Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 75 of 93
Found at i:10898878 original size:59 final size:58
Alignment explanation
Indices: 10898808--10898934 Score: 175
Period size: 59 Copynumber: 2.2 Consensus size: 58
10898798 CCTAAATCAT
* * *
10898808 AAACCCTAAACCCTTCAAACCCTAAAACTAAA-CTCTAAAACCTTTAAACCTCGAAATTG
1 AAACCCTAAACCCTTCAAACCCTAAAACTAAATC-CT-AAACCCTTAAACCCCAAAATTG
* **
10898867 AAATCCTAAACCCTTCAAGTCCTAAAACTAAATCCTAAACCCTTAAACCCCAAAATTG
1 AAACCCTAAACCCTTCAAACCCTAAAACTAAATCCTAAACCCTTAAACCCCAAAATTG
10898925 AAACCCTAAA
1 AAACCCTAAA
10898935 ATCCAAAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 28 0.47
59 31 0.52
60 1 0.02
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (58 bp):
AAACCCTAAACCCTTCAAACCCTAAAACTAAATCCTAAACCCTTAAACCCCAAAATTG
Found at i:10898932 original size:29 final size:29
Alignment explanation
Indices: 10898807--10898934 Score: 114
Period size: 29 Copynumber: 4.4 Consensus size: 29
10898797 CCCTAAATCA
*
10898807 TAAACCCTAAACCCTTCAAACCCTAAAAC
1 TAAACCCTAAACCCTTCAAACCCCAAAAC
* * * * * *
10898836 TAAACTCTAAAACCTTTAAACCTCGAAAT
1 TAAACCCTAAACCCTTCAAACCCCAAAAC
* ** *
10898865 TGAAATCCTAAACCCTTCAAGTCCTAAAAC
1 T-AAACCCTAAACCCTTCAAACCCCAAAAC
* *
10898895 TAAATCCTAAACCCTT-AAACCCCAAAAT
1 TAAACCCTAAACCCTTCAAACCCCAAAAC
10898923 TGAAACCCTAAA
1 T-AAACCCTAAA
10898935 ATCCAAAATC
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
28 9 0.12
29 47 0.63
30 19 0.25
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (29 bp):
TAAACCCTAAACCCTTCAAACCCCAAAAC
Found at i:10898959 original size:37 final size:36
Alignment explanation
Indices: 10898918--10898993 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 36
10898908 CTTAAACCCC
*
10898918 AAAATTGAAACCCTAAAATCCAAAATCCCAAACCTTA
1 AAAATCGAAACCCTAAAATCCAAAATCCCAAACC-TA
* *
10898955 AAAATCGAAACCTTAAAATCCAAAATCTCAAACCTA
1 AAAATCGAAACCCTAAAATCCAAAATCCCAAACCTA
10898991 AAA
1 AAA
10898994 TCTAAAATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 5 0.14
37 31 0.86
ACGTcount: A:0.54, C:0.25, G:0.03, T:0.18
Consensus pattern (36 bp):
AAAATCGAAACCCTAAAATCCAAAATCCCAAACCTA
Found at i:10898960 original size:16 final size:15
Alignment explanation
Indices: 10898939--10898978 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
10898929 CCTAAAATCC
10898939 AAAATCCCAAACCTTA
1 AAAAT-CCAAACCTTA
*
10898955 AAAATCGAAACCTT-
1 AAAATCCAAACCTTA
10898969 AAAATCCAAA
1 AAAATCCAAA
10898979 ATCTCAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 8 0.36
16 5 0.23
ACGTcount: A:0.55, C:0.25, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAATCCAAACCTTA
Found at i:10898981 original size:21 final size:21
Alignment explanation
Indices: 10898896--10899002 Score: 66
Period size: 21 Copynumber: 5.2 Consensus size: 21
10898886 TCCTAAAACT
**
10898896 AAATCCTAAACCCTTAAACCCCA
1 AAATCC-AAA-CCTTAAAATCCA
** *
10898919 AAATTGAAACCCTAAAATCCA
1 AAATCCAAACCTTAAAATCCA
10898940 AAATCCCAAACCTT---A---A
1 AAAT-CCAAACCTTAAAATCCA
*
10898956 AAATCGAAACCTTAAAATCCA
1 AAATCCAAACCTTAAAATCCA
*
10898977 AAATCTCAAACC-TAAAATCTA
1 AAATC-CAAACCTTAAAATCCA
10898998 AAATC
1 AAATC
10899003 TTAAACCCTA
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
15 8 0.12
16 5 0.08
18 1 0.02
19 1 0.02
21 32 0.49
22 14 0.22
23 4 0.06
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATCCAAACCTTAAAATCCA
Found at i:10899003 original size:21 final size:21
Alignment explanation
Indices: 10898962--10899022 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
10898952 TTAAAAATCG
*
10898962 AAACCTTAAAATCCAAAATCTC
1 AAACC-TAAAATCTAAAATCTC
*
10898984 AAACCTAAAATCTAAAATCTT
1 AAACCTAAAATCTAAAATCTC
10899005 AAACCCTAAAAGTCTAAA
1 AAA-CCTAAAA-TCTAAA
10899023 TCCCAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 17 0.49
22 12 0.34
23 6 0.17
ACGTcount: A:0.52, C:0.23, G:0.02, T:0.23
Consensus pattern (21 bp):
AAACCTAAAATCTAAAATCTC
Found at i:10901475 original size:41 final size:41
Alignment explanation
Indices: 10901393--10901475 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
10901383 CACCATCCCT
* * * *
10901393 ACAACCTAACTTTACATTCCTTGCATACACATTCTTAGTTG
1 ACAACATAACATTACATTCCTTCCATACACATTCATAGTTG
*
10901434 ACAACATAACATTACATTCCTTCCATACACATTCATGGTTG
1 ACAACATAACATTACATTCCTTCCATACACATTCATAGTTG
10901475 A
1 A
10901476 TGAAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.34
Consensus pattern (41 bp):
ACAACATAACATTACATTCCTTCCATACACATTCATAGTTG
Found at i:10905074 original size:13 final size:13
Alignment explanation
Indices: 10905056--10905105 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
10905046 AGTAACTTTC
*
10905056 AAGATAAAAAAAA
1 AAGAGAAAAAAAA
*
10905069 AAGATAAAAAAAA
1 AAGAGAAAAAAAA
* *
10905082 AAAAGAAAAAAAG
1 AAGAGAAAAAAAA
10905095 AAGAGAAAAAA
1 AAGAGAAAAAA
10905106 GGTTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (13 bp):
AAGAGAAAAAAAA
Found at i:10905081 original size:15 final size:14
Alignment explanation
Indices: 10905061--10905093 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
10905051 CTTTCAAGAT
10905061 AAAAAAAAAAGATAA
1 AAAAAAAAAAGA-AA
10905076 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
10905090 AAAA
1 AAAA
10905094 GAAGAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:10905103 original size:12 final size:11
Alignment explanation
Indices: 10905064--10905106 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
10905054 TCAAGATAAA
*
10905064 AAAAAAAGATAA
1 AAAAAAAGA-AG
*
10905076 AAAAAAAAAAG
1 AAAAAAAGAAG
10905087 AAAAAAAGAAG
1 AAAAAAAGAAG
10905098 AGAAAAAAG
1 A-AAAAAAG
10905107 GTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:10905684 original size:11 final size:11
Alignment explanation
Indices: 10905668--10905702 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10905658 AGGGCATCAC
10905668 AAAAAAAACAA
1 AAAAAAAACAA
*
10905679 AAAAAAAGCAA
1 AAAAAAAACAA
10905690 AAAAAAAA-AA
1 AAAAAAAACAA
10905700 AAA
1 AAA
10905703 GACATCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:10905697 original size:17 final size:18
Alignment explanation
Indices: 10905670--10905703 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10905660 GGCATCACAA
10905670 AAAAAACAAAAAAAAAGC
1 AAAAAACAAAAAAAAAGC
10905688 AAAAAA-AAAAAAAAAG
1 AAAAAACAAAAAAAAAG
10905704 ACATCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAAGC
Found at i:10907681 original size:22 final size:22
Alignment explanation
Indices: 10907655--10907717 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
10907645 GTTGATTCTC
* * *
10907655 TAAGACCTTTGAGCATGATTTT
1 TAAGACCTCTGAGCATAATCTT
*
10907677 TAAGACCTCTGGGCATAATCTT
1 TAAGACCTCTGAGCATAATCTT
10907699 TAAGACCTCT-AGGCATAAT
1 TAAGACCTCTGA-GCATAAT
10907718 TTTGATTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
TAAGACCTCTGAGCATAATCTT
Found at i:10907760 original size:132 final size:132
Alignment explanation
Indices: 10907523--10907827 Score: 366
Period size: 132 Copynumber: 2.3 Consensus size: 132
10907513 TTAAGATCTG
* * *
10907523 TAAGACCTTTGGACATGATTTCTAAGACCTCTTA-GCATAATCTTTAAGATCTCTGGGCATAATT
1 TAAGACCTTTGGACATGATTTTTAAGACCTC-TAGGCATAATCTTTAAGACCTCTAGGCATAATT
* * ** *
10907587 TTGATTTACAATGTTGTCCTGATTGATTCTTTATTTTTTGACTTATGGTGTTA-TCTCAGTTGAT
65 TTGATTCACAATATTGTCCCAATTGATTCTTTATTTTTTGACTTATGGTGTTATTCT-AGTCGAT
10907651 TCTC
129 TCTC
*
10907655 TAAGACCTTT-GAGCATGATTTTTAAGACCTCTGGGCATAATCTTTAAGACCTCTAGGCATAATT
1 TAAGACCTTTGGA-CATGATTTTTAAGACCTCTAGGCATAATCTTTAAGACCTCTAGGCATAATT
** * * * *
10907719 TTGATTCACGGTATTGTCCCAATTGGTT-TCTTATTTTTTGACTTGTTGTGTTGTTCTAGTCGAT
65 TTGATTCACAATATTGTCCCAATTGATTCT-TTATTTTTTGACTTATGGTGTTATTCTAGTCGAT
*
10907783 TCTG
129 TCTC
* * * *
10907787 TAAGACCTTCGGACATAATCTTTAAGACCTCTAGACATAAT
1 TAAGACCTTTGGACATGATTTTTAAGACCTCTAGGCATAAT
10907828 TTCGATTTGC
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
131 4 0.03
132 138 0.94
133 5 0.03
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (132 bp):
TAAGACCTTTGGACATGATTTTTAAGACCTCTAGGCATAATCTTTAAGACCTCTAGGCATAATTT
TGATTCACAATATTGTCCCAATTGATTCTTTATTTTTTGACTTATGGTGTTATTCTAGTCGATTC
TC
Found at i:10907826 original size:110 final size:111
Alignment explanation
Indices: 10907677--10907906 Score: 284
Period size: 110 Copynumber: 2.1 Consensus size: 111
10907667 GCATGATTTT
* * *
10907677 TAAGACC-TCTGGGCATAATCTTTAAGACCTCTAGGCATAATTTTGATTCACGGTATTGTCCCAA
1 TAAGACCTTCTGGACATAATCTTTAAGACCTCTAGACATAATTTCGATTCACGGTATTGTCCCAA
* * * * * * * * *
10907741 TTGGTTTCTTATTTTTTGACTTGTTGTGTTGTTCTAGTCGATTCTG
66 TCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTC
** * * *
10907787 TAAGACCTTC-GGACATAATCTTTAAGACCTCTAGACATAATTTCGATTTGCTGTGTTGTCCCGA
1 TAAGACCTTCTGGACATAATCTTTAAGACCTCTAGACATAATTTCGATTCACGGTATTGTCCCAA
10907851 TCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTC
66 TCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTC
*
10907897 TAAGATCTTC
1 TAAGACCTTC
10907907 AGGCACGATT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
110 99 0.98
111 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (111 bp):
TAAGACCTTCTGGACATAATCTTTAAGACCTCTAGACATAATTTCGATTCACGGTATTGTCCCAA
TCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTC
Found at i:10907978 original size:242 final size:242
Alignment explanation
Indices: 10907558--10908004 Score: 594
Period size: 242 Copynumber: 1.8 Consensus size: 242
10907548 GACCTCTTAG
* * * * * * *
10907558 CATAATCTTTAAGATCTCTGGGCATAATTTTGATTTACAATGTTGTCCTGATTGATTCTTTATTT
1 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
* * * * * *
10907623 TTTGACTTATGGTGTTATCTCAGTTGATTCTCTAAGACCTTTGAGCATGATTTTTAAGACCTCTG
66 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTTAGAGCACGATTTCTAAGACATCTG
* * ** * * *
10907688 GGCATAATCTTTAAGACCTCTAGGCATAATTTTGATTCACGGTATTGTCCCAATTGGTT-TCTTA
131 AGCATAATCTTTAAGACCTCGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTCT-TTA
10907752 TTTTTTGACTTGTTGTGTTGTTCTAGTCGATTCTGTAAGACCTTCGGA
195 TTTTTTGACTTGTTGTGTTGTTCTAGTCGATTCTGTAAGACCTTCGGA
* **
10907800 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTGCTGTGTTGTCCCGATCGATTCCTTATTT
1 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
* * *
10907865 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGATCTTCAG-GCACGATTTCTAAGATATTT
66 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTT-AGAGCACGATTTCTAAGACATCT
* *
10907929 GAGCATAATCTTTAAGACCTCCGA-GCATAATTTCAATTCGCGATATTGTCTCAATCGATTCTTT
130 GAGCATAATCTTTAAGACCT-CGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTCTTT
10907993 ATTTTTTGACTT
194 ATTTTTTGACTT
10908005 ACGATGTTGT
Statistics
Matches: 174, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
242 170 0.98
243 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (242 bp):
CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTTAGAGCACGATTTCTAAGACATCTG
AGCATAATCTTTAAGACCTCGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTCTTTAT
TTTTTGACTTGTTGTGTTGTTCTAGTCGATTCTGTAAGACCTTCGGA
Found at i:10908027 original size:132 final size:131
Alignment explanation
Indices: 10907800--10908153 Score: 419
