Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 119 of 203
Found at i:37678932 original size:14 final size:13
Alignment explanation
Indices: 37678910--37678953 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
37678900 TTGACTTTGA
37678910 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
37678923 TTTCTTCTTTTTTAT
1 TTT-TTCTTTTTT-T
*
37678938 TTTTTATTTTTATT
1 TTTTTCTTTTT-TT
37678952 TT
1 TT
37678954 GATTTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 19 0.70
15 5 0.19
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:37679790 original size:25 final size:25
Alignment explanation
Indices: 37679737--37679796 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
37679727 AAGAAAGTCT
* *
37679737 AAAAGAATGAAAGAATAATTATTCC
1 AAAAGAATGAAAGAATAATTACTCA
*
37679762 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
37679787 AAAATGAATG
1 AAAA-GAATG
37679797 CAAATATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 22 0.73
26 5 0.17
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:37689829 original size:16 final size:16
Alignment explanation
Indices: 37689808--37689863 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
37689798 AATCGGATGT
37689808 GGAATTAATTAACTAA
1 GGAATTAATTAACTAA
* **
37689824 GGAATTAAGGTTTA-TGT
1 GGAATTAA--TTAACTAA
37689841 GGAATTAATTAACTAA
1 GGAATTAATTAACTAA
37689857 GGAATTA
1 GGAATTA
37689864 GGGTTTACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 3 0.10
16 16 0.52
17 9 0.29
18 3 0.10
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.34
Consensus pattern (16 bp):
GGAATTAATTAACTAA
Found at i:37689846 original size:33 final size:33
Alignment explanation
Indices: 37689804--37689870 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
37689794 TAACAATCGG
37689804 ATGTGGAATTAATTAACTAAGGAATTAAGGTTT
1 ATGTGGAATTAATTAACTAAGGAATTAAGGTTT
*
37689837 ATGTGGAATTAATTAACTAAGGAATTAGGGTTT
1 ATGTGGAATTAATTAACTAAGGAATTAAGGTTT
37689870 A
1 A
37689871 CTTTAGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (33 bp):
ATGTGGAATTAATTAACTAAGGAATTAAGGTTT
Found at i:37701384 original size:6 final size:6
Alignment explanation
Indices: 37701373--37701417 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
37701363 CAATACACTA
*
37701373 ATACAT ATACAT ATACAT ATATAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
37701418 TGTGATTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (6 bp):
ATACAT
Found at i:37701405 original size:24 final size:24
Alignment explanation
Indices: 37701373--37701418 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
37701363 CAATACACTA
37701373 ATACATATACATATACATATATAT
1 ATACATATACATATACATATATAT
37701397 ATACATATACATATACATATAT
1 ATACATATACATATACATATAT
37701419 GTGATTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (24 bp):
ATACATATACATATACATATATAT
Found at i:37706846 original size:10 final size:10
Alignment explanation
Indices: 37706828--37706900 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
37706818 ATATAAGAAT
*
37706828 AATTATATTG
1 AATTATATTA
*
37706838 AATTTTATTA
1 AATTATATTA
37706848 AATTATA-T-
1 AATTATATTA
* *
37706856 ATTTTTATTA
1 AATTATATTA
*
37706866 AATTATATTT
1 AATTATATTA
37706876 AA-TA-A-T-
1 AATTATATTA
*
37706882 AATTATTTTA
1 AATTATATTA
37706892 AATTATATT
1 AATTATATT
37706901 TTATAGTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
8 6 0.13
9 5 0.11
10 31 0.66
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (10 bp):
AATTATATTA
Found at i:37706874 original size:28 final size:27
Alignment explanation
Indices: 37706825--37706900 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 27
37706815 TTCATATAAG
* *
37706825 AATAATTA-TATTGAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
* * *
37706851 TATATATTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
37706879 AATAATTATT-TTAAATTATATT
1 AATAATTATTATTAAATTATATT
37706901 TTATAGTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 15 0.37
27 8 0.20
28 18 0.44
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:37706948 original size:59 final size:58
Alignment explanation
Indices: 37706778--37706948 Score: 161
Period size: 59 Copynumber: 2.9 Consensus size: 58
37706768 TAGATTATAT
* * * *
37706778 ATTAT-TTTTATAGATTATATAATATGATTTTAGTAAATTCATATAAGAATA-ATTAT
1 ATTATATTTTATAGATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTTAA
* * * ** * * * *
37706834 ATTGA-ATTTTATTAAATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA
1 ATT-ATATTTTA-TAGATTATATATTATGATTTTAGTAAATTCATATAA-AAATATTTTAA
37706893 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTT
1 ATTATATTTTATAG-ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTT
37706949 AATACTAGGA
Statistics
Matches: 85, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
56 3 0.04
57 10 0.12
58 28 0.33
59 40 0.47
60 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (58 bp):
ATTATATTTTATAGATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTTAA
Found at i:37707021 original size:117 final size:116
Alignment explanation
Indices: 37706778--37707022 Score: 279
Period size: 117 Copynumber: 2.1 Consensus size: 116
37706768 TAGATTATAT
* *
37706778 ATTATT-TTTATAGATTATATAATATGATTTTAGTAAATTCATATAAGAATAATTATATTGAATT
1 ATTATTATTTATAGATTATATAATATGATTTTAGTAAATTCATATAAAAATAATTATATGGAATT
** * * **
37706842 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 TTATTAAATTATATATTAATAATAAATTATAGTTAATAATAATTAAGTTAA
* *
37706893 ATTA-TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATACTAG
1 ATTATTA-TTTATAG-ATTATATAATATGATTTTAGTAAATTCATATAAAAATAATT-ATA-T-G
37706957 GAATTTTATTAAATTATAT-TTAATAAT-AATTAT-GTTAA-AATATGATTAAGTT-A
61 GAATTTTATTAAATTATATATTAATAATAAATTATAGTTAATAATA--ATTAAGTTAA
*
37707010 TTTATTATTTATA
1 ATTATTATTTATA
37707023 TTAATAAACT
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
114 1 0.01
115 4 0.04
116 11 0.10
117 52 0.47
118 17 0.15
119 6 0.05
120 19 0.17
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (116 bp):
ATTATTATTTATAGATTATATAATATGATTTTAGTAAATTCATATAAAAATAATTATATGGAATT
TTATTAAATTATATATTAATAATAAATTATAGTTAATAATAATTAAGTTAA
Found at i:37707167 original size:39 final size:41
Alignment explanation
Indices: 37707122--37707227 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
37707112 GTTACTTATG
* *
37707122 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
37707162 C-ATTACGCCTCTAATCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
*
37707207 CTATTACGCCACTATTCCATT
1 CTATTACGCCTCTATTCCATT
37707228 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.16
40 1 0.02
41 8 0.14
42 1 0.02
43 1 0.02
44 23 0.41
45 4 0.07
46 9 0.16
ACGTcount: A:0.37, C:0.32, G:0.04, T:0.27
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:37707202 original size:44 final size:46
Alignment explanation
Indices: 37707135--37707227 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
37707125 TTACACCTCT
* *
37707135 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTAATCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCACTAATCC
*
37707179 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCACTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCACTAATCC
37707225 ATT
1 ATT
37707228 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 4 0.09
46 17 0.39
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCACTAATCC
Found at i:37707230 original size:16 final size:16
Alignment explanation
Indices: 37707209--37707261 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
37707199 AGAATTACCT
37707209 ATTACGCCACTATTCC
1 ATTACGCCACTATTCC
37707225 ATTACG-CATCTATTCC
1 ATTACGCCA-CTATTCC
*
37707241 ATTACGCCTCTATTCC
1 ATTACGCCACTATTCC
37707257 ATTAC
1 ATTAC
37707262 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 2 0.06
16 31 0.91
17 1 0.03
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCACTATTCC
Found at i:37707722 original size:41 final size:40
Alignment explanation
Indices: 37707668--37707804 Score: 131
Period size: 41 Copynumber: 3.5 Consensus size: 40
37707658 CGACTTCAAG
*
37707668 TCGAAGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATT-AT
* *
37707709 TCGATGAGGCACTGGGTGCCAATTTACT--TT--GATT-T
1 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAT
* * *
37707744 AGCTGATGAGACACTGGGTGTCAATTTATTTACTTCGAATTAT
1 -TC-GATGAGACACTGGGTGTCAATTTA-CTACTTCGGATTAT
* *
37707787 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
37707805 CCAAATTGGT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 26 0.33
38 1 0.01
39 2 0.03
40 2 0.03
41 40 0.51
42 4 0.05
43 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAT
Found at i:37714532 original size:85 final size:85
Alignment explanation
Indices: 37714434--37714608 Score: 269
Period size: 85 Copynumber: 2.1 Consensus size: 85
37714424 GACTAAATTC
* * *
37714434 GAATTTAGGCAAATAATGAGTAAATTTTTTTTAAAATATTAAATATAAGATTGAATTGTGTTGTA
1 GAATTTAGGCAAATAATGAGTAAAATTTTTTTAAAATATTAAATATAAGATTGAATTGAGTTATA
*
37714499 TTGATGAATTTTAATTGTTT
66 TTGATGAATTTTAATTATTT
* ** *
37714519 GAATTTGGGCAAATGTTGAGTAAAATTTTTTTGAAATATTAAATATAAGATTGAATTGAGTTATA
1 GAATTTAGGCAAATAATGAGTAAAATTTTTTTAAAATATTAAATATAAGATTGAATTGAGTTATA
37714584 TTGATGAATTTTAATTATTT
66 TTGATGAATTTTAATTATTT
*
37714604 TAATT
1 GAATT
37714609 CCATAGCTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (85 bp):
GAATTTAGGCAAATAATGAGTAAAATTTTTTTAAAATATTAAATATAAGATTGAATTGAGTTATA
TTGATGAATTTTAATTATTT
Found at i:37719977 original size:37 final size:36
Alignment explanation
Indices: 37719917--37720010 Score: 116
Period size: 37 Copynumber: 2.6 Consensus size: 36
37719907 AGTACATAAG
* * *
37719917 TAATCCAACCAAAACACGCCAAATTCTCATGAGAGC
1 TAATCCAACCATAACACGCCAAATGCTCATAAGAGC
* *
37719953 TAATCCAACCGATAACACGTCAAATGCTCATAAGAGT
1 TAATCCAACC-ATAACACGCCAAATGCTCATAAGAGC
*
37719990 TAATCCAACTAATAACACGCC
1 TAATCCAAC-CATAACACGCC
37720011 TCGACACTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 10 0.20
37 39 0.80
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (36 bp):
TAATCCAACCATAACACGCCAAATGCTCATAAGAGC
