: 4532196--4532269 Score: 53
Period size: 8 Copynumber: 10.1 Consensus size: 7
4532186 AAAAATGAGA
4532196 AAAAAATG
1 AAAAAA-G
*
4532204 ATAAAA-
1 AAAAAAG
4532210 AAAAAAG
1 AAAAAAG
4532217 AAAAAAAG
1 -AAAAAAG
4532225 AGAAAAA-
1 A-AAAAAG
*
4532232 AAGAAAG
1 AAAAAAG
*
4532239 AAAGAAG
1 AAAAAAG
*
4532246 AAAAAAT
1 AAAAAAG
4532253 AAGAAAATG
1 AA-AAAA-G
4532262 AAAAAAG
1 AAAAAAG
4532269 A
1 A
4532270 GATATTCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
6 9 0.17
7 16 0.31
8 25 0.48
9 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:4532267 original size:18 final size:18
Alignment explanation
Indices: 4532198--4532267 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
4532188 AAATGAGAAA
4532198 AAAATGATAAAAAAAAAAG
1 AAAATGA-AAAAAAAAAAG
4532217 AAAA--AAAGAGAAAAAAAG
1 AAAATGAAA-A-AAAAAAAG
* *
4532235 AAAGAAAGAAGAAAAAATAAG
1 -AA-AATGAA-AAAAAAAAAG
4532256 AAAATGAAAAAA
1 AAAATGAAAAAA
4532268 GAGATATTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 12 0.29
19 11 0.26
20 4 0.10
21 7 0.17
22 3 0.07
23 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAATGAAAAAAAAAAAG
Found at i:4533440 original size:22 final size:22
Alignment explanation
Indices: 4533394--4533440 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4533384 TTTAGAACCC
**
4533394 AAATGAGAATCTTTGAGTTTCA
1 AAATGAGAATCTTTGAGAGTCA
4533416 AAATGAGAATCTTTGAAGAGT-A
1 AAATGAGAATCTTTG-AGAGTCA
4533438 AAA
1 AAA
4533441 CCCTAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGAGTCA
Found at i:4533662 original size:42 final size:42
Alignment explanation
Indices: 4533616--4533696 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
4533606 GCCTTTGAAC
*
4533616 TCAAATGAAAAGCTATGA-ATTTTT-GATGTGAATTTCCAAAAT
1 TCAAATGAAAAGCT-TGAGATTTTTGGATATGAA-TTCCAAAAT
*
4533658 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTGAGATTTTTGGATATGAATTCCAA
4533697 GTTTGCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 26 0.74
43 7 0.20
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (42 bp):
TCAAATGAAAAGCTTGAGATTTTTGGATATGAATTCCAAAAT
Found at i:4534111 original size:42 final size:42
Alignment explanation
Indices: 4533987--4534421 Score: 469
Period size: 41 Copynumber: 10.5 Consensus size: 42
4533977 ATAATTGTCA
* *
4533987 AGGAGCCATTTACTTTCCAAAGTT-TCGTTGCCTCTATTTATG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTA-G
* * *
4534029 -GGAGCAATTTACTTTCAAAAGTTGAGG-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
* * * *
4534069 AGGAGTAATTTATTTTCCAAAGTCGTGGTTGCCTTTATTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
** * *
4534111 AGGAGCAATTTA-TATTTTAAAGTT-TCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTCCAAAGTTGTGGTTGCCTCTATTTAG
* * * *
4534152 AGGAGCAATCTACTTTCAAAAGTTGAGG-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
* * * *
4534193 AGGAGCAATTTATTTTCTAAAGTCGTGGTTGCCTCCATTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
* * *
4534235 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCCATTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
4534277 AGGAGCAATTTA-TATTCCAAAGTTGTGG-TGCCTCTATTTAG
1 AGGAGCAATTTACT-TTCCAAAGTTGTGGTTGCCTCTATTTAG
* *
4534318 AGGAGCAATTTACTTTCCAAAAGTTGAGG-TGCCCCTATTTAG
1 AGGAGCAATTTACTTTCC-AAAGTTGTGGTTGCCTCTATTTAG
* * * *
4534360 AGGAGCCATTTACTTTCCAAAGTTGTTG-AGCCTATGA-TTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCT-ATTTAG
*
4534401 AGGAGCCATTTACTTTCCAAA
1 AGGAGCAATTTACTTTCCAAA