Period size: 132 Copynumber: 2.7 Consensus size: 131
10907790 GACCTTCGGA
* * * * *
10907800 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTGCTG-TGTTGTCCCGATCGATTCCTTATT
1 CATAATCTTTAAGACCTCCAG-CATAATTTCAATTCGC-GATGTTGTCTCGATCGATTCTTTATT
* * * * *
10907864 TTTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGATCTTC-AGGCACGATTTCTAAGATATT
64 TTTTGACTTATGGTGTTGTCCCAGTCAATTCTCTAAGATCTTCGA-ACACGATTTCTAAGACATC
* *
10907928 TGAG
128 CGAC
* *
10907932 CATAATCTTTAAGACCTCCGAGCATAATTTCAATTCGCGATATTGTCTCAATCGATTCTTTATTT
1 CATAATCTTTAAGACCTCC-AGCATAATTTCAATTCGCGATGTTGTCTCGATCGATTCTTTATTT
* * * * * *
10907997 TTTGACTTACGATGTTGTCCCAGTTAATTCTGTAAGATCTTCGAACATGATTTCTAAGACCTCCG
65 TTTGACTTATGGTGTTGTCCCAGTCAATTCTCTAAGATCTTCGAACACGATTTCTAAGACATCCG
10908062 AC
130 AC
* *
10908064 CATAAGT-TTTAAGACCTCCATGCATAATTTCAATTCACGATGTTATCTCGATCGATT-TCTTAT
1 CATAA-TCTTTAAGACCTCCA-GCATAATTTCAATTCGCGATGTTGTCTCGATCGATTCT-TTAT
10908127 TTTTTGACTTATGGTGTTGTCCCAGTC
63 TTTTTGACTTATGGTGTTGTCCCAGTC
10908154 GATTTTGTAA
Statistics
Matches: 189, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.02
132 182 0.96
133 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (131 bp):
CATAATCTTTAAGACCTCCAGCATAATTTCAATTCGCGATGTTGTCTCGATCGATTCTTTATTTT
TTGACTTATGGTGTTGTCCCAGTCAATTCTCTAAGATCTTCGAACACGATTTCTAAGACATCCGA
C
Found at i:10908029 original size:242 final size:242
Alignment explanation
Indices: 10907558--10908059 Score: 591
Period size: 242 Copynumber: 2.1 Consensus size: 242
10907548 GACCTCTTAG
* * * * * * *
10907558 CATAATCTTTAAGATCTCTGGGCATAATTTTGATTTACAATGTTGTCCTGATTGATTCTTTATTT
1 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
* * * * * *
10907623 TTTGACTTATGGTGTTATCTCAGTTGATTCTCTAAGACCTTTGAGCATGATTTTTAAGACCTCTG
66 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTTAGAGCACGATTTCTAAGACATCTG
* * ** * * *
10907688 GGCATAATCTTTAAGACCTCTAGGCATAATTTTGATTCACGGTATTGTCCCAATTGGTTTCTTAT
131 AGCATAATCTTTAAGACCTCGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTTCTTAT
** * * * *
10907753 TTTTTGACTTGTTGTGTTGTTCTAGTCGATTCTGTAAGACCTTCGGA
196 TTTTTGACTTGACGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAA
* **
10907800 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTGCTGTGTTGTCCCGATCGATTCCTTATTT
1 CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
* * *
10907865 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGATCTTCAG-GCACGATTTCTAAGATATTT
66 TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTT-AGAGCACGATTTCTAAGACATCT
* *
10907929 GAGCATAATCTTTAAGACCTCCGA-GCATAATTTCAATTCGCGATATTGTCTCAATCGA-TTCTT
130 GAGCATAATCTTTAAGACCT-CGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTTC-T
* *
10907992 TATTTTTTGACTT-ACGATGTTGTCCCAGTTAATTCTGTAAGATCTTCGAA
193 TATTTTTTGACTTGACG-TGTTGTCCCAGTCAATTCTGTAAGACCTTCGAA
*
10908042 CATGAT-TTCTAAGACCTC
1 CATAATCTT-TAAGACCTC
10908060 CGACCATAAG
Statistics
Matches: 218, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
241 6 0.03
242 209 0.96
243 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (242 bp):
CATAATCTTTAAGACCTCTAGACATAATTTCGATTTACAATGTTGTCCCGATCGATTCCTTATTT
TTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGACCTTAGAGCACGATTTCTAAGACATCTG
AGCATAATCTTTAAGACCTCGAGGCATAATTTCAATTCACGATATTGTCCCAATCGATTTCTTAT
TTTTTGACTTGACGTGTTGTCCCAGTCAATTCTGTAAGACCTTCGAA
Found at i:10908163 original size:132 final size:131
Alignment explanation
Indices: 10907787--10908190 Score: 408
Period size: 132 Copynumber: 3.1 Consensus size: 131
10907777 GTCGATTCTG
* * * ** * * *
10907787 TAAGACCTTCGGA-CATAATCTTTAAGACCT-CTAGACATAATTTCGATTTGCTG-TGTTGTCCC
1 TAAGACC-TCCGACCATAATCTTTAAGACCTCCGAG-CATAATTTCAATTCAC-GATATTATCTC
* * * * *
10907849 GATCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGATCTTCAGGCACG
63 GATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTCA-ACATG
10907914 ATTTC
127 ATTTC
** ** * * * *
10907919 TAAGATATTTGAGCATAATCTTTAAGACCTCCGAGCATAATTTCAATTCGCGATATTGTCTCAAT
1 TAAGACCTCCGACCATAATCTTTAAGACCTCCGAGCATAATTTCAATTCACGATATTATCTCGAT
* * **
10907984 CGA-TTCTTTATTTTTTGACTTACGATGTTGTCCCAGTTAATTCTGTAAGATCTTCGAACATGAT
66 CGATTTC-TTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTC-AACATGAT
10908048 TTC
129 TTC
*
10908051 TAAGACCTCCGACCATAAGT-TTTAAGACCTCC-ATGCATAATTTCAATTCACGATGTTATCTCG
1 TAAGACCTCCGACCATAA-TCTTTAAGACCTCCGA-GCATAATTTCAATTCACGATATTATCTCG
* *
10908114 ATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTTTGTAAGA-CTTTCAAGCATA
64 ATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATC-TTCAA-CATG
*
10908178 ATTTT
127 ATTTC
10908183 TAAGACCT
1 TAAGACCT
10908191 TTAGGCATAA
Statistics
Matches: 227, Mismatches: 35, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
131 10 0.04
132 209 0.92
133 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (131 bp):
TAAGACCTCCGACCATAATCTTTAAGACCTCCGAGCATAATTTCAATTCACGATATTATCTCGAT
CGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTCAACATGATTT
C
Found at i:10908187 original size:22 final size:23
Alignment explanation
Indices: 10908155--10908205 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
10908145 GTCCCAGTCG
10908155 ATTTTGTAAGA-CTTTCAAGCATA
1 ATTTTGTAAGACCTTT-AAGCATA
*
10908178 ATTTT-TAAGACCTTTAGGCATA
1 ATTTTGTAAGACCTTTAAGCATA
10908200 ATTTTG
1 ATTTTG
10908206 ATTCACGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
ATTTTGTAAGACCTTTAAGCATA
Found at i:10908200 original size:132 final size:131
Alignment explanation
Indices: 10907848--10908204 Score: 427
Period size: 132 Copynumber: 2.7 Consensus size: 131
10907838 TGTGTTGTCC
* * * * *
10907848 CGATCGATTCCTTATTTTTTGACTTATGGTGTTATCCCAGTCGATTCTCTAAGATCTTCAGGCAC
1 CGATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTCAAGCAT
** * *
10907913 GATTTCTAAGATATTTGAGCATAATCTTTAAGACCTCCGAGCATAATTTCAATTCGCGATATTGT
66 GATTTCTAAGACCTTTGAGCATAAT-TTTAAGACCTCCGAGCATAATTTCAATTCACGATATTAT
10907978 CT
130 CT
* * * **
10907980 CAATCGA-TTCTTTATTTTTTGACTTACGATGTTGTCCCAGTTAATTCTGTAAGATCTTCGAA-C
1 CGATCGATTTC-TTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTC-AAGC
** * *
10908043 ATGATTTCTAAGACCTCCGACCATAAGTTTTAAGACCTCC-ATGCATAATTTCAATTCACGATGT
64 ATGATTTCTAAGACCTTTGAGCATAA-TTTTAAGACCTCCGA-GCATAATTTCAATTCACGATAT
10908107 TATCT
127 TATCT
*
10908112 CGATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTTTGTAAGA-CTTTCAAGCA
1 CGATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATC-TTCAAGCA
* *
10908176 TAATTTTTAAGACCTTT-AGGCATAATTTT
65 TGATTTCTAAGACCTTTGA-GCATAATTTT
10908205 GATTCACGGT
Statistics
Matches: 188, Mismatches: 29, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
131 11 0.06
132 172 0.91
133 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (131 bp):
CGATCGATTTCTTATTTTTTGACTTATGGTGTTGTCCCAGTCGATTCTGTAAGATCTTCAAGCAT
GATTTCTAAGACCTTTGAGCATAATTTTAAGACCTCCGAGCATAATTTCAATTCACGATATTATC
T
Found at i:10908244 original size:110 final size:110
Alignment explanation
Indices: 10908064--10908275 Score: 289
Period size: 110 Copynumber: 1.9 Consensus size: 110
10908054 GACCTCCGAC
* *
10908064 CATAAGTTTTAAGACCTCCATGCATAATTTCAATTCACGATGTTATCTCGATCGATTTCTTATTT
1 CATAAGTTTTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTT
** * * *
10908129 TTTGACTTATGGTGTTGTCCCAGTCGATTTTGTAAGACTTTCAAG
66 TTTGACTTACAGTATTGTCCCAGTCAATTCTGTAAGACTTTCAAG
* ** ** * *
10908174 CATAATTTTTAAGACCTTTAGGCATAATTTTGATTCACGGTGTTGTCTCGATCGATTCCTTATTT
1 CATAAGTTTTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTT
*
10908239 TTTGACTTGCAGTATTGTCCCAGTCAATTCTGTAAGA
66 TTTGACTTACAGTATTGTCCCAGTCAATTCTGTAAGA
10908276 TCACCCGGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (110 bp):
CATAAGTTTTAAGACCTCCAGGCATAATTTCAATTCACGATGTTATCTCGATCGATTCCTTATTT
TTTGACTTACAGTATTGTCCCAGTCAATTCTGTAAGACTTTCAAG
Found at i:10908404 original size:22 final size:22
Alignment explanation
Indices: 10908379--10908421 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10908369 GGGTATGATT
*
10908379 TTTAAGACCTTCAGGCATAATC
1 TTTAAGACCTCCAGGCATAATC
* *
10908401 TTTAAGATCTCCGGGCATAAT
1 TTTAAGACCTCCAGGCATAAT
10908422 TTTGATTCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (22 bp):
TTTAAGACCTCCAGGCATAATC
Found at i:10908589 original size:132 final size:132
Alignment explanation
Indices: 10908285--10908630 Score: 383
Period size: 132 Copynumber: 2.6 Consensus size: 132
10908275 ATCACCCGGT
** * * *
10908285 ATAATTTCAATTCGTGGTGTTGTCCCAATCGATTCTTTATTTTTTGACTTATGATGTTGTCCCAG
1 ATAATTTTGATTCGTGGTGTTGTCCTAATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCCAG
* * ** * * * * *
10908350 TTGAT-TATGTAAGACTTCTGGGTATGATTTTTAAGACCTTCAGGCATAATCTTTAAGATCTCCG
66 TCGATCT-TGTAAGACCTCTGGACATGATTTCTAAGACCTTCAAGCATAACCTTGAAGATCTCCA
*
10908414 GGC
130 AGC
* ** * * * * *
10908417 ATAATTTTGATTCGTGATGTTGTTTTGATCAATT-TCTTATTTTTTAACTTGCGGTGTTGTCCTA
1 ATAATTTTGATTCGTGGTGTTGTCCTAATCGATTCT-TTATTTTTTGACTTGTGGTGTTGTCCCA
*
10908481 GTCGATCTTGTAAGACCTCTGGACATGATTTCTAAGACCTTTAAGCATAACCTTGAAGA-CTTCC
65 GTCGATCTTGTAAGACCTCTGGACATGATTTCTAAGACCTTCAAGCATAACCTTGAAGATC-TCC
10908545 AAGC
129 AAGC
** *
10908549 ATAATTTTGATTCGTGGTAATGTCCTAATCGATTCTTTATTTTTTGACTTGTGGTGTTATCCCAG
1 ATAATTTTGATTCGTGGTGTTGTCCTAATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCCAG
* *
10908614 TCGATCCTCTAAGACCT
66 TCGATCTTGTAAGACCT
10908631 TCGGGCATAA
Statistics
Matches: 173, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
131 2 0.01
132 169 0.98
133 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (132 bp):
ATAATTTTGATTCGTGGTGTTGTCCTAATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCCAG
TCGATCTTGTAAGACCTCTGGACATGATTTCTAAGACCTTCAAGCATAACCTTGAAGATCTCCAA
GC
Found at i:10908726 original size:88 final size:88
Alignment explanation
Indices: 10908547--10908732 Score: 221
Period size: 88 Copynumber: 2.1 Consensus size: 88
10908537 AGACTTCCAA
** * * *
10908547 GCATAATTTTGATTCGTGGTAATGTCCTAATCGATTCTTTATTTTTTGACTTGTGGTGTTATCCC
1 GCATAATTTTGATTCACGGTAATGTCCTAATCGATTCCTTATTTTTTGACTTGCGATGTTATCCC
* * *
10908612 AGTCGATCCTCTAAGACCTTCGG
66 AGTCAATCCTCTAAGACATTCAG
* *
10908635 GCATAATTTTGATTCACGGTATTGTCCTAATCGATTCCTTATTTTTTGACTTGCGATGTTGTCCC
1 GCATAATTTTGATTCACGGTAATGTCCTAATCGATTCCTTATTTTTTGACTTGCGATGTTATCCC
* * * *
10908700 GGTTAATTCTGTAAGACA-TCTAG
66 AGTCAATCCTCTAAGACATTC-AG
*
10908723 GCATGATTTT
1 GCATAATTTT
10908733 TAAGACCTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 2 0.02
88 80 0.98
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (88 bp):
GCATAATTTTGATTCACGGTAATGTCCTAATCGATTCCTTATTTTTTGACTTGCGATGTTATCCC
AGTCAATCCTCTAAGACATTCAG
Found at i:10908823 original size:110 final size:110
Alignment explanation
Indices: 10908623--10908861 Score: 293
Period size: 110 Copynumber: 2.2 Consensus size: 110
10908613 GTCGATCCTC
* * *
10908623 TAAGACCTTCGGGCATAATTTTGATTCACGGTATTGTCCTAATCGATTCCTTATTTTTTGACTTG
1 TAAGACCTTCGGACATAATTTTGATTCACGGTATTGTCCCAATCGATTCCTTATTTTTTGACTTA
* *
10908688 CGATGTTGTCCCGGTTAATTCTGTAAGACATCTAGGCATGATTTT
66 CGATGTTGTCCCAGTCAATTCTGTAAGACATCTAGGCATGATTTT
* * * * *
10908733 TAAGACCTTTGGACATAATTTTGATTTATGGTGTTGTCCCAATCGATTCTTTATTTTTTGACTTA
