Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 86 of 135
Found at i:33113181 original size:12 final size:12
Alignment explanation
Indices: 33113164--33113194 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33113154 TCTAAACAAT
33113164 ATAATAATCCTA
1 ATAATAATCCTA
33113176 ATAATAATCCTA
1 ATAATAATCCTA
*
33113188 AAAATAA
1 ATAATAA
33113195 AATTCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:33115431 original size:20 final size:20
Alignment explanation
Indices: 33115392--33115431 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33115382 GTAAGAAAAT
* *
33115392 GAAAATAAATAAAATTATCA
1 GAAAACAAATAAAATCATCA
*
33115412 GAAAACAAATAATATCATCA
1 GAAAACAAATAAAATCATCA
33115432 TAAATATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (20 bp):
GAAAACAAATAAAATCATCA
Found at i:33116905 original size:4 final size:4
Alignment explanation
Indices: 33116896--33116921 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33116886 ATCATCACAT
33116896 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
33116922 GTCTGTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:33123910 original size:5 final size:5
Alignment explanation
Indices: 33123883--33123944 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
33123873 ATTATAAATA
*
33123883 AAAAG -AAAG AAACG AAACA- AAAAG AAAA- AGAAAG -AAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG
*
33123931 AAAAAG GAAAG AAA
1 -AAAAG AAAAG AAA
33123945 GGAAGGAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
4 10 0.22
5 31 0.67
6 5 0.11
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:33123916 original size:25 final size:24
Alignment explanation
Indices: 33123882--33123945 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 24
33123872 TATTATAAAT
33123882 AAAAAGAAAGAAACGAAACA-AAAAG
1 AAAAAGAAAGAAA-GAAA-AGAAAAG
33123907 AAAAAGAAAGAAAGAAAAGAAAAG
1 AAAAAGAAAGAAAGAAAAGAAAAG
33123931 AAAAAGGAAAGAAAG
1 AAAAA-GAAAGAAAG
33123946 GAAGGAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 1 0.03
24 14 0.38
25 22 0.59
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAGAAAGAAAAGAAAAG
Found at i:33123921 original size:29 final size:29
Alignment explanation
Indices: 33123884--33123945 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
33123874 TTATAAATAA
*
33123884 AAAGAAAGAAACG-AAACAAAAAGAAAAAG
1 AAAGAAAGAAAAGAAAACAAAAAG-AAAAG
* *
33123913 AAAGAAAGAAAAGAAAAGAAAAAGGAAAG
1 AAAGAAAGAAAAGAAAACAAAAAGAAAAG
33123942 AAAG
1 AAAG
33123946 GAAGGAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (29 bp):
AAAGAAAGAAAAGAAAACAAAAAGAAAAG
Found at i:33124848 original size:41 final size:38
Alignment explanation
Indices: 33124802--33124910 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 38
33124792 GACTTCGAGT
*
33124802 TGATGAGACACTAGGTGTCAATTTACTACTTTGGATTAAT
1 TGATGAGACACTAGGTGTCAATTT--TACTTTGGATTAAC
* * *
33124842 TCGATGAGGCACTAGGTGCCAA-TTTACTTTGGTTTAAC
1 T-GATGAGACACTAGGTGTCAATTTTACTTTGGATTAAC
*
33124880 TGATGAGACACTGGGTGTCTAATTATTACTT
1 TGATGAGACACTAGGTGTC-AATT-TTACTT
33124911 CGAATTATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
37 15 0.26
38 15 0.26
39 1 0.02
40 9 0.16
41 18 0.31
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (38 bp):
TGATGAGACACTAGGTGTCAATTTTACTTTGGATTAAC
Found at i:33126888 original size:18 final size:18
Alignment explanation
Indices: 33126865--33126900 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33126855 ATAATATTTT
33126865 TCAT-AAAAATATTAAAAA
1 TCATAAAAAAT-TTAAAAA
33126883 TCATAAAAAATTTAAAAA
1 TCATAAAAAATTTAAAAA
33126901 ATAAGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
TCATAAAAAATTTAAAAA
Found at i:33126891 original size:10 final size:9
Alignment explanation
Indices: 33126869--33127178 Score: 51
Period size: 10 Copynumber: 32.4 Consensus size: 9
33126859 TATTTTTCAT
*
33126869 AAAAATATT
1 AAAAATATA
33126878 AAAAATCATA
1 AAAAAT-ATA
*
33126888 AAAAATTTA
1 AAAAATATA
*
33126897 AAAAATAAGCA
1 AAAAAT-A-TA
*
33126908 AAAAACCA-A
1 AAAAA-TATA
* *
33126917 GAAAAATTTC
1 -AAAAATATA
*
33126927 TAAAATATA
1 AAAAATATA
** *
33126936 TTAAATATT
1 AAAAATATA
33126945 AAAAATACT-
1 AAAAATA-TA
*
33126954 AAAATTGATA
1 AAAAAT-ATA
* *
33126964 TAAACTTATA
1 AAAAAT-ATA
*
33126974 AAAATTATGA
1 AAAAATAT-A
*
33126984 AAGAATA-A
1 AAAAATATA
* *
33126992 AATATTATA
1 AAAAATATA
33127001 -AAAATAT-
1 AAAAATATA
33127008 AAAAATAT-
1 AAAAATATA
33127016 AAAAATATA
1 AAAAATATA
*
33127025 AAAAATTCTA
1 AAAAA-TATA
*
33127035 ATAAAT-TA
1 AAAAATATA
*
33127043 TAAAATCAATA
1 AAAAAT--ATA
* *
33127054 AAACATATT
1 AAAAATATA
*
33127063 TAAAATACTTA
1 AAAAATA--TA
* *
33127074 AAATGTTATAAA
1 AAA---AATATA
33127086 AAAAAGTATA
1 AAAAA-TATA
33127096 AAAAATCATAA
1 AAAAAT-AT-A
33127107 AAAAATTATA
1 AAAAA-TATA
* *
33127117 AAAAATTGTT
1 AAAAA-TATA
*
33127127 AAAAATATT
1 AAAAATATA
*
33127136 AAAATTGAT-
1 AAAAAT-ATA
* *
33127145 ATAAATTTA
1 AAAAATATA
33127154 TAAAAATATTA
1 -AAAAATA-TA
33127165 AAAAATCATA
1 AAAAAT-ATA
33127175 AAAA
1 AAAA
33127179 CTTGAACTAG
Statistics
Matches: 219, Mismatches: 51, Indels: 61
0.66 0.15 0.18
Matches are distributed among these distances:
8 33 0.15
9 69 0.32
10 82 0.37
11 27 0.12
12 5 0.02
14 3 0.01
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATATA
Found at i:33127009 original size:18 final size:18
Alignment explanation
Indices: 33126927--33127048 Score: 78
Period size: 17 Copynumber: 6.8 Consensus size: 18
33126917 GAAAAATTTC
*
33126927 TAAAATATATTAAATA-T-
1 TAAAA-ATATAAAATATTA
33126944 TAAAAATACTAAAAT-TGATA
1 TAAAAATA-TAAAATAT--TA
**
33126964 TAAACTTATAAAA-ATTA
1 TAAAAATATAAAATATTA
*
33126981 TGAAAGA-ATAAAATATTA
1 T-AAAAATATAAAATATTA
33126999 TAAAAATATAAAA-A-TA
1 TAAAAATATAAAATATTA
* *
33127015 TAAAAATATAAAAAATTC
1 TAAAAATATAAAATATTA
33127033 TAATAAATTATAAAAT
1 TAA-AAA-TATAAAAT
33127049 CAATAAAACA
Statistics
Matches: 84, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
16 18 0.21
17 25 0.30
18 18 0.21
19 10 0.12
20 13 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAATATAAAATATTA
Found at i:33127010 original size:8 final size:8
Alignment explanation
Indices: 33126928--33127028 Score: 69
Period size: 8 Copynumber: 11.5 Consensus size: 8
33126918 AAAAATTTCT
33126928 AAAATATA
1 AAAATATA
*
33126936 TTAAATATTA
1 -AAAATA-TA
33126946 AAAATACTA
1 AAAATA-TA
33126955 AAATTGATATA
1 AAA---ATATA
**
33126966 AACTTATA
1 AAAATATA
33126974 AAAATTATGA
1 AAAA-TAT-A
33126984 AAGAATA-A
1 AA-AATATA
*
33126992 AATATTATA
1 AA-AATATA
33127001 AAAATATA
1 AAAATATA
33127009 AAAATATA
1 AAAATATA
33127017 AAAATATA
1 AAAATATA
33127025 AAAA
1 AAAA
33127029 ATTCTAATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
8 37 0.50
9 21 0.28
10 7 0.09
11 6 0.08
12 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:33127130 original size:20 final size:20
Alignment explanation
Indices: 33127107--33127183 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
33127097 AAAATCATAA
*
33127107 AAAAATTATAAAAAATTGTT
1 AAAAATTATAAAAAATTGAT
*
33127127 AAAAA-TAT-TAAAATTGAT
1 AAAAATTATAAAAAATTGAT
*
33127145 ATAAATTTATAAAAATATT-A-
1 A-AAAATTATAAAAA-ATTGAT
* *
33127165 AAAAATCATAAAAACTTGA
1 AAAAATTATAAAAAATTGA
33127184 ACTAGGTTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
18 11 0.24
19 18 0.40
20 9 0.20
21 4 0.09
22 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAAATTATAAAAAATTGAT
Found at i:33127670 original size:22 final size:23
Alignment explanation
Indices: 33127644--33127695 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
33127634 CAATTTTGAT
33127644 ATTTTTAATAT-TCTT-TTATAAA
1 ATTTTTAATATGT-TTATTATAAA
*
33127666 ATTTTAAATATGTTTATTATAAA
1 ATTTTTAATATGTTTATTATAAA
*
33127689 TTTTTTA
1 ATTTTTA
33127696 TAATTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTTTAATATGTTTATTATAAA
Found at i:33127693 original size:23 final size:21
Alignment explanation
Indices: 33127644--33127693 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
33127634 CAATTTTGAT
33127644 ATTTTTAATATTCTTTTATAAA
1 ATTTTTAATATTCTTTTAT-AA
*
33127666 ATTTTAAATATGT-TTATTATAA
1 ATTTTTAATAT-TCTT-TTATAA
33127688 ATTTTT
1 ATTTTT
33127694 TATAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTTAATATTCTTTTATAA
Found at i:33127817 original size:21 final size:20
Alignment explanation
Indices: 33127780--33127819 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33127770 ATTGTTTTTA
**
33127780 TAATTTTTTTTTCTAATTTC
1 TAATTTTTTTTAATAATTTC
33127800 TAATTTATTTTTAATAATTT
1 TAATTT-TTTTTAATAATTT
33127820 TATGCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TAATTTTTTTTAATAATTTC
Found at i:33128397 original size:18 final size:18
Alignment explanation
Indices: 33128362--33128395 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33128352 GTTCACTCTG
33128362 TTTTTCAGTTTTACTTTA
1 TTTTTCAGTTTTACTTTA
*
33128380 TTTTT-AGTTTTGCTTT
1 TTTTTCAGTTTTACTTT
33128396 TAAAAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTCAGTTTTACTTTA
Found at i:33131264 original size:50 final size:50
Alignment explanation
Indices: 33131146--33131331 Score: 266
Period size: 50 Copynumber: 3.7 Consensus size: 50
33131136 TAAATGATGG
* * * * * * * *
33131146 TCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTATCG-AGAAGCTTTGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGA
33131197 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGA
33131247 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGA
*
33131297 TCATGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
33131332 TATCGAATGA
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 87 0.70
51 37 0.30
52 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGA
Found at i:33132472 original size:24 final size:24
Alignment explanation
Indices: 33132445--33132496 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33132435 TTAGTAAGTC
*
33132445 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
33132469 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
33132493 AAAT
1 AAAT
33132497 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:33134226 original size:44 final size:44
Alignment explanation
Indices: 33134156--33134246 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