Found at i:37721210 original size:39 final size:41
Alignment explanation
Indices: 37721137--37721257 Score: 124
Period size: 39 Copynumber: 3.0 Consensus size: 41
37721127 TTTTGAGTTT
* *
37721137 TCGGGGCTTTAGT-GGCGTTTTTCAAAAAGCGTCGCTAATGCA
1 TCGGGGCTTTA-TCGGCATTTTT-GAAAAGCGTCGCTAATGCA
* *
37721179 T-GGGGCTTTATCGGC-TTTTTGAAAAGTGTCGCTAATG-T
1 TCGGGGCTTTATCGGCATTTTTGAAAAGCGTCGCTAATGCA
* * *
37721217 TCGAGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTATCGGCATTTTTGAA-AAGCGTCGCTAATGC
37721258 TCAGTGCTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 27 0.40
40 14 0.21
41 24 0.36
42 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGGCTTTATCGGCATTTTTGAAAAGCGTCGCTAATGCA
Found at i:37721256 original size:41 final size:41
Alignment explanation
Indices: 37721141--37721360 Score: 193
Period size: 41 Copynumber: 5.4 Consensus size: 41
37721131 GAGTTTTCGG
* * * *
37721141 GGCTTTAGTGGCGTTTTTCAAAAAGCGTCGCTAATGCAT-GG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC-TCGA
* * * *
37721182 GGCTTTATCGGC-TTTTTG-AAAAGTGTCGCTAATGTTCGA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
* *
37721221 GGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC-A
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
* * **
37721261 GTGCTTTAGCAGTGTTTTTGAAGAAA-CGCCGCTAATGCTATA
1 G-GCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCGA
** * *
37721303 -TTTTTAACGGCGTTTTTGAAAAAGTGCCGCTAATGCTCG-
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
37721342 GGTCTTTAGCGGCGTTTTT
1 GG-CTTTAGCGGCGTTTTT
37721361 TAATGCTCAG
Statistics
Matches: 143, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 30 0.21
40 40 0.28
41 69 0.48
42 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
Found at i:37721812 original size:15 final size:14
Alignment explanation
Indices: 37721792--37721829 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
37721782 CCTATCTTAA
37721792 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
37721806 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
37721821 GGTTTATGG
1 GGTTTATGG
37721830 TTTAAGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:37721845 original size:21 final size:22
Alignment explanation
Indices: 37721821--37721887 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
37721811 TAGGGATTAT
*
37721821 GGTTTATGGTTTAAGGG-TCGG
1 GGTTTATGGTTTAAGGGTTAGG
* *
37721842 GGTTTAAGGTTTAGGGGTTAGG
1 GGTTTATGGTTTAAGGGTTAGG
* * *
37721864 GGTTTATGATTTATGGTTTAGG
1 GGTTTATGGTTTAAGGGTTAGG
37721886 GG
1 GG
37721888 ATAGGGGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 15 0.39
22 23 0.61
ACGTcount: A:0.16, C:0.01, G:0.42, T:0.40
Consensus pattern (22 bp):
GGTTTATGGTTTAAGGGTTAGG
Found at i:37721882 original size:36 final size:36
Alignment explanation
Indices: 37721842--37721912 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
37721832 TAAGGGTCGG
** *
37721842 GGTTTAAGGTTTAGGGGTTAGGGGTTTATGATTTAT
1 GGTTTAAGGGATAGGGGTTAGGGGTTTACGATTTAT
*
37721878 GGTTTAGGGGATAGGGGTTAGGGGTTTACGATTTA
1 GGTTTAAGGGATAGGGGTTAGGGGTTTACGATTTA
37721913 GATTAATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.20, C:0.01, G:0.39, T:0.39
Consensus pattern (36 bp):
GGTTTAAGGGATAGGGGTTAGGGGTTTACGATTTAT
Found at i:37721913 original size:29 final size:30
Alignment explanation
Indices: 37721840--37721905 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
37721830 TTTAAGGGTC
*
37721840 GGGGTTTAAGGTTTAGGGGTTAGGGGTTTA
1 GGGGTTTAAGGTTTAGGGGATAGGGGTTTA
* * *
37721870 -TGATTTATGGTTTAGGGGATAGGGG-TTA
1 GGGGTTTAAGGTTTAGGGGATAGGGGTTTA
37721898 GGGGTTTA
1 GGGGTTTA
37721906 CGATTTAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (30 bp):
GGGGTTTAAGGTTTAGGGGATAGGGGTTTA
Found at i:37722081 original size:14 final size:15
Alignment explanation
Indices: 37722047--37722081 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
37722037 CCTATCTTAA
37722047 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
37722062 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
37722076 GGTTTA
1 GGTTTA
37722082 TGGTTTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:37722138 original size:7 final size:7
Alignment explanation
Indices: 37722047--37722168 Score: 77
Period size: 7 Copynumber: 17.0 Consensus size: 7
37722037 CCTATCTTAA
37722047 GGTTTAG
1 GGTTTAG
*
37722054 GGATTATG
1 GGTTTA-G
37722062 GGTTTAG
1 GGTTTAG
* *
37722069 GGATTAT
1 GGTTTAG
*
37722076 GGTTTAT
1 GGTTTAG
37722083 GGTTTAAG
1 GGTTT-AG
*
37722091 GG-TTGG
1 GGTTTAG
*
37722097 GGTTTAA
1 GGTTTAG
*
37722104 GATTTAAG
1 GGTTT-AG
37722112 GG-TTAG
1 GGTTTAG
*
37722118 GAGTTTAT
1 G-GTTTAG
*
37722126 GATTTAG
1 GGTTTAG
37722133 GGTTTAG
1 GGTTTAG
*
37722140 GGATTAGG
1 GGTTTA-G
* *
37722148 GGTTAAA
1 GGTTTAG
37722155 GGTTTAG
1 GGTTTAG
37722162 GGTTTAG
1 GGTTTAG
37722169 ATTAATTAGT
Statistics
Matches: 86, Mismatches: 22, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
6 6 0.07
7 60 0.70
8 20 0.23
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:37722138 original size:29 final size:30
Alignment explanation
Indices: 37722106--37722167 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
37722096 GGGTTTAAGA
* *
37722106 TTTAAGGG-TTAGGAGTTTATGATTTAGGG
1 TTTAAGGGATTAGGAGTTAAAGATTTAGGG
* *
37722135 TTT-AGGGATTAGGGGTTAAAGGTTTAGGG
1 TTTAAGGGATTAGGAGTTAAAGATTTAGGG
37722164 TTTA
1 TTTA
37722168 GATTAATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.40
Consensus pattern (30 bp):
TTTAAGGGATTAGGAGTTAAAGATTTAGGG
Found at i:37722178 original size:255 final size:257
Alignment explanation
Indices: 37721659--37722255 Score: 948
Period size: 255 Copynumber: 2.3 Consensus size: 257
37721649 TACATTACTG
* *
37721659 AGTGTTTTTTAATTTACATATTAAATAATTTCTTATATAACCGTAAAAGAGATAGTATTAATTTT
1 AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTT
37721724 AAAATATTAAATTAATTATCATTATAGTTTAGGGTTTAAGGTTTAAGGTTTAGGAGTACCTATCT
66 AAAATATTAAATTAATTATCATTATAGTTTA-GG--T--GGTTTAAGGTTTAGGAGTACCTATCT
* *
37721789 TAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTCGGGGTTTAAGGTTT
126 TAAGGTTTAGGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTCGGGGTTTAAGATTT
* * * **
37721854 AGGGGTTAGGGGTTTATGATTTATGGTTTAGGGGATAGGGGTTAGGGGTTTACGATTTAGATTAA
191 AAGGGTTAGGAGTTTATGATTTAGGGTTTAGGGGATAGGGGTTAAAGGTTTACGATTTAGATTAA
37721919 TT
256 TT
37721921 AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTT
1 AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTT
*
37721986 AAAATATTGAATTAATTATCATTATAGTTTA-G-GGTTTAAGGTTTAGGAGTACCTATCTTAAGG
66 AAAATATTAAATTAATTATCATTATAGTTTAGGTGGTTTAAGGTTTAGGAGTACCTATCTTAAGG
*
37722049 TTTAGGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGGTTTAAGATTTAAGGG
131 TTTAGGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTCGGGGTTTAAGATTTAAGGG
* *
37722114 TTAGGAGTTTATGATTTAGGGTTTA-GGGATTAGGGGTTAAAGGTTTAGGGTTTAGATTAATT
196 TTAGGAGTTTATGATTTAGGGTTTAGGGGA-TAGGGGTTAAAGGTTTACGATTTAGATTAATT
* * *
37722176 AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAGAAGAGATAATATTAATTTT
1 AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTT
**
37722241 ATTATATTAACATTA
66 AAAATATTAA-ATTA
37722256 TGACTATAGT
Statistics
Matches: 314, Mismatches: 19, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
254 4 0.01
255 212 0.68
256 4 0.01
260 1 0.00
262 93 0.30
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (257 bp):
AGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTT
AAAATATTAAATTAATTATCATTATAGTTTAGGTGGTTTAAGGTTTAGGAGTACCTATCTTAAGG
TTTAGGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTCGGGGTTTAAGATTTAAGGG
TTAGGAGTTTATGATTTAGGGTTTAGGGGATAGGGGTTAAAGGTTTACGATTTAGATTAATT
Found at i:37726417 original size:43 final size:43
Alignment explanation
Indices: 37726370--37726498 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
37726360 GTTTGCGATA
* *
37726370 AAAAGTGCTGCTAAAAGTCATGTTTTTTAGCGGTATTTGTGAT
1 AAAAGTGCTGCTAAAAGTCATGTTTTTTAGCGGCATTTGTGAC
* *
37726413 AAAAGTGCCGCT-AAAG----GTTTTTTAGTGGCATTTGTGAC
1 AAAAGTGCTGCTAAAAGTCATGTTTTTTAGCGGCATTTGTGAC
* * ***
37726451 AAAAGCG-TCGCTAAAGGTCATGACATTTAGCGGCATTTGTGAC
1 AAAAGTGCT-GCTAAAAGTCATGTTTTTTAGCGGCATTTGTGAC
37726494 AAAAG
1 AAAAG
37726499 CGCCATTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
38 28 0.41
39 3 0.04
42 4 0.06
43 34 0.49
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
AAAAGTGCTGCTAAAAGTCATGTTTTTTAGCGGCATTTGTGAC
Found at i:37726446 original size:38 final size:38
Alignment explanation
Indices: 37726391--37726511 Score: 125
Period size: 38 Copynumber: 3.1 Consensus size: 38
37726381 TAAAAGTCAT
* * *
37726391 GTTTTTTAGCGGTATTTGTGATAAAAGTGCCGCTAAAG
1 GTTTTTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAG
* *
37726429 GTTTTTTAGTGGCATTTGTGACAAAAGCGTCGCTAAAG
1 GTTTTTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAG
* **
37726467 GTCATGACATTTAGCGGCATTTGTGACAAAAGCGCCATTAAAG
1 GT--T---TTTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAG
37726510 GT
1 GT
37726512 CATGATCTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 35 0.51
40 1 0.01
43 32 0.47
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (38 bp):
GTTTTTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAG
Found at i:37726499 original size:43 final size:42
Alignment explanation
Indices: 37726395--37726646 Score: 172
Period size: 43 Copynumber: 6.2 Consensus size: 42
37726385 AGTCATGTTT
* * * *
37726395 TTTAGCGGTATTTGTGATAAAAGTGCCGCTAAAGGT--T--T
1 TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGAC
* *
37726433 TTTAGTGGCATTTGTGACAAAAGCGTCGCTAAAGGTCATGAC
1 TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGAC
**
37726475 ATTTAGCGGCATTTGTGACAAAAGCGCCATTAAAGGTCATGATC
1 -TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGA-C
* *
37726519 TTTAGCGGC----GT-----TA-CGCTGCTAAAGGTCATGATC
1 TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGA-C
* * * * * *
37726552 TTTAGCGGCGTTTGTGATAGAAGCGCCACTAAAGGCCATGATT
1 TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGA-C
* * * **
37726595 TTTAGCAGCATTTGTGATAAAAGCGCAGCTAAAGACCATGGAC