1 TAAGACCTTCGGACATAATTTTGATTCACGGTATTGTCCCAATCGATTCCTTATTTTTTGACTTA
* * * *
10908798 C-AGTGTTGTCCCAGTCAATTTTGTAAGACCT-TCGTGCATGATTTC
66 CGA-TGTTGTCCCAGTCAATTCTGTAAGACATCTAG-GCATGATTTT
* * *
10908843 TAAAACATTCGGGCATAAT
1 TAAGACCTTCGGACATAAT
10908862 CTTTAAGACC
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
109 3 0.03
110 106 0.97
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (110 bp):
TAAGACCTTCGGACATAATTTTGATTCACGGTATTGTCCCAATCGATTCCTTATTTTTTGACTTA
CGATGTTGTCCCAGTCAATTCTGTAAGACATCTAGGCATGATTTT
Found at i:10908911 original size:132 final size:131
Alignment explanation
Indices: 10908722--10909069 Score: 405
Period size: 132 Copynumber: 2.6 Consensus size: 131
10908712 AAGACATCTA
* * ** *
10908722 GGCATGATTTTTAAGACCTTTGGACATAATTTTGATTTATGGTGTTGTCCCAATCGATTCTTTAT
1 GGCATAATCTTTAAGACCTTTGG-CATAATTTTGATTTACAGTGTTGTCCTAATCGATTCTTTAT
* * * * *
10908787 TTTTTGACTTACAGTGTTGTCCCAGTCAATTTTGTAAGACCT-TCGTGCATGATTTCTAAAACAT
65 TTTTTGACTTACGGTGTTGTCCCAATCAATTTTGTAAAACCTCT-GGGCATGATTTCTAAAACCT
10908851 -TCG
129 CT-G
* * * *
10908854 GGCATAATCTTTAAGACCTTTAGGCATAATTTCGATTTACAATGTTGTCTTAGTCGATTCCTTT-
1 GGCATAATCTTTAAGACCTTT-GGCATAATTTTGATTTACAGTGTTGTCCTAATCGATT-CTTTA
* *
10908918 TTTTTTGACTTACGGTATTGTCCCAATCAATTTTGTAAAACCTCTGGGCATGATTTCTAAGACCT
64 TTTTTTGACTTACGGTGTTGTCCCAATCAATTTTGTAAAACCTCTGGGCATGATTTCTAAAACCT
10908983 CTG
129 CTG
* * * * * *
10908986 GACATAATCTTTAAGATCTCTGGGCGTAATTTTGATTTCACAGTATTATCCTAATCGATTCTTTA
1 GGCATAATCTTTAAGACCT-TTGGCATAATTTTGATTT-ACAGTGTTGTCCTAATCGATTCTTTA
*
10909051 TTTTGTGACTTACGGTGTT
64 TTTTTTGACTTACGGTGTT
10909070 ATTTCGGTGA
Statistics
Matches: 181, Mismatches: 28, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
132 139 0.77
133 42 0.23
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (131 bp):
GGCATAATCTTTAAGACCTTTGGCATAATTTTGATTTACAGTGTTGTCCTAATCGATTCTTTATT
TTTTGACTTACGGTGTTGTCCCAATCAATTTTGTAAAACCTCTGGGCATGATTTCTAAAACCTCT
G
Found at i:10908982 original size:22 final size:22
Alignment explanation
Indices: 10908957--10909015 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
10908947 ATTTTGTAAA
*
10908957 ACCTCTGGGCATGAT-TTCTAAG
1 ACCTCTGGGCATAATCTT-TAAG
*
10908979 ACCTCTGGACATAATCTTTAAG
1 ACCTCTGGGCATAATCTTTAAG
* *
10909001 ATCTCTGGGCGTAAT
1 ACCTCTGGGCATAAT
10909016 TTTGATTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (22 bp):
ACCTCTGGGCATAATCTTTAAG
Found at i:10910652 original size:3 final size:3
Alignment explanation
Indices: 10910646--10910695 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
10910636 ATGTTGTTTT
* *
10910646 ATA ATA ATTA ATA ATA ATA ACA ATA ATA A-A CAAA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
10910692 ATA A
1 ATA A
10910696 AAAGTTATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 36 0.88
4 4 0.10
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:10911129 original size:29 final size:29
Alignment explanation
Indices: 10911078--10911133 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10911068 CATAAAGTCA
**
10911078 AAACCCTAAAATTAAACCGTAAACCCTCC
1 AAACCCTAAAAAAAAACCGTAAACCCTCC
10911107 AAACCCTAAAAAAAATACC-TAAACCCT
1 AAACCCTAAAAAAAA-ACCGTAAACCCT
10911134 AAAACCTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (29 bp):
AAACCCTAAAAAAAAACCGTAAACCCTCC
Found at i:10911255 original size:22 final size:24
Alignment explanation
Indices: 10911230--10911277 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
10911220 CTAAACCCTT
*
10911230 AAACCCTAAAA-TC-CAAAATCCC
1 AAACCCTAAAAGTCTAAAAATCCC
10911252 AAACCCTAAAAGTCTAAAAATCCC
1 AAACCCTAAAAGTCTAAAAATCCC
10911276 AA
1 AA
10911278 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
23 2 0.09
24 10 0.43
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.15
Consensus pattern (24 bp):
AAACCCTAAAAGTCTAAAAATCCC
Found at i:10913662 original size:54 final size:54
Alignment explanation
Indices: 10913603--10913707 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
10913593 TTTATTTTTA
* * * *
10913603 TTTTTTGTTTTTAACTTTGTTCCAAAATTTATTTTATTACTATTGTAATTTACT
1 TTTTTTGTTTATAACTTTGTTCCAAAATATATTTTATTACTACTGCAATTTACT
* *
10913657 TTTTTTGTTTATAACTTTTTTTCAAAATATATTTTATTACTACTGCAATTT
1 TTTTTTGTTTATAACTTTGTTCCAAAATATATTTTATTACTACTGCAATTT
10913708 CGATTTTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (54 bp):
TTTTTTGTTTATAACTTTGTTCCAAAATATATTTTATTACTACTGCAATTTACT
Found at i:10914316 original size:23 final size:23
Alignment explanation
Indices: 10914290--10914340 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
10914280 AAGTTTTGAG
10914290 TTTTGAATTTTA-AAATTTTAAAA
1 TTTT-AATTTTATAAATTTTAAAA
* * *
10914313 TTTTACTTTTATGAATTTTATAA
1 TTTTAATTTTATAAATTTTAAAA
10914336 TTTTA
1 TTTTA
10914341 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTAATTTTATAAATTTTAAAA
Found at i:10921936 original size:357 final size:355
Alignment explanation
Indices: 10921281--10924766 Score: 4577
Period size: 357 Copynumber: 9.7 Consensus size: 355
10921271 TATAACAATT
* * * * * * *
10921281 TATTGAAGGTGGTTTATAATAAAAGACACCTTTAATAATCCACGAAAATTTTTTAAAGGAAATTA
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCA-TAAAATTTTTT-GAGAAAATTA
* * * *
10921346 TTGAAGGCGTTGTTTTCTGCAATCGCCTTCAATTATTATCTACAAACTGTGATAGAAATTATTAA
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
* * ** * * * * * *
10921411 AGGCTTCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAAAATTTATATGACGGTATATAGAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* * ***
10921476 GCATTTTACAGTAGAAGATGCCTTTAATAATTCCTAAAATA-TTAAAAGAATAAATTTTGAAGGC
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAA-AAATTTTGAAGGC
* *
10921540 GTCTGTTATTAACAAATGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
258 GTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTT
*
10921605 TTCTAATAAAAGCCTTCCATTACCATCGTGGTA
323 TTCTAATAAATGCCTTCCATTACCATCGTGGTA
* *
10921638 TATTGAAGGTGATTTATAATAAGAGACGCCTTTAAAAATCCATAAAATTTTTTTGAGGAAAATTA
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCATAAAA-TTTTTTGA-GAAAATTA
* * * * * * * *
10921703 TTAAAAGCGTTATTTTCTACAACCGCATTCAGTTATTATCTACAAACTATGATAAGAATTATTAA
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
*
10921768 AGGCATCTATCTTAAATATACACCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* * * *
10921833 ACATTTGATAGTAGAAGACACCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAAGCG
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGCG
* *
10921898 TCTGTTATTAACAAATGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTT
259 TCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTT
*
10921963 TCTAATAAATGCCTTCCATTACCATCATGGTA
324 TCTAATAAATGCCTTCCATTACCATCGTGGTA
* * * *
10921995 TATTGAAGGCGATTTATAATAAAAGACACCTTTAAAAATTCGTAAAAATTTTTTGAGGGAAATTA
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCAT-AAAATTTTTTGA-GAAAATTA
**
10922060 TTGAAGGTGTTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
** * * * *
10922125 AGGTGTCTATCTTAAATATACACCTTCAATAACAATGTTAGAATTTGTGTGGTGGTATATAGAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* * *
10922190 GCATTTGACAGTAGAAGACGCCTTTATTAATTCCTAAAATATTTAGTGAAAAAATTTTGAAGGCA
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGCG
* * *
10922255 TCTATTATTAACAAACGCCTTCACTAATGGATTACTAAATTTAAAGGTATATTGAAGGCCCCTTT
259 TCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTT
**
10922320 TCTAATAAACACCTTCCATTACCATCGTGGTA
324 TCTAATAAATGCCTTCCATTACCATCGTGGTA
* *
10922352 TATTGAAGG-CAGTTTATAATAAAAGACGTCTTTAAAAATTCATAAAATTTTTTTGAGAGAAATT
1 TATTGAAGGTGA-TTTATAATAAAAGACGCCTTTAAAAATTCATAAAA-TTTTTTGAGA-AAATT
* *
10922416 ATTGAAGGCGTTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAATTGTGATAGGAATTATTA
63 ATTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTA
* * *
10922481 AAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAAAATTTGTGTGACGGTATATAGAA
128 AAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAA
*
10922546 GGCATTTGACAGTAGAAGACGCCTTTAATAATTCTTAAAATATTTAGT-GAGAAAATTTTGAAGG
193 GGCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGA-AAAATTTTGAAGG
*
10922610 CGTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCT
257 CGTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCT
10922675 TTTCTAATAAATGCCTTCCATTACCATCGTGGTA
322 TTTCTAATAAATGCCTTCCATTACCATCGTGGTA
* * * *
10922709 TATTGAAGGT-AGTTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATATTTTGAGAGAAGTT
1 TATTGAAGGTGA-TTTATAATAAAAGACGCCTTTAAAAATTCA-TAAAATTTTTTGAGA-AAATT
* * * * * * *
10922773 ATTGAAGGCACTGTTTTTTGCAATCGCTTTCAGTTATTATCTATAAATTGTGATTGGAATTATTA
63 ATTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTA
* * *
10922838 AAGACGTCTATCTTAAATATACGCTTTCAATAACAGTGTTAGAATTTGTGTGGCAGTATATAGAA
128 AAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGC--------G--
* ** ** *
10922903 GTATATAGAAGGCATTTGACAGTAGAAGATACCTTTAATAATTTTTAAAATATTTAATGGTAAAA
183 GTATATAAAAGGCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGG-AAAA
*
10922968 A-TTTGAAGGCGTCTGTTATTAACAAATGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATT
247 ATTTTGAAGGCGTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATT
** * *
10923032 GAAGATGTCTTTTCTAATAAACGCCTTCCATTACCATCGTGGTA
312 GAAGGCGCCTTTTCTAATAAATGCCTTCCATTACCATCGTGGTA
*
10923076 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCGTAAAAATTTTTTGAAGAAAATTA
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCAT-AAAATTTTTTG-AGAAAATTA
* * * * *
10923141 TTTAAGGCATTGTTTTCTACAAGCGCCTTTAGTTATTATCTACAAACTATGATAGGAATTATTAA
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
* * * * * * * *
10923206 AGGTATCTATCTTAAATATAAGCCTTAAATAATAGTGTTAAAATTTGTGTGACGGTATTTAGAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* * * * * *
10923271 GTATTTTACAGTAGAAGATGCCTTTAATAATTCTTAAATTATTTAGT-GAGAAAATTTTGAAGGT
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGA-AAAATTTTGAAGGC
* * *
10923335 GTCTGTTATTAACAAACGCCTTTACTAATGGACTACTAACTTTAAAGGTATATTGAAGGCGCCTT
258 GTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTT
***
10923400 TTCTAATAAACATCTTCCATTACCATCGTGGTA
323 TTCTAATAAATGCCTTCCATTACCATCGTGGTA
* * * * *
10923433 TATTGAAGGCGGTTTATAATAAAAGATGCCTTTAAAAATTCACAAAAATGTTTTGAGAGAAATTA
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCA-TAAAATTTTTTGAGA-AAATTA
* ** ** * * *
10923498 TTAAAGGTGTTGTTTTCTGCAACAACCTTCAGTTATTATCTACAAATTGTGATTGGGATTATTAA
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
* * * ** *
10923563 AGACATCTATCTTAAATATATGCCTTCAATAACAATGTTAGAATTTGTGTGGTAGTATATAGAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* **
10923628 GCATTTGACAGTAGAATACATCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGCG
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGCG
* ** * *
10923693 TCTATTATTAACAAATACCTTCACTAATGGATTACTAAGTTTAAAGGCATATTGAAGGCGTCTTT
259 TCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTT
*
10923758 TCTAATAAACGCCTTCCATTACCATCGTGGTA
324 TCTAATAAATGCCTTCCATTACCATCGTGGTA
* * *
10923790 TATTGAAGATGATTTATAATAAAAGACGCCTTTAAAAA-TCTATGAAAAATTTTTGAGGGAAATT
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTC-AT-AAAATTTTTTGA-GAAAATT
