Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 31 of 343
Found at i:10507066 original size:21 final size:22
Alignment explanation
Indices: 10507040--10507080 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
10507030 ACACACACTC
10507040 AGCTTAATTGAGCT-ATTAATG
1 AGCTTAATTGAGCTAATTAATG
10507061 AGCTTAATTGAGCTAATTAA
1 AGCTTAATTGAGCTAATTAA
10507081 AAACTACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
AGCTTAATTGAGCTAATTAATG
Found at i:10512690 original size:13 final size:13
Alignment explanation
Indices: 10512667--10512747 Score: 90
Period size: 13 Copynumber: 6.2 Consensus size: 13
10512657 ATACATCTAT
10512667 TTTCATATAACCA
1 TTTCATATAACCA
* *
10512680 ATTCATTTAACCA
1 TTTCATATAACCA
* *
10512693 TTTCATGTAATCA
1 TTTCATATAACCA
10512706 TTTCATATAACCA
1 TTTCATATAACCA
* *
10512719 TTTCATCTAAACA
1 TTTCATATAACCA
* *
10512732 TTTCATTTTACCA
1 TTTCATATAACCA
10512745 TTT
1 TTT
10512748 TTGTAATGGT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.44
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:10512747 original size:39 final size:39
Alignment explanation
Indices: 10512667--10512747 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
10512657 ATACATCTAT
* * *
10512667 TTTCATATAACCAATTCATTTAACCATTTCATGTAATCA
1 TTTCATATAACCAATTCATCTAAACATTTCATGTAACCA
* * *
10512706 TTTCATATAACCATTTCATCTAAACATTTCATTTTACCA
1 TTTCATATAACCAATTCATCTAAACATTTCATGTAACCA
10512745 TTT
1 TTT
10512748 TTGTAATGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.44
Consensus pattern (39 bp):
TTTCATATAACCAATTCATCTAAACATTTCATGTAACCA
Found at i:10531180 original size:47 final size:45
Alignment explanation
Indices: 10531109--10531420 Score: 160
Period size: 49 Copynumber: 6.8 Consensus size: 45
10531099 ATTTCTTGTG
* *
10531109 TGCCAGTGTAAAACATGTCTGGGACAT-TCATCGGCCACATTATGA
1 TGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACA-TATGA
*
10531154 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTA-A-A-GA
1 -TGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CACATATGA
* * *
10531199 TG-CAATGTAAGACATGTCTGGGACAT-GTATCAGCCACGATGATGA
1 TGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-AT-ATGA
** * *
10531244 TAGCCAGTGTAAGATGTGTCTGGGACAT-GCATCGGCTA-AGAGTCG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATA-T-GA
* * * *
10531289 TGCTAATGTAAGACATGTCTGAGACAT-GCATCAG-CACGTATATACGA
1 TGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC--ATAT--GA
* * * * * **
10531336 GAGCTAGTATAAAACCATGTCTGAGACATGGCATCGGCTTCGATAATGA
1 -TGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCAC-AT-ATGA
* * *
10531385 TAGCCTGTATGAGACCATGTCTGGGACATGGCATCG
1 T-GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
10531421 ACAACTTATC
Statistics
Matches: 207, Mismatches: 36, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
40 1 0.00
41 6 0.03
42 15 0.07
43 10 0.05
44 31 0.15
45 9 0.04
46 19 0.09
47 42 0.20
48 17 0.08
49 46 0.22
50 8 0.04
51 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATATGA
Found at i:10531266 original size:89 final size:90
Alignment explanation
Indices: 10531115--10531323 Score: 250
Period size: 89 Copynumber: 2.3 Consensus size: 90
10531105 TGTGTGCCAG
* * *
10531115 TGTAAAACATGTCTGGGACAT-TCATCGGCCACATTATGAGTGCCAGTGTAAGACCATGTCTGGG
1 TGTAAGACATGTCTGGGACATGT-ATCAGCCACATGATGAGTGCCAGTGTAAGACCATGTCTGGG
10531179 ACATGGCATCGGCGTAA-AG-ATGC-AA
65 ACAT-GCATCGGC-TAAGAGCATGCTAA
**
10531204 TGTAAGACATGTCTGGGACATGTATCAGCCACGATGATGA-TAGCCAGTGTAAGA-TGTGTCTGG
1 TGTAAGACATGTCTGGGACATGTATCAGCCAC-ATGATGAGT-GCCAGTGTAAGACCATGTCTGG
*
10531267 GACATGCATCGGCTAAGAGTCGTGCTAA
64 GACATGCATCGGCTAAGAG-CATGCTAA
* *
10531295 TGTAAGACATGTCTGAGACATGCATCAGC
1 TGTAAGACATGTCTGGGACATGTATCAGC
10531324 ACGTATATAC
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
87 3 0.03
88 10 0.10
89 41 0.39
90 22 0.21
91 29 0.28
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (90 bp):
TGTAAGACATGTCTGGGACATGTATCAGCCACATGATGAGTGCCAGTGTAAGACCATGTCTGGGA
CATGCATCGGCTAAGAGCATGCTAA
Found at i:10531309 original size:44 final size:42
Alignment explanation
Indices: 10531106--10531320 Score: 137
Period size: 47 Copynumber: 4.8 Consensus size: 42
10531096 CGGATTTCTT
* * * * *