1 TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCAT-GAC
37726638 TTTAGCGGC
1 TTTAGCGGC
37726647 GTTGTCTATA
Statistics
Matches: 170, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
33 26 0.15
34 1 0.01
37 2 0.01
38 31 0.18
39 2 0.01
40 1 0.01
42 1 0.01
43 103 0.61
44 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCATTTGTGACAAAAGCGCCGCTAAAGGTCATGAC
Found at i:37726566 original size:76 final size:76
Alignment explanation
Indices: 37726460--37726600 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 76
37726450 CAAAAGCGTC
* *
37726460 GCTAAAGGTCATGACATTTAGCGGCATTTGTGACAAAAGCGCCATTAAAGGTCATGATCTTTAGC
1 GCTAAAGGTCATGACATTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGATCTTTAGC
37726525 GGCGTTACGCT
66 GGCGTTACGCT
* * * *
37726536 GCTAAAGGTCATGATC-TTTAGCGGCGTTTGTGATAGAAGCGCCACTAAAGGCCATGATTTTTAG
1 GCTAAAGGTCATGA-CATTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGATCTTTAG
37726600 C
65 C
37726601 AGCATTTGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 57 0.98
77 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (76 bp):
GCTAAAGGTCATGACATTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGATCTTTAGC
GGCGTTACGCT
Found at i:37726644 original size:119 final size:119
Alignment explanation
Indices: 37726433--37726649 Score: 276
Period size: 119 Copynumber: 1.8 Consensus size: 119
37726423 CTAAAGGTTT
* * * * *
37726433 TTTAGTGGCATTTGTGACAAAAGCGTCGCTAAAGGTCATGACATTTAGCGGCATTTGTGACAAAA
1 TTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGACATTTAGCAGCATTTGTGACAAAA
* **
37726498 GCGCCATTAAAGGTCATGATCTTTAGCGGCGTTACGCTGCTAAAGGTCATGATC
66 GCGCCACTAAAGACCATGATCTTTAGCGGCGTTACGCTGCTAAAGGTCATGATC
* * * ** *
37726552 TTTAGCGGCGTTTGTGATAGAAGCGCCACTAAAGGCCATGATTTTTAGCAGCATTTGTGATAAAA
1 TTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGACATTTAGCAGCATTTGTGACAAAA
37726617 GCG-CAGCTAAAGACCATGGA-CTTTAGCGGCGTT
66 GCGCCA-CTAAAGACCAT-GATCTTTAGCGGCGTT
37726650 GTCTATAGCG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
118 2 0.02
119 78 0.95
120 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (119 bp):
TTTAGCGGCATTTGTGACAAAAGCGCCACTAAAGGCCATGACATTTAGCAGCATTTGTGACAAAA
GCGCCACTAAAGACCATGATCTTTAGCGGCGTTACGCTGCTAAAGGTCATGATC
Found at i:37729733 original size:50 final size:50
Alignment explanation
Indices: 37729644--37729829 Score: 239
Period size: 50 Copynumber: 3.7 Consensus size: 50
37729634 TTATGAGAAC
*
37729644 CCCCATGTAAGACCAT-TCTGGGACATGACGTTGGCACCGAGATGAGAGGT
1 CCCC-TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
* *
37729694 CCCCTGTAAGACCATGTTTGGAACATGGCGTTGGCACCGAGATGAGAGGT
1 CCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
* * * * **
37729744 CCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
* * * *
37729794 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCA
37729830 GTACAGAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 11 0.09
50 108 0.91
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
CCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
Found at i:37729863 original size:49 final size:49
Alignment explanation
Indices: 37729645--37729868 Score: 148
Period size: 50 Copynumber: 4.5 Consensus size: 49
37729635 TATGAGAACC
* * * * * * **
37729645 CCCATGTAAGACCAT-TCTGGGACATGACGTTGGCACCGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAAGAAAACT
* * * * * * * * **
37729694 CCCCTGTAAGACCATGTTTGGAACATGGCGTTGGCACCGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAAGAAAACT
** * *
37729744 CCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAAGAAAACT
* * *
37729794 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA-G-TACAGAAAACAT
1 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGATA-AGAAAAC-T
*
37729843 CCCATGTAAGACTATGTCTGGGACAT
1 CCCATGTAAGACCATGTCTGGGACAT
37729869 AGCTTTGGCA
Statistics
Matches: 150, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 38 0.25
50 104 0.69
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (49 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGATAAGAAAACT
Found at i:37730095 original size:12 final size:12
Alignment explanation
Indices: 37730078--37730116 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37730068 ATGAGTTATT
37730078 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
37730090 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
37730102 TAAGTGAGTAAG
1 TAAGTAAGCAAG
37730114 TAA
1 TAA
37730117 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:37733553 original size:23 final size:26
Alignment explanation
Indices: 37733522--37733569 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
37733512 GTGAAAACAG
*
37733522 GCCTCAACTACTAGT-CA-AATTTCT
1 GCCTCAACTACGAGTACACAATTTCT
37733546 GCCT-AACTACGAGTACACAATTTC
1 GCCTCAACTACGAGTACACAATTTC
37733570 GATCCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (26 bp):
GCCTCAACTACGAGTACACAATTTCT
Found at i:37737679 original size:35 final size:33
Alignment explanation
Indices: 37737611--37737679 Score: 77
Period size: 33 Copynumber: 2.0 Consensus size: 33
37737601 CAATTTTAAT
* *
37737611 ATCATTTTCATATACCAAAACTTATACTACCAA
1 ATCATTTTCAAATACCAAAACTTATAATACCAA
*
37737644 ATCATTTTCAAAT-CCAAACAATCTTATAATTCCAA
1 ATCATTTTCAAATACC-AA-AA-CTTATAATACCAA
37737679 A
1 A
37737680 CCAATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 2 0.07
33 14 0.47
34 2 0.07
35 12 0.40
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (33 bp):
ATCATTTTCAAATACCAAAACTTATAATACCAA
Found at i:37739062 original size:25 final size:25
Alignment explanation
Indices: 37739034--37739085 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37739024 CAAACATAAT
37739034 AATAGAATATAGTAAGTTTCATATG
1 AATAGAATATAGTAAGTTTCATATG
37739059 AATAGAATATAGTAAGTTTCATATG
1 AATAGAATATAGTAAGTTTCATATG
37739084 AA
1 AA
37739086 CTTACTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (25 bp):
AATAGAATATAGTAAGTTTCATATG
Found at i:37739908 original size:20 final size:20
Alignment explanation
Indices: 37739875--37739928 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
37739865 ACATTATGTG
37739875 AAAAATTAAA-TAAAACAAA
1 AAAAATTAAACTAAAACAAA
**
37739894 AAAAATTAAACTAAATTAAA
1 AAAAATTAAACTAAAACAAA
37739914 AATAAATT-AACTAAA
1 AA-AAATTAAACTAAA
37739929 TATATTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 10 0.32
20 16 0.52
21 5 0.16
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATTAAACTAAAACAAA
Found at i:37740788 original size:29 final size:31
Alignment explanation
Indices: 37740746--37740814 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
37740736 ATCGATAGTT
*
37740746 CAAGTACCACATTGAACA-ATT-TAAAAGTA
1 CAAGTACCACATTGAACATATTATAAAAATA
* *
37740775 CAAGTACCACATTGGACATTTTATAAAAATA
1 CAAGTACCACATTGAACATATTATAAAAATA
37740806 CAAGTACCA
1 CAAGTACCA
37740815 TAATAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 17 0.49
30 2 0.06
31 16 0.46
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (31 bp):
CAAGTACCACATTGAACATATTATAAAAATA
Found at i:37741941 original size:19 final size:19
Alignment explanation
Indices: 37741913--37741949 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37741903 AGTTGAACCG
37741913 ATTTTTATAATTT-TTTTA
1 ATTTTTATAATTTATTTTA
37741931 ATTTTTAATAATTTATTTT
1 ATTTTT-ATAATTTATTTT
37741950 CTTTGAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATAATTTATTTTA
Found at i:37742175 original size:18 final size:17
Alignment explanation
Indices: 37742148--37742202 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
37742138 AAAAAATTAA
37742148 AAAAATTATAAAATTATT
1 AAAAA-TATAAAATTATT
*
37742166 AAAAACTATAAAATTTTT
1 AAAAA-TATAAAATTATT
* *
37742184 AAAAATTTAAATTTATT
1 AAAAATATAAAATTATT
37742201 AA
1 AA
37742203 GAATTTGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATATAAAATTATT
Found at i:37745447 original size:42 final size:44
Alignment explanation
Indices: 37745394--37745479 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
37745384 AATTATATAC
37745394 ATAATGATCG-A-ATATATATACATATGTATATATATATAGTTT
1 ATAATGATCGAATATATATATACATATGTATATATATATAGTTT
37745436 ATAATGATCGAATATATATATACATATGTATATATATATAGTTT
1 ATAATGATCGAATATATATATACATATGTATATATATATAGTTT
37745480 TTGAATTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 10 0.24
43 1 0.02
44 31 0.74
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (44 bp):
ATAATGATCGAATATATATATACATATGTATATATATATAGTTT
Found at i:37746168 original size:41 final size:41
Alignment explanation
Indices: 37746119--37746264 Score: 240
Period size: 41 Copynumber: 3.6 Consensus size: 41
37746109 GACTTTACGT
37746119 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
37746160 CTAACAGGCTAAGTGCCGGTGAACTGAATCGGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
*
37746201 CTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
*
37746242 CTAGCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
37746265 TCTGTTTAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:37746934 original size:2 final size:2
Alignment explanation
Indices: 37746929--37746965 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
37746919 GATATATATA
37746929 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
37746966 CTTTGATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:37749722 original size:20 final size:21
Alignment explanation
Indices: 37749688--37749727 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37749678 ACAGTAGTAC
37749688 ATTATATGTTAATTATTATAT
1 ATTATATGTTAATTATTATAT
*
37749709 ATTAT-TGTTTATTATTATA
1 ATTATATGTTAATTATTATA
37749728 GTAGTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTATATGTTAATTATTATAT
Found at i:37759682 original size:30 final size:30
Alignment explanation
Indices: 37759646--37759702 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
37759636 TGTGAATGAA
*
37759646 ACCATGA-CTATTGAACTAGGAAACCAACCC
1 ACCATGATC-ATTGAACTAGCAAACCAACCC
37759676 ACCATGATCATTGAACTAGCAAACCAA
1 ACCATGATCATTGAACTAGCAAACCAA
37759703 ACCAAGCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.18
Consensus pattern (30 bp):