* * * * * *
10923854 ATTGAAGGCATCGTTTTTTGCAATCGCCTTTAGTTATTATCTACAAACTATGATAGAAATTATTA
63 ATTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTA
* * *
10923919 AAGGCATCTATCTTAAATATAAGCCTTTAATAACCGTGTTAGAATTTGTGTGGCGGTATATAAAA
128 AAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAA
* * * *
10923984 GGCATTTGACAATAGAAGATGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAATGT
193 GGCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGC
* *
10924049 GTCTGTTATTAACAAACGCCTTCACTAACGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTT
258 GTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTT
* *
10924114 TTTTAATAAATGCCTTCCATTACCATCATGGTA
323 TTCTAATAAATGCCTTCCATTACCATCGTGGTA
** *
10924147 TATTGAAGGAAATTTATAATAAAAGACGCCTTTAAAAATTCATGAAAAATTTTTGATTG-AAATT
1 TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCAT-AAAATTTTTTGA--GAAAATT
*
10924211 ATTGAAGGCATTATTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTA
63 ATTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTA
* * * *
10924276 AAGGAAT-TATCTTAAATATATGCCTTGAATAACAGTGTTAGAATTTGTGTAGCGGTATATAAAA
128 AAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAA
* *
10924340 GGCATTTGACAGTAGAAGACGCCTTTAATAGTTCCTAAAATATTTAGTGGAAAAGTTTTGAAGGC
193 GGCATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGC
* * * **
10924405 GTCTGTTATTAACAAACGTCTTTACTAATGGATTACTAAGTTTAAAGGTATATTGATGGCATCTT
258 GTCTGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTT
* *
10924470 TTCTAATAAATGCCTTCTATTACCATCATGGTA
323 TTCTAATAAATGCCTTCCATTACCATCGTGGTA
* *
10924503 TATTGAAGACT-ATTTATAATAAAAGACGCCTTTAAAAATTCACAAAATTTTTTGAGAGAAATTA
1 TATTGAAG-GTGATTTATAATAAAAGACGCCTTTAAAAATTCATAAAATTTTTTGAGA-AAATTA
** * * * ** * * * *
10924567 TTGAAAACATTATTTTTTACAACTACCTTCAGTTATTATCTACAAACTCTTATAAGAATTATTAG
64 TTGAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
* * ** * * * *
10924632 AGGCATCTATGTTAAATATATGCCTTTGATAACAGTGTTAGAGTTTGTTTGACGATATATAAAAG
129 AGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAG
* **
10924697 GTATTTGACAGTAGAAGACATCTTTAATAATT-CTCAAAATATTTAGT-GAGAAAATTTTGAAGG
194 GCATTTGACAGTAGAAGACGCCTTTAATAATTCCT-AAAATATTTAGTGGA-AAAATTTTGAAGG
10924760 CGT-TGTT
257 CGTCTGTT
10924767 TTCTATAACC
Statistics
Matches: 2771, Mismatches: 317, Indels: 84
0.87 0.10 0.03
Matches are distributed among these distances:
353 1 0.00
355 86 0.03
356 369 0.13
357 1977 0.71
358 20 0.01
359 1 0.00
365 1 0.00
367 306 0.11
368 9 0.00
369 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (355 bp):
TATTGAAGGTGATTTATAATAAAAGACGCCTTTAAAAATTCATAAAATTTTTTGAGAAAATTATT
GAAGGCATTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAG
GCATCTATCTTAAATATACGCCTTCAATAACAGTGTTAGAATTTGTGTGGCGGTATATAAAAGGC
ATTTGACAGTAGAAGACGCCTTTAATAATTCCTAAAATATTTAGTGGAAAAATTTTGAAGGCGTC
TGTTATTAACAAACGCCTTCACTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTTTC
TAATAAATGCCTTCCATTACCATCGTGGTA
Found at i:10945393 original size:23 final size:24
Alignment explanation
Indices: 10945362--10945407 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
10945352 GCTTTATTTA
*
10945362 TAGAGC-TTTCTGAGATTCAAATCC
1 TAGAGCTTTTCAG-GATTCAAATCC
10945386 TAGA-CTTTTCAGGATTCAAATC
1 TAGAGCTTTTCAGGATTCAAATC
10945408 TCAGATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (24 bp):
TAGAGCTTTTCAGGATTCAAATCC
Found at i:10945596 original size:21 final size:23
Alignment explanation
Indices: 10945550--10945605 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
10945540 TTGTCAAACG
10945550 AATAA-AA-AAAAAAGGAAAGAA
1 AATAATAATAAAAAAGGAAAGAA
10945571 AATAATAATAAAAAAGGAAA-ATA
1 AATAATAATAAAAAAGGAAAGA-A
10945594 TAATAATAATAA
1 -AATAATAATAA
10945606 TAATAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.16
22 3 0.10
23 12 0.39
24 11 0.35
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AATAATAATAAAAAAGGAAAGAA
Found at i:10945598 original size:24 final size:24
Alignment explanation
Indices: 10945550--10945632 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 24
10945540 TTGTCAAACG
10945550 AATAA-AA-AAAAAAGGAAAGA-A-
1 AATAATAATAAAAAAGGAAA-ATAT
10945571 AATAATAATAAAAAAGGAAAATAT
1 AATAATAATAAAAAAGGAAAATAT
*
10945595 AATAATAATAATAATAA-TAATAATAAT
1 AATAATAATAA-AA-AAGGAA-AAT-AT
10945622 AATAATAATAA
1 AATAATAATAA
10945633 TAATAATAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
21 5 0.09
22 3 0.06
23 12 0.23
24 11 0.21
25 4 0.08
26 5 0.09
27 13 0.25
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (24 bp):
AATAATAATAAAAAAGGAAAATAT
Found at i:10945599 original size:3 final size:3
Alignment explanation
Indices: 10945593--10945664 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
10945583 AAAGGAAAAT
10945593 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10945641 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
10945665 TACAAAATAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10945969 original size:48 final size:49
Alignment explanation
Indices: 10945898--10946102 Score: 202
Period size: 50 Copynumber: 4.2 Consensus size: 49
10945888 ACTTTAAGAC
* * **
10945898 TTAAAATTTCATCTTAGAAAA-GCTCATCTAAGTGGATGCTCAATAACT
1 TTAAAAATTCATCTTAGAAAAGGCTCCTCTAAGCAGATGCTCAATAACT
** * *
10945946 TTAAAAATTCATCTGGGAAAA-GCTCCTCTAAGCAGAGGCTCAATGACT
1 TTAAAAATTCATCTTAGAAAAGGCTCCTCTAAGCAGATGCTCAATAACT
* * * * *
10945994 TTAAAAATTTCATCTT-GAAAAAGGCTCCTTTAAG-TGAAGACTCAATGATT
1 TTAAAAA-TTCATCTTAG-AAAAGGCTCCTCTAAGCAGATG-CTCAATAACT
* * *
10946044 TTAACAATTTCATCTTAGAAAAGGCTCCTCTAAGCAGATGTTCAACAACT
1 TTAA-AAATTCATCTTAGAAAAGGCTCCTCTAAGCAGATGCTCAATAACT
10946094 TTAAAAATT
1 TTAAAAATT
10946103 TCTTCTTTTC
Statistics
Matches: 128, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
48 48 0.38
49 18 0.14
50 56 0.44
51 6 0.05
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (49 bp):
TTAAAAATTCATCTTAGAAAAGGCTCCTCTAAGCAGATGCTCAATAACT
Found at i:10946095 original size:100 final size:97
Alignment explanation
Indices: 10945900--10946109 Score: 244
Period size: 100 Copynumber: 2.1 Consensus size: 97
10945890 TTTAAGACTT
* *
10945900 AAAATTTCATCTTAGAAAAGCTCATCTAAGTGGATGCTCAATAACTTTAAAAATTCATCTGGGAA
1 AAAATTTCATCTTAGAAAAGCTCATCTAAGTGGAAGCTCAATAACTTTAAAAATTCATCTGAGAA
**
10945965 AAGCTCCTCTAAGCAGAGGCTCAATGACTTTA
66 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTA
* * * * * *
10945997 AAAATTTCATCTT-GAAAAAGGCTCCTTTAAGT-GAAGACTCAATGATTTTAACAATTTCATCTT
1 AAAATTTCATCTTAG-AAAA-GCTCATCTAAGTGGAAG-CTCAATAACTTTAA-AAATTCATCTG
* *
10946060 AGAAAAGGCTCCTCTAAGCAGATGTTCAACAACTTTA
62 AGAAAA-GCTCCTCTAAGCAGAGGCTCAACAACTTTA
*
10946097 AAAATTTCTTCTT
1 AAAATTTCATCTT
10946110 TTCTTAAAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
96 1 0.01
97 20 0.21
98 22 0.23
99 14 0.15
100 38 0.40
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (97 bp):
AAAATTTCATCTTAGAAAAGCTCATCTAAGTGGAAGCTCAATAACTTTAAAAATTCATCTGAGAA
AAGCTCCTCTAAGCAGAGGCTCAACAACTTTA
Found at i:10950466 original size:25 final size:24
Alignment explanation
Indices: 10950438--10950487 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
10950428 ATAACAGTGG
*
10950438 AATGGCAAGAAAATGATAAAGGAAA
1 AATGGAAAGAAAATGA-AAAGGAAA
*
10950463 AATGGAAAGAAAATGAAAATGAAA
1 AATGGAAAGAAAATGAAAAGGAAA
10950487 A
1 A
10950488 CAATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.12
Consensus pattern (24 bp):
AATGGAAAGAAAATGAAAAGGAAA
Found at i:10957221 original size:11 final size:10
Alignment explanation
Indices: 10957197--10957221 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10957187 TTGAATAATC
10957197 TTTTTGTTTA
1 TTTTTGTTTA
10957207 TTTTTGTTTA
1 TTTTTGTTTA
10957217 TTTTT
1 TTTTT
10957222 CATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTGTTTA
Found at i:10958070 original size:18 final size:19
Alignment explanation
Indices: 10958047--10958082 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10958037 TGATTTTATT
10958047 TTTATTTTTCA-TATTTTA
1 TTTATTTTTCATTATTTTA
10958065 TTTATTTTTCATTATTTT
1 TTTATTTTTCATTATTTT
10958083 TTATATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTCATTATTTTA
Found at i:10958103 original size:31 final size:28
Alignment explanation
Indices: 10958048--10958105 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
10958038 GATTTTATTT
10958048 TTATTTTTCATATTTTATTTATTTTTCA
1 TTATTTTTCATATTTTATTTATTTTTCA
*
10958076 TTATTTTTTATATCATTTATTTTATTTTTC
1 TTATTTTTCATAT--TTTA-TTTATTTTTC
10958106 TATCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
30 4 0.15
31 10 0.38
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (28 bp):
TTATTTTTCATATTTTATTTATTTTTCA
Found at i:10960122 original size:14 final size:14
Alignment explanation
Indices: 10960103--10960192 Score: 117
Period size: 14 Copynumber: 6.4 Consensus size: 14
10960093 CAAGCACTTG
10960103 GGGTTTTGATTTTA
1 GGGTTTTGATTTTA
10960117 GGGTTTTGATTTTA
1 GGGTTTTGATTTTA
* * ** *
10960131 GGATTTGGGGTTTG
1 GGGTTTTGATTTTA
10960145 GGGTTTTGATTTTA
1 GGGTTTTGATTTTA
*
10960159 GGGTTTTGATTATA
1 GGGTTTTGATTTTA
*
10960173 GGGCTTTGATTTTA
1 GGGTTTTGATTTTA
10960187 GGGTTT
1 GGGTTT
10960193 GAGGTTTGGG
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 62 1.00
ACGTcount: A:0.13, C:0.01, G:0.33, T:0.52
Consensus pattern (14 bp):
GGGTTTTGATTTTA
Found at i:10960149 original size:28 final size:28
Alignment explanation
Indices: 10960117--10960206 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
10960107 TTTGATTTTA
* *
10960117 GGGTTTTGATTTTAGGATTTGGGGTTTG
1 GGGTTTTGATTTTAGGGTTTGAGGTTTG
*
10960145 GGGTTTTGATTTTAGGGTTTTGA--TTATA
1 GGGTTTTGATTTTAGGG-TTTGAGGTT-TG
*
10960173 GGGCTTTGATTTTAGGGTTTGAGGTTTG
1 GGGTTTTGATTTTAGGGTTTGAGGTTTG
10960201 GGGTTT
1 GGGTTT
10960207 AGGGTTTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.13
28 39 0.75
29 6 0.12
ACGTcount: A:0.12, C:0.01, G:0.37, T:0.50
Consensus pattern (28 bp):
GGGTTTTGATTTTAGGGTTTGAGGTTTG
Found at i:10960267 original size:16 final size:16
Alignment explanation
Indices: 10960246--10960294 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
10960236 TTAGAGTTTA
10960246 GTTTTAAGGTTTTGAG
1 GTTTTAAGGTTTTGAG
*
10960262 GTTTTAAGGTTTCGA-
1 GTTTTAAGGTTTTGAG
*
10960277 -TTTT-AGGGTTTGAG
1 GTTTTAAGGTTTTGAG
10960291 GTTT
1 GTTT
10960295 CAATTTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.25
14 4 0.14
15 3 0.11
16 14 0.50
ACGTcount: A:0.16, C:0.02, G:0.31, T:0.51
Consensus pattern (16 bp):
GTTTTAAGGTTTTGAG
Found at i:10960294 original size:21 final size:21
Alignment explanation
Indices: 10960268--10960309 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10960258 TGAGGTTTTA
*
10960268 AGGTTTCGATTTTAGGGTTTG
1 AGGTTTCAATTTTAGGGTTTG
10960289 AGGTTTCAATTTTAGGGTTTG
1 AGGTTTCAATTTTAGGGTTTG
10960310 GAGGCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.31, T:0.48
Consensus pattern (21 bp):
AGGTTTCAATTTTAGGGTTTG
Found at i:10960344 original size:51 final size:50
Alignment explanation
Indices: 10960247--10960348 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 50
10960237 TAGAGTTTAG
* * * *
10960247 TTTTAAGGTTTTGAGGTTTTAAGGTTTCGATTTTAGGGTTTGAGGTTTCAA