10531106 GTGTGCCAGTGTAAAACATGTCTGGGACATTCATCGGCCACATTA
1 GTGTG-CAATGTAAGACATGTCTGGGACATGCATCGGCTA-A-GA
* *
10531151 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAA-A
1 -GTGTG-CAATGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAAGA
* * * * *
10531197 G-ATGCAATGTAAGACATGTCTGGGACATGTATCAGCCACGA
1 GTGTGCAATGTAAGACATGTCTGGGACATGCATCGGCTAAGA
* **
10531238 TGATGATAGCCAGTGTAAGATGTGTCTGGGACATGCATCGGCTAAGA
1 -G-TG-T-G-CAATGTAAGACATGTCTGGGACATGCATCGGCTAAGA
*
10531285 GTCGTGCTAATGTAAGACATGTCTGAGACATGCATC
1 GT-GTGC-AATGTAAGACATGTCTGGGACATGCATC
10531321 AGCACGTATA
Statistics
Matches: 135, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 7 0.05
42 15 0.11
43 10 0.07
44 27 0.20
45 4 0.03
46 18 0.13
47 44 0.33
48 8 0.06
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (42 bp):
GTGTGCAATGTAAGACATGTCTGGGACATGCATCGGCTAAGA
Found at i:10532269 original size:55 final size:54
Alignment explanation
Indices: 10532181--10532302 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 54
10532171 GCACTTAAAA
* * *
10532181 TTTTAAGTCAGTTTAGTACACGGGTAGGCCACACGGGTGTGTGTCATGGTCGTG
1 TTTTAAGTCAGTTTAGTACACGGGCAGGCCACACGGGCGTGTGTCATGGCCGTG
*
10532235 TTTTGAAGTCAGTATT-GTACATGGGCAGGCCACACGGGCGTGTGTCATGGCCGTG
1 TTTT-AAGTCAGT-TTAGTACACGGGCAGGCCACACGGGCGTGTGTCATGGCCGTG
10532290 TTTTAAAGTCAGT
1 TTTT-AAGTCAGT
10532303 GTTGCATACG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
54 4 0.07
55 55 0.90
56 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (54 bp):
TTTTAAGTCAGTTTAGTACACGGGCAGGCCACACGGGCGTGTGTCATGGCCGTG
Found at i:10541943 original size:46 final size:46
Alignment explanation
Indices: 10541893--10542068 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
10541883 TGGTTGAGCA
*
10541893 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10541939 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
10541984 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10542032 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10542069 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10542027 original size:93 final size:93
Alignment explanation
Indices: 10541890--10542061 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
10541880 GGATGGTTGA
* * * *
10541890 GCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10541955 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
10541983 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
10542048 TGAGTCCGAGTTCG
66 TGAGTCCAAGTTCG
10542062 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:10545600 original size:24 final size:24
Alignment explanation
Indices: 10545555--10545601 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10545545 GTTGAAATCT
* **
10545555 AGAATAGAAAAAATAGTCGAGAAA
1 AGAAAAGAAAAAATAGAAGAGAAA
*
10545579 AGAAAAGAAAATATAGAAGAGAA
1 AGAAAAGAAAAAATAGAAGAGAA
10545602 TGATGAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (24 bp):
AGAAAAGAAAAAATAGAAGAGAAA
Found at i:10548317 original size:28 final size:28
Alignment explanation
Indices: 10548262--10548331 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
10548252 AACAATCAAC
***
10548262 AGCCCATTTAATCAAACCCTTTTGGGCA
1 AGCCCATTTAATCAAACCCTTCCAGGCA
* *
10548290 AGTCCATTTAATCAAGCCCTTCCAGGCA
1 AGCCCATTTAATCAAACCCTTCCAGGCA
*
10548318 AGCCCGTTTAATCA
1 AGCCCATTTAATCA
10548332 GGTGGGTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
AGCCCATTTAATCAAACCCTTCCAGGCA
Found at i:10556399 original size:23 final size:23
Alignment explanation
Indices: 10556373--10556453 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
10556363 ATTTTACAAA
10556373 AAATATATATTATATTTTTCTTT
1 AAATATATATTATATTTTTCTTT
* * * * *
10556396 AAATATTTTTTATGTATTTCTAT
1 AAATATATATTATATTTTTCTTT
* * *
10556419 AAAAAAATATTATATTTTTATATT
1 AAATATATATTATATTTTTCT-TT
10556443 AAATATGATAT
1 AAATAT-ATAT
10556454 ATTAATAATT
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
23 32 0.78
24 5 0.12
25 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AAATATATATTATATTTTTCTTT
Found at i:10556885 original size:21 final size:20
Alignment explanation
Indices: 10556827--10556888 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
10556817 CGATCAGTCA
* *