ACCATGATCATTGAACTAGCAAACCAACCC
Found at i:37764303 original size:30 final size:30
Alignment explanation
Indices: 37764267--37764323 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
37764257 TGTGAATGAA
**
37764267 ACCATGATTGTTGTACCAGTAAACCAACCC
1 ACCATGATTGTTAAACCAGTAAACCAACCC
37764297 ACCATGATTGTTAAACCAGTAAACCAA
1 ACCATGATTGTTAAACCAGTAAACCAA
37764324 TTCGAGCCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (30 bp):
ACCATGATTGTTAAACCAGTAAACCAACCC
Found at i:37769005 original size:46 final size:46
Alignment explanation
Indices: 37768935--37769028 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
37768925 AGTTTAAAAG
* * *
37768935 ACCTCGACCCACTATCAAGAATGATATGAACATTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACATTAGTATATGATGA
* *
37768981 ACCTCAACCCACTATCAAGGATGATAGGAACCTTAGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAGGAACATTAGTATATGATGA
37769027 AC
1 AC
37769029 GCCACACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (46 bp):
ACCTCAACCCACTATCAAGAATGATAGGAACATTAGTATATGATGA
Found at i:37772987 original size:13 final size:14
Alignment explanation
Indices: 37772968--37773003 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
37772958 AAAACGAACT
37772968 TTTTTTTTCAAGAA
1 TTTTTTTTCAAGAA
*
37772982 TTTTTTTTCACGAA
1 TTTTTTTTCAAGAA
37772996 TTTTTTTT
1 TTTTTTTT
37773004 ACAACTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTTTTTCAAGAA
Found at i:37773443 original size:46 final size:46
Alignment explanation
Indices: 37773390--37773483 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
37773380 GGTTTAAAAG
37773390 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
*
37773436 ACCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
37773482 AC
1 AC
37773484 GCTACACTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
Found at i:37775266 original size:20 final size:20
Alignment explanation
Indices: 37775198--37775266 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
37775188 TTCAACTATG
37775198 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
37775219 ATTAAATTAA--A-TTTAAT
1 ATTAAATTAATCACTTTAAT
**
37775236 ATTAAGA-TAATCACTTTTTT
1 ATTAA-ATTAATCACTTTAAT
37775256 ATTAAATTAAT
1 ATTAAATTAAT
37775267 AAAATACTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 14 0.34
18 2 0.05
19 2 0.05
20 17 0.41
21 6 0.15
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:37781549 original size:22 final size:22
Alignment explanation
Indices: 37781534--37781596 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
37781524 TTGTTTTGAT
37781534 ATTGTTCTTGATTTGTTCTAGAA
1 ATTGTT-TTGATTTGTTCTAGAA
*
37781557 ATTGTTTTGA-TAGTCTGCTAGAA
1 ATTGTTTTGATTTGT-T-CTAGAA
37781580 ATTGTTCTTGATTTGTT
1 ATTGTT-TTGATTTGTT
37781597 AGTGAGTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 3 0.09
22 5 0.15
23 18 0.53
24 5 0.15
25 3 0.09
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (22 bp):
ATTGTTTTGATTTGTTCTAGAA
Found at i:37781668 original size:23 final size:23
Alignment explanation
Indices: 37781641--37781700 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
37781631 TTGTTTTGAT
* *
37781641 ATTGTTCTTGATTTTTTCTGGAA
1 ATTGTTCTTGATTTCTGCTGGAA
* *
37781664 CTTGTT-TTGATAGTCTGCTGGAA
1 ATTGTTCTTGAT-TTCTGCTGGAA
37781687 ATTGTTCTTGATTT
1 ATTGTTCTTGATTT
37781701 GTTAGTGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 5 0.17
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (23 bp):
ATTGTTCTTGATTTCTGCTGGAA
Found at i:37781688 original size:107 final size:107
Alignment explanation
Indices: 37781502--37781731 Score: 397
Period size: 107 Copynumber: 2.1 Consensus size: 107
37781492 GTTGTTTTCA
* *
37781502 ATGAAACTGGGAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTAGAAATTGTTTTGA
1 ATGAAAATGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTAGAAATTGTTTTGA
37781567 TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
66 TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
* * *
37781609 ATGAAAATGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTTTTCTGGAACTTGTTTTGA
1 ATGAAAATGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTAGAAATTGTTTTGA
*
37781674 TAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
66 TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
*
37781716 ATGAAATTGGAAATTG
1 ATGAAAATGGAAATTG
37781732 CAAGTATAGT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 116 1.00
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.45
Consensus pattern (107 bp):
ATGAAAATGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGATTTGTTCTAGAAATTGTTTTGA
TAGTCTGCTAGAAATTGTTCTTGATTTGTTAGTGAGTAGAAG
Found at i:37785363 original size:45 final size:45
Alignment explanation
Indices: 37785299--37785462 Score: 319
Period size: 45 Copynumber: 3.6 Consensus size: 45
37785289 ACGTTGATGA
*
37785299 TGAGCTTGAGCCAACTGATAGAAGCCCTGTTACAGAAAAGGACTT
1 TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
37785344 TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
1 TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
37785389 TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
1 TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
37785434 TGAGCTTGAGCCAGCTGATAGAAGCCCTG
1 TGAGCTTGAGCCAGCTGATAGAAGCCCTG
37785463 AAACATAACT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (45 bp):
TGAGCTTGAGCCAGCTGATAGAAGCCCTGTTACAGAAAAGGACTT
Found at i:37786252 original size:44 final size:45
Alignment explanation
Indices: 37786188--37786284 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
37786178 CTATTACACC
* * *
37786188 TCCATTCCATTCAACTAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACACCTCTAT
* * *
37786232 TCCATTACATTCAACCAAACAATTGATTTGCTATTACACCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACACCTCTAT
37786277 TCCATTAC
1 TCCATTAC
37786285 GCCTCTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACACCTCTAT
Found at i:37786289 original size:16 final size:16
Alignment explanation
Indices: 37786264--37786301 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37786254 TTGATTTGCT
37786264 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
37786280 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
37786296 AATACA
1 ATTACA
37786302 ACGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:37787255 original size:35 final size:34
Alignment explanation
Indices: 37787216--37787282 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
37787206 AAAATGGATT
* *
37787216 CAAGGGAGAATAAGAAGAAAGAGAAAA-TAGAAATC
1 CAAGGGAGAAGAA-AAAAAAGA-AAAAGTAGAAATC
37787251 CAAGGGAGAAGAAAAAAAAGAAAAAGTAGAAA
1 CAAGGGAGAAGAAAAAAAAGAAAAAGTAGAAA
37787283 ATAAAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 13 0.45
35 12 0.41
ACGTcount: A:0.64, C:0.04, G:0.25, T:0.06
Consensus pattern (34 bp):
CAAGGGAGAAGAAAAAAAAGAAAAAGTAGAAATC
Found at i:37788701 original size:14 final size:16
Alignment explanation
Indices: 37788679--37788711 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
37788669 AAAATTAATC
37788679 AAAGAAAAGAAAGA-A
1 AAAGAAAAGAAAGATA
37788694 AAAG-AAAGAAAGATA
1 AAAGAAAAGAAAGATA
37788709 AAA
1 AAA
37788712 AAGCAAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAGAAAAGAAAGATA
Found at i:37808307 original size:43 final size:43
Alignment explanation
Indices: 37808222--37808358 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
37808212 GCATGTTGTG
* * * * * * *
37808222 CGTTTGTAACTAAAATCACCGCAAAAGACCATGTTCTTTAGTGG
1 CGTTTGT-AGTAAAAGCACCACTAAAGAGCATGTTCTATAGTGA
* * *
37808266 CGTTTGTAGT-AAAGACACCACTAAATATCATGTTCTGTAGTGA
1 CGTTTGTAGTAAAAG-CACCACTAAAGAGCATGTTCTATAGTGA
* *
37808309 CGTTTGTAGTAAAAGCACCGCTAAAGAGCATGTTCTATAGCGA
1 CGTTTGTAGTAAAAGCACCACTAAAGAGCATGTTCTATAGTGA
37808352 CGTTTGT
1 CGTTTGT
37808359 GGGAAAACGC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.04
43 64 0.82
44 11 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (43 bp):
CGTTTGTAGTAAAAGCACCACTAAAGAGCATGTTCTATAGTGA
Found at i:37816744 original size:47 final size:47
Alignment explanation
Indices: 37816402--37816789 Score: 506
Period size: 47 Copynumber: 8.1 Consensus size: 47
37816392 GAAATGATAG
37816402 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
37816453 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG--TGA
* *
37816504 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
37816551 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
37816598 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37816645 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37816692 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
37816739 CAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37816786 TAAG
1 TAAG
37816790 TCCCGAAAGG
Statistics
Matches: 312, Mismatches: 21, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
47 229 0.73
49 4 0.01
51 79 0.25
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37816964 original size:37 final size:37
Alignment explanation
Indices: 37816908--37816986 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37816898 CCGAGCTCTA
* * *
37816908 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37816945 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37816982 AAGAC
1 AAGAC
37816987 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37824686 original size:20 final size:20
Alignment explanation
Indices: 37824635--37824720 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
37824625 AAGAACTGAG
* *
37824635 GTGCAAATAGAGGCA-CAAT
1 GTGCAAACAGAGGCACCAAA
*
37824654 GTGCAATCAGAGGCACCAAA
1 GTGCAAACAGAGGCACCAAA
* * *
37824674 GTACAAACAGAGGCATCGAA
1 GTGCAAACAGAGGCACCAAA
* *
37824694 GTGCAAACAAAGGGACCAAA
1 GTGCAAACAGAGGCACCAAA
37824714 GTG-AAAC
1 GTGCAAAC
37824721 CTCGTACAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
19 17 0.31
20 37 0.69
ACGTcount: A:0.44, C:0.20, G:0.26, T:0.10
Consensus pattern (20 bp):
GTGCAAACAGAGGCACCAAA
Found at i:37824712 original size:40 final size:39
Alignment explanation
Indices: 37824638--37824715 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