1 TTTTAAGGTTTGGAGGCTTTAAGGTTTCGATTTTAGGGTCTAAGG-TTCAA
* *
10960298 TTTTAGGGTTTGGAGGCTTTATGGATTT-GATTTTAGGGTCTAAGGTTCAA
1 TTTTAAGGTTTGGAGGCTTTAAGG-TTTCGATTTTAGGGTCTAAGGTTCAA
10960348 T
1 T
10960349 GTTTTGATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 6 0.14
51 35 0.80
52 3 0.07
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (50 bp):
TTTTAAGGTTTGGAGGCTTTAAGGTTTCGATTTTAGGGTCTAAGGTTCAA
Found at i:10960410 original size:57 final size:58
Alignment explanation
Indices: 10960297--10960411 Score: 139
Period size: 57 Copynumber: 2.0 Consensus size: 58
10960287 TGAGGTTTCA
* *
10960297 ATTTTAGGGTTTGGAGGCTTTATGGATTTGATTTTAGGGTCTAAGGTTCAATGTTTTG
1 ATTTTAGGGTTTGAAGGCTTTATGGATTTGATTTTAGGGTCTAAGGTTCAAGGTTTTG
* *
10960355 ATTTTAGGGTTTGAAAGG-TTTA-GGATTT-AGTTTTAGGGTTTGAGGTAT-AAGGTTTTG
1 ATTTTAGGGTTTG-AAGGCTTTATGGATTTGA-TTTTAGGGTCTAAGGT-TCAAGGTTTTG
10960412 GGGTTTAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
56 1 0.02
57 28 0.56
58 18 0.36
59 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (58 bp):
ATTTTAGGGTTTGAAGGCTTTATGGATTTGATTTTAGGGTCTAAGGTTCAAGGTTTTG
Found at i:10960772 original size:15 final size:15
Alignment explanation
Indices: 10960742--10960791 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
10960732 AAGTTTTGAA
10960742 ATCATT-TTATTATT
1 ATCATTATTATTATT
*
10960756 ATCATTATTATTGTT
1 ATCATTATTATTATT
10960771 ATCATTATTAATTATT
1 ATCATTATT-ATTATT
10960787 ATCAT
1 ATCAT
10960792 AAAACAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 6 0.19
15 16 0.50
16 10 0.31
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (15 bp):
ATCATTATTATTATT
Found at i:10961700 original size:18 final size:17
Alignment explanation
Indices: 10961677--10961716 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
10961667 TTTTTCTCTT
10961677 TTTTTTAATT-TCTAATAA
1 TTTTTTAATTAT-T-ATAA
10961695 TTTTTTAATTATTATAA
1 TTTTTTAATTATTATAA
10961712 TTTTT
1 TTTTT
10961717 AATAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 11 0.52
19 1 0.05
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTAATTATTATAA
Found at i:10962238 original size:34 final size:34
Alignment explanation
Indices: 10962200--10962277 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
10962190 TTAAATCGTA
* * * *
10962200 AGTCAGAAAATAACAAGAA-CGAGATTGAACCTCG
1 AGTCAAAAAATAACAA-AACCAAGATTAAACCACG
10962234 AGTCAAAAAATAACAAAACCAAGATTAAACCACG
1 AGTCAAAAAATAACAAAACCAAGATTAAACCACG
10962268 AGTCAAAAAA
1 AGTCAAAAAA
10962278 CAAAGATGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.55, C:0.18, G:0.14, T:0.13
Consensus pattern (34 bp):
AGTCAAAAAATAACAAAACCAAGATTAAACCACG
Found at i:10962290 original size:35 final size:34
Alignment explanation
Indices: 10962221--10962331 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
10962211 AACAAGAACG
* * *
10962221 AGATTGAACCTCGAGTCAAAAAATAACA-AAACCA
1 AGATTAAACCACGAGTCAAAAAATAA-AGATACCA
*
10962255 AGATTAAACCACGAGTCAAAAAACAAAGATGACCA
1 AGATTAAACCACGAGTCAAAAAATAAAGAT-ACCA
* * * * * * *
10962290 AAATTGAACTATGAGTCAGAAAATAACGATATCA
1 AGATTAAACCACGAGTCAAAAAATAAAGATACCA
10962324 AGATTAAA
1 AGATTAAA
10962332 TTACGGGTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 1 0.02
34 33 0.54
35 27 0.44
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.17
Consensus pattern (34 bp):
AGATTAAACCACGAGTCAAAAAATAAAGATACCA
Found at i:10962540 original size:35 final size:35
Alignment explanation
Indices: 10962471--10962640 Score: 105
Period size: 35 Copynumber: 4.9 Consensus size: 35
10962461 AACATTGAAT
* * ** *
10962471 TGCAAGTCAGAAAATAATGACGACTAAGAATAAAC
1 TGCAAGTTAGAAAATAACGACGACTGGGATTAAAC
* * * * * *
10962506 TGTAGGTTAGAGAATGATGATGACTGGGATTAAAC
1 TGCAAGTTAGAAAATAACGACGACTGGGATTAAAC
*
10962541 TGCAAGTTAGAAAATAACGACGATTGGGATTAAATC
1 TGCAAGTTAGAAAATAACGACGACTGGGATTAAA-C
* * * * * *
10962577 GTG-AA-TCAAAAAATAA-AAAGATTGGGATGAAAC
1 -TGCAAGTTAGAAAATAACGACGACTGGGATTAAAC
* *
10962610 TGCAAGTTA-AAGAATAACAACGACTGTGATT
1 TGCAAGTTAGAA-AATAACGACGACTGGGATT
10962641 GAATCGCAAG
Statistics
Matches: 103, Mismatches: 26, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
32 2 0.02
33 5 0.05
34 20 0.19
35 71 0.69
36 3 0.03
37 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (35 bp):
TGCAAGTTAGAAAATAACGACGACTGGGATTAAAC
Found at i:10962617 original size:69 final size:69
Alignment explanation
Indices: 10962530--10962661 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 69
10962520 TGATGATGAC
* * * *
10962530 TGGGATTAAACTGCAAGTTAGAA-AATAACGACGATTGGGATTAAATCGTGAA-TCAAAAAATAA
1 TGGGATGAAACTGCAAGTTA-AAGAATAACAACGACTGGGATTAAATCG-CAAGTCAAAAAATAA
10962593 AAAGAT
64 AAAGAT
* *
10962599 TGGGATGAAACTGCAAGTTAAAGAATAACAACGACTGTGATTGAATCGCAAGTCAAAAAATAA
1 TGGGATGAAACTGCAAGTTAAAGAATAACAACGACTGGGATTAAATCGCAAGTCAAAAAATAA
10962662 TGATAACCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 4 0.07
69 51 0.93
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (69 bp):
TGGGATGAAACTGCAAGTTAAAGAATAACAACGACTGGGATTAAATCGCAAGTCAAAAAATAAAA
AGAT
Found at i:10962676 original size:35 final size:35
Alignment explanation
Indices: 10962637--10962784 Score: 118
Period size: 35 Copynumber: 4.1 Consensus size: 35
10962627 CAACGACTGT
*
10962637 GATTGAATCGCAAGTCAAAAAATAATGATAACCAA
1 GATTGAATCGCAAGTCAAAAAATAATGATGACCAA
*** * *
10962672 GATTGAA-CTGTGGGTCAAGAATATAAAAATGATGATCAA
1 GATTGAATC-GCAAGTC-A-AA-A-AATAATGATGACCAA
* *
10962711 GATTAAATCGTAAGTCAAAAAATAATGATGACCAA
1 GATTGAATCGCAAGTCAAAAAATAATGATGACCAA
* * * * * *
10962746 GATTGAACCGCGAGTTAGAAAATAACGATGGCCAA
1 GATTGAATCGCAAGTCAAAAAATAATGATGACCAA
10962781 GATT
1 GATT
10962785 AACCACGAGT
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
34 1 0.01
35 55 0.62
36 2 0.02
37 4 0.05
38 2 0.02
39 23 0.26
40 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (35 bp):
GATTGAATCGCAAGTCAAAAAATAATGATGACCAA
Found at i:10962820 original size:73 final size:74
Alignment explanation
Indices: 10962734--10962917 Score: 226
Period size: 74 Copynumber: 2.5 Consensus size: 74
10962724 GTCAAAAAAT
* * * *
10962734 AATGATGACCAAGATTGAACCGCGAGTTAGAAAATAACGATGGCCAAGATT-AACCACGAGTCAA
1 AATGATGATCAAGATTAAACCGCGAGTCAGAAAATAACAATGGCCAAGATTGAACCACGAGTCAA
10962798 GAATATAAA
66 GAATATAAA
* * * **
10962807 AATGATGATCAAGATTAAACTGCGAGTCAGAAAATAACAATGGTCAATATTGAACCGTGAGTCAA
1 AATGATGATCAAGATTAAACCGCGAGTCAGAAAATAACAATGGCCAAGATTGAACCACGAGTCAA
10962872 GAATATAAA
66 GAATATAAA
* *** * *
10962881 AACGATGATTGGGATTAAATCGCGAGTCAAAAAATAA
1 AATGATGATCAAGATTAAACCGCGAGTCAGAAAATAA
10962918 TGATGACTGG
Statistics
Matches: 94, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 44 0.47
74 50 0.53
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.21
Consensus pattern (74 bp):
AATGATGATCAAGATTAAACCGCGAGTCAGAAAATAACAATGGCCAAGATTGAACCACGAGTCAA
GAATATAAA
Found at i:10962869 original size:35 final size:36
Alignment explanation
Indices: 10962743--10962879 Score: 127
Period size: 35 Copynumber: 3.8 Consensus size: 36
10962733 TAATGATGAC
* * *
10962743 CAAGATTGAACCGCGAGT-TAGAAAATAACGATGGC
1 CAAGATTGAACCGCGAGTCAAGAAAATAACAATGGT
* * *
10962778 CAAGATT-AACCACGAGTCAAGAATATAAAAATGATGAT
1 CAAGATTGAACCGCGAGTCAAGAAAATAACAATG--G-T
* *
10962816 CAAGATTAAACTGCGAGTC-AGAAAATAACAATGGT
1 CAAGATTGAACCGCGAGTCAAGAAAATAACAATGGT
* * *
10962851 CAATATTGAACCGTGAGTCAAGAATATAA
1 CAAGATTGAACCGCGAGTCAAGAAAATAA
10962880 AAACGATGAT
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
34 9 0.11
35 34 0.42
36 9 0.11
37 1 0.01
38 19 0.23
39 9 0.11
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (36 bp):
CAAGATTGAACCGCGAGTCAAGAAAATAACAATGGT
Found at i:10962880 original size:182 final size:183
Alignment explanation
Indices: 10962673--10963009 Score: 451
Period size: 182 Copynumber: 1.8 Consensus size: 183
10962663 GATAACCAAG
* * * *
10962673 ATTGAACTGTGGGTCAAGAATATAAAAATGATGATCAAGATTAAATCGTAAGTCAAAAAATAATG
1 ATTGAACCGTGAGTCAAGAATATAAAAACGATGATCAAGATTAAATCGCAAGTCAAAAAATAATG
* * * * * *
10962738 ATGACCAAGATTGAACCGCGAGTTAGAAAATAACGATGGCCAAGATT-AACCACGAGTCAAGAAT
66 ATGACCAAGATTAAACCACGAGTCAAAAAATAACGATGACCAAGATTGAACCACAAGTCAAGAAT
*
10962802 ATAAAAATGATGATCAAGATTAAACTGCGAGTCAGAAAATAACAATGGTCAAT
131 ATAAAAACGATGATCAAGATTAAACTGCGAGTCAGAAAATAACAATGGTCAAT
*** *
10962855 ATTGAACCGTGAGTCAAGAATATAAAAACGATGATTGGGATTAAATCGCGAGTCAAAAAATAATG
1 ATTGAACCGTGAGTCAAGAATATAAAAACGATGATCAAGATTAAATCGCAAGTCAAAAAATAATG
*** * * * *
10962920 ATGACTGGGATTAAATCATGAGTCAAAAAATAATGATGACCGAGATTGAACCACAAGTCAAGAAT
66 ATGACCAAGATTAAACCACGAGTCAAAAAATAACGATGACCAAGATTGAACCACAAGTCAAGAAT
* *
10962985 ATAAAAACGATTATCAGGATTAAAC
131 ATAAAAACGATGATCAAGATTAAAC
10963010 CATGAGTAAA
Statistics
Matches: 130, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
182 92 0.71
183 38 0.29
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (183 bp):
ATTGAACCGTGAGTCAAGAATATAAAAACGATGATCAAGATTAAATCGCAAGTCAAAAAATAATG
ATGACCAAGATTAAACCACGAGTCAAAAAATAACGATGACCAAGATTGAACCACAAGTCAAGAAT
ATAAAAACGATGATCAAGATTAAACTGCGAGTCAGAAAATAACAATGGTCAAT
Found at i:10962929 original size:35 final size:35
Alignment explanation
Indices: 10962884--10962959 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
10962874 ATATAAAAAC
* *
10962884 GATGATTGGGATTAAATCGCGAGTCAAAAAATAAT
1 GATGACTGGGATTAAATCACGAGTCAAAAAATAAT
*
10962919 GATGACTGGGATTAAATCATGAGTCAAAAAATAAT
1 GATGACTGGGATTAAATCACGAGTCAAAAAATAAT
10962954 GATGAC
1 GATGAC
10962960 CGAGATTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.25
Consensus pattern (35 bp):
GATGACTGGGATTAAATCACGAGTCAAAAAATAAT
Found at i:10962979 original size:35 final size:35
Alignment explanation
Indices: 10962905--10962980 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
10962895 TTAAATCGCG
* * * **
10962905 AGTCAAAAAATAATGATGACTGGGATTAAATCATG
1 AGTCAAAAAATAATGATGACCGAGATTAAACCACA
*
10962940 AGTCAAAAAATAATGATGACCGAGATTGAACCACA
1 AGTCAAAAAATAATGATGACCGAGATTAAACCACA
10962975 AGTCAA
1 AGTCAA
10962981 GAATATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (35 bp):
AGTCAAAAAATAATGATGACCGAGATTAAACCACA
Found at i:10967646 original size:11 final size:11
Alignment explanation
Indices: 10967630--10967654 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10967620 GGATAGCAAT
10967630 GAAAAAGAAAA
1 GAAAAAGAAAA
10967641 GAAAAAGAAAA
1 GAAAAAGAAAA
10967652 GAA
1 GAA
10967655 TGGAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:10969393 original size:17 final size:16
Alignment explanation
Indices: 10969373--10969420 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
10969363 AATTTTTGTC
10969373 AAAAAATAATAAATTA
1 AAAAAATAATAAATTA
*
10969389 TAAAAAATGATAAA-TA
1 -AAAAAATAATAAATTA
*
10969405 AAATAAAAAATAAATT
1 AAA-AAATAATAAATT
10969421 GTTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 13 0.50
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAAATAATAAATTA
Found at i:10970102 original size:3 final size:3
Alignment explanation
Indices: 10970094--10970135 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
10970084 TAGAATATGA
*