4534422 AGTCGTTGAG
Statistics
Matches: 340, Mismatches: 42, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.00
41 190 0.56
42 149 0.44
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAG
Found at i:4534133 original size:83 final size:82
Alignment explanation
Indices: 4533987--4534448 Score: 463
Period size: 83 Copynumber: 5.6 Consensus size: 82
4533977 ATAATTGTCA
* * * *
4533987 AGGAGCCATTTACTTTCCAAAGT-TTCGTTGCCTCTATTTATG-GGAGCAATTTACTTTCAAAAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTA-GAGGAGCAATTTA-TTTCTAAAG
* *
4534050 TTGAGGTGCCTCTGTTTAG
64 TTGTGGTGCCTCTATTTAG
* * * *
4534069 AGGAGTAATTTATTTTCCAAAGTCGTGGTTGCCTTTATTTAGAGGAGCAATTTATATTTTAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTAT-TTCTAAAGT
* *
4534134 T-TCGTTGCCTCTGTTTAG
65 TGT-GGTGCCTCTATTTAG
* * * * *
4534152 AGGAGCAATCTACTTTCAAAAGTTGAGG-TGCCTCTGTTTAGAGGAGCAATTTATTTTCTAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTA-TTTCTAAAGT
* *
4534216 CGTGGTTGCCTCCATTTAG
65 TGTGG-TGCCTCTATTTAG
* * *
4534235 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCCATTTAGAGGAGCAATTTATATTCCAAAGT
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTAT-TTCTAAAGT
4534300 TGTGGTGCCTCTATTTAG
65 TGTGGTGCCTCTATTTAG
* * * * *
4534318 AGGAGCAATTTACTTTCCAAAAGTTGAGG-TGCCCCTATTTAGAGGAGCCATTTACTTTCCAAAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTA-TTTCTAAAG
* * *
4534382 TTGTTGAGCCTATGA-TTAG
64 TTGTGGTGCCTCT-ATTTAG
* * *
4534401 AGGAGCCATTTACTTTCCAAAAGTCGTTG-AGCCTCTGA-TTAGAGGAGC
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTTGCCTCT-ATTTAGAGGAGC
4534449 TTTAGTTATT
Statistics
Matches: 319, Mismatches: 48, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
82 54 0.17
83 219 0.69
84 46 0.14
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTCTAAAGTT
GTGGTGCCTCTATTTAG
Found at i:4534440 original size:42 final size:41
Alignment explanation
Indices: 4533987--4534659 Score: 420
Period size: 42 Copynumber: 16.1 Consensus size: 41
4533977 ATAATTGTCA
*
4533987 AGGAGCCATTTACTTTCCAAAGTTTCGTT--GCCTCT-ATTTATG
1 AGGAGCAATTTACTTTCCAAAG--TCGTTGAGCCTCTGA-TTA-G
* * ** * *
4534029 -GGAGCAATTTACTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
* * * * *
4534069 AGGAGTAATTTATTTTCCAAAGTCGTGGTTGCCT-TTATTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTG-AGCCTCTGA-TTAG
** *
4534111 AGGAGCAATTTA-TATTTTAAAGTTTCGTT--GCCTCTGTTTAG
1 AGGAGCAATTTACT-TTCCAAAG--TCGTTGAGCCTCTGATTAG
* * * ** * *
4534152 AGGAGCAATCTACTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
* * * * *
4534193 AGGAGCAATTTATTTTCTAAAGTCGTGGTTGCCTC-CATTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTG-AGCCTCTGA-TTAG
* * * *
4534235 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTC-CATTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTG-AGCCTCTGA-TTAG
* * *
4534277 AGGAGCAATTTA-TATTCCAAAGTTGTGGTGCCTCT-ATTTAG
1 AGGAGCAATTTACT-TTCCAAAGTCGTTGAGCCTCTGA-TTAG
* ** * *
4534318 AGGAGCAATTTACTTTCCAAAAGTTGAGGTGCCCCT-ATTTAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTTGAGCCTCTGA-TTAG
* * *
4534360 AGGAGCCATTTACTTTCCAAAGTTGTTGAGCCTATGATTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
*
4534401 AGGAGCCATTTACTTTCCAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTTGAGCCTCTGATTAG
* * * *
4534443 AGGAGCTTTAGTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGC--AATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
* * * * * *