37824628 AACTGAGGTG
* * *
37824638 CAAATAGAGGCACAATGTGCAATCAGAGGCACCAAAGTA
1 CAAACAGAGGCACAATGTGCAAACAAAGGCACCAAAGTA
*
37824677 CAAACAGAGGCATCGAA-GTGCAAACAAAGGGACCAAAGT
1 CAAACAGAGGCA-C-AATGTGCAAACAAAGGCACCAAAGT
37824716 GAAACCTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 11 0.33
40 20 0.61
41 2 0.06
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (39 bp):
CAAACAGAGGCACAATGTGCAAACAAAGGCACCAAAGTA
Found at i:37825191 original size:16 final size:15
Alignment explanation
Indices: 37825147--37825192 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
37825137 CTATATATTA
*
37825147 ATTAAA-TTCAATTT
1 ATTAAATTTCAATTC
37825161 ATTAAATTT-ACATTC
1 ATTAAATTTCA-ATTC
37825176 ATTAAAATTTCAATTC
1 ATT-AAATTTCAATTC
37825192 A
1 A
37825193 ATGCATGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 11 0.41
17 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATTTCAATTC
Found at i:37832264 original size:425 final size:424
Alignment explanation
Indices: 37831077--37832764 Score: 2724
Period size: 424 Copynumber: 4.0 Consensus size: 424
37831067 TGGTCAGGTC
* * * *
37831077 TATATATATGTAAGGTTACTAGTCCATG-CTAAACCATTCAAATAGCATC-AGATTACCAGTCCA
1 TATATACATGTAAGGTTACTAGTCCA-GACTAAACCTTTAAAACAGCATCGA-ATTACCAGTCCA
* * * * *
37831140 GGCTAAATTTATGCAACATGTATCTTTGAGTCTGTAACAAATACTGGATCTC-GAAATCATCAAG
64 GGCTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGCTGGATCTCAG-AATCATCAAG
*** * **
37831204 AAATAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATTGGGACACTATAGTTTTGTAATT
128 AAATAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATCAAGACACTTTCTTTTTGTAATT
* * * *
37831269 TTAGTCACATTCCTTCGTAATATAGTTCAGTATTT-T-TCTTTTATATATTTAACAACCCAAATC
193 TTACTCACATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATC
* * * *
37831332 TAACTTGCCAAATTTTCAATTATACAATTTAAGAGCATAAAGGAAAGAAAGTTAAATAATTTTCA
258 TAACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCA
*
37831397 TATTGTATATACTTACTTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCC
323 TATTGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCC
* * *
37831462 TTTTCCACGATCTTCTCTTGAATGATTCAAATGGCTA
388 TTTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAA
* *
37831499 TATATACATGTAAGGTTATTAGTCTAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
1 TATATACATGTAAGGTTACTAGTCCAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
* *
37831564 CTAAATCTGTGCCACATGTATCTTTGAGT-TCACAACAAATGCTGGATCTCAGAATCATCATGAA
66 CTAAATCTGTGCCACATGTATCTTTGAGTCT-GCAACAAATGCTGGATCTCAGAATCATCAAGAA
* * *
37831628 ATAACATGTAACCATTATTTGAGTCATTTACTGAGTTTATTAAGACACTTTCATTTTT-TAATTT
130 ATAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATCAAGACACTTTC-TTTTTGTAATTT
* * *
37831692 TACTCACATTCCTTTGTAATATAGTTTAGTATTTCTCTCCTCTATATATTTAACAACCCAAATCT
194 TACTCACATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATCT
*
37831757 AACTTACCAAATTTTCAATTATAGAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCAT
259 AACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCAT
* *
37831822 ATTGTATATACTTACCTGGAAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCCT
324 ATTGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCCT
*
37831887 TTCCTACGATCTTCTCTTGAAGGATTCAAATGGCAA
389 TTCCCACGATCTTCTCTTGAAGGATTCAAATGGCAA
*
37831923 TATATACATGTAAGGTTACTAGTCCAGATTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
1 TATATACATGTAAGGTTACTAGTCCAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
37831988 CTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGCTGGATCTCAGAATCATCAAGAAA
66 CTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGCTGGATCTCAGAATCATCAAG-AA
* * *
37832053 ATAACATGTAACCATTGTTTGAGTCTTTTACTCAGTTTATCAGGACACTTTCTTTTTGTAATTTT
130 ATAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATCAAGACACTTTCTTTTTGTAATTTT
*
37832118 ACTCATATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATCTA
195 ACTCACATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATCTA
* *
37832183 ACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAGGGAAAGAAAGTTAAATAATGTTTATA
260 ACTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCATA
* * *
37832248 TTGTATATACTTACCTGGCAAAATGATAATTAGCCACAATAGAGTCTACTCAAAAACTTTTCCTT
325 TTGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCCTT
37832313 TCCCACGATCTTCTCTTGAAGGATTCAAATGGCAA
390 TCCCACGATCTTCTCTTGAAGGATTCAAATGGCAA
37832348 TATATACATGTAAGGTTACTAGTCCAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
1 TATATACATGTAAGGTTACTAGTCCAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
* *
37832413 CTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGTTGGATCTCAGAATCATCAGGAAA
66 CTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGCTGGATCTCAGAATCATCAAGAAA
*
37832478 TAACATGTAACCATTGTTTGAGTCTTTTACTAAGTTTATCAAGACACTTTCTTTTTGTAATTTTA
131 TAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATCAAGACACTTTCTTTTTGTAATTTTA
* *
37832543 CTCATATTCCTTCGTAATATAGTTCAACATTTCTCTCCTCTATATATTTAACAACCCAAATCTAA
196 CTCACATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATCTAA
*
37832608 CTTACCAAATTTTCAATTATAGAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCATAT
261 CTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCATAT
* *
37832673 TGTATATACTTACCTAGCAAAATGATAATTCGCCACAATAGAGTCTACTCAACAACTTTTCCTTT
326 TGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCCTTT
* *
37832738 CCCACGATCTTCTCTTGATGAATTCAA
391 CCCACGATCTTCTCTTGAAGGATTCAA
37832765 TCTTGATCTA
Statistics
Matches: 1184, Mismatches: 72, Indels: 18
0.93 0.06 0.01
Matches are distributed among these distances:
421 2 0.00
422 191 0.16
423 7 0.01
424 584 0.49
425 400 0.34
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (424 bp):
TATATACATGTAAGGTTACTAGTCCAGACTAAACCTTTAAAACAGCATCGAATTACCAGTCCAGG
CTAAATCTGTGCCACATGTATCTTTGAGTCTGCAACAAATGCTGGATCTCAGAATCATCAAGAAA
TAACATGTAACCATTATTTGAGTCTTTTACTAAGTTTATCAAGACACTTTCTTTTTGTAATTTTA
CTCACATTCCTTCGTAATATAGTTCAGCATTTCTCTCCTCTATATATTTAACAACCCAAATCTAA
CTTACCAAATTTTCAATTATACAATTTAAGAACAAAAAGGAAAGAAAGTTAAATAATGTTCATAT
TGTATATACTTACCTAGCAAAATGATAACTCGCCACAATAGAGTCTACTCAAAAACTTTTCCTTT
CCCACGATCTTCTCTTGAAGGATTCAAATGGCAA
Found at i:37838393 original size:48 final size:48
Alignment explanation
Indices: 37838320--37838438 Score: 211
Period size: 48 Copynumber: 2.5 Consensus size: 48
37838310 CTCTATTTCC
*
37838320 TTTTCAATTTTCTTTTCTTTCTCACATTCTTTTTCACTCTCAATCTCT
1 TTTTCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCT
*
37838368 TTTTCAATTTTCTTTTGTTTTTCACATTCTTTTTCACTCTCAATCTCT
1 TTTTCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCT
*
37838416 TTTTCAATTTTGTTTTCTTTTTC
1 TTTTCAATTTTCTTTTCTTTTTC
37838439 TTTCATTTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.13, C:0.23, G:0.02, T:0.62
Consensus pattern (48 bp):
TTTTCAATTTTCTTTTCTTTTTCACATTCTTTTTCACTCTCAATCTCT
Found at i:37841483 original size:18 final size:18
Alignment explanation
Indices: 37841462--37841496 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37841452 TTGGTTTTCG
*
37841462 AATTCGAATAACTCGAAC
1 AATTCGAATAAATCGAAC
*
37841480 AATTTGAATAAATCGAA
1 AATTCGAATAAATCGAA
37841497 TATCAAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTCGAATAAATCGAAC
Found at i:37841584 original size:30 final size:31
Alignment explanation
Indices: 37841541--37841603 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
37841531 AACTCCTAAA
37841541 CCTCTTCACTTT-CCTCCCAAAACTTTTACTC
1 CCTCTTCACTTTCCCT-CCAAAACTTTTACTC
* * *
37841572 CCTC-TCATTTTCCCTCCATAACTTTTGCTC
1 CCTCTTCACTTTCCCTCCAAAACTTTTACTC
37841602 CC
1 CC
37841604 CTCCCATCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.16, C:0.43, G:0.02, T:0.40
Consensus pattern (31 bp):
CCTCTTCACTTTCCCTCCAAAACTTTTACTC
Found at i:37842205 original size:19 final size:19
Alignment explanation
Indices: 37842168--37842205 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37842158 AAAGTCAATA
*
37842168 ACAAATTTGATTATAGTGG
1 ACAAATTTGATTACAGTGG
*
37842187 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACAGTGG
37842206 GCGACGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:37843932 original size:20 final size:21
Alignment explanation
Indices: 37843909--37843948 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37843899 TTGAATTACC
*
37843909 AAATCGAAA-TAGATGAAATG
1 AAATCAAAAGTAGATGAAATG
*
37843929 AAATCAAAAGTTGATGAAAT
1 AAATCAAAAGTAGATGAAAT
37843949 TGAGATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (21 bp):
AAATCAAAAGTAGATGAAATG
Found at i:37845034 original size:16 final size:16
Alignment explanation
Indices: 37845010--37845041 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37845000 ACTTGATCAA
37845010 AGGCCTTTTGGAAATT
1 AGGCCTTTTGGAAATT
*
37845026 AGGCTTTTTGGAAATT
1 AGGCCTTTTGGAAATT
37845042 TAAAAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (16 bp):
AGGCCTTTTGGAAATT
Found at i:37847448 original size:27 final size:27
Alignment explanation
Indices: 37847418--37847533 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
37847408 ACAGTCCATC
*
37847418 TAGAGTTTTCCACAAAGACTCTTCCTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
*
37847445 TAGAGTTTGCCACAAAGGCTCTTCCTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
* * ** *
37847472 CT-GAGTTCGCCACAATGTTTCTTTCTT
1 -TAGAGTTTGCCACAAAGACTCTTCCTT
* * * * *
37847499 CAAAGTTTGCCACAATGACTTTTCTTT
1 TAGAGTTTGCCACAAAGACTCTTCCTT
37847526 TAGAGTTT
1 TAGAGTTT
37847534 ACCTTAAAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (27 bp):
TAGAGTTTGCCACAAAGACTCTTCCTT
Found at i:37850932 original size:33 final size:33
Alignment explanation
Indices: 37850885--37850951 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
37850875 GTAACTTTGA
37850885 AACATACATCTCATACATTAACATAAACATAGC
1 AACATACATCTCATACATTAACATAAACATAGC
*
37850918 AACATACATGTCATACATTAACATAAACATAGC
1 AACATACATCTCATACATTAACATAAACATAGC
37850951 A
1 A
37850952 TAAATCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (33 bp):
AACATACATCTCATACATTAACATAAACATAGC
Found at i:37850964 original size:28 final size:31