10970094 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10970136 TTCACAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10981803 original size:39 final size:39
Alignment explanation
Indices: 10981718--10981794 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
10981708 ATTACCTCTC
* * * *
10981718 AGCCTTTTGAATTTAAAATTTGTTGCTTTTAGTCAAAGA
1 AGCCTTTTGAATTTAAAATTTATAGCCTCTAGTCAAAGA
*
10981757 AGCCTTTTGAATTTAAAGTTTCATAGCCTCTAGTCAAA
1 AGCCTTTTGAATTTAAAATTT-ATAGCCTCTAGTCAAA
10981795 TGAGCTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 20 0.62
40 12 0.38
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (39 bp):
AGCCTTTTGAATTTAAAATTTATAGCCTCTAGTCAAAGA
Found at i:10981988 original size:40 final size:40
Alignment explanation
Indices: 10981932--10982376 Score: 299
Period size: 40 Copynumber: 10.9 Consensus size: 40
10981922 TAAAAGAGCC
*
10981932 ATTTAAAGTTCGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
* * * *
10981972 ATTTAAAGCTTT-TTGCCTTTAGTCAAAGGAG-TACTTTTGA-
1 ATTTAAAG-TTTGTTGCCTCTGGTGAAAGGAGCT--TTTTAAT
** * *
10982012 ATTTAAAGTTCATTGCCTCTAGTGAGAGAGGAGCCTTTTAAT
1 ATTTAAAGTTTGTTGCCTCTGGTGA-A-AGGAGCTTTTTAAT
* * * *
10982054 ATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGTTCTTTTAAT
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCT-TTTTAAT
* *
10982095 ATTTAAAGTTTGTTACTTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
1 ATTTAAAGTTTG----TTGCCTCTGGTGA-A-AGGAGCTTTTTAAT
* * * *
10982141 ATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGTTCTTTTAAT
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCT-TTTTAAT
* * * * * * *
10982182 ATTTAAAGTTTGTTACTTTTGATTAAAAGAGCTTTTTTGA-
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGC-TTTTTAAT
* * * * *
10982222 ATTTAAAGTTTATTGCCTCTGGTGAGAGAAGCTTTTTGAC
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
** * *
10982262 ATTTAAAGTTCATTGCCTTTGGTGAAAGGAGCTTTCTAA-
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
* * * * * *
10982301 ATTTAAAGTCTGTTGTCTCTGGTGAGAGAAACTTTTTGA-
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
** * * * *
10982340 ATTTAAAGTTCATTGCCTATGATCAAAAGAGCTTTTT
1 ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTT
10982377 TGAATTTGAA
Statistics
Matches: 314, Mismatches: 73, Indels: 37
0.74 0.17 0.09
Matches are distributed among these distances:
39 65 0.21
40 107 0.34
41 72 0.23
42 36 0.11
45 10 0.03
46 20 0.06
47 4 0.01
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (40 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGCTTTTTAAT
Found at i:10982030 original size:80 final size:81
Alignment explanation
Indices: 10981932--10982376 Score: 382
Period size: 87 Copynumber: 5.5 Consensus size: 81
10981922 TAAAAGAGCC
* * *
10981932 ATTTAAAGTTCGTTGCCTCTGGTGAAAGGAGCTTTTTAATATTTAAAGCTTT-TTGCCTTTAGTC
1 ATTTAAAGTTCATTGCCTCTGGTGAAAGGAGCTTTTTAATATTTAAAG-TTTGTTGCCTTTGGTT
* * *
10981996 AAAGGAGTACTTTTGA-
65 AAAGAAGTTCTTTTAAT
* *
10982012 ATTTAAAGTTCATTGCCTCTAGTGAGAGAGGAGCCTTTTAATATTTAAAGTTTGTTGCCTTTGGT
1 ATTTAAAGTTCATTGCCTCTGGTGA-A-AGGAGCTTTTTAATATTTAAAGTTTGTTGCCTTTGGT
10982077 TAAAGAAGTTCTTTTAAT
64 TAAAGAAGTTCTTTTAAT
* * *
10982095 ATTTAAAGTTTGTTACTTGCCTCTTGTGAGAGAGGAGCCTTTTAATATTTAAAGTTTGTTGCCTT
1 ATTTAAAG--T-TCA-TTGCCTCTGGTGA-A-AGGAGCTTTTTAATATTTAAAGTTTGTTGCCTT
10982160 TGGTTAAAGAAGTTCTTTTAAT
60 TGGTTAAAGAAGTTCTTTTAAT
** * * * * * * * * * *
10982182 ATTTAAAGTTTGTTACTTTTGATTAAAAGAGCTTTTTTGA-ATTTAAAGTTTATTGCCTCTGGTG
1 ATTTAAAGTTCATTGCCTCTGGTGAAAGGAGC-TTTTTAATATTTAAAGTTTGTTGCCTTTGGTT
* * * *
10982246 AGAGAAGCT-TTTTGAC
65 AAAGAAGTTCTTTTAAT
* * * * * *
10982262 ATTTAAAGTTCATTGCCTTTGGTGAAAGGAGCTTTCTAA-ATTTAAAGTCTGTTGTCTCTGGTGA
1 ATTTAAAGTTCATTGCCTCTGGTGAAAGGAGCTTTTTAATATTTAAAGTTTGTTGCCTTTGGTTA
* ** *
10982326 GAGAAACT-TTTTGA-
66 AAGAAGTTCTTTTAAT
* * * *
10982340 ATTTAAAGTTCATTGCCTATGATCAAAAGAGCTTTTT
1 ATTTAAAGTTCATTGCCTCTGGTGAAAGGAGCTTTTT
10982377 TGAATTTGAA
Statistics
Matches: 311, Mismatches: 45, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
78 32 0.10
79 40 0.13
80 53 0.17
81 37 0.12
82 50 0.16
83 15 0.05
84 2 0.01
85 2 0.01
86 2 0.01
87 78 0.25
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (81 bp):
ATTTAAAGTTCATTGCCTCTGGTGAAAGGAGCTTTTTAATATTTAAAGTTTGTTGCCTTTGGTTA
AAGAAGTTCTTTTAAT
Found at i:10982138 original size:46 final size:44
Alignment explanation
Indices: 10981932--10982195 Score: 158
Period size: 41 Copynumber: 6.3 Consensus size: 44
10981922 TAAAAGAGCC
* * *
10981932 ATTTAAAGTTCG--TTGCCTCTGGTGA-A-AGGAGCTTTTTAAT
1 ATTTAAAGTTTGTTTTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
* * * *
10981972 ATTTAAAG-CT-TTTTGCCT-TTAGTCA-A-AGGAGTACTTTTGA-
1 ATTTAAAGTTTGTTTTGCCTCTT-GTGAGAGAGGAG-CCTTTTAAT
** *
10982012 ATTTAAAG-TT-CATTGCCTCTAGTGAGAGAGGAGCCTTTTAAT
1 ATTTAAAGTTTGTTTTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
* * *
10982054 ATTTAAAGTTTG--TTGCCT-TTGGTTA-A-AGAAGTTCTTTTAAT
1 ATTTAAAGTTTGTTTTGCCTCTT-GTGAGAGAGGAG-CCTTTTAAT
10982095 ATTTAAAGTTTGTTACTTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
1 ATTTAAAGTTTGTT--TTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
* * *
10982141 ATTTAAAGTTTG--TTGCCT-TTGGTTA-A-AGAAGTTCTTTTAAT
1 ATTTAAAGTTTGTTTTGCCTCTT-GTGAGAGAGGAG-CCTTTTAAT
10982182 ATTTAAAGTTTGTT
1 ATTTAAAGTTTGTT
10982196 ACTTTTGATT
Statistics
Matches: 177, Mismatches: 24, Indels: 43
0.73 0.10 0.18
Matches are distributed among these distances:
39 1 0.01
40 49 0.28
41 58 0.33
42 31 0.18
43 2 0.01
45 9 0.05
46 23 0.13
47 4 0.02
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.44
Consensus pattern (44 bp):
ATTTAAAGTTTGTTTTGCCTCTTGTGAGAGAGGAGCCTTTTAAT
Found at i:10982383 original size:79 final size:80
Alignment explanation
Indices: 10982201--10982388 Score: 254
Period size: 79 Copynumber: 2.4 Consensus size: 80
10982191 TTGTTACTTT
* * *
10982201 TGATTAAAAGAGCTTTTTTGAATTTAAAGTTTATTGCCTCTGGTGAGAGAAGCTTTTTGACATTT
1 TGATCAAAAGAGCTTTTTTGAATTTAAAGTCTATTGCCTCTGGTGAGAGAAACTTTTTGACATTT
*
10982266 AAAGTTCATTGCCTT
66 AAAGTTCATTGCCTA
* * * * * * *
10982281 TGGTGAAAGGAGC-TTTCTAAATTTAAAGTCTGTTGTCTCTGGTGAGAGAAACTTTTTGA-ATTT
1 TGATCAAAAGAGCTTTTTTGAATTTAAAGTCTATTGCCTCTGGTGAGAGAAACTTTTTGACATTT
10982344 AAAGTTCATTGCCTA
66 AAAGTTCATTGCCTA
*
10982359 TGATCAAAAGAGCTTTTTTGAATTTGAAGT
1 TGATCAAAAGAGCTTTTTTGAATTTAAAGT
10982389 TTCATAGCCT
Statistics
Matches: 91, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
78 28 0.31
79 53 0.58
80 10 0.11
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (80 bp):
TGATCAAAAGAGCTTTTTTGAATTTAAAGTCTATTGCCTCTGGTGAGAGAAACTTTTTGACATTT
AAAGTTCATTGCCTA
Found at i:10983726 original size:17 final size:16
Alignment explanation
Indices: 10983706--10983753 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
10983696 AATTTTTGCT
10983706 AAAAAATAATAAATTA
1 AAAAAATAATAAATTA
*
10983722 CAAAAAATGATAAA-TA
1 -AAAAAATAATAAATTA
10983738 AAATAAA-AATAAATTA
1 AAA-AAATAATAAATTA
10983754 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 12 0.44
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAAAATAATAAATTA
Found at i:10983929 original size:14 final size:14
Alignment explanation
Indices: 10983910--10983936 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10983900 TAGACAATGT
10983910 AAAATAATAATAAA
1 AAAATAATAATAAA
10983924 AAAATAATAATAA
1 AAAATAATAATAA
10983937 TTGATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATAATAAA
Found at i:10984428 original size:3 final size:3
Alignment explanation
Indices: 10984420--10984449 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10984410 TAGAATACGA
*
10984420 AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10984450 TTCACAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10992316 original size:23 final size:21
Alignment explanation
Indices: 10992290--10992334 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
10992280 CAAAAAAACA
10992290 AAAAGAAAAGAAGAAAATATAAT
1 AAAA-AAAAG-AGAAAATATAAT
10992313 -AAAAAAAGAGAAAATATAAT
1 AAAAAAAAGAGAAAATATAAT
10992333 AA
1 AA
10992335 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.57
21 6 0.29
22 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAAAAAAGAGAAAATATAAT
Found at i:10992321 original size:18 final size:20
Alignment explanation
Indices: 10992295--10992334 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 20
10992285 AAACAAAAAG
10992295 AAAAGAAGAAAATATAATAAA
1 AAAAG-AGAAAATATAATAAA
10992316 AAAAGAGAAAATATAATAA
1 AAAAGAGAAAATATAATAA
10992335 TAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAGAGAAAATATAATAAA
Found at i:10993137 original size:11 final size:11
Alignment explanation
Indices: 10993121--10993151 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
10993111 TTTGTTAGAA
10993121 ATTTTATTAAT
1 ATTTTATTAAT
10993132 ATTTTATTAAT
1 ATTTTATTAAT
10993143 ATTCTTATT
1 ATT-TTATT
10993152 TAAAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTAAT
Found at i:10994679 original size:21 final size:21
Alignment explanation
Indices: 10994655--10994699 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
10994645 TTTTTTGGTA
10994655 TTTTTATATAT-TATTTCATAT
1 TTTTTATAT-TGTATTTCATAT
*
10994676 TTTTTTTATTGTATTTCATAT
1 TTTTTATATTGTATTTCATAT
10994697 TTT
1 TTT
10994700 ATACCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTATATTGTATTTCATAT
Found at i:10995068 original size:47 final size:47
Alignment explanation
Indices: 10994846--10995324 Score: 573
Period size: 47 Copynumber: 10.0 Consensus size: 47
10994836 TTTTTTAATC
* * * * *
10994846 GAAAATGCTCCTCTCA-CTTGAGGCTCGACAACTTTAAAAATTTTATCTT
1 GAAAAAGCTCCTCTCAGC-AGAGGCTCAACAACTTT-AAAATCTCAT-TT
* ** *
10994895 GAAAATGGCTCCTCTCAGCAGAGGCTTTACAACTTTAAAAATCTCTTTT
1 GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTT
* *
10994944 GAAAAAGCTCCTTTCAGCAGAGGCTTAACAACTTTAAAATCTCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* * *
10994991 GAAAAAGGGCTCATCTCAGCAGAAGCTCAACAACTTTAAAATTTCATTT
1 GAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* *
10995040 GAAAAAGCTCATCTCAGCAGATGCTCAACAACTTTAAAATCTCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* * * *
10995087 GAAAAAGGGCTCATCTCAACAGAGGCTCAATAACTTTAAAATTTCATTT
1 GAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* *
10995136 GAAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATCTCATCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TT
* * *
10995184 GAAAAATGGCTCCTCTCAGCAGAGACTCAACAACTTTAAAATTTCATTG
1 GAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* * *
10995233 GAAAAAACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
* *
10995280 GAAAAAGCTCCTCTCAGCAAAGGCTCAACAATTTTAAAATCTCAT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
10995325 CTTCTCTCAA
Statistics
Matches: 381, Mismatches: 40, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
47 174 0.46
48 35 0.09
49 104 0.27
50 67 0.18
51 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (47 bp):
GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
Found at i:10995338 original size:97 final size:95
Alignment explanation
Indices: 10994846--10995324 Score: 611
Period size: 96 Copynumber: 5.0 Consensus size: 95