4534485 AAGAGCCATTTATTTTTTCATAGTCATTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTTGAGCCTCTGATTAG
* * * *
4534527 AGGAGCCATTTACTTTTCAAAGTTGTTAAGCCTCTGATTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
* * * * *
4534568 AGGAGCCATTTATTTTTTCAAAATCGTTGAGCCTCTTATTAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTTGAGCCTCTGATTAG
** * * *
4534610 AGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCTTCTGATTAG
1 AGGAG-C-AATTTA-CTTTCCAAAGTCGTTGAGCCTCTGATTAG
4534654 AGGAGC
1 AGGAGC
4534660 TTTGTTTATG
Statistics
Matches: 531, Mismatches: 72, Indels: 55
0.81 0.11 0.08
Matches are distributed among these distances:
39 4 0.01
40 5 0.01
41 211 0.40
42 263 0.50
43 6 0.01
44 42 0.08
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAG
Found at i:4534529 original size:167 final size:171
Alignment explanation
Indices: 4534356--4534704 Score: 478
Period size: 167 Copynumber: 2.1 Consensus size: 171
4534346 GTGCCCCTAT
*
4534356 TTAGAGGAGCCATTTACTTTCCAAAGTTGTTGAGCCTATGATTAGAGGAGCCATTTA-CTTTCCA
1 TTAGAGGAGCCATTTACTTTCCAAAGTTGTTAAGCCTATGATTAGAGGAGCCATTTATCTTTCCA
* *
4534420 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTAG-TTA-TTTTC-AAAGTTGTTGAGCCTCTGAT
66 AAA-TCGTTGAGCCTCTGATTAGAGGAGCCTT-GTTTATTTTTCAAAAGTCGTTGAGCCTCTGAT
* * *
4534482 TAGAAGAGC-CATTTAT-TTTTTCATAGTCATTGAGCCTCTGA-
129 TAGAAGAGCTCATTTATGTTTCTCAAAGTCATTAAGCCTCT-AC
* * * *
4534523 TTAGAGGAGCCATTTACTTTTCAAAGTTGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTCA
1 TTAGAGGAGCCATTTACTTTCCAAAGTTGTTAAGCCTATGATTAGAGGAGCCATTTATCTTTCCA
* *
4534588 AAATCGTTGAGCCTCTTATTAGAGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCTTCTGATTA
66 AAATCGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGATTA
* **
4534653 GAGGAGCTTTGTTTATGTTTCTCAAAGTCATTAAGCCTCTAC
131 GAAGAGC-TCATTTATGTTTCTCAAAGTCATTAAGCCTCTAC
4534695 TTAGAGGAGC
1 TTAGAGGAGC
4534705 TTTGATCAAA
Statistics
Matches: 159, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
166 1 0.01
167 83 0.52
168 13 0.08
169 26 0.16
171 6 0.04
172 30 0.19
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (171 bp):
TTAGAGGAGCCATTTACTTTCCAAAGTTGTTAAGCCTATGATTAGAGGAGCCATTTATCTTTCCA
AAATCGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGATTA
GAAGAGCTCATTTATGTTTCTCAAAGTCATTAAGCCTCTAC
Found at i:4534574 original size:83 final size:83
Alignment explanation
Indices: 4534356--4534704 Score: 398
Period size: 83 Copynumber: 4.1 Consensus size: 83
4534346 GTGCCCCTAT
* * * *
4534356 TTAGAGGAGCCATTTACTTTCCAAAGTTGTTGAGCCTATGATTAGAGGAGCCATTTA-CTTTCCA
1 TTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTC-
*
4534420 AAAGTCGTTGAGCCTCTGA
65 AAAGTCATTGAGCCTCTGA
* * *
4534439 TTAGAGGAGCTTTAGTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTTATTTTTT
1 TTAGAGGAGC--CATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTT
*
4534503 CATAGTCATTGAGCCTCTGA
64 CAAAGTCATTGAGCCTCTGA
*
4534523 TTAGAGGAGCCATTTACTTTTCAAAGTTGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTCA
1 TTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCA
* * *
4534588 AAATCGTTGAGCCTCTTA
66 AAGTCATTGAGCCTCTGA
* * * * **
4534606 TTAGAGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTGTTTATGT
1 TTAGAGGAGCC--ATTTACTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGGAGC--CATTTAT-T
* *
4534671 TTCTCAAAGTCATTAAGCCTCT-A
60 TTTTCAAAGTCATTGAGCCTCTGA
4534694 CTTAGAGGAGC
1 -TTAGAGGAGC
4534705 TTTGATCAAA
Statistics
Matches: 227, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