33134146 AATTCTATTT
33134156 TTAGTTTCCCACTTAAACATTAATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACATTAATTAGTGTAGGTTATTTTAATA
* * * *
33134200 TTAGTTTCTCACTTAAGC-TCTGATTAGTGTTGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACAT-TAATTAGTGTAGGTTATTTTAATA
33134244 TTA
1 TTA
33134247 TTAGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACATTAATTAGTGTAGGTTATTTTAATA
Found at i:33139815 original size:45 final size:45
Alignment explanation
Indices: 33139763--33139985 Score: 251
Period size: 45 Copynumber: 5.0 Consensus size: 45
33139753 GGATTAGACT
* *
33139763 GGATATCCATATAAATAAAGGTTGTTGCTAAGTGCTGATTCCACC
1 GGATATCCATGTAAATAAAGGTGGTTGCTAAGTGCTGATTCCACC
* *
33139808 GGATATCCATGTAAGT--AGGTGGTTGCTAACTGCTGATTCCACC
1 GGATATCCATGTAAATAAAGGTGGTTGCTAAGTGCTGATTCCACC
* * * * *
33139851 AGATATTC-TCG-AATCTAAAGATGGTTGCTAAGTGCTAATTCCACC
1 GGATATCCAT-GTAA-ATAAAGGTGGTTGCTAAGTGCTGATTCCACC
* *
33139896 GGATATCCATGTAAGT-AAGGTGGTTGCTAAGTGCCGATTCCACC
1 GGATATCCATGTAAATAAAGGTGGTTGCTAAGTGCTGATTCCACC
* * *
33139940 GGATAACCTTG-AATATAAAGGTGGTTGCTAAATGCTGATTCCACC
1 GGATATCCATGTAA-ATAAAGGTGGTTGCTAAGTGCTGATTCCACC
33139985 G
1 G
33139986 TGTAATTATT
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
42 3 0.02
43 35 0.23
44 35 0.23
45 73 0.49
46 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
GGATATCCATGTAAATAAAGGTGGTTGCTAAGTGCTGATTCCACC
Found at i:33139981 original size:89 final size:88
Alignment explanation
Indices: 33139777--33139985 Score: 310
Period size: 89 Copynumber: 2.4 Consensus size: 88
33139767 ATCCATATAA
* *
33139777 ATAAAGGTTGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTAGGTGGTTGCTAACTGCT
1 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTAGGTGGTTGCTAACTGCC
**
33139842 GATTCCACCAGATATTCTCGAAT
66 GATTCCACCAGATAACCTCGAAT
* * * *
33139865 CTAAAGATGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAAGTAAGGTGGTTGCTAAGTGC
1 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGT-AGGTGGTTGCTAACTGC
* *
33139930 CGATTCCACCGGATAACCTTGAAT
65 CGATTCCACCAGATAACCTCGAAT
*
33139954 ATAAAGGTGGTTGCTAAATGCTGATTCCACCG
1 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
33139986 TGTAATTATT
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
88 43 0.41
89 63 0.59
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (88 bp):
ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGTAGGTGGTTGCTAACTGCC
GATTCCACCAGATAACCTCGAAT
Found at i:33142296 original size:32 final size:32
Alignment explanation
Indices: 33142259--33142323 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
33142249 CCGATTTAAG
33142259 TGGATCCCTCCCCTTTTATTAAAATTAAAATA
1 TGGATCCCTCCCCTTTTATTAAAATTAAAATA
33142291 TGGATCCCTCCCCTTTTATTAAAATTAAAATA
1 TGGATCCCTCCCCTTTTATTAAAATTAAAATA
33142323 T
1 T
33142324 ACTTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (32 bp):
TGGATCCCTCCCCTTTTATTAAAATTAAAATA
Found at i:33168115 original size:23 final size:25
Alignment explanation
Indices: 33168001--33168117 Score: 91
Period size: 25 Copynumber: 4.7 Consensus size: 25
33167991 TTTTTATTCT
*
33168001 GGAATGCTCATATGAGCACAT-AAACG
1 GGAA-GCTCATATGAGC-CATGTAACG
* * *
33168027 GGAAACTC-TTTCGAGCCACGTAACG
1 GGAAGCTCATAT-GAGCCATGTAACG
* * *
33168052 GGAAACTCATGTGATCCATGTAACG
1 GGAAGCTCATATGAGCCATGTAACG
*
33168077 GGAAGCTCCAGA-GAGCCAT-T-ACG
1 GGAAGCT-CATATGAGCCATGTAACG
33168100 GGAAGCTCATATGAGCCA
1 GGAAGCTCATATGAGCCA
33168118 ATGTCAGGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
22 3 0.04
23 16 0.22
24 5 0.07
25 42 0.57
26 8 0.11
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATATGAGCCATGTAACG
Found at i:33169942 original size:22 final size:22
Alignment explanation
Indices: 33169917--33169958 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33169907 AAAAAGAAAG
33169917 AAATATCATAAAAC-ATAAAACA
1 AAAT-TCATAAAACAATAAAACA
*
33169939 AAATTGATAAAACAATAAAA
1 AAATTCATAAAACAATAAAA
33169959 TGTTATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATTCATAAAACAATAAAACA
Found at i:33171197 original size:21 final size:23
Alignment explanation
Indices: 33171155--33171197 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
33171145 TAATTAATCA
*
33171155 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
33171178 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
33171198 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:33171253 original size:21 final size:22
Alignment explanation
Indices: 33171229--33171273 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
33171219 AGAAAAAGAG
33171229 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
33171250 AAATCAAGAAAGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
33171272 AA
1 AA
33171274 CAATTTGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:33171958 original size:21 final size:22
Alignment explanation
Indices: 33171925--33171970 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
33171915 GGTTTAGTGG
* *
33171925 TTTCTAAATCCAAAATAAGTTT
1 TTTCCAAATCCAAAATAAGGTT
*
33171947 TTTCCAAA-CCAAAGTAAGGTT
1 TTTCCAAATCCAAAATAAGGTT
33171968 TTT
1 TTT
33171971 AGGTCATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (22 bp):
TTTCCAAATCCAAAATAAGGTT
Found at i:33174116 original size:34 final size:34
Alignment explanation
Indices: 33174067--33174246 Score: 227
Period size: 34 Copynumber: 5.3 Consensus size: 34
33174057 GAAGAAATGA
* *
33174067 TGCAAGAAAAT-ATGTGTGACCAGGAAAGATTCCC
1 TGCAAG-AAATGATGCGTGAACAGGAAAGATTCCC
* *
33174101 TGCAAGGAATGATGTGTGAACAGGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* * *
33174135 TGCAAGGAATGATGCATGAACAGGAAAGATTCTC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* * * *
33174169 TGCAAGAAAAGACGAGGTGAACATGAAAGATTCCC
1 TGCAAGAAATGATG-CGTGAACAGGAAAGATTCCC
*
33174204 TGCAAGAAATGATGCGTGAACAGGAAATATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
33174238 TGCAAGAAA
1 TGCAAGAAA
33174247 AGACAAGAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
33 3 0.02
34 96 0.76
35 28 0.22
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (34 bp):
TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
Found at i:33174142 original size:17 final size:17
Alignment explanation
Indices: 33174088--33174180 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
33174078 ATGTGTGACC
33174088 AGGAAAGATTCCCTGCA
1 AGGAAAGATTCCCTGCA
* * *
33174105 AGGAATGATGT--GTGAA
1 AGGAAAGAT-TCCCTGCA
33174121 CAGGAAAGATTCCCTGCA
1 -AGGAAAGATTCCCTGCA
* * * *
33174139 AGGAATGA-TGCATGAA
1 AGGAAAGATTCCCTGCA
*
33174155 CAGGAAAGATTCTCTGCA
1 -AGGAAAGATTCCCTGCA
*
33174173 AGAAAAGA
1 AGGAAAGA
33174181 CGAGGTGAAC
Statistics
Matches: 54, Mismatches: 16, Indels: 12
0.66 0.20 0.15
Matches are distributed among these distances:
16 9 0.17
17 37 0.69
18 8 0.15
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (17 bp):
AGGAAAGATTCCCTGCA
Found at i:33174208 original size:69 final size:68
Alignment explanation
Indices: 33174087--33174250 Score: 238
Period size: 69 Copynumber: 2.4 Consensus size: 68
33174077 TATGTGTGAC
* * * * *
33174087 CAGGAAAGATTCCCTGCAAGGAATGATGTGTGAACAGGAAAGATTCCCTGCAAGGAATGATGCAT
1 CAGGAAAGATTCCCTGCAAGAAAAGACGGGTGAACAGGAAAGATTCCCTGCAAGAAATGATGCAT
33174152 GAA
66 GAA
* * *
33174155 CAGGAAAGATTCTCTGCAAGAAAAGACGAGGTGAACATGAAAGATTCCCTGCAAGAAATGATGCG
1 CAGGAAAGATTCCCTGCAAGAAAAGACG-GGTGAACAGGAAAGATTCCCTGCAAGAAATGATGCA
33174220 TGAA
65 TGAA
*
33174224 CAGGAAATATTCCCTGCAAGAAAAGAC
1 CAGGAAAGATTCCCTGCAAGAAAAGAC
33174251 AAGAAAAAGA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 24 0.28
69 61 0.72
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.18
Consensus pattern (68 bp):
CAGGAAAGATTCCCTGCAAGAAAAGACGGGTGAACAGGAAAGATTCCCTGCAAGAAATGATGCAT
GAA
Found at i:33175224 original size:8 final size:8
Alignment explanation
Indices: 33175211--33175242 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
33175201 TCATCAGCTC
33175211 TTATTATT
1 TTATTATT
33175219 TTATTATT
1 TTATTATT
33175227 TTATTATT
1 TTATTATT
33175235 TTATTATT
1 TTATTATT
33175243 CTGAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:33177160 original size:17 final size:18
Alignment explanation
Indices: 33177122--33177161 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
33177112 TAAATTCAAA
*
33177122 TAAAACTCTTAAGTATAC
1 TAAAACTCTTAAGTAAAC
*
33177140 TAAAACTC-TAATTAAAC
1 TAAAACTCTTAAGTAAAC
33177157 TAAAA
1 TAAAA
33177162 TTTCTTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAACTCTTAAGTAAAC
Found at i:33180315 original size:26 final size:26
Alignment explanation
Indices: 33180279--33180330 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33180269 ACTCAGAGTG
33180279 ATAGTTTCTTTTATTCATAATCAAAT
1 ATAGTTTCTTTTATTCATAATCAAAT
*
33180305 ATAGTTTCTTTTATTGATAATCAAAT
1 ATAGTTTCTTTTATTCATAATCAAAT
33180331 TTATCCTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (26 bp):
ATAGTTTCTTTTATTCATAATCAAAT
Found at i:33180369 original size:22 final size:22
Alignment explanation
Indices: 33180341--33180384 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33180331 TTATCCTTCA
33180341 AGATTTCCAAGATCTTAGACGG
1 AGATTTCCAAGATCTTAGACGG
33180363 AGATTTCCAAGATCTTAGACGG
1 AGATTTCCAAGATCTTAGACGG
33180385 CATGATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (22 bp):
AGATTTCCAAGATCTTAGACGG
Found at i:33181379 original size:106 final size:106
Alignment explanation
Indices: 33181192--33181605 Score: 612
Period size: 106 Copynumber: 3.9 Consensus size: 106
33181182 GAGATTTATG
* * * * * *
33181192 AGGATATTCGGCTATTTGGTCGAACGAAAAATCGAAACCTAACACGTTAGGGTACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
* *
33181257 ATTTCCAAACACAAAATATTGCTTTACTTTGAAATTTTAAA
66 ATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAA
* * * *
33181298 AGGATATTTGGCTATTTGGTCTAACGAGAACTCGAAACCCAGCATGTTAGGACACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
* * *
33181363 ATTTCGAAACGTAAAATATCGCCTTACTTTGAAATTTTAAA
66 ATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAA
* * *
33181404 AGGATATTTAGCTATTTGGTCGAACAAGAACTCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
33181469 ATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAA
66 ATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAA
*
33181510 AGGATATTTGGCTATAATTTGGTCGAACGAGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 AGGATATTTGGC--T-ATTTGGTCGAAC--GAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC
33181575 CTCGAATTTCCAAACGCAAAATATTGCCTTA
61 CTCGAATTTCCAAACGCAAAATATTGCCTTA
33181606 TTTTAAAACT
Statistics
Matches: 276, Mismatches: 27, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
106 200 0.72
108 1 0.00
109 12 0.04
111 63 0.23
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
ATTTCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAA
Found at i:33190001 original size:31 final size:31
Alignment explanation
Indices: 33189966--33190028 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
33189956 CCCATAAGAT
33189966 CATTGTTTCACAAACATTAACCATTTTAGAA
1 CATTGTTTCACAAACATTAACCATTTTAGAA
33189997 CATTGTTTCACAAACATTAACCATTTTAGAA
1 CATTGTTTCACAAACATTAACCATTTTAGAA
33190028 C
1 C
33190029 TATCACCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (31 bp):
CATTGTTTCACAAACATTAACCATTTTAGAA
Found at i:33192196 original size:345 final size:345
Alignment explanation
Indices: 33191565--33192254 Score: 1380
Period size: 345 Copynumber: 2.0 Consensus size: 345
33191555 ATTATATCAG
33191565 GTTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTTGGTTTTTATTTCCTTCATAA
1 GTTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTTGGTTTTTATTTCCTTCATAA
33191630 ACTCGAGGTTAGGAATTCTATCAGGACTCTTTTCTTTGTTATTAAGAGTCTATAAAAGGCTAGAT
66 ACTCGAGGTTAGGAATTCTATCAGGACTCTTTTCTTTGTTATTAAGAGTCTATAAAAGGCTAGAT
33191695 AAGCAATTATTCTATCAAAAAAGAAACCTTATTTTGAGAGGGGGTTCAGTCAAATATAAATCCGC
131 AAGCAATTATTCTATCAAAAAAGAAACCTTATTTTGAGAGGGGGTTCAGTCAAATATAAATCCGC
33191760 CTTTTGAGTAAGCATAGGTCAAAGTAAGAATTCTTTGTCGTCTAGACCTGTGACTAGATCCTACC
196 CTTTTGAGTAAGCATAGGTCAAAGTAAGAATTCTTTGTCGTCTAGACCTGTGACTAGATCCTACC
33191825 CCAAGGCACATAACATCTTCATGACAGCTAACTCGCATGAATGCGGTTACGATGAGCAAAATCTG
261 CCAAGGCACATAACATCTTCATGACAGCTAACTCGCATGAATGCGGTTACGATGAGCAAAATCTG
33191890 ATACAGCACGGTGCTCCAAT
326 ATACAGCACGGTGCTCCAAT
33191910 GTTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTTGGTTTTTATTTCCTTCATAA
1 GTTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTTGGTTTTTATTTCCTTCATAA
33191975 ACTCGAGGTTAGGAATTCTATCAGGACTCTTTTCTTTGTTATTAAGAGTCTATAAAAGGCTAGAT
66 ACTCGAGGTTAGGAATTCTATCAGGACTCTTTTCTTTGTTATTAAGAGTCTATAAAAGGCTAGAT
33192040 AAGCAATTATTCTATCAAAAAAGAAACCTTATTTTGAGAGGGGGTTCAGTCAAATATAAATCCGC
131 AAGCAATTATTCTATCAAAAAAGAAACCTTATTTTGAGAGGGGGTTCAGTCAAATATAAATCCGC
33192105 CTTTTGAGTAAGCATAGGTCAAAGTAAGAATTCTTTGTCGTCTAGACCTGTGACTAGATCCTACC
196 CTTTTGAGTAAGCATAGGTCAAAGTAAGAATTCTTTGTCGTCTAGACCTGTGACTAGATCCTACC
33192170 CCAAGGCACATAACATCTTCATGACAGCTAACTCGCATGAATGCGGTTACGATGAGCAAAATCTG
261 CCAAGGCACATAACATCTTCATGACAGCTAACTCGCATGAATGCGGTTACGATGAGCAAAATCTG
33192235 ATACAGCACGGTGCTCCAAT
326 ATACAGCACGGTGCTCCAAT
33192255 AAACCCTGAA
Statistics
Matches: 345, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 345 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (345 bp):
GTTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTTGGTTTTTATTTCCTTCATAA
ACTCGAGGTTAGGAATTCTATCAGGACTCTTTTCTTTGTTATTAAGAGTCTATAAAAGGCTAGAT
AAGCAATTATTCTATCAAAAAAGAAACCTTATTTTGAGAGGGGGTTCAGTCAAATATAAATCCGC
CTTTTGAGTAAGCATAGGTCAAAGTAAGAATTCTTTGTCGTCTAGACCTGTGACTAGATCCTACC
CCAAGGCACATAACATCTTCATGACAGCTAACTCGCATGAATGCGGTTACGATGAGCAAAATCTG
ATACAGCACGGTGCTCCAAT
Found at i:33194991 original size:12 final size:12
Alignment explanation
Indices: 33194974--33194999 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33194964 CAAAACAGGC
33194974 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33194986 TTTTAGCGGCGT
1 TTTTAGCGGCGT
33194998 TT
1 TT
33195000 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:33195058 original size:39 final size:40
Alignment explanation
Indices: 33195005--33195138 Score: 141
Period size: 39 Copynumber: 3.4 Consensus size: 40
33194995 CGTTTGGACA
*
33195005 AAAAACGCCACTAAAAATTAAGCA-TAGCGGCGCTTTTAT-
1 AAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTTT-TG
** ** *
33195044 AAAAACGCCGCTAAAGGTCGAGCATTAGCGGCACTTTTTG
1 AAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTTTTG
* * *
33195084 GAAAACGCCGCTAAAAA-TAAACATTAGCGGCGTTTTTTG
1 AAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTTTTG
*
33195123 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
33195139 GCCTAAACCC
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
38 5 0.06
39 46 0.60
40 26 0.34
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATTAAGCATTAGCGGCGCTTTTTG
Found at i:33195219 original size:41 final size:41
Alignment explanation
Indices: 33195162--33195487 Score: 507
Period size: 41 Copynumber: 8.0 Consensus size: 41
33195152 CCGATTTTTG
* *
33195162 GGGCCTTTAGCGGCGTTTTTGA-AGAAGCGACGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTGAGGGAAGCGCCGCTAATGCTC
**
33195203 GGGCCTTTAGCGGCGTTTTTGA-GGAAGCATCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTGAGGGAAGCGCCGCTAATGCTC
* **
33195244 GGACCTTTAGCGGCGTTTTTGA-ATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTGAGGGAAGCGCCGCTAATGCTC
*
33195285 GGGCTTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
33195326 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
33195367 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
33195408 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
*
33195449 GGGCCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCG-TTTTGAGGGAAGCGCCGCTAATGC
33195488 CCGTTTTTGA
Statistics
Matches: 269, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
40 6 0.02
41 257 0.96
42 6 0.02
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTGAGGGAAGCGCCGCTAATGCTC
Found at i:33195860 original size:14 final size:14
Alignment explanation
Indices: 33195843--33195879 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
33195833 GGGTTTAATA
33195843 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
33195857 TATATGATTTAGGG
1 TATATGGTTTAGGG
33195871 TATATGGTT
1 TATATGGTT
33195880 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:33196191 original size:14 final size:13
Alignment explanation
Indices: 33196172--33196231 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 13
33196162 TAAATAATAT
33196172 TTAGGGGTTAGTAG
1 TTAGGGGTTAG-AG
*
33196186 TTAGGGATTAGGAG
1 TTAGGGGTTA-GAG
33196200 TTAGGGGTTAGATG
1 TTAGGGGTTAGA-G
*
33196214 TTAGAGGTTAAGAG
1 TTAGGGGTT-AGAG
33196228 TTAG
1 TTAG
33196232 TGATTTAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.05
14 34 0.85
15 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (13 bp):
TTAGGGGTTAGAG
Found at i:33196216 original size:28 final size:28
Alignment explanation
Indices: 33196172--33196231 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
33196162 TAAATAATAT
*
33196172 TTAGGGGTTAGTAGTTAG-GGATTAGGAG
1 TTAGGGGTTAGTAGTTAGAGG-TTAAGAG
33196200 TTAGGGGTTAG-ATGTTAGAGGTTAAGAG
1 TTAGGGGTTAGTA-GTTAGAGGTTAAGAG
33196228 TTAG
1 TTAG
33196232 TGATTTAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 1 0.03
28 26 0.90
29 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (28 bp):
TTAGGGGTTAGTAGTTAGAGGTTAAGAG
Found at i:33197254 original size:30 final size:30
Alignment explanation
Indices: 33197201--33197257 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33197191 CTGCAGAAGA
* * **
33197201 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
33197231 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
33197258 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:33200433 original size:7 final size:7
Alignment explanation
Indices: 33200423--33200455 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
33200413 TTTATTATTT
33200423 TAAATTC
1 TAAATTC
33200430 TAAATT-
1 TAAATTC
33200436 TAAATTC
1 TAAATTC
33200443 TAAATT-
1 TAAATTC
33200449 TAAATTC
1 TAAATTC
33200456 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATTC
Found at i:33200437 original size:13 final size:13
Alignment explanation
Indices: 33200421--33200455 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
33200411 AATTTATTAT
33200421 TTTAAATTCTAAA
1 TTTAAATTCTAAA
33200434 TTTAAATTCTAAA
1 TTTAAATTCTAAA
33200447 TTTAAATTC
1 TTTAAATTC
33200456 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAATTCTAAA
Found at i:33200652 original size:43 final size:43
Alignment explanation
Indices: 33200605--33200806 Score: 314
Period size: 43 Copynumber: 4.7 Consensus size: 43
33200595 AAGATATATT
** * *
33200605 TTTAGCGGCGTTTGTGTAAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
33200648 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
33200691 TTTAGCGACGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
33200734 TTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
33200777 TTTAGCAGCGTTTGTGGGAAAAGCGACGCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
33200807 GTCATTAGCG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 147 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:33200898 original size:22 final size:21
Alignment explanation
Indices: 33200865--33200909 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
33200855 TTTAGCGGCG
*
33200865 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
33200886 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
33200908 CT
1 CT
33200910 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:33203426 original size:35 final size:35
Alignment explanation
Indices: 33203380--33203455 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
33203370 CCCCTTTCGA
* *
33203380 GGTGTCGCCCCGAAGGACTTGCATACCATTTACAC
1 GGTGTCGCCCCGAAGGACCTACATACCATTTACAC
* * *
33203415 GGTGTCGCCCCGAAGGACCTATATATCATTTACAT
1 GGTGTCGCCCCGAAGGACCTACATACCATTTACAC
33203450 GGTGTC
1 GGTGTC
33203456 TCTCTGAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (35 bp):
GGTGTCGCCCCGAAGGACCTACATACCATTTACAC
Found at i:33216702 original size:28 final size:28
Alignment explanation
Indices: 33216662--33216721 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
33216652 TTTCAAACGG
33216662 AAGTGAACCATTAAAATGGTTTGATGAC
1 AAGTGAACCATTAAAATGGTTTGATGAC
33216690 AAGTGAACCATTAAAATGGTTTGATGAC