10994836 TTTTTTAATC
* * * * * *
10994846 GAAAATGCTCCTCTCA-CTTGAGGCTCGACAACTTTAAAAATTTTATCTTGAAAATGGCTCCTCT
1 GAAAAAGCTCCTCTCAGC-AGAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGGCTCCTCT
** * *
10994910 CAGCAGAGGCTTTACAACTTTAAAAATCTCTTTT
63 CAGCAGAGGCTCAACAACTTT-AAAATTTCATTT
* * *
10994944 GAAAAAGCTCCTTTCAGCAGAGGCTTAACAACTTTAAAATCTCATTTGAAAAAGGGCTCATCTCA
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GGCTCCTCTCA
*
10995009 GCAGAAGCTCAACAACTTTAAAATTTCATTT
65 GCAGAGGCTCAACAACTTTAAAATTTCATTT
* * *
10995040 GAAAAAGCTCATCTCAGCAGATGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCATCTCA
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GGCTCCTCTCA
* *
10995105 ACAGAGGCTCAATAACTTTAAAATTTCATTT
65 GCAGAGGCTCAACAACTTTAAAATTTCATTT
* *
10995136 GAAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAAATGGCTCCTCTC
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAA-GGCTCCTCTC
* *
10995201 AGCAGAGACTCAACAACTTTAAAATTTCATTG
64 AGCAGAGGCTCAACAACTTTAAAATTTCATTT
* * *
10995233 GAAAAAACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAA-GCTCCTCTCAG
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGCTCCTCTCAG
* * *
10995297 CAAAGGCTCAACAATTTTAAAATCTCAT
66 CAGAGGCTCAACAACTTTAAAATTTCAT
10995325 CTTCTCTCAA
Statistics
Matches: 338, Mismatches: 40, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
94 35 0.10
96 155 0.46
97 119 0.35
98 28 0.08
99 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (95 bp):
GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGCTCCTCTCAG
CAGAGGCTCAACAACTTTAAAATTTCATTT
Found at i:10999620 original size:14 final size:14
Alignment explanation
Indices: 10999601--10999639 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
10999591 ATGGAATGAC
10999601 AAGAAAATGATGGA
1 AAGAAAATGATGGA
10999615 AAGAAAA-GAATGGA
1 AAGAAAATG-ATGGA
10999629 AAGTAAAATGA
1 AAG-AAAATGA
10999640 AGATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 15 0.68
15 5 0.23
16 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.13
Consensus pattern (14 bp):
AAGAAAATGATGGA
Found at i:11005507 original size:11 final size:11
Alignment explanation
Indices: 11005491--11005521 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
11005481 TTTGTTAGAA
11005491 ATTTTATTAAT
1 ATTTTATTAAT
11005502 ATTTTATTAAT
1 ATTTTATTAAT
11005513 ATTCTTATT
1 ATT-TTATT
11005522 TAAAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTAAT
Found at i:11007131 original size:21 final size:19
Alignment explanation
Indices: 11007107--11007149 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11007097 TTTTTTGGTA
*
11007107 TTTTTATATATTATTTCATTT
1 TTTTTAT-TA-TATTTCATAT
11007128 TTTTTATTATATTTCATAT
1 TTTTTATTATATTTCATAT
11007147 TTT
1 TTT
11007150 ATACCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTATTATATTTCATAT
Found at i:11012407 original size:22 final size:22
Alignment explanation
Indices: 11012362--11012415 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
11012352 AAATATAAAA
11012362 TATGAAACATATTTTTTAAATTT
1 TATGAAA-ATATTTTTTAAATTT
*
11012385 TATGAAAAT-TTTTTATAAGTTT
1 TATGAAAATATTTTT-TAAATTT
*
11012407 TATTAAAAT
1 TATGAAAAT
11012416 CTTAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (22 bp):
TATGAAAATATTTTTTAAATTT
Found at i:11013968 original size:11 final size:11
Alignment explanation
Indices: 11013943--11013989 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
11013933 GATACTTTTG
11013943 TTTTTATTATCA
1 TTTTTATTAT-A
*
11013955 TTTTTTTTATA
1 TTTTTATTATA
*
11013966 TTTGTATTATA
1 TTTTTATTATA
11013977 TTTATT-TTATA
1 TTT-TTATTATA
11013988 TT
1 TT
11013990 AAATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTTTATTATA
Found at i:11013984 original size:22 final size:23
Alignment explanation
Indices: 11013947--11013989 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
11013937 CTTTTGTTTT
*
11013947 TATTATCATTTTTTTTATATTTG
1 TATTATCATTTATTTTATATTTG
11013970 TATTAT-ATTTATTTTATATT
1 TATTATCATTTATTTTATATT
11013990 AAATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TATTATCATTTATTTTATATTTG
Found at i:11019993 original size:3 final size:3
Alignment explanation
Indices: 11019985--11020030 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
11019975 AATTCGATAT
* *
11019985 TTA TTA TTA TTA TTA TTG TTGA -TA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
11020030 T
1 T
11020031 AGATAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11022244 original size:22 final size:23
Alignment explanation
Indices: 11022213--11022259 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
11022203 TTTTTTAAAT
*
11022213 TAATTTTATATTT-ATATTTATA
1 TAATTATATATTTAATATTTATA
11022235 TAATTATATATTTAAATATTTATA
1 TAATTATATATTT-AATATTTATA
11022259 T
1 T
11022260 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTATATATTTAATATTTATA
Found at i:11022246 original size:16 final size:16
Alignment explanation
Indices: 11022225--11022277 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
11022215 ATTTTATATT
*
11022225 TATATTTATATAATTA
1 TATATTTAAATAATTA
11022241 TATATTTAAAT-ATT-
1 TATATTTAAATAATTA
* *
11022255 TATATTTAAAAAATAA
1 TATATTTAAATAATTA
11022271 TAT-TTTA
1 TATATTTA
11022278 TATTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.31
15 9 0.28
16 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTTAAATAATTA
Found at i:11022263 original size:14 final size:14
Alignment explanation
Indices: 11022220--11022264 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
11022210 AATTAATTTT
*
11022220 ATATTTATATTTAT
1 ATATTTATATTTAA
11022234 ATAATTATATATTTAA
1 AT-ATT-TATATTTAA
11022250 ATATTTATATTTAA
1 ATATTTATATTTAA
11022264 A
1 A
11022265 AAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 12 0.43
15 6 0.21
16 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTTATATTTAA
Found at i:11022274 original size:20 final size:21
Alignment explanation
Indices: 11022249--11022301 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
11022239 TATATATTTA
11022249 AATATTTATATTT-AAAAAAT
1 AATATTTATATTTAAAAAAAT
11022269 AATATTTTATATTTAAAAAAAT
1 AATA-TTTATATTTAAAAAAAT
11022291 AATATTT-TATT
1 AATATTTATATT
11022302 AATTTCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTATATTTAAAAAAAT
Found at i:11022279 original size:21 final size:22
Alignment explanation
Indices: 11022249--11022300 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11022239 TATATATTTA
11022249 AATA-TTTATATTT-AAAAAAT
1 AATATTTTATATTTAAAAAAAT
11022269 AATATTTTATATTTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
11022291 AATATTTTAT
1 AATATTTTAT
11022301 TAATTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTTATATTTAAAAAAAT
Found at i:11027135 original size:18 final size:18
Alignment explanation
Indices: 11027109--11027143 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11027099 AAATATAAAA
*
11027109 TTATAAAATATTAGATAT
1 TTATAAAATATGAGATAT
*
11027127 TTATTAAATATGAGATA
1 TTATAAAATATGAGATA
11027144 ACTAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTATAAAATATGAGATAT
Found at i:11027366 original size:6 final size:6
Alignment explanation
Indices: 11027355--11027392 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
11027345 ATCAGAACCT
*
11027355 ATAAAA ATAAAA ATAAAA ATAAAA TAAAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA A
11027393 ACCCAAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:11028798 original size:6 final size:6
Alignment explanation
Indices: 11028767--11028813 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
11028757 TATAAAAGAA
*
11028767 TATATT TA-ATT AATTATT TA-ATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TA-TATT TATATT TATATT TATATT TATATT TATATT
11028814 AATAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 9 0.25
6 23 0.64
7 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:11028827 original size:29 final size:28
Alignment explanation
Indices: 11028795--11028895 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 28
11028785 TAATTTATAT
11028795 TTATATTTATATTTATATTAATAAAAATA
1 TTATATTTATATTTATATTAATAAAAA-A
*
11028824 TTAT-TTAATATCTTA-ATTTAAT-AAAAA
1 TTATATTTATAT-TTATA-TTAATAAAAAA
* *
11028851 TTATATCTATAATTTATATTAAAAAATAAA
1 TTATATTTAT-ATTTATATTAATAAA-AAA
* *
11028881 CT-CATTTATATTTAT
1 TTATATTTATATTTAT
11028896 TTATATGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
27 5 0.09
28 27 0.47
29 22 0.38
30 4 0.07
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
TTATATTTATATTTATATTAATAAAAAA
Found at i:11028834 original size:28 final size:27
Alignment explanation
Indices: 11028795--11028876 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 27
11028785 TAATTTATAT
11028795 TTATATTTATATTTATATTAATAAAAA
1 TTATATTTATATTTATATTAATAAAAA
11028822 -TATTATTTAATATCTTA-ATTTAATAAAAA
1 TTA-TATTT-ATAT-TTATA-TTAATAAAAA
*
11028851 TTATATCTATAATTTATATTAA-AAAA
1 TTATATTTAT-ATTTATATTAATAAAA
11028877 TAAACTCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
26 2 0.04
27 9 0.19
28 14 0.30
29 20 0.43
30 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTATATTTATATTTATATTAATAAAAA
Found at i:11028846 original size:23 final size:23
Alignment explanation
Indices: 11028820--11028872 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11028810 TATTAATAAA
*
11028820 AATATTATTTAATATCT-TAATTT
1 AATATTAATT-ATATCTATAATTT
**
11028843 AATAAAAATTATATCTATAATTT
1 AATATTAATTATATCTATAATTT
11028866 -ATATTAA
1 AATATTAA
11028873 AAAATAAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTAATTATATCTATAATTT
Found at i:11028857 original size:22 final size:25
Alignment explanation
Indices: 11028831--11028875 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
11028821 ATATTATTTA
11028831 ATATCT-TAATTTA-A-TAAAAATT
1 ATATCTATAATTTATATTAAAAATT
11028853 ATATCTATAATTTATATTAAAAA
1 ATATCTATAATTTATATTAAAAA
11028876 ATAAACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 1 0.05
25 6 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATCTATAATTTATATTAAAAATT
Found at i:11029463 original size:18 final size:19
Alignment explanation
Indices: 11029429--11029475 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
11029419 GATATTTTAT
11029429 TAATTAAAATAATAAAAATA
1 TAATT-AAATAATAAAAATA
* *
11029449 TATTTAAAT-ATAAAAATT
1 TAATTAAATAATAAAAATA
11029467 TAATTAAAT
1 TAATTAAAT
11029476 TCGTGAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.67
19 4 0.17
20 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTAAATAATAAAAATA
Found at i:11038946 original size:2 final size:2
Alignment explanation
Indices: 11038939--11038996 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
11038929 GAATCCGAAA
* * *
11038939 AT AT AT AT AT AT AT AT AT AT GT GT AT AT AT GT 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
* *
11038981 AC AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
11038997 CTTTCGGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11039067 original size:47 final size:49
Alignment explanation
Indices: 11038973--11039070 Score: 164
Period size: 47 Copynumber: 2.0 Consensus size: 49
11038963 ATATATGTAT