82 4 0.02
83 81 0.36
84 64 0.28
85 17 0.07
86 26 0.11
88 6 0.03
89 29 0.13
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (83 bp):
TTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCA
AAGTCATTGAGCCTCTGA
Found at i:4534700 original size:45 final size:43
Alignment explanation
Indices: 4534409--4534708 Score: 176
Period size: 42 Copynumber: 7.0 Consensus size: 43
4534399 AGAGGAGCCA
* * * *
4534409 TTTACTTTCCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTAG
1 TTTATTTTTCAAAAGTCATTAAGCCTCT-ATTAGAGGAGCTTT-G
** * * **
4534454 -TTA-TTTTC-AAAGTTGTTGAGCCTCTGATTAGAAGAGC--CA
1 TTTATTTTTCAAAAGTCATTAAGCCTCT-ATTAGAGGAGCTTTG
* * **
4534493 TTTATTTTTTC-ATAGTCATTGAGCCTCTGATTAGAGGAGC--CA
1 TTTA-TTTTTCAAAAGTCATTAAGCCTCT-ATTAGAGGAGCTTTG
* ** **
4534535 TTTACTTTTC-AAAGTTGTTAAGCCTCTGATTAGAGGAGC--CA
1 TTTATTTTTCAAAAGTCATTAAGCCTCT-ATTAGAGGAGCTTTG
* * *
4534576 TTTATTTTTTCAAAA-TCGTTGAGCCTCTTATTAGAGGAGCCTTG
1 TTTA-TTTTTCAAAAGTCATTAAGCCTC-TATTAGAGGAGCTTTG
* * *
4534620 TTTATTTTTCAAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCATTAAGCCTCT-ATTAGAGGAGCTTTG
4534664 TTTATGTTTCTC-AAAGTCATTAAGCCTCTACTTAGAGGAGCTTTG
1 TTTAT-TTT-TCAAAAGTCATTAAGCCTCTA-TTAGAGGAGCTTTG
4534709 ATCAAAATTT
Statistics
Matches: 218, Mismatches: 24, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
40 3 0.01
41 36 0.17
42 89 0.41
43 19 0.09
44 38 0.17
45 31 0.14
46 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (43 bp):
TTTATTTTTCAAAAGTCATTAAGCCTCTATTAGAGGAGCTTTG
Found at i:4535014 original size:23 final size:23
Alignment explanation
Indices: 4534988--4535032 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4534978 TCATTATTTC
* *
4534988 ATATATATATTTTTTCTCTATTA
1 ATATATATATTATTTATCTATTA
* *
4535011 ATATTTTTATTATTTATCTATT
1 ATATATATATTATTTATCTATT
4535033 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTATTTATCTATTA
Found at i:4535034 original size:16 final size:16
Alignment explanation
Indices: 4535015--4535056 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4535005 CTATTAATAT
4535015 TTTTATTATTTATCTA
1 TTTTATTATTTATCTA
*
4535031 TTTTTTTATTTATCTA
1 TTTTATTATTTATCTA
*
4535047 -ATTATTATTT
1 TTTTATTATTT
4535057 TTTTGTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATTTATCTA
Found at i:4535042 original size:23 final size:23
Alignment explanation
Indices: 4535016--4535060 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4535006 TATTAATATT
*
4535016 TTTAT-TATTTATCTATTTTTTTA
1 TTTATCTAATTAT-TATTTTTTTA
4535039 TTTATCTAATTATTATTTTTTT
1 TTTATCTAATTATTATTTTTTT
4535061 GTGTTATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATCTAATTATTATTTTTTTA
Found at i:4535511 original size:9 final size:9
Alignment explanation
Indices: 4535491--4535579 Score: 83
Period size: 9 Copynumber: 9.7 Consensus size: 9
4535481 TTTATTTTTA
4535491 TTTTTATCTT
1 TTTTTAT-TT
4535501 TTTTTAATTT
1 TTTTT-ATTT
4535511 TTTTTATTT
1 TTTTTATTT
4535520 TTTTTATTT
1 TTTTTATTT
4535529 TTTTTATTT
1 TTTTTATTT
**
4535538 TTATTT-TCA
1 TT-TTTATTT
*
4535547 CTTTTATTT
1 TTTTTATTT
4535556 TATTTTA-TT
1 T-TTTTATTT
*
4535565 ATTTTATTT
1 TTTTTATTT
*
4535574 TCTTTA
1 TTTTTA
4535580 AATAAAATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
8 8 0.12
9 35 0.54
10 20 0.31
11 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:4535633 original size:57 final size:58
Alignment explanation
Indices: 4535571--4535806 Score: 234