10556827 AAAAAATTTATTTTATTATTT
1 AAAAAATTAATTATATT-TTT
*
10556848 -AAAAATTAATAAAATATTTTT
1 AAAAAATTAAT--TATATTTTT
10556869 AAAAAATTAATTGATATTTT
1 AAAAAATTAATT-ATATTTT
10556889 ATATATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 9 0.27
21 10 0.30
22 14 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAAAATTAATTATATTTTT
Found at i:10559308 original size:18 final size:18
Alignment explanation
Indices: 10559276--10559313 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10559266 AGGGTCCTTT
*
10559276 TATATACAAATAATTTAA
1 TATATACAAATAATTCAA
10559294 TATATAC-AATAAATTCAA
1 TATATACAAAT-AATTCAA
10559312 TA
1 TA
10559314 ATCACATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TATATACAAATAATTCAA
Found at i:10561326 original size:36 final size:37
Alignment explanation
Indices: 10561265--10561337 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
10561255 ATTATTGTCT
10561265 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
1 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
*
10561302 TTGATTAGG-TTTGTTTCCCTACTCTGTTGAGTGGGA
1 TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
10561338 ATATTTTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.15, C:0.14, G:0.27, T:0.44
Consensus pattern (37 bp):
TTGATTAGGTTTTGTTTCCCAACTCTGTTGAGTGGGA
Found at i:10566695 original size:21 final size:22
Alignment explanation
Indices: 10566656--10566724 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
10566646 TAAAATACTT
10566656 TTTTAAAAATATTTGTTATTATA
1 TTTTAAAAATATTT-TTATTATA
*
10566679 TTTTCAAAAT-TTTTTATATATA
1 TTTTAAAAATATTTTTAT-TATA
* *
10566701 TTTTTAAAATATATTTA-TATA
1 TTTTAAAAATATTTTTATTATA
10566722 TTT
1 TTT
10566725 CTTTAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.27
22 16 0.39
23 14 0.34
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTAAAAATATTTTTATTATA
Found at i:10566703 original size:22 final size:23
Alignment explanation
Indices: 10566656--10566722 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
10566646 TAAAATACTT
10566656 TTTTAAAAATATTTGTTAT-TATA
1 TTTTAAAAATATTT-TTATATATA
*
10566679 TTTTCAAAAT-TTTTTATATATA
1 TTTTAAAAATATTTTTATATATA
* *
10566701 TTTTTAAAATATATTTATATAT
1 TTTTAAAAATATTTTTATATAT
10566723 TTCTTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 19 0.49
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (23 bp):
TTTTAAAAATATTTTTATATATA
Found at i:10569459 original size:31 final size:28
Alignment explanation
Indices: 10569419--10569485 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
10569409 TATTTGACAC
*
10569419 TTTTCATTTAAGTCATTTA-ACTATTCAAAAG
1 TTTTTATTTAAGTCA-TTAGACTATT---AAG
10569450 TTTTTATTTAAGTCATTAGACTATTAAG
1 TTTTTATTTAAGTCATTAGACTATTAAG
10569478 TTTTTATT
1 TTTTTATT
10569486 AAAAAAAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.32
30 3 0.09
31 20 0.59
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (28 bp):
TTTTTATTTAAGTCATTAGACTATTAAG
Found at i:10571821 original size:70 final size:70
Alignment explanation
Indices: 10571743--10571883 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
10571733 ATTCACATGT
*
10571743 TTAAAATACAAAAATGGTAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
1 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
10571808 CACAA
66 CACAA
*
10571813 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACGA
1 TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
10571878 CACAA
66 CACAA
10571883 T
1 T
10571884 GTTTTTTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (70 bp):
TTAAAATACAAAAATGATAATCATATTTCTTGAATCATAATCGCTATGAATATAAGATTCAACAA
CACAA
Found at i:10574820 original size:5 final size:5
Alignment explanation
Indices: 10574804--10574835 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
10574794 CCCTTTACCA
10574804 AAAAT -AAA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10574836 ACGAAGAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:10582784 original size:19 final size:19
Alignment explanation
Indices: 10582753--10582799 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10582743 ATCTAAAAAT
10582753 AAAAAAAT-T-ATTTGA-A
1 AAAAAAATATAATTTGATA
10582769 AAAAAAACTATAATTTGATA
1 AAAAAAA-TATAATTTGATA