1 AAGTGAACCATTAAAATGGTTTGATGAC
33216718 AAGT
1 AAGT
33216722 TTACTTCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (28 bp):
AAGTGAACCATTAAAATGGTTTGATGAC
Found at i:33221241 original size:18 final size:18
Alignment explanation
Indices: 33221201--33221243 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33221191 GTTCAAGGTG
33221201 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
33221219 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
33221237 TAATTAA
1 TAATTAA
33221244 AAATCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:33225328 original size:38 final size:38
Alignment explanation
Indices: 33225286--33225362 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
33225276 ACAAGTCTAA
33225286 CAATTTTTAGGAATTGTGAACTATCTCAGAGATTTTGT
1 CAATTTTTAGGAATTGTGAACTATCTCAGAGATTTTGT
33225324 CAATTTTTAGGAATTGTGAACTATCTCAGAGATTTTGT
1 CAATTTTTAGGAATTGTGAACTATCTCAGAGATTTTGT
33225362 C
1 C
33225363 CCAAAAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (38 bp):
CAATTTTTAGGAATTGTGAACTATCTCAGAGATTTTGT
Found at i:33243982 original size:20 final size:20
Alignment explanation
Indices: 33243943--33243983 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33243933 TAATTTTAAA
**
33243943 TTATTTTTAAAATATTTTTT
1 TTATTTTTAAAATAAATTTT
33243963 TTATTTTTAAAATAAATTTT
1 TTATTTTTAAAATAAATTTT
33243983 T
1 T
33243984 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTTTAAAATAAATTTT
Found at i:33249572 original size:23 final size:24
Alignment explanation
Indices: 33249545--33249589 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
33249535 GTATTTCCTT
33249545 TGAC-AAAAAAATATACCCAAAAA
1 TGACAAAAAAAATATACCCAAAAA
33249568 TGACAAAAAAAATATACCCAAA
1 TGACAAAAAAAATATACCCAAA
33249590 GAACAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.64, C:0.18, G:0.04, T:0.13
Consensus pattern (24 bp):
TGACAAAAAAAATATACCCAAAAA
Found at i:33251545 original size:17 final size:19
Alignment explanation
Indices: 33251518--33251552 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33251508 CAGAGATTTC
33251518 ATAATAA-TTTTAAAAAAT
1 ATAATAATTTTTAAAAAAT
33251536 ATAA-AATTTTTAAAAAA
1 ATAATAATTTTTAAAAAA
33251553 AGGAGCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATAATTTTTAAAAAAT
Found at i:33254355 original size:15 final size:14
Alignment explanation
Indices: 33254335--33254394 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 14
33254325 ACTTATATAT
33254335 TTAATTTAAACTTAA
1 TTAA-TTAAACTTAA
33254350 TTAATTAAGA-TTAA
1 TTAATTAA-ACTTAA
*
33254364 TTTAATTAACCATTAA
1 -TTAATTAAAC-TTAA
*
33254380 CTAATTAAAACTTAA
1 TTAATT-AAACTTAA
33254395 GCATAATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 8 0.22
15 22 0.59
16 7 0.19
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAATTAAACTTAA
Found at i:33255562 original size:28 final size:28
Alignment explanation
Indices: 33255530--33255595 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
33255520 TTTTAATTTC
*
33255530 GATTCAATTAACTGCTAAAAGATTAAAA
1 GATTCAATTAACGGCTAAAAGATTAAAA
* *
33255558 GATTCAAATAACGGTTAAAAGATTAAAA
1 GATTCAATTAACGGCTAAAAGATTAAAA
*
33255586 -ATTTAATTAA
1 GATTCAATTAA
33255596 TTAAGTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (28 bp):
GATTCAATTAACGGCTAAAAGATTAAAA
Found at i:33267372 original size:21 final size:21
Alignment explanation
Indices: 33267348--33267388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33267338 ACCGCCACCA
* *
33267348 CCACCACCTCCTCCTCCTCCT
1 CCACCACCACCTCCACCTCCT
33267369 CCACCACCACCTCCACCTCC
1 CCACCACCACCTCCACCTCC
33267389 ACCTCTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.68, G:0.00, T:0.17
Consensus pattern (21 bp):
CCACCACCACCTCCACCTCCT
Found at i:33267377 original size:24 final size:24
Alignment explanation
Indices: 33267345--33267393 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
33267335 GTCACCGCCA
* *
33267345 CCACCACCACCTCCTCCTCCTCCT
1 CCACCACCACCTCCACCTCCACCT
33267369 CCACCACCACCTCCACCTCCACCT
1 CCACCACCACCTCCACCTCCACCT
33267393 C
1 C
33267394 TACCTCTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.67, G:0.00, T:0.16
Consensus pattern (24 bp):
CCACCACCACCTCCACCTCCACCT
Found at i:33267392 original size:6 final size:6
Alignment explanation
Indices: 33267345--33267409 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
33267335 GTCACCGCCA
* * * *
33267345 CCACCA CCACCT CCTCCT CCTCCT CCACCA CCACCT CCACCT CCACCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT
* * *
33267393 CTACCT CTACCG CCACC
1 CCACCT CCACCT CCACC
33267410 ACTTCCGTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.17, C:0.65, G:0.02, T:0.17
Consensus pattern (6 bp):
CCACCT
Found at i:33267473 original size:15 final size:15
Alignment explanation
Indices: 33267455--33267517 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
33267445 CTGAGCCATG
*
33267455 TCCACCTCCACTACC
1 TCCACCTCCACCACC
*
33267470 TCCACCTCCGCCACC
1 TCCACCTCCACCACC
* * *
33267485 TCCTCCTCCTCTACC
1 TCCACCTCCACCACC
* *
33267500 ACCGCCTCCACCACC
1 TCCACCTCCACCACC
33267515 TCC
1 TCC
33267518 TACACCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.14, C:0.63, G:0.03, T:0.19
Consensus pattern (15 bp):
TCCACCTCCACCACC
Found at i:33267493 original size:30 final size:30
Alignment explanation
Indices: 33267459--33267518 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33267449 GCCATGTCCA
* *
33267459 CCTCCACTACCTCCACCTCCGCCACCTCCT
1 CCTCCACTACCACCACCTCCACCACCTCCT
* *
33267489 CCTCCTCTACCACCGCCTCCACCACCTCCT
1 CCTCCACTACCACCACCTCCACCACCTCCT
33267519 ACACCATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.63, G:0.03, T:0.20
Consensus pattern (30 bp):
CCTCCACTACCACCACCTCCACCACCTCCT
Found at i:33267495 original size:9 final size:9
Alignment explanation
Indices: 33267459--33267517 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
33267449 GCCATGTCCA
33267459 CCTCCA-CT
1 CCTCCACCT
33267467 ACCTCCACCT
1 -CCTCCACCT
*
33267477 CCGCCACCT
1 CCTCCACCT
*
33267486 CCTCCTCCT
1 CCTCCACCT
*
33267495 -CTACCACCG
1 CCT-CCACCT
*
33267504 CCTCCACCA
1 CCTCCACCT
33267513 CCTCC
1 CCTCC
33267518 TACACCATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 2 0.05
9 35 0.85
10 4 0.10
ACGTcount: A:0.14, C:0.64, G:0.03, T:0.19
Consensus pattern (9 bp):
CCTCCACCT
Found at i:33267558 original size:12 final size:12
Alignment explanation
Indices: 33267527--33267568 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
33267517 CTACACCATT
*
33267527 CCCATACCCAGA
1 CCCATATCCAGA
* *
33267539 CCCGTATCCGGA
1 CCCATATCCAGA
33267551 CCCATATCCAGA
1 CCCATATCCAGA
33267563 CCCATA
1 CCCATA
33267569 CCCTTGGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (12 bp):
CCCATATCCAGA
Found at i:33267639 original size:6 final size:6
Alignment explanation
Indices: 33267588--33267637 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
33267578 TGAACTAGAG
* ** * *
33267588 CCACCT CCACCT CCACCT CCTCCT CCTTCA CCACCT CCACCT CCTCCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT
33267636 CC
1 CC
33267638 TCTACCATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.12, C:0.66, G:0.00, T:0.22
Consensus pattern (6 bp):
CCACCT
Found at i:33267719 original size:24 final size:24
Alignment explanation
Indices: 33267674--33267720 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
33267664 CGGAACCCCT
33267674 TCCAGAACCATACCCTAAACCATA
1 TCCAGAACCATACCCTAAACCATA
33267698 TCCAGAACC-TGACCCTAAACCAT
1 TCCAGAACCAT-ACCCTAAACCAT
33267721 TAGCACCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.17
Consensus pattern (24 bp):
TCCAGAACCATACCCTAAACCATA
Found at i:33267777 original size:15 final size:15
Alignment explanation
Indices: 33267724--33267779 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
33267714 AAACCATTAG
* *
33267724 CACCACTTCCACCTC
1 CACCACCTCCTCCTC
*
33267739 CACCACTTCCTCCTC
1 CACCACCTCCTCCTC
* * *
33267754 CTCCTCCTCCTCCAC
1 CACCACCTCCTCCTC
33267769 CACCACCTCCT
1 CACCACCTCCT
33267780 TTTCCTATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.14, C:0.62, G:0.00, T:0.23
Consensus pattern (15 bp):
CACCACCTCCTCCTC
Found at i:33273337 original size:19 final size:19
Alignment explanation
Indices: 33273309--33273389 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
33273299 TTTTTTAACA
*
33273309 ATTTTATATTAATTTTAAT
1 ATTTTTTATTAATTTTAAT
33273328 ATTTTTTATT--TTTT-AT
1 ATTTTTTATTAATTTTAAT
*
33273344 GA-TTTTTATAGAATTTTAAT
1 -ATTTTTTAT-TAATTTTAAT
*
33273364 ATGTTTTTATAAATTTTAAAT
1 AT-TTTTTATTAATTTT-AAT
33273385 ATTTT
1 ATTTT
33273390 AAGTACGTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
16 9 0.18
17 5 0.10
19 14 0.27
20 11 0.22
21 12 0.24
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTTATTAATTTTAAT
Found at i:33273342 original size:37 final size:37
Alignment explanation
Indices: 33273299--33273373 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
33273289 TTTTTATGAT
*
33273299 TTTTTTAACAATTTTATATTAATTTTAATAT-TTTTTA
1 TTTTTTAACAATTTTATA-GAATTTTAATATGTTTTTA
** *
33273336 TTTTTTATGATTTTTATAGAATTTTAATATGTTTTTA
1 TTTTTTAACAATTTTATAGAATTTTAATATGTTTTTA
33273373 T
1 T
33273374 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 11 0.33
37 22 0.67
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (37 bp):
TTTTTTAACAATTTTATAGAATTTTAATATGTTTTTA
Found at i:33273380 original size:48 final size:47
Alignment explanation
Indices: 33273289--33273380 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 47
33273279 CCTGTTCAAA
* *
33273289 TTTTTATGATTTTTTTAACAATTTTATATTAATTTTAATATTTTTTAT
1 TTTTTATGATTTTTATAACAATTTTATATT-ATTTTAAAATTTTTTAT
*
33273337 TTTTTATGATTTTTAT-AGAATTTTAATATGT-TTTTATAAATTTT
1 TTTTTATGATTTTTATAACAATTTT-ATAT-TATTTTA-AAATTTT
33273381 AAATATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
47 12 0.32
48 25 0.66
49 1 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (47 bp):
TTTTTATGATTTTTATAACAATTTTATATTATTTTAAAATTTTTTAT
Found at i:33273389 original size:29 final size:30
Alignment explanation
Indices: 33273310--33273419 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 30
33273300 TTTTTAACAA
*
33273310 TTTTATATTAA-TTT-TAATATTTT-TTAT-
1 TTTT-TATTAATTTTATAATATTTTAATATG