Period size: 57 Copynumber: 4.1 Consensus size: 58
4535561 TATTATTTTA
* * * *
4535571 TTTTCTT-TAAATAAAATTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAAT
1 TTTTCTTAAAAATAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* ** * *
4535628 TTTTCTTAAAAATAAGTTTTCAAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAA-ATTTCAAAAAA--AATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
4535689 TTTCCTTAAAAATAAATTTTC-AAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAA-TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
** * *
4535746 TTTTCTCGAAATTAAAGTTTTC---AAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAA--TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
4535802 TTTTC
1 TTTTC
4535807 CTACATAAAA
Statistics
Matches: 151, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
56 36 0.24
57 46 0.30
58 11 0.07
59 9 0.06
60 5 0.03
61 44 0.29
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (58 bp):
TTTTCTTAAAAATAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:4535675 original size:61 final size:57
Alignment explanation
Indices: 4535591--4535806 Score: 256
Period size: 61 Copynumber: 3.7 Consensus size: 57
4535581 ATAAAATTCA
* * *
4535591 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAGTTTTC
1 AAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
* * * *
4535649 AAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAG----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
** *
4535710 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTC
* *
4535768 AAAAATA--TTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
4535807 CTACATAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
56 31 0.23
57 36 0.26
58 19 0.14
61 51 0.37
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (57 bp):
AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
Found at i:4540241 original size:48 final size:47
Alignment explanation
Indices: 4540143--4540242 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 47
4540133 ATTTTACAAG
* *
4540143 TTTTATTTCTAAATTTTTCACCATTTTGGTCAATTTAGAATTTTTCT
1 TTTTATTTCTAAATTTTTCACCATTTTGGTCAATTTAAAATTCTTCT
* *
4540190 TTTTGATTTCTAAATTTTTCACCA-TTTGAGTCTATTTATAAATTCTTTT
1 TTTT-ATTTCTAAATTTTTCACCATTTTG-GTCAATTTA-AAATTCTTCT
4540239 TTTT
1 TTTT
4540243 TTACCTTTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
47 8 0.17
48 27 0.59
49 11 0.24
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.59
Consensus pattern (47 bp):
TTTTATTTCTAAATTTTTCACCATTTTGGTCAATTTAAAATTCTTCT
Found at i:4540559 original size:25 final size:27
Alignment explanation
Indices: 4540496--4540559 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
4540486 AAATTTGGAG
*
4540496 AAAATTTC-TCACTTAAGAATTTTATA
1 AAAATTTCATCATTTAAGAATTTTATA
* *
4540522 AAAATTT-ACCATTTGA-AATTTT-TA
1 AAAATTTCATCATTTAAGAATTTTATA
4540546 AAAATTTCATCATT
1 AAAATTTCATCATT
4540560 GAATATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.28
25 11 0.34
26 12 0.38
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (27 bp):
AAAATTTCATCATTTAAGAATTTTATA
Found at i:4540561 original size:24 final size:26
Alignment explanation
Indices: 4540496--4540571 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 26
4540486 AAATTTGGAG
*
4540496 AAAATTTC-TCACTTAAGAATTTTATA
1 AAAATTTCATCACTTGA-AATTTTATA
* *
4540522 AAAATTT-ACCATTTGAAATTTT-TA
1 AAAATTTCATCACTTGAAATTTTATA
4540546 AAAATTTCATCA-TTGAATATTATTAT
1 AAAATTTCATCACTTGAA-ATT-TTAT