10582789 AAAAAAATATA
1 AAAAAAATATA
10582800 TTATTTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.26
17 1 0.04
18 1 0.04
19 10 0.37
20 8 0.30
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAAAATATAATTTGATA
Found at i:10582805 original size:21 final size:21
Alignment explanation
Indices: 10582759--10582805 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
10582749 AAATAAAAAA
10582759 ATTATTTGAAAAAAAAACTAT
1 ATTATTTGAAAAAAAAACTAT
10582780 A--ATTTGATAAAAAAAA-TAT
1 ATTATTTGA-AAAAAAAACTAT
10582799 ATTATTT
1 ATTATTT
10582806 ACATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
ATTATTTGAAAAAAAAACTAT
Found at i:10596902 original size:21 final size:21
Alignment explanation
Indices: 10596872--10596926 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
10596862 TAGGTACAGG
*
10596872 GGACACGCCCGTGTGG-TCAAA
1 GGACATGCCCGTGTGGCT-AAA
**
10596893 GGACATGCCCGTGTGGCTATT
1 GGACATGCCCGTGTGGCTAAA
10596914 GGACATGCCCGTG
1 GGACATGCCCGTG
10596927 CCTCAGGCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (21 bp):
GGACATGCCCGTGTGGCTAAA
Found at i:10599921 original size:18 final size:18
Alignment explanation
Indices: 10599898--10599935 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10599888 ATTTAATAGT
10599898 ATAAATTGAATGTAGTTG
1 ATAAATTGAATGTAGTTG
10599916 ATAAATTGAATGTAGTTG
1 ATAAATTGAATGTAGTTG
10599934 AT
1 AT
10599936 CGTAGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (18 bp):
ATAAATTGAATGTAGTTG
Found at i:10601089 original size:23 final size:22
Alignment explanation
Indices: 10601052--10601105 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
10601042 CAGTTAAGAA
*
10601052 ATTTCCATTTGGCACAATAAAT
1 ATTTCCACTTGGCACAATAAAT
* *
10601074 ATTTCCCACTTGGCACGATAATT
1 ATTT-CCACTTGGCACAATAAAT
10601097 ATTTGCCAC
1 ATTT-CCAC
10601106 ATGTCTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (22 bp):
ATTTCCACTTGGCACAATAAAT
Found at i:10604883 original size:35 final size:34
Alignment explanation
Indices: 10604837--10605070 Score: 288
Period size: 35 Copynumber: 6.7 Consensus size: 34
10604827 TTTCCTCATT
* *
10604837 GAAATACCATACCTACATTTCACAACTCGGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* **
10604871 AGAAATGCCATACCTACGTTTCTTAACTCAGTATG
1 -GAAATACCATACCTACGTTTCACAACTCAGTATG
10604906 GATAATACCATACCTACGTTTCACAACTCAGTATAG
1 GA-AATACCATACCTACGTTTCACAACTCAGTAT-G
** *
10604942 TTAATACCATACCTACGTTTTACAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* * *
10604976 GATGATACCATACCTACGTTTCAGAACTCGGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
10605011 GTTAATACCATACTTACGTTTCACAACTCAGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
*
10605046 GTTAATACCATACCTACGTTTCACA
1 G-AAATACCATACCTACGTTTCACA
10605071 CTTTGCCGTG
Statistics
Matches: 172, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
34 3 0.02
35 168 0.98
36 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:10604952 original size:70 final size:70
Alignment explanation
Indices: 10604839--10605070 Score: 333
Period size: 70 Copynumber: 3.3 Consensus size: 70
10604829 TCCTCATTGA
* * * *
10604839 AATACCATACCTACATTTCACAACTCGGTATGAG-AAATGCCATACCTACGTTTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTAT-AGTTAATACCATACCTACGTTTCTCAACTCAGT
10604903 ATGGAT
65 ATGGAT
*
10604909 AATACCATACCTACGTTTCACAACTCAGTATAGTTAATACCATACCTACGTTT-TACAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTATAGTTAATACCATACCTACGTTTCT-CAACTCAGT
10604973 ATGGAT
65 ATGGAT
* * * * *
10604979 GATACCATACCTACGTTTCAGAACTCGGTATGGTTAATACCATACTTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCGGTATAGTTAATACCATACCTACGTTTCTCAACTCAGTA
*
10605044 TGGTT
66 TGGAT
10605049 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
10605071 CTTTGCCGTG
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
69 3 0.02
70 142 0.98
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCGGTATAGTTAATACCATACCTACGTTTCTCAACTCAGTA
TGGAT
Found at i:10605021 original size:105 final size:105
Alignment explanation
Indices: 10604839--10605070 Score: 349
Period size: 105 Copynumber: 2.2 Consensus size: 105
10604829 TCCTCATTGA
* * * **
10604839 AATACCATACCTACATTTCACAACTCGGTATGAGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGAGAAATACCATACCTACGTTTCAGAACTCAGTA