11038973 ATATATATACACATATATATATATCTTTCGGATTCATTTTGAAACTATTC
1 ATATATATACACA-ATATATATATCTTTCGGATTCATTTTGAAACTATTC
*
11039023 ATATATATACAC-ATATATATAT-TTTCGGATTCCTTTTGAAACTATTC
1 ATATATATACACAATATATATATCTTTCGGATTCATTTTGAAACTATTC
11039070 A
1 A
11039071 AACCTGCATG
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 25 0.53
48 10 0.21
50 12 0.26
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (49 bp):
ATATATATACACAATATATATATCTTTCGGATTCATTTTGAAACTATTC
Found at i:11049711 original size:29 final size:28
Alignment explanation
Indices: 11049667--11049725 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
11049657 AAATTAACTA
** *
11049667 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
11049695 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
11049724 TT
1 TT
11049726 TTTTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:11052529 original size:134 final size:137
Alignment explanation
Indices: 11052300--11052566 Score: 459
Period size: 134 Copynumber: 2.0 Consensus size: 137
11052290 AAAAATCAGA
*
11052300 ACATGCTTATGAAGCCAAAAAAAATCATTTTGGGAAAAGATTTTTGAAAAAAAAGAAGTGATATA
1 ACATGCTTATGAAGCCAAAAAAAATCATTTTGGAAAAAGATTTTTGAAAAAAAAGAAGTGATATA
* * *
11052365 ATAAAAGTTTATGAGTCTTTGGTAAAAGTGTTGCGCCTTATTGATGGTTATGAAAAACCAACAAT
66 ATAAAAGTTTATCAGTCTTTAGTAAAAGTGTTGCGCCTTATTGATGGTGATGAAAAACCAACAAT
11052430 GGACATG
131 GGACATG
*
11052437 ACATGCTTATGAAG-CTAAAAAAATCATTTTGGAAAAAGATTTTTG-AAAAAAA-AAGTGATATA
1 ACATGCTTATGAAGCCAAAAAAAATCATTTTGGAAAAAGATTTTTGAAAAAAAAGAAGTGATATA
*
11052499 ATAAAAGTTTATCAGTCTTTAGTAAAAGTGTTGTGCCTTATTGATGGTGATGAAAAACCAACAAT
66 ATAAAAGTTTATCAGTCTTTAGTAAAAGTGTTGCGCCTTATTGATGGTGATGAAAAACCAACAAT
11052564 GGA
131 GGA
11052567 TTTATTTACG
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
134 74 0.60
135 7 0.06
136 29 0.23
137 14 0.11
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (137 bp):
ACATGCTTATGAAGCCAAAAAAAATCATTTTGGAAAAAGATTTTTGAAAAAAAAGAAGTGATATA
ATAAAAGTTTATCAGTCTTTAGTAAAAGTGTTGCGCCTTATTGATGGTGATGAAAAACCAACAAT
GGACATG
Found at i:11054083 original size:18 final size:18
Alignment explanation
Indices: 11054060--11054117 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
11054050 TGTAGTTATT
11054060 ATCCACCACAAATGTATC
1 ATCCACCACAAATGTATC
* *
11054078 ATCCACCTCAAATGTATT
1 ATCCACCACAAATGTATC
**
11054096 ATTTACCACAAATGTATC
1 ATCCACCACAAATGTATC
11054114 ATCC
1 ATCC
11054118 TTAAATATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.29
Consensus pattern (18 bp):
ATCCACCACAAATGTATC
Found at i:11064070 original size:52 final size:51
Alignment explanation
Indices: 11064002--11064101 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 51
11063992 TTTTATATTG
11064002 ATTTGCTGTTAGATGTACAAAGACATTCTATATTTACTTTGATTATAAAATA
1 ATTTGCTGTTAGATGTACAAAGACATTCTAT-TTTACTTTGATTATAAAATA
*
11064054 ATTTGCTGTTAGATGTATAAAGACATTCTATTTTACTTTGATTATAAA
1 ATTTGCTGTTAGATGTACAAAGACATTCTATTTTACTTTGATTATAAA
11064102 GCCCCATCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 17 0.36
52 30 0.64
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (51 bp):
ATTTGCTGTTAGATGTACAAAGACATTCTATTTTACTTTGATTATAAAATA
Found at i:11069061 original size:29 final size:30
Alignment explanation
Indices: 11069028--11069090 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
11069018 GTCAACTATC
11069028 ATATTTAATATAA-AAACATTAAAAATAAA
1 ATATTTAATATAACAAACATTAAAAATAAA
* * **
11069057 ATA-TTATTTTAACTTACATTAAAAATAAA
1 ATATTTAATATAACAAACATTAAAAATAAA
11069086 ATATT
1 ATATT
11069091 ATTTTAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.25
29 20 0.71
30 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (30 bp):
ATATTTAATATAACAAACATTAAAAATAAA
Found at i:11069091 original size:29 final size:29
Alignment explanation
Indices: 11069042--11069110 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
11069032 TTAATATAAA
11069042 AACATTAAAAATAAAATATTATTTTAACT
1 AACATTAAAAATAAAATATTATTTTAACT
*
11069071 TACATTAAAAATAAAATATTATTTTAACT
1 AACATTAAAAATAAAATATTATTTTAACT
*
11069100 AACCTTAAAAA
1 AACATTAAAAA
11069111 CTTTCATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (29 bp):
AACATTAAAAATAAAATATTATTTTAACT
Found at i:11075535 original size:29 final size:27
Alignment explanation
Indices: 11075469--11075535 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
11075459 TTTAAGAACT
*
11075469 AAACTAAAATATATTGCAAAAAAAAGAA
1 AAACTAAAA-ATATTCCAAAAAAAAGAA
* *
11075497 AAGAGT-AAAATATTCCAAAGAAGAAGAGA
1 AA-ACTAAAAATATTCCAAA-AAAAAGA-A
11075526 AAACTAAAAA
1 AAACTAAAAA
11075536 AAATGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
27 9 0.29
28 13 0.42
29 9 0.29
ACGTcount: A:0.66, C:0.07, G:0.12, T:0.15
Consensus pattern (27 bp):
AAACTAAAAATATTCCAAAAAAAAGAA
Found at i:11078159 original size:61 final size:60
Alignment explanation
Indices: 11078087--11078226 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 60
11078077 CATGCATTCC
* ** * * ** * *
11078087 TTCATTTATGCATTGTTATGAGGCAAACATTAATTCATATGTCCATTCATGTAGTCATTT
1 TTCATTCATGCATCATTATAAGGCAAACATTAACTCATACATCCATTCATGCAATCATTT
*
11078147 GTTCATTCATGCATCATTATAAGGCAAACATTAACTCATGCATCCATTCATGCAATCATTT
1 -TTCATTCATGCATCATTATAAGGCAAACATTAACTCATACATCCATTCATGCAATCATTT
11078208 TTCAATTCATGCATCATTA
1 TTC-ATTCATGCATCATTA
11078227 AATTGTTATG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 3 0.04
61 65 0.96
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (60 bp):
TTCATTCATGCATCATTATAAGGCAAACATTAACTCATACATCCATTCATGCAATCATTT
Found at i:11078303 original size:44 final size:43
Alignment explanation
Indices: 11078212--11078305 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
11078202 TCATTTTTCA
* * *
11078212 ATTCATGCATCATTAAATTGTTATGTCAATGTATTTATTTATCC
1 ATTCATGCATCATTAAATTGTTATGT-AATATATTAATATATCC
* * *
11078256 ATTCATGCATCATTGAATTGTTATGT-ATCATATTCAATATGTTC
1 ATTCATGCATCATTAAATTGTTATGTAAT-ATATT-AATATATCC
11078300 ATTCAT
1 ATTCAT
11078306 TTATTCATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
42 2 0.05
43 4 0.10
44 36 0.86
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (43 bp):
ATTCATGCATCATTAAATTGTTATGTAATATATTAATATATCC
Found at i:11081336 original size:15 final size:15
Alignment explanation
Indices: 11081318--11081349 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11081308 AAAATAGTTA
11081318 AAAAAAAAAAGAGTG
1 AAAAAAAAAAGAGTG
*
11081333 AAAAAAAAAAGATTG
1 AAAAAAAAAAGAGTG
11081348 AA
1 AA
11081350 TAAAGCTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
AAAAAAAAAAGAGTG
Found at i:11082567 original size:16 final size:16
Alignment explanation
Indices: 11082539--11082572 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11082529 CACCGGGTAT
11082539 AATTTTAAAAAAACTAA
1 AATTTTAAAAAAA-TAA
11082556 AATTTT-AAAAAATAA
1 AATTTTAAAAAAATAA
11082571 AA
1 AA
11082573 CCTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTTTAAAAAAATAA
Found at i:11091026 original size:16 final size:16
Alignment explanation
Indices: 11091005--11091035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11090995 AAATCCTCGA
*
11091005 ATGAGGAAAATATTTT
1 ATGAGGAAAACATTTT
11091021 ATGAGGAAAACATTT
1 ATGAGGAAAACATTT
11091036 AGAATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (16 bp):
ATGAGGAAAACATTTT
Found at i:11091166 original size:21 final size:21
Alignment explanation
Indices: 11091123--11091167 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11091113 CCTTAAGAAT
* * **
11091123 TTTTGAATGAGAATTTTTTAG
1 TTTTAAATGAGAATCTTGAAG
11091144 TTTTAAATGAGAATCTTGAAG
1 TTTTAAATGAGAATCTTGAAG
11091165 TTT
1 TTT
11091168 GTATGTGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (21 bp):
TTTTAAATGAGAATCTTGAAG
Found at i:11091229 original size:45 final size:43
Alignment explanation
Indices: 11091180--11091293 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 43
11091170 ATGTGAATTT
* * * *
11091180 CTAAAGTTTTTGAATGAGAAGCTTTCAAATTTTGGATGTGAACCC
1 CTAAAATTTTTGAATAAGAA-CTTTCAAA-TTTAGATGTGAAACC
* * * *
11091225 CTAAATTTTTTAAATAAGAACTTTTAAATTTAGATGTGAAACT
1 CTAAAATTTTTGAATAAGAACTTTCAAATTTAGATGTGAAACC
*
11091268 CTAAAATTTATTGAATATGAATCTTT
1 CTAAAATTT-TTGAATAAGAA-CTTT
11091294 GAACTCAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 20 0.35
44 16 0.28
45 21 0.37
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (43 bp):
CTAAAATTTTTGAATAAGAACTTTCAAATTTAGATGTGAAACC
Found at i:11091276 original size:44 final size:45
Alignment explanation
Indices: 11091180--11091272 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 45
11091170 ATGTGAATTT
* * * * *
11091180 CTAAAGTTTTTGAATGAGAAGCTTTCAAATTTTGGATGTGAACCC
1 CTAAATTTTTTAAATAAGAAGCTTTCAAATTTTAGATGTGAAACC
* *
11091225 CTAAATTTTTTAAATAAGAA-CTTTTAAA-TTTAGATGTGAAACT
1 CTAAATTTTTTAAATAAGAAGCTTTCAAATTTTAGATGTGAAACC
11091268 CTAAA
1 CTAAA
11091273 ATTTATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 17 0.41
44 7 0.17
45 17 0.41
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (45 bp):
CTAAATTTTTTAAATAAGAAGCTTTCAAATTTTAGATGTGAAACC
Found at i:11091649 original size:16 final size:18
Alignment explanation
Indices: 11091608--11091673 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
11091598 AATCTTTGTA
*
11091608 TCTTGCAAACCTAAAAAT
1 TCTTGCAAATCTAAAAAT
*
11091626 CCTTGCAAATCT-AAAAT
1 TCTTGCAAATCTAAAAAT
11091643 T-TTGCAAATCTTAAAAAAT
1 TCTTGCAAATC-T-AAAAAT
11091662 TCTTGCAAATCT
1 TCTTGCAAATCT
11091674 GAGATCATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 9 0.22
17 6 0.15
18 10 0.24
19 7 0.17
20 9 0.22
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (18 bp):
TCTTGCAAATCTAAAAAT
Found at i:11091659 original size:18 final size:18
Alignment explanation
Indices: 11091610--11091673 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 18
11091600 TCTTTGTATC
* *
11091610 TTGCAAA-CCTAAAAATCC
1 TTGCAAATCTTAAAAAT-T
11091628 TTGCAAATC-T-AAAATT
1 TTGCAAATCTTAAAAATT
11091644 TTGCAAATCTTAAAAAATT
1 TTGCAAATCTT-AAAAATT
11091663 CTTGCAAATCT
1 -TTGCAAATCT
11091674 GAGATCATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
16 9 0.22
17 6 0.15
18 8 0.20
19 7 0.17
20 10 0.25
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (18 bp):
TTGCAAATCTTAAAAATT
Found at i:11095129 original size:22 final size:20
Alignment explanation
Indices: 11095104--11095146 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
11095094 ATTTGGTTTA
11095104 TTCACAAAAAAATTTATTAAAT
1 TTCACAAAAAAA-TTA-TAAAT
* *
11095126 TTCATATAAAAATTATAAAT
1 TTCACAAAAAAATTATAAAT
11095146 T
1 T
11095147 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTCACAAAAAAATTATAAAT
Found at i:11095891 original size:17 final size:17
Alignment explanation
Indices: 11095866--11095924 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
11095856 AATTCAACTC
*
11095866 CCACCCCCAACACCCCA
1 CCACACCCAACACCCCA
11095883 CCACACCCAATC-CCTCC-
1 CCACACCCAA-CACC-CCA
* *
11095900 CCACCCCCTACACCCCA
1 CCACACCCAACACCCCA
*
11095917 CCCCACCC
1 CCACACCC
11095925 CACCAAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.24, C:0.71, G:0.00, T:0.05
Consensus pattern (17 bp):
CCACACCCAACACCCCA
Done.