4540572 TTATTCTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
24 14 0.34
25 12 0.29
26 14 0.34
27 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAATTTCATCACTTGAAATTTTATA
Found at i:4542462 original size:24 final size:24
Alignment explanation
Indices: 4542392--4542472 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 24
4542382 AAGCTCTTGG
* **
4542392 ATGCCCAGAAACCCCAAGTCTCGG
1 ATGCCCAAAAACCCCAAGTCTCTC
* * * *
4542416 ACGCCTAGAAACCCAAAGTCTCTC
1 ATGCCCAAAAACCCCAAGTCTCTC
4542440 ATGCCCAAAAACCCCAAGTCTCTC
1 ATGCCCAAAAACCCCAAGTCTCTC
*
4542464 ATGCTCAAA
1 ATGCCCAAA
4542473 TGACCTAGCT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.33, C:0.37, G:0.14, T:0.16
Consensus pattern (24 bp):
ATGCCCAAAAACCCCAAGTCTCTC
Found at i:4550324 original size:25 final size:23
Alignment explanation
Indices: 4550296--4550346 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 23
4550286 AAAATGAGAA
4550296 AAAATGAAAAAACGACAAAAAAATG
1 AAAATGAAAAAA--ACAAAAAAATG
*
4550321 AAAATGAAAAAAAGAAAAAAATG
1 AAAATGAAAAAAACAAAAAAATG
4550344 AAA
1 AAA
4550347 TAATGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAATGAAAAAAACAAAAAAATG
Found at i:4550356 original size:17 final size:17
Alignment explanation
Indices: 4550278--4550346 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
4550268 GGATGAAAAG
*
4550278 AAAAGGAAAAAATGAGAA
1 AAAAGAAAAAAATGA-AA
*
4550296 AAAATG-AAAAAACGACAA
1 AAAA-GAAAAAAATGA-AA
**
4550314 AAAA-ATGAAAATGAAA
1 AAAAGAAAAAAATGAAA
4550330 AAAAGAAAAAAATGAAA
1 AAAAGAAAAAAATGAAA
4550347 TAATGGAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
16 6 0.15
17 16 0.39
18 18 0.44
19 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAAATGAAA
Found at i:4551811 original size:10 final size:10
Alignment explanation
Indices: 4551796--4551832 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
4551786 CAAGCCATTT
*
4551796 TATTTTTTGG
1 TATTTTTTAG
4551806 TATTTTTTAG
1 TATTTTTTAG
*
4551816 TTTTTTTTAG
1 TATTTTTTAG
4551826 TATTTTT
1 TATTTTT
4551833 GAATGATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (10 bp):
TATTTTTTAG
Found at i:4552297 original size:51 final size:54
Alignment explanation
Indices: 4552221--4552325 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 54
4552211 TTCTTTCCAA
4552221 AAAAATAAATAAAAAAATTTCTAAATAGGCCCAAATGGTG-AAAATTTAGAAAT
1 AAAAATAAATAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT
* *
4552274 AAAAA-AAATAAAAAAATTT-TAAATAGGCTCACATGGTGAAAAATTTAGAAAT
1 AAAAATAAATAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT
4552326 TCAGAATAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
51 17 0.35
52 27 0.55
53 5 0.10
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (54 bp):
AAAAATAAATAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT
Found at i:4552346 original size:52 final size:51
Alignment explanation
Indices: 4552222--4552347 Score: 148
Period size: 52 Copynumber: 2.4 Consensus size: 51
4552212 TCTTTCCAAA
*
4552222 AAAATAAATAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAATTTAGAAAT
1 AAAA-AAATAAAAAAATTTTTAAATAGGCCCAAATGGTGAAAATTTAGAAAT
* *
4552274 AAAAAAAATAAAAAAA-TTTTAAATAGGCTCACATGGTGAAAAATTTAGAAAT
1 -AAAAAAATAAAAAAATTTTTAAATAGGCCCAAATGGTG-AAAATTTAGAAAT
** *
4552326 -TCAGAATAAAAAATATTTTTAA
1 AAAAAAATAAAAAA-ATTTTTAA
4552348 TTTGGCTTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
50 10 0.16
51 20 0.31
52 30 0.47
53 4 0.06