10604904 TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
66 TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
* * *
10604944 AATACCATACCTACGTTTTACAACTCAGTATG-GATGATACCATACCTACGTTTCAGAACTCGGT
1 AATACCATACCTACGTTTCACAACTCAGTATGAGA-AATACCATACCTACGTTTCAGAACTCAGT
* * *
10605008 ATGGTTAATACCATACTTACGTTTCACAACTCAGTATGGTT
65 ATGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
10605049 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
10605071 CTTTGCCGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 2 0.02
105 112 0.98
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (105 bp):
AATACCATACCTACGTTTCACAACTCAGTATGAGAAATACCATACCTACGTTTCAGAACTCAGTA
TGGATAATACCATACCTACGTTTCACAACTCAGTATAGTT
Found at i:10608726 original size:6 final size:6
Alignment explanation
Indices: 10608715--10608835 Score: 242
Period size: 6 Copynumber: 20.2 Consensus size: 6
10608705 AGAACATCTC
10608715 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
10608763 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
10608811 CATATA CATATA CATATA CATATA C
1 CATATA CATATA CATATA CATATA C
10608836 TACATTTTAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:10611534 original size:46 final size:46
Alignment explanation
Indices: 10611465--10611553 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
10611455 ATGAGTGTTA
* * * *
10611465 GAGCTTGGACACACTTGTTGTATGAGGTATTAAGATAATGAATATT
1 GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAATATT
* *
10611511 GAGCTTGAATACACTTGTGGTATGAGGTACTAAAATAGTGAAT
1 GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAAT
10611554 TCTCTCAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (46 bp):
GAGCTTGAACACACTTGTGGTATGAGGTACTAAAATAATGAATATT
Found at i:10613241 original size:39 final size:39
Alignment explanation
Indices: 10613122--10613241 Score: 168
Period size: 39 Copynumber: 3.1 Consensus size: 39
10613112 TAGAAATACA
* * *
10613122 GTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGTCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
* * * * *
10613161 GTAATTATTCGGGCTATGTGTCTTGCAGGCTTTGTACCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
10613200 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
10613239 GTG
1 GTG
10613242 TATTGAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.35
Consensus pattern (39 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTATGTGCCG
Found at i:10614147 original size:43 final size:43
Alignment explanation
Indices: 10614086--10614187 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
10614076 CATGGTTAGA
* *
10614086 GACACGGGCGGGTGTCTCAGCCGTGTGTGACACACGGCCAGAC
1 GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
* **
10614129 GACACGGGCGTGTGTCTCAGCCATTTGTGACACACGGCCAGGT
1 GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
*
10614172 GACACGGTCGTGTGTC
1 GACACGGGCGTGTGTC
10614188 CCTTGTAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (43 bp):
GACACGGGCGTGTGTCTCAGCCATGTGTGACACACGGCCAGAC
Found at i:10620242 original size:24 final size:24
Alignment explanation
Indices: 10620210--10620260 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
10620200 AACCTGTATT
10620210 CATCGCCAGAACAGGGTTACGGAG
1 CATCGCCAGAACAGGGTTACGGAG
*
10620234 CATCGCCAGAATAGGGTTACGGAG
1 CATCGCCAGAACAGGGTTACGGAG
10620258 CAT
1 CAT
10620261 TACCAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (24 bp):
CATCGCCAGAACAGGGTTACGGAG
Found at i:10621708 original size:30 final size:30
Alignment explanation
Indices: 10621653--10621714 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
10621643 CACTAAGCAA
10621653 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
10621682 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
10621713 GT
1 GT
10621715 ATCTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:10621885 original size:25 final size:25
Alignment explanation
Indices: 10621857--10621920 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
10621847 GAATCGGTGT
10621857 GCTCTCACGAGCTGTA-AATCAGTAA
1 GCTCTCACGAGCTG-AGAATCAGTAA
* * **
10621882 GCTCAT-ATGTGCTGAGAATTGGTAA
1 GCTC-TCACGAGCTGAGAATCAGTAA
10621907 GCTCTCACGAGCTG