* *
33273337 TTTTTATGATTTTTATAGA-ATTTTAATATG
1 TTTTTATTAATTTTATA-ATATTTTAATATG
* *
33273367 TTTTTATAAATTTTA-AATATTTTAAGTACG
1 TTTTTATTAATTTTATAATATTTTAA-TATG
*
33273397 -TTTTATTAATTTTATAATTTTTT
1 TTTTTATTAATTTTATAATATTTT
33273420 TATAATTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.06
27 7 0.10
28 8 0.12
29 25 0.37
30 23 0.34
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTTTATTAATTTTATAATATTTTAATATG
Found at i:33273437 original size:27 final size:27
Alignment explanation
Indices: 33273398--33273451 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
33273388 TTAAGTACGT
*
33273398 TTTATTAATTTTATAATTTTTTTATAA
1 TTTATTAATTTTATAATATTTTTATAA
*
33273425 TTTATTAGA-TTTATTATATTTTTATAA
1 TTTATTA-ATTTTATAATATTTTTATAA
33273452 GGTCGTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTATTAATTTTATAATATTTTTATAA
Found at i:33273534 original size:9 final size:9
Alignment explanation
Indices: 33273308--33273521 Score: 50
Period size: 9 Copynumber: 22.8 Consensus size: 9
33273298 TTTTTTTAAC
33273308 AATTTTATATT
1 AATTTT-TA-T
*
33273319 AATTTTAAT
1 AATTTTTAT
33273328 -ATTTTT-T
1 AATTTTTAT
*
33273335 ATTTTTTAT
1 AATTTTTAT
*
33273344 GATTTTTAT
1 AATTTTTAT
*
33273353 AGAATTTTAAT
1 --AATTTTTAT
*
33273364 ATGTTTTTAT
1 A-ATTTTTAT
*
33273374 AAATTTTA-
1 AATTTTTAT
33273382 AATATTTTAAGT
1 AAT-TTTT-A-T
**
33273394 ACGTTTTATT
1 AATTTTTA-T
33273404 AA-TTTTAT
1 AATTTTTAT
33273412 AATTTTTTTAT
1 AA--TTTTTAT
33273423 AATTTATTA-
1 AATTT-TTAT
*
33273432 GATTTATTAT
1 AATTT-TTAT
33273442 -ATTTTTAT
1 AATTTTTAT
* **
33273450 AAGGTCGTAT
1 AA-TTTTTAT
**
33273460 CAATTTCCAT
1 -AATTTTTAT
33273470 -ATTTTT-T
1 AATTTTTAT
*
33273477 AATATTTAAT
1 AAT-TTTTAT
*
33273487 TATTTTTAT
1 AATTTTTAT
33273496 -ATTTTTGAT
1 AATTTTT-AT
33273505 AATTTTTTAT
1 AA-TTTTTAT
*
33273515 GATTTTT
1 AATTTTT
33273522 TTTTATAATT
Statistics
Matches: 150, Mismatches: 30, Indels: 48
0.66 0.13 0.21
Matches are distributed among these distances:
7 2 0.01
8 31 0.21
9 55 0.37
10 29 0.19
11 32 0.21
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:33273542 original size:23 final size:23
Alignment explanation
Indices: 33273497--33273544 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33273487 TATTTTTATA
*
33273497 TTTTTGATAATTTTTTATGATTT
1 TTTTTGATAATTTTTTATAATTT
*
33273520 TTTTTTATAATTTTTCTA-AATTT
1 TTTTTGATAATTTTT-TATAATTT
33273543 TT
1 TT
33273545 AATCATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTGATAATTTTTTATAATTT
Found at i:33279121 original size:2 final size:2
Alignment explanation
Indices: 33279114--33279142 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33279104 GTGTTAAGTT
33279114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33279143 TCTTCAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33298749 original size:20 final size:18
Alignment explanation
Indices: 33298724--33298763 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
33298714 TCATGATGTA
33298724 AATAAATAAAAATATTTTAT
1 AATAAA-AAAAATA-TTTAT
*
33298744 AATAAAAAATATATTTAT
1 AATAAAAAAAATATTTAT
33298762 AA
1 AA
33298764 AATTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 6 0.32
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAAAAATATTTAT
Found at i:33299027 original size:24 final size:25
Alignment explanation
Indices: 33298985--33299032 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
33298975 CGTACATAAT
* *
33298985 AAAATCAAAATATATAAAATAAATC
1 AAAATAAAAATATAAAAAATAAATC
33299010 AAAATAAAAAT-TAAAAAATAAAT
1 AAAATAAAAATATAAAAAATAAAT
33299033 TTATTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAATAAAAATATAAAAAATAAATC
Found at i:33301207 original size:23 final size:25
Alignment explanation
Indices: 33301162--33301214 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
33301152 ATTAGTTTAT
*
33301162 TATATTTTGATTTTTTTTCTTAATG
1 TATATTTTGATTTTTTATCTTAATG
33301187 -ATATTTT-ATTATTTTAT-TTAATG
1 TATATTTTGATT-TTTTATCTTAATG
33301210 TATAT
1 TATAT
33301215 ATATATGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (25 bp):
TATATTTTGATTTTTTATCTTAATG
Found at i:33307849 original size:569 final size:569
Alignment explanation
Indices: 33306771--33307902 Score: 2104
Period size: 569 Copynumber: 2.0 Consensus size: 569
33306761 TGTAGGCCAC
*
33306771 CTGACCGATTTTAGCTTCGATAGGATAAGGACCATAGAACCTAGGAGAAAGCTTCTGATTTCGCA
1 CTGACCGATTTTAGCTTCGATAGGATAAGGACCATAGAACCTAGGAGAAAGCTTCTAATTTCGCA
*
33306836 TCTTCCTTAGTGAATCTGTAAGGTTGGAGTTTCAGGTATACTAGGTCCCCAACTTCAAACGACCT
66 TCTTCCTTAGTGAATCAGTAAGGTTGGAGTTTCAGGTATACTAGGTCCCCAACTTCAAACGACCT
*
33306901 ATCTGATGTTTTCTTGTCTGTTAACTGCTTCATTCGTTCTTGAGCTTGCTTCAAGTGGAACTTAA
131 ATCTGATCTTTTCTTGTCTGTTAACTGCTTCATTCGTTCTTGAGCTTGCTTCAAGTGGAACTTAA
33306966 GGAGCTTCCTTAAAGTTTCCCTATGTTGAAGTGTTCTATCCACCTTGGCTACTGTGGAAGACCCT
196 GGAGCTTCCTTAAAGTTTCCCTATGTTGAAGTGTTCTATCCACCTTGGCTACTGTGGAAGACCCT
*
33307031 GGCAGGTATAGTAAGTGAATGTGAGGCTCCTAACCATAGAGGGTTGTGTAAGGAATGGTGTTGAT
261 GGCAGGTATAGTAAGTGAATGTGAGGCTCCTAACCATAGAAGGTTGTGTAAGGAATGGTGTTGAT
* *
33307096 AGTCGAGTGGTGTGTGGTGTTATACCACCACTCTGCCAAAGGTAGCCAATGAACCCATTCTGAAA
326 AGTCGAGTGGTATGTGGTGTTATACCACCACTATGCCAAAGGTAGCCAATGAACCCATTCTGAAA
*
33307161 GTTTCTCACCGGTCATGCATCGCAAATAACCCTCAAGGCACTGATTGAGAACTTCTATTTGCCCA
391 GTTTCTCACCGGTCATGCATCGCAAATAACCCTCAAGGCACTGATTGAAAACTTCTATTTGCCCA
*
33307226 TCTGTTTAGGGATGGTATGGAATAGAGAGGTACAGTCGAGTGCCAAGTAGTTTGAATAGTTCTTG
456 TCTGTTTAGGGATGGTATGGAATAAAGAGGTACAGTCGAGTGCCAAGTAGTTTGAATAGTTCTTG
33307291 CCAAAATCTGCTAAGGAATATCTTGTCTCTGTCAGATACGATGGACCAT
521 CCAAAATCTGCTAAGGAATATCTTGTCTCTGTCAGATACGATGGACCAT
33307340 CTGACCGATTTTAGCTTCGATAGGATAAGGACCATAGAACCTAGGAGAAAGCTTCTAATTTCGCA
1 CTGACCGATTTTAGCTTCGATAGGATAAGGACCATAGAACCTAGGAGAAAGCTTCTAATTTCGCA
*
33307405 TCTTCCTTAGTGAATCAGTAAGGTTGGAGTTTTAGGTATACTAGGTCCCCAACTTCAAACGACCT
66 TCTTCCTTAGTGAATCAGTAAGGTTGGAGTTTCAGGTATACTAGGTCCCCAACTTCAAACGACCT
*
33307470 A-CATGATCTTTTCTTGTCTGTTAACTGCTTCATTCGTTCTTGAGCTTGTTTCAAGTGGAACTTA
131 ATC-TGATCTTTTCTTGTCTGTTAACTGCTTCATTCGTTCTTGAGCTTGCTTCAAGTGGAACTTA
33307534 AGGAGCTTCCTTAAAGTTTCCCTATGTTGAAGTGTTCTATCCACCTTGGCTACTGTGGAAGACCC
195 AGGAGCTTCCTTAAAGTTTCCCTATGTTGAAGTGTTCTATCCACCTTGGCTACTGTGGAAGACCC
* *
33307599 TGGGAGGTATAGTAAGTGAATGTGAGGCTCCTGACCATAGAAGGTTGTGTAAGGAATGGTGTTGA
260 TGGCAGGTATAGTAAGTGAATGTGAGGCTCCTAACCATAGAAGGTTGTGTAAGGAATGGTGTTGA
*
33307664 TAGTCGAGTGGTATGTGGTGTTATACCATCACTATGCCAAAGGTAGCCAATGAACCCATTCTGAA
325 TAGTCGAGTGGTATGTGGTGTTATACCACCACTATGCCAAAGGTAGCCAATGAACCCATTCTGAA
* *
33307729 AGTTTCTCATCGGTCATGCATCGCAAATAACCCTCAAGGCACTGATTGAAAACTTTTATTTGCCC
390 AGTTTCTCACCGGTCATGCATCGCAAATAACCCTCAAGGCACTGATTGAAAACTTCTATTTGCCC
*
33307794 ATCTGTTTGGGGATGGTATGGAATAAAGAGGTACAGTCGAGTGCCAAGTAGTTTGAATAGTTCTT
455 ATCTGTTTAGGGATGGTATGGAATAAAGAGGTACAGTCGAGTGCCAAGTAGTTTGAATAGTTCTT
33307859 GCCAAAATCTGCTAAGGAATATCTTGTCTCTGTCAGATACGATG
520 GCCAAAATCTGCTAAGGAATATCTTGTCTCTGTCAGATACGATG
33307903 AACTCTGGAA
Statistics
Matches: 546, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
568 1 0.00
569 545 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (569 bp):
CTGACCGATTTTAGCTTCGATAGGATAAGGACCATAGAACCTAGGAGAAAGCTTCTAATTTCGCA
TCTTCCTTAGTGAATCAGTAAGGTTGGAGTTTCAGGTATACTAGGTCCCCAACTTCAAACGACCT
ATCTGATCTTTTCTTGTCTGTTAACTGCTTCATTCGTTCTTGAGCTTGCTTCAAGTGGAACTTAA
GGAGCTTCCTTAAAGTTTCCCTATGTTGAAGTGTTCTATCCACCTTGGCTACTGTGGAAGACCCT
GGCAGGTATAGTAAGTGAATGTGAGGCTCCTAACCATAGAAGGTTGTGTAAGGAATGGTGTTGAT
AGTCGAGTGGTATGTGGTGTTATACCACCACTATGCCAAAGGTAGCCAATGAACCCATTCTGAAA
GTTTCTCACCGGTCATGCATCGCAAATAACCCTCAAGGCACTGATTGAAAACTTCTATTTGCCCA
TCTGTTTAGGGATGGTATGGAATAAAGAGGTACAGTCGAGTGCCAAGTAGTTTGAATAGTTCTTG
CCAAAATCTGCTAAGGAATATCTTGTCTCTGTCAGATACGATGGACCAT
Found at i:33311795 original size:18 final size:20
Alignment explanation
Indices: 33311762--33311804 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
33311752 GGGATTAAAT
33311762 TGGAAAGATGTTGAA-TTTA
1 TGGAAAGATGTTGAATTTTA
*
33311781 TGGAAA-ATTTTGAATTTTA
1 TGGAAAGATGTTGAATTTTA
33311800 TGGAA
1 TGGAA
33311805 TACATGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (20 bp):
TGGAAAGATGTTGAATTTTA
Found at i:33312525 original size:26 final size:26
Alignment explanation
Indices: 33312457--33312526 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
33312447 TTTCTGATTA
* *
33312457 TGGCTCTTCGTGAGCTCCCCGTTAAT
1 TGGCTCTTTGTGAGCTTCCCGTTAAT
*
33312483 TGGCTCTTTGCGAGCTTCCCGTTAAT
1 TGGCTCTTTGTGAGCTTCCCGTTAAT
33312509 TGGCTCTTTGTGAGCTTC
1 TGGCTCTTTGTGAGCTTC
33312527 TCGATATGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.10, C:0.27, G:0.24, T:0.39
Consensus pattern (26 bp):
TGGCTCTTTGTGAGCTTCCCGTTAAT
Found at i:33312895 original size:38 final size:38
Alignment explanation
Indices: 33312853--33312929 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
33312843 TGCAAAAACT
33312853 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
33312891 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
33312929 A
1 A
33312930 CACATGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (38 bp):
ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
Found at i:33314007 original size:52 final size:52
Alignment explanation
Indices: 33313934--33314037 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
33313924 TACCTGGACA
33313934 AAGAAATAGTGTCAGTCCAGGGCCTTGCCTTCAAGATGGAGCATGACTACCT
1 AAGAAATAGTGTCAGTCCAGGGCCTTGCCTTCAAGATGGAGCATGACTACCT
33313986 AAGAAATAGTGTCAGTCCAGGGCCTTGCCTTCAAGATGGAGCATGACTACCT
1 AAGAAATAGTGTCAGTCCAGGGCCTTGCCTTCAAGATGGAGCATGACTACCT
33314038 TCACCTTAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGAAATAGTGTCAGTCCAGGGCCTTGCCTTCAAGATGGAGCATGACTACCT
Found at i:33314578 original size:15 final size:15
Alignment explanation
Indices: 33314560--33314592 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33314550 AGAAGAATAG
*
33314560 GAAGAATAGGAGGAA
1 GAAGAATAAGAGGAA
33314575 GAAGAATAAGAGGAA
1 GAAGAATAAGAGGAA
33314590 GAA
1 GAA
33314593 AAAGGAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (15 bp):
GAAGAATAAGAGGAA
Found at i:33315214 original size:95 final size:95
Alignment explanation
Indices: 33315051--33315239 Score: 378
Period size: 95 Copynumber: 2.0 Consensus size: 95