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.27
Consensus pattern (51 bp):
AAAAAAATAAAAAAATTTTTAAATAGGCCCAAATGGTGAAAATTTAGAAAT
Found at i:4556943 original size:2 final size:2
Alignment explanation
Indices: 4556938--4556970 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4556928 ACACACACGC
4556938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4556971 GTGAAGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4557453 original size:2 final size:2
Alignment explanation
Indices: 4557446--4557477 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4557436 TGATCTCCTT
4557446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4557478 ATTATATTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4558524 original size:15 final size:17
Alignment explanation
Indices: 4558481--4558527 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 17
4558471 CAACGCACCG
4558481 ATATACAATTATATATATAT
1 ATATA-AATTA-AT-TATAT
4558501 ATATAAATTAATTATA-
1 ATATAAATTAATTATAT
4558517 ATAT-AATTAAT
1 ATATAAATTAAT
4558528 AATTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.26
16 4 0.15
17 4 0.15
18 2 0.07
19 5 0.19
20 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAAATTAATTATAT
Found at i:4558553 original size:20 final size:19
Alignment explanation
Indices: 4558528--4558566 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4558518 TATAATTAAT
*
4558528 AATTTTTATATAAAAATAAA
1 AATTTTGATAT-AAAATAAA
*
4558548 AATTTTGATGTAAAATAAA
1 AATTTTGATATAAAATAAA
4558567 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AATTTTGATATAAAATAAA
Found at i:4560798 original size:2 final size:2
Alignment explanation
Indices: 4560791--4560823 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4560781 AAAAATGCTT
4560791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4560824 TCATCTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4561884 original size:2 final size:2
Alignment explanation
Indices: 4561879--4561923 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
4561869 TCAAAAAATA
* * * *
4561879 AT AT AT AT GT AT AT GT GT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4561921 AT A
1 AT A
4561924 CTTTCTCCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4570202 original size:30 final size:30
Alignment explanation
Indices: 4570139--4570203 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
4570129 CGAAATTAAT
* * * * *
4570139 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATAATAA
*
4570169 AAAATATCATTATATAAATATATATAATAA
1 AAAATATCATTATATAAATATAAATAATAA
4570199 AAAAT
1 AAAAT
4570204 TAAATAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATAATAA
Found at i:4570209 original size:21 final size:20
Alignment explanation
Indices: 4570183--4570223 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4570173 TATCATTATA
4570183 TAAATATATATAA-TAAAAAAT
1 TAAATA-AT-TAATTAAAAAAT
4570204 TAAATAATTAATTAAAAAAT
1 TAAATAATTAATTAAAAAAT
4570224 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATAATTAATTAAAAAAT
Found at i:4575936 original size:21 final size:20
Alignment explanation
Indices: 4575906--4575945 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
4575896 GATAATAATA
4575906 AATTTTAATTATAAA-GATAT
1 AATTTTAATTA-AAATGATAT
4575926 AATTTTAAATTAAAATGATA
1 AATTTT-AATTAAAATGATA
4575946 AAAGTATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTTTAATTAAAATGATAT
Found at i:4577705 original size:19 final size:20
Alignment explanation