1 GCTCTCACGAGCTG
10621921 CAATCGGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
GCTCTCACGAGCTGAGAATCAGTAA
Found at i:10621914 original size:50 final size:48
Alignment explanation
Indices: 10621847--10621954 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 48
10621837 TACAAGCTAT
** *
10621847 GAATCGGTGTGCTCTCACGAGCTGTAAATCAGTAAGCTCATATGTGCTGA
1 GAATCGGTAAGCTCTCACGAGCTG-AAATCAGTAAGCTCATACG-GCTGA
* * * *
10621897 GAATTGGTAAGCTCTCACGAGCTGCAATCGGTAAGTTCATACGGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGAAATCAGTAAGCTCATACGGCTGA
*
10621945 GGATCGGTAA
1 GAATCGGTAA
10621955 TCCTTAATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 13 0.27
49 15 0.31
50 21 0.43
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GAATCGGTAAGCTCTCACGAGCTGAAATCAGTAAGCTCATACGGCTGA
Found at i:10625332 original size:17 final size:20
Alignment explanation
Indices: 10625294--10625342 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
10625284 TTTATTTATG
*
10625294 AATG-TTTTATATAACTATA
1 AATGATTTTATATAACTAAA
10625313 AAT-ATTTTATAT-A-TAAA
1 AATGATTTTATATAACTAAA
*
10625330 AATGATTTAATAT
1 AATGATTTTATAT
10625343 TATTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (20 bp):
AATGATTTTATATAACTAAA
Found at i:10625365 original size:10 final size:10
Alignment explanation
Indices: 10625352--10625389 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
10625342 TTATTTATTT
10625352 AATATTTATA
1 AATATTTATA
10625362 AATATTTTTATA
1 AATA--TTTATA
10625374 AATATTTA-A
1 AATATTTATA
10625383 AATATTT
1 AATATTT
10625390 GTTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 8 0.31
12 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATATTTATA
Found at i:10625380 original size:22 final size:22
Alignment explanation
Indices: 10625338--10625389 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
10625328 AAAATGATTT
*
10625338 AATATTATTTATTTAATATTTATA
1 AATATT-TTTATTAAATATTTA-A
10625362 AATATTTTTA-TAAATATTTAA
1 AATATTTTTATTAAATATTTAA
10625383 AATATTT
1 AATATTT
10625390 GTTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 4 0.15
24 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATATTTTTATTAAATATTTAA
Found at i:10625875 original size:61 final size:61
Alignment explanation
Indices: 10625780--10625902 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
10625770 TAAGTTAGTC
10625780 ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
1 ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
* *
10625841 ATACTATTAAAAATTTCAT-TCACTTTTACTATTAAAAATTGGTCCTTGTATATCAACATGA
1 ATACTATTAAAAATTTCATCT-ACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
10625902 A
1 A
10625903 ATGTACATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 1 0.02
61 58 0.98
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (61 bp):
ATACTATTAAAAATTTCATCTACTTTTACTATTAAAAAATGGTCCTTATATATCAACATGA
Found at i:10626910 original size:13 final size:13
Alignment explanation
Indices: 10626892--10626920 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10626882 TGCAAGGTTT
10626892 TATTAATATAACA
1 TATTAATATAACA
10626905 TATTAATATAACA
1 TATTAATATAACA
10626918 TAT
1 TAT
10626921 CAATCTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAATATAACA
Found at i:10631639 original size:25 final size:23
Alignment explanation
Indices: 10631564--10631671 Score: 128
Period size: 23 Copynumber: 4.7 Consensus size: 23
10631554 CCCTTTAAAG
* * *
10631564 ACAACCATATGTACCCTCCGAAC
1 ACAACCAAATATACCCTCCAAAC
*
10631587 ACAACCAAATTTACCCTCCAAAC
1 ACAACCAAATATACCCTCCAAAC
* *
10631610 ACAACCATATATATAACCTTCAAAC
1 ACAACCA-A-ATATACCCTCCAAAC
*
10631635 ACAACCAAGTATACCCTCCAAAC
1 ACAACCAAATATACCCTCCAAAC
10631658 ACAACC-AATATACC
1 ACAACCAAATATACC
10631672 TTTCAACATA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
22 7 0.10
23 45 0.62
24 2 0.03
25 19 0.26
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (23 bp):
ACAACCAAATATACCCTCCAAAC
Found at i:10634447 original size:35 final size:35
Alignment explanation
Indices: 10634389--10634483 Score: 86
Period size: 35 Copynumber: 2.7 Consensus size: 35
10634379 ATAAATTTAG
* **
10634389 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