33315041 AGATTTACAC
33315051 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
33315116 AGCAACAACCAACCAAACACCAACGAATTT
66 AGCAACAACCAACCAAACACCAACGAATTT
33315146 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
33315211 AGCAACAACCAACCAAACACCAACGAATT
66 AGCAACAACCAACCAAACACCAACGAATT
33315240 AAACATAGGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (95 bp):
ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAGCGAGCATTGTCTTGACGATG
AGCAACAACCAACCAAACACCAACGAATTT
Found at i:33316326 original size:51 final size:51
Alignment explanation
Indices: 33316266--33316366 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
33316256 AAAGATTATA
*
33316266 AACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTCTACAAAGAC
1 AACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGCCTACAAAGAC
33316317 AACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGCCTACAAAGA
1 AACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGCCTACAAAGA
33316367 AAAAGGAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.27
Consensus pattern (51 bp):
AACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGCCTACAAAGAC
Found at i:33318069 original size:263 final size:264
Alignment explanation
Indices: 33317602--33318133 Score: 946
Period size: 263 Copynumber: 2.0 Consensus size: 264
33317592 AACAGTAGGA
* ** * *
33317602 TATCTGGTTTGTTGACTATATAAAAGTAGGGTAATACTCAAACCAAGAAAGAACCAACCATTAAA
1 TATCTGGTTTGTTGACCATATAAAAGTAGGGTAATACAAAAACCAAGAAAGAACAAAACATTAAA
33317667 GAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
66 GAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
33317732 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
131 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
33317797 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACA-TAAA
196 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
33317861 ATAG
261 ATAG
*
33317865 TATCTGGTTTGTTGACCATATAAAAGTAGGGTAATACAAAAACCAAGAAAGAA-AAATATATTTA
1 TATCTGGTTTGTTGACCATATAAAAGTAGGGTAATACAAAAACCAAGAAAGAACAAA-ACA-TTA
*
33317929 TA-AAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAA
64 AAGAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAA
33317993 ACTTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTAATAATAAAGA-CTTACC
129 ACTTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTT-ATAATAAAGATCTTACC
33318057 AATTACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATT
193 AATTACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATT
33318122 AAAATAG
258 AAAATAG
33318129 TATCT
1 TATCT
33318134 AGACATAAAA
Statistics
Matches: 258, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
262 2 0.01
263 229 0.89
264 27 0.10
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (264 bp):
TATCTGGTTTGTTGACCATATAAAAGTAGGGTAATACAAAAACCAAGAAAGAACAAAACATTAAA
GAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
ATAG
Found at i:33322062 original size:320 final size:321
Alignment explanation
Indices: 33321469--33322109 Score: 1275
Period size: 320 Copynumber: 2.0 Consensus size: 321
33321459 TTAAAATAAG
33321469 AAATAAAATATTTTAATGAAATATTTTTTAGGGATATTTATTTTATAAATCAAATATATTTATTT
1 AAATAAAATATTTTAATGAAATATTTTTTAGGGATATTTATTTTATAAATCAAATATATTTATTT
33321534 TTTTAGTGTAATTAATGTTTCAATTTCTTGACTTAATAAAAAAAAAATCTGATTTTTAATTCTCA
66 TTTTAGTGTAATTAATGTTTCAATTTCTTGACTTAATAAAAAAAAAATCTGATTTTTAATTCTCA
33321599 ATAGGCCCGGCCCACCCAAGTCCCTACAAGCCTCGGAATGGAGATAGTGAATTAGGGCTAAAGGT
131 ATAGGCCCGGCCCACCCAAGTCCCTACAAGCCTCGGAATGGAGATAGTGAATTAGGGCTAAAGGT
33321664 TTTTCTATGGGTCCTACCCGAACCGAATCCGATCCATCTATTCATGGAATTAATTAATATTTTCC
196 TTTTCTATGGGTCCTACCCGAACCGAATCCGATCCATCTATTCATGGAATTAATTAATATTTTCC
33321729 TTATAAACAATTCAGCAAAATTGCAGCCTTCGTCTCCAAGGAAACTAAGTTCAAAAGGTGC
261 TTATAAACAATTCAGCAAAATTGCAGCCTTCGTCTCCAAGGAAACTAAGTTCAAAAGGTGC
33321790 AAATAAAATA-TTTAATGAAATATTTTTTAGGGATATTTATTTTATAAATCAAATATATTTATTT
1 AAATAAAATATTTTAATGAAATATTTTTTAGGGATATTTATTTTATAAATCAAATATATTTATTT
33321854 TTTTAGTGTAATTAATGTTTCAATTTCTTGACTTAATAAAAAAAAAATCTGATTTTTAATTCTCA
66 TTTTAGTGTAATTAATGTTTCAATTTCTTGACTTAATAAAAAAAAAATCTGATTTTTAATTCTCA
33321919 ATAGGCCCGGCCCACCCAAGTCCCTACAAGCCTCGGAATGGAGATAGTGAATTAGGGCTAAAGGT
131 ATAGGCCCGGCCCACCCAAGTCCCTACAAGCCTCGGAATGGAGATAGTGAATTAGGGCTAAAGGT
33321984 TTTTCTATGGGTCCTACCCGAACCGAATCCGATCCATCTATTCATGGAATTAATTAATATTTTCC
196 TTTTCTATGGGTCCTACCCGAACCGAATCCGATCCATCTATTCATGGAATTAATTAATATTTTCC
33322049 TTATAAACAATTCAGCAAAATTGCAGCCTTCGTCTCCAAGGAAACTAAGTTCAAAAGGTGC
261 TTATAAACAATTCAGCAAAATTGCAGCCTTCGTCTCCAAGGAAACTAAGTTCAAAAGGTGC
33322110 TTGTTTGTAT
Statistics
Matches: 320, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
320 310 0.97
321 10 0.03
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (321 bp):
AAATAAAATATTTTAATGAAATATTTTTTAGGGATATTTATTTTATAAATCAAATATATTTATTT
TTTTAGTGTAATTAATGTTTCAATTTCTTGACTTAATAAAAAAAAAATCTGATTTTTAATTCTCA
ATAGGCCCGGCCCACCCAAGTCCCTACAAGCCTCGGAATGGAGATAGTGAATTAGGGCTAAAGGT
TTTTCTATGGGTCCTACCCGAACCGAATCCGATCCATCTATTCATGGAATTAATTAATATTTTCC
TTATAAACAATTCAGCAAAATTGCAGCCTTCGTCTCCAAGGAAACTAAGTTCAAAAGGTGC
Found at i:33325122 original size:3 final size:3
Alignment explanation
Indices: 33325116--33325145 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33325106 TCGCGGATGA
33325116 TGG TGG TGG T-G TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
33325146 TGTCGTCGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (3 bp):
TGG
Found at i:33327728 original size:25 final size:25
Alignment explanation
Indices: 33327700--33327747 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33327690 TTACCAAAAA
*
33327700 TGGAAAATAAAATTGAAGATAACAG
1 TGGAAAATAAAATTAAAGATAACAG
33327725 TGGAAAATAAAATTAAAGATAAC
1 TGGAAAATAAAATTAAAGATAAC
33327748 TTGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (25 bp):
TGGAAAATAAAATTAAAGATAACAG
Found at i:33328820 original size:27 final size:27
Alignment explanation
Indices: 33328790--33328848 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
33328780 TAACCGAAAC
33328790 TAAAATTATAAAATATGAAATATAATA
1 TAAAATTATAAAATATGAAATATAATA
* * * * * *
33328817 TAAATTTTTAACATATTAAATTTTATA
1 TAAAATTATAAAATATGAAATATAATA
33328844 TAAAA
1 TAAAA
33328849 AGATGAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAAATTATAAAATATGAAATATAATA
Found at i:33329253 original size:12 final size:10
Alignment explanation
Indices: 33329226--33329294 Score: 75
Period size: 11 Copynumber: 6.4 Consensus size: 10
33329216 CAACTAAATC
33329226 ATTTCTCTCA
1 ATTTCTCTCA
33329236 ATTTCTCTCTA
1 ATTTCTCTC-A
33329247 ATATTCTCTCA
1 AT-TTCTCTCA
*
33329258 AATTCATCTCA
1 ATTTC-TCTCA
33329269 ATTTCCTCTCA
1 ATTT-CTCTCA
*
33329280 AATTCGTCTCA
1 ATTTC-TCTCA
33329291 ATTT
1 ATTT
33329295 TCTATTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
10 13 0.26
11 29 0.58
12 8 0.16
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:33329253 original size:22 final size:21
Alignment explanation
Indices: 33329226--33329294 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
33329216 CAACTAAATC
*
33329226 ATTTCTCTCAATTTC-TCTCTA
1 ATTTCTCTCAAATTCATCTC-A
33329247 ATATTCTCTCAAATTCATCTCA
1 AT-TTCTCTCAAATTCATCTCA
*
33329269 ATTTCCTCTCAAATTCGTCTCA
1 ATTT-CTCTCAAATTCATCTCA
33329291 ATTT
1 ATTT
33329295 TCTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 4 0.09
22 35 0.81
23 4 0.09
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (21 bp):
ATTTCTCTCAAATTCATCTCA
Found at i:33329362 original size:14 final size:13
Alignment explanation
Indices: 33329339--33329371 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
33329329 TTAAAAAAAG
33329339 TTTT-AAATTTTAT
1 TTTTAAAATTTT-T
33329352 TTTTAAAATTTTT
1 TTTTAAAATTTTT
33329365 TTTTAAA
1 TTTTAAA
33329372 TCGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAAATTTTT
Found at i:33331154 original size:18 final size:18
Alignment explanation
Indices: 33331131--33331173 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33331121 TGCATGGTGC
* *
33331131 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
33331149 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
33331167 GTTTCCT
1 GTATCCT
33331174 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:33331439 original size:21 final size:21
Alignment explanation
Indices: 33331415--33331475 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
33331405 CAACACCGAT
33331415 AACCAG-ATCCCCTACCGGAGG
1 AACCAGAATCCCC-ACCGGAGG
* *
33331436 AACCAGAATCCCCGCCGGAGT
1 AACCAGAATCCCCACCGGAGG
* * *
33331457 AACCACAACCCCCGCCGGA
1 AACCAGAATCCCCACCGGA
33331476 AGCTGGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 29 0.83
22 6 0.17
ACGTcount: A:0.30, C:0.43, G:0.21, T:0.07
Consensus pattern (21 bp):
AACCAGAATCCCCACCGGAGG
Found at i:33335141 original size:126 final size:126
Alignment explanation
Indices: 33334852--33335259 Score: 633
Period size: 125 Copynumber: 3.3 Consensus size: 126
33334842 TGCGCAACTA
* * * *
33334852 TAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTACTGA-AAAGGCATCCTGTTTAA
1 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAA-GCATCCTGCTTAA
* ** *
33334916 AGCATTTTTGATACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT-AGGAGCTATTG
65 AGCATTTTTGACACTATTTGCTTGGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTG
* * *
33334977 TAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATTCTGCTTAAA
1 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAA
* *
33335042 GCATTTTTGACACTGTTTGCTTGGAAATGTCTACTCGAAATTATTTTTTCAGGAGCTACTG
66 GCATTTTTGACACTATTTGCTTGGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTG
33335103 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAA
1 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAA
* * *
33335168 GC-TTTTTTACACTATTTGCTTGGAAACGTCTACTCGAAATTAATTTTTCAGAAGCTACTG
66 GCATTTTTGACACTATTTGCTTGGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTG
*
33335228 TAGCAAAAGTGCATCCACGTGGGAGCTTCTTT
1 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTT
33335260 AAATTAGCAA
Statistics
Matches: 261, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 184 0.70
126 77 0.30
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
TAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTGCTTAAA
GCATTTTTGACACTATTTGCTTGGAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTG
Found at i:33335551 original size:96 final size:93
Alignment explanation
Indices: 33335292--33335595 Score: 304
Period size: 96 Copynumber: 3.2 Consensus size: 93
33335282 AGTAACCCTA
* **
33335292 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAATCCTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAA-ATTAAA-CCTAAACCCTAATCTAAT
33335357 TTTATAAAAATTTATAATTAATTTACTCAAGT
63 TTT-TAAAAATTTATAATTAATTTACTCAAGT
* * * * * * *
33335389 AACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAACCTTTAGCTCTAAACCCTTATCTGATT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAA-ATTAAAC-CTAAACCCTAATCTAATT
* * *
33335454 TTTAAATGATTTTTAATTAAATTACTCAAGT
64 TTTAAA-AATTTATAATTAATTTACTCAAGT
* * * *
33335485 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAATAATAAACACGAAA-CCTAATCCAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAAAT--TAAAC-CTAAACCCTAATCTAAT
* * ** **
33335549 TTTGAAAAATTTATAATTAATTTAATTGACA
63 TTTTAAAAATTTATAATTAATTTACTCAAGT
33335580 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
33335596 CCCTTATTTA
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
95 38 0.22
96 105 0.61
97 29 0.17
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (93 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAAATTAAACCTAAACCCTAATCTAATTTT
TAAAAATTTATAATTAATTTACTCAAGT
Found at i:33337396 original size:11 final size:12
Alignment explanation
Indices: 33337371--33337400 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33337361 ATTTATATAA
33337371 ATAAAAAATATT
1 ATAAAAAATATT
33337383 ATAAAAAATA-T
1 ATAAAAAATATT
33337394 ATAAAAA
1 ATAAAAA
33337401 CACAATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAAAATATT
Found at i:33337807 original size:19 final size:19
Alignment explanation
Indices: 33337769--33337814 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33337759 CATTAAAATC
** *
33337769 TAAGAGATAATTATATTTT
1 TAAGAGATAAAAATAATTT
33337788 TAAGAGATAAAAATAATTT
1 TAAGAGATAAAAATAATTT
*
33337807 TAATAGAT
1 TAAGAGAT
33337815 TTATGTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAGAGATAAAAATAATTT
Found at i:33338155 original size:29 final size:30
Alignment explanation
Indices: 33338118--33338181 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
33338108 CGTTTTTCGT
**
33338118 TTTTATCACCT-ATG-T-TTAAAATTTTCTA
1 TTTTATCA-CTAATGTTATTAAAATTTAATA
33338146 TTTTAGTCACTAATGTTATTAAAATTTAATA
1 TTTTA-TCACTAATGTTATTAAAATTTAATA
33338177 TTTTA
1 TTTTA
33338182 ATTACTCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 7 0.23
29 6 0.20
30 1 0.03
31 16 0.53
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (30 bp):
TTTTATCACTAATGTTATTAAAATTTAATA
Found at i:33341713 original size:12 final size:12
Alignment explanation
Indices: 33341693--33341722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33341683 GACGTACGCT
*
33341693 CGTGCCCTAGCC
1 CGTGTCCTAGCC
33341705 CGTGTCCTAGCC
1 CGTGTCCTAGCC
33341717 CGTGTC
1 CGTGTC
33341723 TGAACTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.43, G:0.27, T:0.23
Consensus pattern (12 bp):
CGTGTCCTAGCC
Found at i:33341985 original size:65 final size:65
Alignment explanation
Indices: 33341770--33341985 Score: 254
Period size: 65 Copynumber: 3.3 Consensus size: 65
33341760 AGCCACACGT
* * * ** * * *
33341770 CCGTGTGCTAGGCTGTGTGAAAAATGGTGAGCATGTTGACTTATGACACACGGTCAAGCCACATG
1 CCGTGTGCTAGGCTGTGTGAAAAATGTTGGGTATACTGACTTATGTCACACGGCCAA-CCACATA
*
33341835 G
65 C
* * *
33341836 CCGTGTGCTAGGCTGTATGAAAAATGTTGGGTATACTGACTTGTATCACACGGCCAACCACATAC
1 CCGTGTGCTAGGCTGTGTGAAAAATGTTGGGTATACTGACTTATGTCACACGGCCAACCACATAC
* * * *
33341901 CCGTGTGCTAAG-TCCTGTGAAAAATGTTGGGTATACTGACTTATGTCACATGGCCAACCACACA
1 CCGTGTGCTAGGCT-GTGTGAAAAATGTTGGGTATACTGACTTATGTCACACGGCCAACCACATA
33341965 C
65 C
*
33341966 CCGTGTGCTAGGCAGTGTGA
1 CCGTGTGCTAGGCTGTGTGA
33341986 GGCTACTGAC
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
64 1 0.01
65 78 0.62
66 47 0.37
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (65 bp):
CCGTGTGCTAGGCTGTGTGAAAAATGTTGGGTATACTGACTTATGTCACACGGCCAACCACATAC
Found at i:33342236 original size:133 final size:133
Alignment explanation
Indices: 33341998--33342262 Score: 469
Period size: 133 Copynumber: 2.0 Consensus size: 133
33341988 CTACTGACTT
*
33341998 GTGTTCTTTAAAAGTTACAGGGGACACACAATCGTGTCACTTGGCCGTGTGTCACACACGGCTGA
1 GTGTTCTTTAAAAGTTACAGGGGACACACAATCGTGTCACCTGGCCGTGTGTCACACACGGCTGA
*
33342063 GACACACGCCCATGTGGACAAAAATAGGCCATTTTTCAAGCCATATTTCTCACCCAAATTTGTAC
66 GACACACGCCCATGTGGACAAAAATAGGCCATTTTCCAAGCCATATTTCTCACCCAAATTTGTAC
33342128 CAC
131 CAC
*
33342131 GTGTTCTTTAAAAGTTACAGGGGACACACGA-CTGTGTCACCTGGCCGTGTGTCACACACGGCTG
1 GTGTTCTTTAAAAGTTACAGGGGACACACAATC-GTGTCACCTGGCCGTGTGTCACACACGGCTG
* *
33342195 AGACACACGCCCGTGTGGACAAAAATAGGTCATTTTCCAAGCCATATTTCTCACCCAAATTTGTA
65 AGACACACGCCCATGTGGACAAAAATAGGCCATTTTCCAAGCCATATTTCTCACCCAAATTTGTA
33342260 CCA
130 CCA
33342263 ACCTAAACAC
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
132 1 0.01
133 125 0.99
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (133 bp):
GTGTTCTTTAAAAGTTACAGGGGACACACAATCGTGTCACCTGGCCGTGTGTCACACACGGCTGA
GACACACGCCCATGTGGACAAAAATAGGCCATTTTCCAAGCCATATTTCTCACCCAAATTTGTAC
CAC
Found at i:33346906 original size:24 final size:24
Alignment explanation
Indices: 33346879--33346949 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
33346869 TATGGCTATT
* *
33346879 CGGTGCTTCCTGTTAAGTGCTCTC
1 CGGTGCTACCCGTTAAGTGCTCTC
*
33346903 CGGTGCTACCCGTTAAGTGCTCTT
1 CGGTGCTACCCGTTAAGTGCTCTC
* *
33346927 CGGAGCTACCAGTTATAG-GCTCT
1 CGGTGCTACCCGTTA-AGTGCTCT
33346950 TTGTGAGCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.32
Consensus pattern (24 bp):
CGGTGCTACCCGTTAAGTGCTCTC
Found at i:33346966 original size:25 final size:25
Alignment explanation
Indices: 33346890--33346968 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 25
33346880 GGTGCTTCCT
* *
33346890 GTTA-AGTGCTCTCCGGTGCTACCC
1 GTTATAGTGCTCTTCGGAGCTACCC
*
33346914 GTTA-AGTGCTCTTCGGAGCTACCA
1 GTTATAGTGCTCTTCGGAGCTACCC
* *
33346938 GTTATAG-GCTCTTTGTGAGCTTCCC
1 GTTATAGTGCTCTTCG-GAGCTACCC
33346963 GTTATA
1 GTTATA
33346969 TTGCCCGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 32 0.68
25 15 0.32
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.34
Consensus pattern (25 bp):
GTTATAGTGCTCTTCGGAGCTACCC
Found at i:33352621 original size:54 final size:54
Alignment explanation
Indices: 33352555--33352689 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
33352545 CTGAATTAAG
33352555 TCACACGGCCAAGCCACACGCCCGTGTGAAAAATGGTGAGCATACTGACTTGTGA
1 TCACACGGCCAAGCCACACGCCCGTGTGAAAAATGGTGAGCATACTGACTTGT-A
* * * *
33352610 -CACACGCCCAAGCCACACGCCCGTGTGAAAAATGTTGGGTATACTGACTTGTA
1 TCACACGGCCAAGCCACACGCCCGTGTGAAAAATGGTGAGCATACTGACTTGTA
*
33352663 TCACATGGCCAA-CCACACGCCCGTGTG
1 TCACACGGCCAAGCCACACGCCCGTGTG
33352690 CTAGGCCGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
53 16 0.22
54 57 0.78
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (54 bp):
TCACACGGCCAAGCCACACGCCCGTGTGAAAAATGGTGAGCATACTGACTTGTA
Found at i:33355644 original size:95 final size:95
Alignment explanation
Indices: 33355474--33355662 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 95
33355464 AAATTCTACA
*
33355474 AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
1 AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTAGTCATGAGAA
*
33355539 TTATTTAACTAGAGAATTTGATTAAAGAAG
66 TTATTCAACTAGAGAATTTGATTAAAGAAG
* * *
33355569 AATTTGGAAATAATTTAATTGAGTTGATTTATTCGATGTGGAATTAAATTAGGTAGTCGTGAGAA
1 AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTAGTCATGAGAA
*
33355634 TTGTTCAACTAGAGAATTTGATTAAAGAA
66 TTATTCAACTAGAGAATTTGATTAAAGAA
33355663 TTTTCTTGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (95 bp):
AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTAGTCATGAGAA
TTATTCAACTAGAGAATTTGATTAAAGAAG
Found at i:33356138 original size:12 final size:12
Alignment explanation
Indices: 33356121--33356180 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
33356111 TTTTAATAAG
33356121 ATTTAATATTAA
1 ATTTAATATTAA
*
33356133 ATTTAAT-CTAA
1 ATTTAATATTAA
33356144 TATTT-ATA-TAA
1 -ATTTAATATTAA
*
33356155 ATATT-AGATTAA
1 AT-TTAATATTAA
33356167 ATTTAATATTAA
1 ATTTAATATTAA
33356179 AT
1 AT
33356181 CTTATTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.05
11 14 0.35
12 24 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:33356378 original size:26 final size:24
Alignment explanation
Indices: 33356349--33356398 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
33356339 AGTTGTAGAG
*
33356349 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATT-TATAAAGAGATT-TTTC
*
33356375 AGAAAATTTATAAAGATATTTTTC
1 AGAAAATTTATAAAGAGATTTTTC
33356399 TAATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (24 bp):
AGAAAATTTATAAAGAGATTTTTC
Found at i:33356703 original size:129 final size:131
Alignment explanation
Indices: 33356461--33356720 Score: 488
Period size: 129 Copynumber: 2.0 Consensus size: 131
33356451 GTAATTTTTG
33356461 TGAAAAATTTTCTGATTCGAAGCGAGTCCACACTCGGCAGACGTGAGCTTGAGGATAGTGGAGAA
1 TGAAAAATTTTCTGATTCGAAGCGAGTCCACACTCGGCAGACGTGAGCTTGAGGATAGTGGAGAA
33356526 GACTACTCGGTCGAAGAGCTCATTCTAGACGAATCGAAAATGTACAATTTTAATTAAGTGTTTAT
66 GACTACTCGGTCGAAGAGCTCATTCTAGACGAATCGAAAATGTACAATTTTAATTAAGTGTTTAT
33356591 T
131 T
33356592 TGAAAAA-TTT-TGATTCGAAGCGAGTCCACACTCGGCAGACGTGAGCTTGAGGATAGTGGAGAA
1 TGAAAAATTTTCTGATTCGAAGCGAGTCCACACTCGGCAGACGTGAGCTTGAGGATAGTGGAGAA
* *
33356655 GACTACTCGGTCGAAGAGCTCATTCTATAGGAATCGAAAATGTACAATTTTAATTAAGTGTTTAT
66 GACTACTCGGTCGAAGAGCTCATTCTAGACGAATCGAAAATGTACAATTTTAATTAAGTGTTTAT
33356720 T
131 T
33356721 ACTTTAGATA
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
129 117 0.92
130 3 0.02
131 7 0.06
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (131 bp):
TGAAAAATTTTCTGATTCGAAGCGAGTCCACACTCGGCAGACGTGAGCTTGAGGATAGTGGAGAA
GACTACTCGGTCGAAGAGCTCATTCTAGACGAATCGAAAATGTACAATTTTAATTAAGTGTTTAT
T
Found at i:33359433 original size:973 final size:973
Alignment explanation