Indices: 4577662--4577705 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
4577652 AATGGTAAGC
*
4577662 ACAAAATATATATATTAATT
1 ACAAAATATATATATAAATT
4577682 A-AAAATATATATA-AAATT
1 ACAAAATATATATATAAATT
4577700 ACAAAA
1 ACAAAA
4577706 GTATTACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ACAAAATATATATATAAATT
Found at i:4580223 original size:18 final size:17
Alignment explanation
Indices: 4580200--4580241 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4580190 ATTAACATTG
4580200 AAATTATAAATTTATTAA
1 AAATTATAAATTTA-TAA
**
4580218 AAATTAT-TTTTTATAA
1 AAATTATAAATTTATAA
4580234 AAATTATA
1 AAATTATA
4580242 TGAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTATAAATTTATAA
Found at i:4588226 original size:25 final size:26
Alignment explanation
Indices: 4588180--4588241 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
4588170 ATTAATTAGA
*
4588180 ATTAATATATTTTTATTGAAAAAATAT
1 ATTAATATATATTTATTGAAAAAAT-T
4588207 ATTAATATATATTTA-T-AAAAAATT
1 ATTAATATATATTTATTGAAAAAATT
4588231 ACTTAA-ATATA
1 A-TTAATATATA
4588242 CAAGTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 7 0.21
25 11 0.33
26 1 0.03
27 14 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTAATATATATTTATTGAAAAAATT
Found at i:4590034 original size:22 final size:22
Alignment explanation
Indices: 4590009--4590051 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4589999 ATTTTTGTTT
*
4590009 TTAATTCTAGGGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
*
4590031 TTAATTCTAGAGATATAAATA
1 TTAATTCTAGAGATACAAATA
4590052 TAAATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:4593781 original size:25 final size:25
Alignment explanation
Indices: 4593747--4593804 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
4593737 TAAAATGACC
* * *
4593747 ATGAAGGCCTTAACAGGGTTTGGCA
1 ATGAAGGCCTAAACAAGGTTCGGCA
*
4593772 ATGAAGGCCTAAATAAGGTTCGGCA
1 ATGAAGGCCTAAACAAGGTTCGGCA
4593797 ATGAAGGC
1 ATGAAGGC
4593805 ATCAAATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.21
Consensus pattern (25 bp):
ATGAAGGCCTAAACAAGGTTCGGCA
Found at i:4593823 original size:26 final size:25
Alignment explanation
Indices: 4593769--4593829 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
4593759 ACAGGGTTTG
* * *
4593769 GCAATGAAGGCCTAAATAAGGTTCG
1 GCAATGAAGGCATAAATAAAGTTCA
4593794 GCAATGAAGGCATCAAATAGAAG-TCA
1 GCAATGAAGGCAT-AAATA-AAGTTCA
4593820 GCAATGAAGG
1 GCAATGAAGG
4593830 TTGAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.39
26 17 0.55
27 2 0.06
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.16
Consensus pattern (25 bp):
GCAATGAAGGCATAAATAAAGTTCA
Found at i:4593906 original size:25 final size:25
Alignment explanation
Indices: 4593874--4593922 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4593864 TCTGATACCA
*
4593874 TGTGAAAAATTAAGA-AATAAAACTG
1 TGTGAAAAACTAAGAGAA-AAAACTG
4593899 TGTGAAAAACTAAGAGAAAAAACT
1 TGTGAAAAACTAAGAGAAAAAACT
4593923 AAATGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.20
Consensus pattern (25 bp):
TGTGAAAAACTAAGAGAAAAAACTG
Found at i:4594090 original size:22 final size:22
Alignment explanation
Indices: 4594065--4594108 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4594055 AGTTTTTGTT
*
4594065 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
4594087 CTTAATTCTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
4594109 AAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Done.