Alignment explanation
Indices: 37850886--37850969 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 31
37850876 TAACTTTGAA
*
37850886 ACATACATCTCATACATTAACATAAACATAG
1 ACATACATATCATACATTAACATAAACATAG
*
37850917 CAACATACATGTCATACATTAACATAAACATAG
1 --ACATACATATCATACATTAACATAAACATAG
* *
37850950 -CATA-A-ATCATTCATTTACAT
1 ACATACATATCATACATTAACAT
37850970 GCATATTGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.26
29 1 0.02
30 4 0.09
33 30 0.64
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (31 bp):
ACATACATATCATACATTAACATAAACATAG
Found at i:37863579 original size:24 final size:24
Alignment explanation
Indices: 37863546--37863598 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37863536 CATCTTTTTG
*
37863546 GGCTCTTCAACAGCA-TGTTGAGTA
1 GGCTCCTCAACAGCAGT-TTGAGTA
* *
37863570 GGCTCCTCAATAGCAGTTTGAGTG
1 GGCTCCTCAACAGCAGTTTGAGTA
37863594 GGCTC
1 GGCTC
37863599 TTCGGCAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (24 bp):
GGCTCCTCAACAGCAGTTTGAGTA
Found at i:37882792 original size:39 final size:39
Alignment explanation
Indices: 37882669--37882794 Score: 209
Period size: 39 Copynumber: 3.3 Consensus size: 39
37882659 GAATTAAGAC
* *
37882669 ACATAATTAAA-ACACATATTAATGGTGTTCAAAATAAG
1 ACATAATTAAAGTCACATATTAATGATGTTCAAAATAAG
*
37882707 ACATAATCAAAGTCACATATTAATGATGTTCAAAATAAG
1 ACATAATTAAAGTCACATATTAATGATGTTCAAAATAAG
*
37882746 ACATAATTAAAGTCACATATTAATGATGTTCAAACTAAG
1 ACATAATTAAAGTCACATATTAATGATGTTCAAAATAAG
37882785 ACATAATTAA
1 ACATAATTAA
37882795 GACTCAAACT
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 10 0.12
39 72 0.88
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (39 bp):
ACATAATTAAAGTCACATATTAATGATGTTCAAAATAAG
Found at i:37891251 original size:79 final size:81
Alignment explanation
Indices: 37891083--37891267 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
37891073 GCTACTCGTT
* *
37891083 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
37891147 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
37891164 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
37891226 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
37891243 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
37891268 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:37891267 original size:40 final size:40
Alignment explanation
Indices: 37891064--37891267 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
37891054 CGGAATTTAA
** *
37891064 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37891104 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37891144 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37891183 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
37891223 CCGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37891263 CCGGA
1 CCGGA
37891268 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37891844 original size:235 final size:235
Alignment explanation
Indices: 37891433--37891901 Score: 929
Period size: 235 Copynumber: 2.0 Consensus size: 235
37891423 GATCTAATCA
37891433 AATCATAATCTAAGCTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAACGTTTTCAGCAGCT
1 AATCATAATCTAAGCTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAACGTTTTCAGCAGCT
37891498 ATTCGATAACTTTTTCCTTTCCCTTATCCAACTGTGGTCCTCTAAGCTCTTGAGCTAATTCAAAC
66 ATTCGATAACTTTTTCCTTTCCCTTATCCAACTGTGGTCCTCTAAGCTCTTGAGCTAATTCAAAC
37891563 AAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCTGAATATGACAAGGAGTTTGATTGG
131 AAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCTGAATATGACAAGGAGTTTGATTGG
37891628 TCATATGGCCACCTTCTAGCTCAACTACACAATGGTCATG
196 TCATATGGCCACCTTCTAGCTCAACTACACAATGGTCATG
37891668 AATCATAATCTAAGCTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAACGTTTTCAGCAGCT
1 AATCATAATCTAAGCTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAACGTTTTCAGCAGCT
37891733 ATTCGATAACTTTTTCCTTTCCCTTATCCAACTGTGGTCCTCTAAGCTCTTGAGCTAATTCAAAC
66 ATTCGATAACTTTTTCCTTTCCCTTATCCAACTGTGGTCCTCTAAGCTCTTGAGCTAATTCAAAC
37891798 AAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCTGAATATGACAAGGAGTTTGATTGG
131 AAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCTGAATATGACAAGGAGTTTGATTGG
*
37891863 TCATATGGCCACCTTCTAGCTCAACTACATAATGGTCAT
196 TCATATGGCCACCTTCTAGCTCAACTACACAATGGTCAT
37891902 ATGCATTTTT
Statistics
Matches: 233, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 233 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (235 bp):
AATCATAATCTAAGCTCTATTACTCAAGAACTTACCTCGGATGTGGTCGAACGTTTTCAGCAGCT
ATTCGATAACTTTTTCCTTTCCCTTATCCAACTGTGGTCCTCTAAGCTCTTGAGCTAATTCAAAC
AAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCTGAATATGACAAGGAGTTTGATTGG
TCATATGGCCACCTTCTAGCTCAACTACACAATGGTCATG
Found at i:37892155 original size:51 final size:50
Alignment explanation
Indices: 37892096--37892196 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
37892086 CATCAATATG
37892096 CTTGCCTCTAACCGAATACATGCAACACCAATCTTCTTCCTATGGCCGAAT
1 CTTGCCTCTAACCGAATACATGCAACACC-ATCTTCTTCCTATGGCCGAAT
37892147 CTTGCCTCTAACCGAATACATGCAACACCATCTTCTTCCTATGGCCGAAT
1 CTTGCCTCTAACCGAATACATGCAACACCATCTTCTTCCTATGGCCGAAT
37892197 ATGCATGTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 21 0.42
51 29 0.58
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.28
Consensus pattern (50 bp):
CTTGCCTCTAACCGAATACATGCAACACCATCTTCTTCCTATGGCCGAAT
Found at i:37892464 original size:162 final size:163
Alignment explanation
Indices: 37892275--37892592 Score: 521
Period size: 162 Copynumber: 2.0 Consensus size: 163
37892265 AATGCATTAC
** *
37892275 ATATTATAACTCAATACGCATCCATCATTTTCTCCATAACTGAAACACCATCATATATAAATATA
1 ATATTATAACTCAATACGCATCCATCATTTAATCCATAACCGAAACACCATCATATATAAATATA
*
37892340 TACCTTGAGATAATATATATGTCATACCAATACATCATGTGCAA-ATATATATATATGCAAGAGC
66 TACCTTGAGATAATATATAGGTCATACCAATACATCATGTGCAACATATATATATATGCAAGAGC
37892404 CGAATCACAAAGTTGATTATAACCACCTCATAT
131 CGAATCACAAAGTTGATTATAACCACCTCATAT
* * * *
37892437 ATATTATAACTCAATACGCATCCATCATTTAATCCATAACCGAAGCACCATCATGTGTAAGTATA
1 ATATTATAACTCAATACGCATCCATCATTTAATCCATAACCGAAACACCATCATATATAAATATA
* *
37892502 TACCTTGAGATAATATATAGGTCATACCAATACGTCATGTGCAATCATATATATATGTGCAAGAG
66 TACCTTGAGATAATATATAGGTCATACCAATACATCATGTGCAA-CATATATATATATGCAAGAG
*
37892567 CCGAATCACAAATTTGATTATAACCA
130 CCGAATCACAAAGTTGATTATAACCA
37892593 AATTTAAACA
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
162 100 0.70
164 43 0.30
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (163 bp):
ATATTATAACTCAATACGCATCCATCATTTAATCCATAACCGAAACACCATCATATATAAATATA
TACCTTGAGATAATATATAGGTCATACCAATACATCATGTGCAACATATATATATATGCAAGAGC
CGAATCACAAAGTTGATTATAACCACCTCATAT
Found at i:37893583 original size:100 final size:100
Alignment explanation
Indices: 37893410--37893609 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
37893400 CAAACATGAA
37893410 ATTTTCACACATGCACATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACT
1 ATTTTCACACATGCACATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACT
*
37893475 CGGTTTAGTGGTCCCGAAACCACTTCCCGACTAGG
66 CGGTTTAGTGGTCCCGAAACCACTTCCCAACTAGG
37893510 ATTTTCACACATGCACATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACT
1 ATTTTCACACATGCACATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACT
37893575 CGGTTTAGTGGTCCCGAAACCACTTCCCAACTAGG
66 CGGTTTAGTGGTCCCGAAACCACTTCCCAACTAGG
37893610 GTCAAATTAG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (100 bp):
ATTTTCACACATGCACATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACT
CGGTTTAGTGGTCCCGAAACCACTTCCCAACTAGG
Found at i:37894117 original size:150 final size:150
Alignment explanation
Indices: 37893846--37894146 Score: 584
Period size: 150 Copynumber: 2.0 Consensus size: 150
37893836 CTCATTTTCT
37893846 TGATTTCATAAGTAATAATCACTTAATTTAATTCACAATTGCATCTCAAACACATATTAAGCACA
1 TGATTTCATAAGTAATAATCACTTAATTTAATTCACAATTGCATCTCAAACACATATTAAGCACA
*
37893911 TATTAATATGTATAATTCACATCATCAACCCACATATTTGTAACCCACATTTTCATTCATGTATA
66 TATTAATATGTATAATTCACATCATCAACCCACATATTTGTAACCCAAATTTTCATTCATGTATA
*
37893976 AGCTGTAACGTGACCGAAAG
131 AGCTGTAACCTGACCGAAAG
37893996 TGATTTCATAAGTAATAATCACTTAATTTAATTCACAATTGCATCTCAAACACATATTAAGCACA
1 TGATTTCATAAGTAATAATCACTTAATTTAATTCACAATTGCATCTCAAACACATATTAAGCACA
37894061 TATTAATATGTATAATTCACATCATCAACCCACATATTTGTAACCCAAATTTTCATTCATGTATA
66 TATTAATATGTATAATTCACATCATCAACCCACATATTTGTAACCCAAATTTTCATTCATGTATA
37894126 AGCTGTAACCTGACCGAAAG
131 AGCTGTAACCTGACCGAAAG
37894146 T
1 T
37894147 ACACATATAC
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (150 bp):
TGATTTCATAAGTAATAATCACTTAATTTAATTCACAATTGCATCTCAAACACATATTAAGCACA
TATTAATATGTATAATTCACATCATCAACCCACATATTTGTAACCCAAATTTTCATTCATGTATA
AGCTGTAACCTGACCGAAAG
Found at i:37895165 original size:40 final size:40
Alignment explanation
Indices: 37895131--37896111 Score: 1813
Period size: 40 Copynumber: 24.8 Consensus size: 40
37895121 CCAGCATGAT
* * * * *
37895131 TGCTCTTCGAGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
37895171 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895211 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895251 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895291 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895331 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895371 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895411 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895451 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895491 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895531 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895571 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895611 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895651 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895691 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895731 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895771 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895811 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895851 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895891 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895931 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37895971 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37896011 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37896051 TGCTCTTCGGGACTTAG--C--------C-CTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