Indices: 33357547--33359485 Score: 3878
Period size: 973 Copynumber: 2.0 Consensus size: 973
33357537 ATGTACATAG
33357547 ATAAATATGTCACCAAAGTACCAATTGTATCATTTGAACTATCTAACATTACTTCAAATAACTAA
1 ATAAATATGTCACCAAAGTACCAATTGTATCATTTGAACTATCTAACATTACTTCAAATAACTAA
33357612 GTTAATTGAACTTATCACACCAACATATCAAGTTATTAATGTTTACAAATCTATTCAATATTCAA
66 GTTAATTGAACTTATCACACCAACATATCAAGTTATTAATGTTTACAAATCTATTCAATATTCAA
33357677 CATTTGATCATAACGCATTTCCTTTCCGAACCAAATTCAATCTAGCTTTGGATTAAAATCTGATT
131 CATTTGATCATAACGCATTTCCTTTCCGAACCAAATTCAATCTAGCTTTGGATTAAAATCTGATT
33357742 TCATATATCTTTATTAGGGACCTTATTTTATCTATTTCTATCATAATTTTATACAAAGTTTTACA
196 TCATATATCTTTATTAGGGACCTTATTTTATCTATTTCTATCATAATTTTATACAAAGTTTTACA
33357807 TTTATTTAATTTGGTCCCCAATGTAACAAAGTTAGTAATAAGCTAAATTAACTTTACAATCTAGT
261 TTTATTTAATTTGGTCCCCAATGTAACAAAGTTAGTAATAAGCTAAATTAACTTTACAATCTAGT
33357872 CCTTTTTATATTATAAGCTTAAAAGAAATCAATTTCATACCTAATTCTTCAAGAAATCAACAATG
326 CCTTTTTATATTATAAGCTTAAAAGAAATCAATTTCATACCTAATTCTTCAAGAAATCAACAATG
33357937 GAAACTTTCTAAGACTTTAACAGTTTCATAATTTGGTACATGGGATAGCTAAATCAAGCTCCCAT
391 GAAACTTTCTAAGACTTTAACAGTTTCATAATTTGGTACATGGGATAGCTAAATCAAGCTCCCAT
33358002 GACCTCAAATCTATATAAATTACAAGAAAAAGACTTGAATTTACTTTCCAAATGTTGGTCGAATG
456 GACCTCAAATCTATATAAATTACAAGAAAAAGACTTGAATTTACTTTCCAAATGTTGGTCGAATG
33358067 TTAACAATGGTTCTTTAGGTTTTCTTCTTCTTTTGGATGGTAAAAAAAGAGGTGGAAGATGAAGA
521 TTAACAATGGTTCTTTAGGTTTTCTTCTTCTTTTGGATGGTAAAAAAAGAGGTGGAAGATGAAGA
33358132 TGTTATTTTCCCCCACTAATTTAGCATATATTATTAAGCTTATTACCTTAATCATGATTTAATTA
586 TGTTATTTTCCCCCACTAATTTAGCATATATTATTAAGCTTATTACCTTAATCATGATTTAATTA
33358197 ACCTAATTAAATCATGAATCATACCTAGTGAGAGATTTCATCACCATCAACTAACATCAATTGGA
651 ACCTAATTAAATCATGAATCATACCTAGTGAGAGATTTCATCACCATCAACTAACATCAATTGGA
33358262 AAATGGATTATTTACAATTTTAAACCTTTGACTAATTGCTATCTAAGTCCCTAAACCTTTGGCCA
716 AAATGGATTATTTACAATTTTAAACCTTTGACTAATTGCTATCTAAGTCCCTAAACCTTTGGCCA
33358327 ATTAAAAACCTATAACGATTGAACTTTTACAATTTAACCCTGAACCTTAATTAACTATTAAATTA
781 ATTAAAAACCTATAACGATTGAACTTTTACAATTTAACCCTGAACCTTAATTAACTATTAAATTA
33358392 CCAAAATTTCTAGACCAATTTATAATATATATTAATATTGTACACATAAATATTAATATTTAATA
846 CCAAAATTTCTAGACCAATTTATAATATATATTAATATTGTACACATAAATATTAATATTTAATA
33358457 TTTACGGGCTCGATTCACAAAAATGGGGTTTCAAAATCGTACTTTCCGGTACCACTTACAAAT
911 TTTACGGGCTCGATTCACAAAAATGGGGTTTCAAAATCGTACTTTCCGGTACCACTTACAAAT
33358520 ATAAATATGTCACCAAAGTACCAATTGTATCATTTGAACTATCTAACATTACTTCAAATAACTAA
1 ATAAATATGTCACCAAAGTACCAATTGTATCATTTGAACTATCTAACATTACTTCAAATAACTAA
33358585 GTTAATTGAACTTATCACACCAACATATCAAGTTATTAATGTTTACAAATCTATTCAATATTCAA
66 GTTAATTGAACTTATCACACCAACATATCAAGTTATTAATGTTTACAAATCTATTCAATATTCAA
33358650 CATTTGATCATAACGCATTTCCTTTCCGAACCAAATTCAATCTAGCTTTGGATTAAAATCTGATT
131 CATTTGATCATAACGCATTTCCTTTCCGAACCAAATTCAATCTAGCTTTGGATTAAAATCTGATT
33358715 TCATATATCTTTATTAGGGACCTTATTTTATCTATTTCTATCATAATTTTATACAAAGTTTTACA
196 TCATATATCTTTATTAGGGACCTTATTTTATCTATTTCTATCATAATTTTATACAAAGTTTTACA
33358780 TTTATTTAATTTGGTCCCCAATGTAACAAAGTTAGTAATAAGCTAAATTAACTTTACAATCTAGT
261 TTTATTTAATTTGGTCCCCAATGTAACAAAGTTAGTAATAAGCTAAATTAACTTTACAATCTAGT
33358845 CCTTTTTATATTATAAGCTTAAAAGAAATCAATTTCATACCTAATTCTTCAAGAAATCAACAATG
326 CCTTTTTATATTATAAGCTTAAAAGAAATCAATTTCATACCTAATTCTTCAAGAAATCAACAATG
33358910 GAAACTTTCTAAGACTTTAACAGTTTCATAATTTGGTACATGGGATAGCTAAATCAAGCTCCCAT
391 GAAACTTTCTAAGACTTTAACAGTTTCATAATTTGGTACATGGGATAGCTAAATCAAGCTCCCAT
33358975 GACCTCAAATCTATATAAATTACAAGAAAAAGACTTGAATTTACTTTCCAAATGTTGGTCGAATG
456 GACCTCAAATCTATATAAATTACAAGAAAAAGACTTGAATTTACTTTCCAAATGTTGGTCGAATG
33359040 TTAACAATGGTTCTTTAGGTTTTCTTCTTCTTTTGGATGGTAAAAAAAGAGGTGGAAGATGAAGA
521 TTAACAATGGTTCTTTAGGTTTTCTTCTTCTTTTGGATGGTAAAAAAAGAGGTGGAAGATGAAGA
33359105 TGTTATTTTCCCCCACTAATTTAGCATATATTATTAAGCTTATTACCTTAATCATGATTTAATTA
586 TGTTATTTTCCCCCACTAATTTAGCATATATTATTAAGCTTATTACCTTAATCATGATTTAATTA
33359170 ACCTAATTAAATCATGAATCATACCTAGTGAGAGATTTCATCACCATCAACTAACATCAATTGGA
651 ACCTAATTAAATCATGAATCATACCTAGTGAGAGATTTCATCACCATCAACTAACATCAATTGGA
33359235 AAATGGATTATTTACAATTTTAAACCTTTGACTAATTGCTATCTAAGTCCCTAAACCTTTGGCCA
716 AAATGGATTATTTACAATTTTAAACCTTTGACTAATTGCTATCTAAGTCCCTAAACCTTTGGCCA
33359300 ATTAAAAACCTATAACGATTGAACTTTTACAATTTAACCCTGAACCTTAATTAACTATTAAATTA
781 ATTAAAAACCTATAACGATTGAACTTTTACAATTTAACCCTGAACCTTAATTAACTATTAAATTA
33359365 CCAAAATTTCTAGACCAATTTATAATATATATTAATATTGTACACATAAATATTAATATTTAATA
846 CCAAAATTTCTAGACCAATTTATAATATATATTAATATTGTACACATAAATATTAATATTTAATA
33359430 TTTACGGGCTCGATTCACAAAAATGGGGTTTCAAAATCGTACTTTCCGGTACCACT
911 TTTACGGGCTCGATTCACAAAAATGGGGTTTCAAAATCGTACTTTCCGGTACCACT
33359486 GAAAATCGAG
Statistics
Matches: 966, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
973 966 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (973 bp):
ATAAATATGTCACCAAAGTACCAATTGTATCATTTGAACTATCTAACATTACTTCAAATAACTAA
GTTAATTGAACTTATCACACCAACATATCAAGTTATTAATGTTTACAAATCTATTCAATATTCAA
CATTTGATCATAACGCATTTCCTTTCCGAACCAAATTCAATCTAGCTTTGGATTAAAATCTGATT
TCATATATCTTTATTAGGGACCTTATTTTATCTATTTCTATCATAATTTTATACAAAGTTTTACA
TTTATTTAATTTGGTCCCCAATGTAACAAAGTTAGTAATAAGCTAAATTAACTTTACAATCTAGT
CCTTTTTATATTATAAGCTTAAAAGAAATCAATTTCATACCTAATTCTTCAAGAAATCAACAATG
GAAACTTTCTAAGACTTTAACAGTTTCATAATTTGGTACATGGGATAGCTAAATCAAGCTCCCAT
GACCTCAAATCTATATAAATTACAAGAAAAAGACTTGAATTTACTTTCCAAATGTTGGTCGAATG
TTAACAATGGTTCTTTAGGTTTTCTTCTTCTTTTGGATGGTAAAAAAAGAGGTGGAAGATGAAGA
TGTTATTTTCCCCCACTAATTTAGCATATATTATTAAGCTTATTACCTTAATCATGATTTAATTA
ACCTAATTAAATCATGAATCATACCTAGTGAGAGATTTCATCACCATCAACTAACATCAATTGGA
AAATGGATTATTTACAATTTTAAACCTTTGACTAATTGCTATCTAAGTCCCTAAACCTTTGGCCA
ATTAAAAACCTATAACGATTGAACTTTTACAATTTAACCCTGAACCTTAATTAACTATTAAATTA
CCAAAATTTCTAGACCAATTTATAATATATATTAATATTGTACACATAAATATTAATATTTAATA
TTTACGGGCTCGATTCACAAAAATGGGGTTTCAAAATCGTACTTTCCGGTACCACTTACAAAT
Found at i:33362215 original size:29 final size:30
Alignment explanation
Indices: 33362156--33362213 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
33362146 TCCGAGCCTT
*
33362156 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
33362186 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
33362214 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:33362952 original size:30 final size:30
Alignment explanation
Indices: 33362917--33362974 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
33362907 CCTCGACTCT
*
33362917 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
33362947 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
33362975 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:33367667 original size:25 final size:25
Alignment explanation
Indices: 33367630--33367679 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
33367620 TTGTAAATTA
*
33367630 GAAAAATATCTTTATA-AATTTTCT
1 GAAAAATATCTTTAGAGAATTTTCT
*
33367654 GAAATAATCTCTTTAGAGAATTTTCT
1 GAAA-AATATCTTTAGAGAATTTTCT
33367680 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTCT
Found at i:33367752 original size:12 final size:12
Alignment explanation
Indices: 33367735--33367792 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
33367725 AATTAATCAC
33367735 TTTAATATTAAA
1 TTTAATATTAAA
*
33367747 TTTAAT-CTAATA
1 TTTAATATTAA-A
33367759 TTT-ATA-TAAA
1 TTTAATATTAAA
*
33367769 TATT-AGATTAAA
1 T-TTAATATTAAA
33367781 TTTAATATTAAA
1 TTTAATATTAAA
33367793 GTGATTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
10 2 0.05
11 14 0.37
12 22 0.58
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:33367877 original size:26 final size:24
Alignment explanation
Indices: 33367848--33367897 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
33367838 AGTTGTAGAG
*
33367848 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATT-TATAAAGAGATT-TTTC
*
33367874 AGAAAATTTATAAAGATATTTTTC
1 AGAAAATTTATAAAGAGATTTTTC
33367898 TAATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (24 bp):
AGAAAATTTATAAAGAGATTTTTC
Found at i:33372624 original size:29 final size:30
Alignment explanation
Indices: 33372565--33372622 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
33372555 TCCGAGCCTT
*
33372565 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
33372595 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
33372623 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:33373071 original size:50 final size:50
Alignment explanation
Indices: 33372960--33373208 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
33372950 ATTTGGGTAA
*
33372960 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
**
33373016 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
33373066 AGAGGTCTCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * * *
33373116 AGAGGTCCCCCATAAGACCATGTCTGGGACACGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
33373166 AGAATATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33373209 TGTTATGATC
Statistics
Matches: 166, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 91 0.55
51 31 0.19
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:33379888 original size:87 final size:84
Alignment explanation
Indices: 33379624--33379910 Score: 262
Period size: 87 Copynumber: 3.3 Consensus size: 84
33379614 TTTTTTCGCA
* * **
33379624 TACTTGAACTTTTAAAATACATCAAAAAA-GCTCTCAAAC-TTAAAAAAAAACCCATTAAGCCC-
1 TACTTGAACTTTCAAAATGCATCAAAAAAGGCTCTCAAACTTTTTAAAAAAA--CATTAAGCCCG
*
33379686 TTTTTTTTTTATTCAATTGGG
64 TTTTTTTTTTACTCAATTGGG
* * * * * *
33379707 TACTT-AAGCTTTCAGAATGTAT-TACAAAGGCTCTCAAACTTTTTCAAGAAAAGTCATTAAATC
1 TACTTGAA-CTTTCAAAATGCATCAAAAAAGGCTCTCAAACTTTTT-AA-AAAA-ACATT-AAGC
* *
33379770 TCTGTTTTTTTTTGTACTCAATTGGA
61 -CCGTTTTTTTTT-TACTCAATTGGG
* * *
33379796 TACTTGAACTTTTAAAATGCATAAAAAAAGGCCCTCAAACTTTTTAAAAAAACAATTAAGCCCGT
1 TACTTGAACTTTCAAAATGCATCAAAAAAGGCTCTCAAACTTTTTAAAAAAAC-ATTAAGCCCGT
*
33379861 ATTTTTTTTACACTCAATTGGG
65 -TTTTTTTT-TACTCAATTGGG
33379883 TACTTGAA-TTGTCAAAATGCATCAAAAA
1 TACTTGAACTT-TCAAAATGCATCAAAAA
33379911 GATCATTTGA
Statistics
Matches: 162, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
82 6 0.04
83 25 0.15
84 2 0.01
85 6 0.04
86 12 0.07
87 46 0.28
88 16 0.10
89 28 0.17
90 21 0.13
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (84 bp):
TACTTGAACTTTCAAAATGCATCAAAAAAGGCTCTCAAACTTTTTAAAAAAACATTAAGCCCGTT
TTTTTTTTACTCAATTGGG
Done.