10634425 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
* *
10634460 TATGAATATAGTTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
10634484 AAATTTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
35 35 0.73
36 13 0.27
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:10635299 original size:38 final size:38
Alignment explanation
Indices: 10635248--10635343 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 38
10635238 CCATCTCCGT
* *
10635248 CCAACCC-AGCACACCATGTGGGGATAGAATCGACCCAC
1 CCAACCCTA-CACACCATATGGGGATAGAATCAACCCAC
** *
10635286 CCAACCCTACACACCAAGTATGGGGATTTAATCAACCCAT
1 CCAACCCTACACACC-A-TATGGGGATAGAATCAACCCAC
*
10635326 CCAGCCCTACACACCATA
1 CCAACCCTACACACCATA
10635344 AGGTACGGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 15 0.31
39 3 0.06
40 31 0.63
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
Found at i:10635324 original size:40 final size:40
Alignment explanation
Indices: 10635266--10635341 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
10635256 GCACACCATG
*
10635266 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
** * *
10635306 TGGGGATTTAATCAACCCATCCAGCCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
10635342 TAAGGTACGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:10641855 original size:18 final size:19
Alignment explanation
Indices: 10641821--10641856 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10641811 ATTGCAATTT
10641821 AATTTTATTTTAATTACTA
1 AATTTTATTTTAATTACTA
*
10641840 AATTTT-TTTTATTTACT
1 AATTTTATTTTAATTACT
10641857 TCTGGTAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTATTTTAATTACTA
Found at i:10648253 original size:33 final size:33
Alignment explanation
Indices: 10648186--10648273 Score: 80
Period size: 33 Copynumber: 2.8 Consensus size: 33
10648176 AAACCATCCA
* * *
10648186 TCCTC-TTCTTCTCTATTTTTCTTTCTTTTCTT
1 TCCTCTTTCTCCTCTATTTCTCTTTCATTTCTT
*
10648218 TCCTCTTTCTCCTCTCTTTCTCTTTTCATTT-TT
1 TCCTCTTTCTCCTCTATTTCTC-TTTCATTTCTT
10648251 TCCT-TTGTCTCC-C-ATTT-TCTTTC
1 TCCTCTT-TCTCCTCTATTTCTCTTTC
10648274 CCTTTTTTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
29 4 0.08
30 2 0.04
31 3 0.06
32 8 0.17
33 24 0.50
34 7 0.15
ACGTcount: A:0.03, C:0.32, G:0.01, T:0.64
Consensus pattern (33 bp):
TCCTCTTTCTCCTCTATTTCTCTTTCATTTCTT
Found at i:10648440 original size:15 final size:15
Alignment explanation
Indices: 10648413--10648471 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
10648403 CATCCTTTTC
*
10648413 TTTT-CTTTGATTTA
1 TTTTACTTTTATTTA
*
10648427 TTTCACTTTTATTT-
1 TTTTACTTTTATTTA
*
10648441 TTTTATTCTTTATTTTA
1 TTTTACT-TTTA-TTTA
*
10648458 TTTTAATTTTATTT
1 TTTTACTTTTATTT
10648472 CTCTTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 8 0.22
15 15 0.42
16 7 0.19
17 6 0.17
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTACTTTTATTTA
Found at i:10654616 original size:21 final size:21
Alignment explanation
Indices: 10654590--10654639 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10654580 GCGTTACACT
* *
10654590 AATCTCACCACTATAGTATCC
1 AATCTCACCACTACAGTAACC
* *
10654611 AATCTCACCGCTACAGTAACT
1 AATCTCACCACTACAGTAACC
10654632 AATCTCAC
1 AATCTCAC
10654640 TGCCACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:10656367 original size:42 final size:42
Alignment explanation
Indices: 10656321--10656430 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 42
10656311 AGATTACGTG
* * *
10656321 TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCATT
1 TAAGACCATATCTGGGATATGGCATCGATATGAGAATCCATA
* ** *
10656363 TAAGACCATAGCTGGTCTATTGGAATCGATATGAGAATCCATA
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGAATCCATA
10656406 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
10656431 TGGTATGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGAATCCATA
Found at i:10659514 original size:27 final size:26
Alignment explanation
Indices: 10659478--10659552 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
10659468 CCCGGACACA
*
10659478 TAATTTTAATTTCTTAACCTATTTT-TT
1 TAATTCTAATTTCTTAA--TATTTTATT
*
10659505 TAATTCTAATTTTTTAATATTTTATT
1 TAATTCTAATTTCTTAATATTTTATT
10659531 TAA-T-TAA-TTCTTAATTATTTTA
1 TAATTCTAATTTCTTAA-TATTTTA