37896080 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
37896112 CTCAATTCTC
Statistics
Matches: 919, Mismatches: 11, Indels: 22
0.97 0.01 0.02
Matches are distributed among these distances:
29 27 0.03
30 1 0.00
31 1 0.00
38 1 0.00
39 1 0.00
40 888 0.97
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:37896083 original size:29 final size:29
Alignment explanation
Indices: 37896041--37896099 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37896031 GGATATATCA
37896041 CTAGCACGAATGCTCTTCGGGACTTAGCC
1 CTAGCACGAATGCTCTTCGGGACTTAGCC
37896070 CTAGCACGAATGCTCTTCGGGACTTAGCC
1 CTAGCACGAATGCTCTTCGGGACTTAGCC
37896099 C
1 C
37896100 GGATATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (29 bp):
CTAGCACGAATGCTCTTCGGGACTTAGCC
Found at i:37897402 original size:37 final size:37
Alignment explanation
Indices: 37897330--37897407 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
37897320 TATTACGAAG
* * *
37897330 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* * *
37897367 TCTTACCCGGACAAAATCCCCAGACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
37897404 TCTT
1 TCTT
37897408 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:37897617 original size:47 final size:47
Alignment explanation
Indices: 37897526--37897617 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
37897516 CCCTTCGGGA
* * * *
37897526 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
37897573 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAG
37897618 TGTAACACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:37898997 original size:27 final size:27
Alignment explanation
Indices: 37898967--37899144 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
37898957 ATATTGAGCC
* *
37898967 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
37898994 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37899021 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
37899049 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37899076 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
37899103 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
37899130 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37899145 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37899106 original size:82 final size:81
Alignment explanation
Indices: 37898988--37899143 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37898978 TGCTATATAA
* * * *
37898988 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTC-GAATCGCA
37899053 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37899070 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCA
37899134 CACTTAGTGC
65 CACTTAGTGC
37899144 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37910035 original size:40 final size:40
Alignment explanation
Indices: 37909937--37910239 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
37909927 TCCTCGTTCA
* * * ** *
37909937 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
37909976 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
37910016 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
37910056 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
37910096 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
37910136 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
37910176 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
37910216 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37910240 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:37918025 original size:40 final size:40
Alignment explanation
Indices: 37917927--37918189 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
37917917 TCCTCGTTCA
* * * * *
37917927 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37917966 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37918006 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37918046 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37918086 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
37918126 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37918166 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37918190 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37918198 original size:41 final size:41
Alignment explanation
Indices: 37918121--37918198 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37918111 TTAGTATCTC
* * *
37918121 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37918162 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37918199 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37922018 original size:21 final size:21
Alignment explanation
Indices: 37921979--37922019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37921969 GGTACAGTGG
37921979 ATATTGTTTAATTATGTTAAA
1 ATATTGTTTAATTATGTTAAA
*
37922000 ATATGTGTTTTATTA-GTTAA
1 ATAT-TGTTTAATTATGTTAA
37922020 TAAAAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (21 bp):
ATATTGTTTAATTATGTTAAA
Found at i:37926640 original size:18 final size:18
Alignment explanation
Indices: 37926578--37926639 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
37926568 TCTGCTACCC
37926578 CTTCTTCCTCACCTACAT
1 CTTCTTCCTCACCTACAT
* * *
37926596 CTTTTTCCTCCCCAACAT
1 CTTCTTCCTCACCTACAT
*
37926614 C-T-TT-CTCATCTACAT
1 CTTCTTCCTCACCTACAT
37926629 CTTCTTCCTCA
1 CTTCTTCCTCA
37926640 TTTGTACCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 3 0.09
18 20 0.57
ACGTcount: A:0.16, C:0.42, G:0.00, T:0.42
Consensus pattern (18 bp):
CTTCTTCCTCACCTACAT
Found at i:37935245 original size:40 final size:40
Alignment explanation
Indices: 37935162--37935424 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
37935152 TTGAATGCTG
* * * * * *
37935162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
37935202 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
37935242 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
37935282 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
37935322 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37935362 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
37935401 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37935425 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:37935444 original size:79 final size:80
Alignment explanation
Indices: 37935201--37935459 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
37935191 AAGTGAATAT
* * * * * *
37935201 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
37935265 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
37935281 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
37935346 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
37935361 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
37935425 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
37935440 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
37935460 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:37938693 original size:21 final size:21
Alignment explanation
Indices: 37938659--37938702 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37938649 GAATATATAA
*
37938659 TAAATATATATTTTTTTTATTT
1 TAAATATATATTTTATTT-TTT
*
37938681 TAAA-ATATTTTTTATTTTTT
1 TAAATATATATTTTATTTTTT
37938701 TA
1 TA
37938703 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TAAATATATATTTTATTTTTT
Found at i:37938699 original size:8 final size:8
Alignment explanation
Indices: 37938688--37938714 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
37938678 TTTTAAAATA
37938688 TTTTTTAT
1 TTTTTTAT
37938696 TTTTTTAT
1 TTTTTTAT
37938704 TTTTTTAT
1 TTTTTTAT
37938712 TTT
1 TTT
37938715 AAAATAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:37945874 original size:14 final size:13
Alignment explanation
Indices: 37945855--37945935 Score: 53
Period size: 15 Copynumber: 6.0 Consensus size: 13
37945845 TATATTTATC
37945855 TAAAATTTAATTTA
1 TAAAATTTAA-TTA
37945869 TAAAATCTATAATTA
1 TAAAAT-T-TAATTA
37945884 TAAATATTT-ATTA
1 TAAA-ATTTAATTA
*
37945897 -AAATTCTATAATTA
1 TAAAAT-T-TAATTA
37945911 TAAATATTT-ATTA
1 TAAA-ATTTAATTA
*
37945924 -AAAATCTAATTA
1 TAAAATTTAATTA
37945936 AACCTTAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 20
0.71 0.04 0.26
Matches are distributed among these distances:
11 4 0.07
12 11 0.20
13 9 0.16
14 12 0.22
15 13 0.24
16 6 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATTTAATTA
Found at i:37945906 original size:27 final size:26
Alignment explanation
Indices: 37945864--37945931 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 26
37945854 CTAAAATTTA
37945864 ATTTA-TAAAATCTATAATTATAAAT
1 ATTTATTAAAATCTATAATTATAAAT
37945889 ATTTATTAAAATTCTATAATTATAAAT
1 ATTTATTAAAA-TCTATAATTATAAAT
37945916 ATTTATTAAAAATCTA
1 ATTTATT-AAAATCTA
37945932 ATTAAACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 26 0.65
28 4 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTATTAAAATCTATAATTATAAAT
Found at i:37955837 original size:31 final size:31
Alignment explanation
Indices: 37955739--37955837 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
37955729 ATTTACTTTG
* * *
37955739 AGTATCAAATTGAATATTAGAGTCAAATTCA
1 AGTATCAAATTAAATATTAAAGTAAAATTCA
* * * *
37955770 AGTACCATATTAAACA--AAA--AAAACTCA
1 AGTATCAAATTAAATATTAAAGTAAAATTCA
* *
37955797 AATATCAAATTAAATATTAAAGTTAAATTCA
1 AGTATCAAATTAAATATTAAAGTAAAATTCA
37955828 AGTATCAAAT
1 AGTATCAAAT
37955838 CGTATGTTAA
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
27 18 0.36
29 5 0.10
31 27 0.54
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (31 bp):
AGTATCAAATTAAATATTAAAGTAAAATTCA
Found at i:37969062 original size:89 final size:89
Alignment explanation
Indices: 37968951--37969535 Score: 956
Period size: 89 Copynumber: 6.6 Consensus size: 89
37968941 GAACAGGTTG
* * * * *
37968951 AAAGATAACAGATCTTGCCTTCCCATACCGGTGGTGAAGCAGATCGAAGAAAGCAAATCTTATCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
37969016 TCATGTACTGGCGAGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
*
37969040 AAAGAT-ACTAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTC
1 AAAGATAAC-AGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTC
*
37969104 TTCATGTACTGGCGTTAAGTAGATC
65 TTCATGTACTGGCGTGAAGTAGATC
* *
37969129 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAACAAGATCGAAGAAAGCAGATCTTGTC
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGC-AGATCGAAGAAAGCAGATCTTGTC
37969194 TTCATGTACTGGCGTGAAGTAGATC
65 TTCATGTACTGGCGTGAAGTAGATC
* *
37969219 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCAAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
37969284 TCATATACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
37969308 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAAAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
37969373 TCATGTACTGGCATGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
37969397 AAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGTCT
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
37969462 TCATGTATTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
37969486 AAATATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA
1 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA
37969536 TGGCGGATTT
Statistics
Matches: 467, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
88 2 0.00
89 377 0.81
90 88 0.19
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:37972975 original size:5 final size:5
Alignment explanation
Indices: 37972952--37972990 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
37972942 ATGCTCTTAT
*
37972952 AAAA- AAAAG GAAA- AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
37972991 GCATATGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:37975387 original size:43 final size:42
Alignment explanation
Indices: 37975307--37975395 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 42
37975297 CACGATTTGG
*
37975307 CACACAGCATGCGAAACGATCGTGTTACCCAAGTTCAAATACA
1 CACACAGCATGCGAAACGATCGTGTGACCCAAGTTC-AATACA
* * * * * * *
37975350 CACACAGCCTGCGACACGTTCGTGTGGCCCTATTTCAATACT
1 CACACAGCATGCGAAACGATCGTGTGACCCAAGTTCAATACA
37975392 CACA
1 CACA
37975396 TGGGCGGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 9 0.24
43 29 0.76
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (42 bp):
CACACAGCATGCGAAACGATCGTGTGACCCAAGTTCAATACA
Found at i:37976663 original size:18 final size:18
Alignment explanation
Indices: 37976637--37976704 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
37976627 CCCAAAATAA
*
37976637 AATTCAATATTTATGTTC
1 AATTAAATATTTATGTTC
* *
37976655 AATTAAATAATTTTCTCATATC
1 AATTAAAT-A-TTTAT-GT-TC
*
37976677 AATTTTAATATTTATGTTC
1 AA-TTAAATATTTATGTTC
37976696 AATTAAATA
1 AATTAAATA
37976705 ATTTTCTCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 13 0.34
19 5 0.13
20 5 0.13
21 5 0.13
22 5 0.13
23 5 0.13
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTAAATATTTATGTTC
Found at i:37976678 original size:22 final size:22
Alignment explanation
Indices: 37976653--37976721 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
37976643 ATATTTATGT
37976653 TCAATTAAATAATTTTCTCATA
1 TCAATTAAATAATTTTCTCATA
* * *
37976675 TCAATT--TTAATATT-T-ATGT
1 TCAATTAAATAATTTTCTCAT-A
37976694 TCAATTAAATAATTTTCTCATA
1 TCAATTAAATAATTTTCTCATA
37976716 TCAATT
1 TCAATT
37976722 TTACCCTTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 2 0.06
19 7 0.19
20 6 0.17
21 6 0.17
22 13 0.36
23 2 0.06
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (22 bp):
TCAATTAAATAATTTTCTCATA
Found at i:37976699 original size:41 final size:41
Alignment explanation
Indices: 37976642--37976724 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37976632 AATAAAATTC
37976642 AATATTTATGTTCAATTAAATAATTTTCTCATATCAATTTT
1 AATATTTATGTTCAATTAAATAATTTTCTCATATCAATTTT
37976683 AATATTTATGTTCAATTAAATAATTTTCTCATATCAATTTT
1 AATATTTATGTTCAATTAAATAATTTTCTCATATCAATTTT
37976724 A
1 A
37976725 CCCTTGGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (41 bp):
AATATTTATGTTCAATTAAATAATTTTCTCATATCAATTTT
Found at i:37976708 original size:19 final size:19
Alignment explanation
Indices: 37976645--37976708 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
37976635 AAAATTCAAT
37976645 ATTTATGTTCAATTAAATA
1 ATTTATGTTCAATTAAATA
* * *
37976664 ATTTTCTCATATCAATTTTAAT-
1 A-TTTAT-GT-TCAA-TTAAATA
37976686 ATTTATGTTCAATTAAATA
1 ATTTATGTTCAATTAAATA
37976705 ATTT
1 ATTT
37976709 TCTCATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 5 0.15
19 9 0.26
20 5 0.15
21 5 0.15
22 5 0.15
23 5 0.15
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTATGTTCAATTAAATA
Found at i:37978931 original size:10 final size:10
Alignment explanation
Indices: 37978916--37978940 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37978906 TCTAAATAGA
37978916 TAATTTCAAT
1 TAATTTCAAT
37978926 TAATTTCAAT
1 TAATTTCAAT
37978936 TAATT
1 TAATT
37978941 CATAATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
TAATTTCAAT
Found at i:37989762 original size:18 final size:18
Alignment explanation
Indices: 37989739--37989773 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37989729 AAAGAAAAAC
37989739 GTTTCTTATTCATTTTAA
1 GTTTCTTATTCATTTTAA
*
37989757 GTTTCTTCTTCATTTTA
1 GTTTCTTATTCATTTTA
37989774 CTTTCCATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (18 bp):
GTTTCTTATTCATTTTAA
Found at i:37990754 original size:35 final size:35
Alignment explanation
Indices: 37990674--37990756 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
37990664 TACACACTAT
** * *
37990674 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
1 TTGGTGTGTTTCGGTTGGACTAAATCTTATGACCA
**
37990709 TTGGCATGTTTCGGTTGGACTAAATCTTATGACCA
1 TTGGTGTGTTTCGGTTGGACTAAATCTTATGACCA
*
37990744 TTGTTGTGTTTCG
1 TTGGTGTGTTTCG
37990757 TAAAGATAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCGGTTGGACTAAATCTTATGACCA
Found at i:37990829 original size:31 final size:32
Alignment explanation
Indices: 37990770--37990830 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
37990760 AGATAAGCTC
37990770 TTATGAGCATTGGTGTGTTTGTTTGGTTGGCTT
1 TTATGAGCATTGGTGTG-TTGTTTGGTTGGCTT
37990803 TTATGAGCATATGGTGTG-T-TTTGGTTGG
1 TTATGAGCAT-TGGTGTGTTGTTTGGTTGG
37990831 ATTAACGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 9 0.33
32 1 0.04
33 10 0.37
34 7 0.26
ACGTcount: A:0.11, C:0.05, G:0.34, T:0.49
Consensus pattern (32 bp):
TTATGAGCATTGGTGTGTTGTTTGGTTGGCTT
Found at i:38010427 original size:21 final size:20
Alignment explanation
Indices: 38010387--38010439 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
38010377 ACCTCAATTA
*
38010387 TTGTTTTAGGTATCTCAAAT
1 TTGTTATAGGTATCTCAAAT
* *
38010407 GTTGTTATAGGTATTTTAAAT
1 -TTGTTATAGGTATCTCAAAT
38010428 TTAGTTATAGGT
1 TT-GTTATAGGT
38010440 GTATAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (20 bp):
TTGTTATAGGTATCTCAAAT
Found at i:38015267 original size:17 final size:16
Alignment explanation
Indices: 38015240--38015295 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 16
38015230 TAGTTTTACA
38015240 TAATATTTTATATAATAT
1 TAATATTTTATA-AA-AT
38015258 TAAT-TTTTATAAAAT
1 TAATATTTTATAAAAT
*
38015273 T-A-ATGTTATAAAAT
1 TAATATTTTATAAAAT
*
38015287 TAAAATTTT
1 TAATATTTT
38015296 GTAATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 12 0.36
15 4 0.12
16 6 0.18
17 7 0.21
18 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TAATATTTTATAAAAT
Found at i:38015274 original size:15 final size:15
Alignment explanation
Indices: 38015244--38015289 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
38015234 TTTACATAAT
*
38015244 ATTTTATATAATATTA
1 ATTTT-TATAAAATTA
38015260 ATTTTTATAAAATTA
1 ATTTTTATAAAATTA
*
38015275 A-TGTTATAAAATTA
1 ATTTTTATAAAATTA
38015289 A
1 A
38015290 AATTTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.46
15 10 0.36
16 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTTTATAAAATTA
Found at i:38015394 original size:18 final size:19
Alignment explanation
Indices: 38015368--38015405 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
38015358 TGTGTTTGCA
*
38015368 TTGAATTTTCT-AAATTAT
1 TTGAATTTTATGAAATTAT
*
38015386 TTGATTTTTATGAAATTAT
1 TTGAATTTTATGAAATTAT
38015405 T
1 T
38015406 ACAAACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
TTGAATTTTATGAAATTAT
Found at i:38015513 original size:17 final size:19
Alignment explanation
Indices: 38015491--38015525 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
38015481 ATGATATTTT
38015491 TTAATT-ATTT-TTTATAG
1 TTAATTAATTTCTTTATAG
38015508 TTAATTAATTTCTTTATA
1 TTAATTAATTTCTTTATA
38015526 ACAATGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTAATTAATTTCTTTATAG
Found at i:38016018 original size:59 final size:59
Alignment explanation
Indices: 38015926--38016049 Score: 196
Period size: 59 Copynumber: 2.1 Consensus size: 59
38015916 TTGTACACTT
*
38015926 TGATTTATAGTGGTTCGTCTCAATTGCCTATTTCCACTATCTTAGCTTTCCACGACCAA
1 TGATTTATAGTGGTTCGTCTCAATTGCCTATTTCCACTATCTTAGCTTTCCACCACCAA
* *
38015985 TGATTTGTAGTGGTTTG-CTTCAATTGCCTATTTCCACTATCTTAGCTTTCCACCACCAA
1 TGATTTATAGTGGTTCGTC-TCAATTGCCTATTTCCACTATCTTAGCTTTCCACCACCAA
*
38016044 GGATTT
1 TGATTT
38016050 TTCAATTCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 1 0.02
59 59 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (59 bp):
TGATTTATAGTGGTTCGTCTCAATTGCCTATTTCCACTATCTTAGCTTTCCACCACCAA
Found at i:38017305 original size:18 final size:19
Alignment explanation
Indices: 38017270--38017316 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
38017260 TAATCACACA
38017270 TATTT-TGTAGAAACCACG
1 TATTTATGTAGAAACCACG
*
38017288 TATTTATGTA-AAATCACG
1 TATTTATGTAGAAACCACG
*
38017306 TATGTATGTAG
1 TATTTATGTAG
38017317 GGACCAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
TATTTATGTAGAAACCACG
Done.