10659553 ATTATCTAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.14
24 10 0.23
25 7 0.16
26 5 0.12
27 15 0.35
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (26 bp):
TAATTCTAATTTCTTAATATTTTATT
Found at i:10659553 original size:16 final size:16
Alignment explanation
Indices: 10659502--10659555 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
10659492 TAACCTATTT
10659502 TTTTAATTC-TAATT-
1 TTTTAATTCTTAATTA
* *
10659516 TTTTAATATTTTATTTA
1 TTTTAAT-TCTTAATTA
*
10659533 -ATTAATTCTTAATTA
1 TTTTAATTCTTAATTA
10659548 TTTTAATT
1 TTTTAATT
10659556 ATCTAACCCG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.23
15 8 0.27
16 15 0.50
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAATTCTTAATTA
Found at i:10663278 original size:20 final size:21
Alignment explanation
Indices: 10663248--10663289 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
10663238 AATGAGTAAA
10663248 CCTATTTTTTTCTATTTACTT
1 CCTATTTTTTTCTATTTACTT
10663269 CCTA-TTTTTTCTATTTACTT
1 CCTATTTTTTTCTATTTACTT
10663289 C
1 C
10663290 TAATCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (21 bp):
CCTATTTTTTTCTATTTACTT
Found at i:10664667 original size:13 final size:13
Alignment explanation
Indices: 10664649--10664674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10664639 GCTCGACAGG
10664649 GACACGCCCGTGT
1 GACACGCCCGTGT
10664662 GACACGCCCGTGT
1 GACACGCCCGTGT
10664675 TTGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10675106 original size:99 final size:94
Alignment explanation
Indices: 10674938--10675201 Score: 272
Period size: 98 Copynumber: 2.8 Consensus size: 94
10674928 TAATGCCAAT
* * * *
10674938 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGTCATGTCCCAGACATGG
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCATACATCAAGTCGATGCCATGTCCCAGACATGG
10675003 TCTTACACTGACTA-TCAAAATCGAGGCCGAA
66 TCTTACACTGAC-ACTCAAAA-CG-GGCCGAA
* *
10675034 GCCATGTCCCAAACATGGTCTTACACTAGCTTTCATATATC-CGTGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAAACATGGTCTTACACTAGC--TCATACATCAAGT--CGATGCCATGTCCCAGAC
* * * * *
10675098 ATGGTCTTACACTGACACCTCTATACGTGCTGAT
62 ATGGTCTTACACTGACA-CTCAAAACGGGCCGAA
* * *
10675132 GCCATGTCCCAAACATGGTCTTACACTAACACAT-C-TCATAGCCGATG-CATGTCCCAGACAT-
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCATACATCA-AGTCGATGCCATGTCCCAGACATG
10675193 G-CTTACACT
65 GTCTTACACT
10675202 AGCTCTCGTC
Statistics
Matches: 144, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
91 8 0.06
92 1 0.01
93 14 0.10
94 7 0.05
96 32 0.22
97 2 0.01
98 41 0.28
99 35 0.24
100 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (94 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCTCATACATCAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACACTCAAAACGGGCCGAA
Found at i:10675256 original size:48 final size:48
Alignment explanation
Indices: 10674929--10675258 Score: 252
Period size: 48 Copynumber: 6.9 Consensus size: 48
10674919 CATAGGGTAT
*
10674929 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TC
* * * * **
10674977 AA-GTCGATGTCATGTCCCAGACATGGTCTTACACTGACTATCAAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTC
* * * * * * *
10675025 GAGGCCGAAGCCATGTCCCAAACATGGTCTTACACTAGCTTTCATATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATCTC
** * *
10675075 CGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-C-TCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * ** *
10675120 ATACGTGCTGATGCCATGTCCCAAACATGGTCTTACACT--AACACATCTC
1 A-A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* *
10675169 -ATAGCCGATG-CATGTCCCAGACAT-G-CTTACACTAGCTCTCGTCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* *
10675214 AATGCCGCTGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
10675259 AATGTGGCCG
Statistics
Matches: 222, Mismatches: 42, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
43 8 0.04
44 1 0.00
45 26 0.12
46 25 0.11
47 34 0.15
48 55 0.25
49 36 0.16
50 37 0.17
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
Found at i:10677867 original size:27 final size:27
Alignment explanation
Indices: 10677837--10677890 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10677827 TTATTAATAA
10677837 TTTTAA-AAATAAATAT-ACATAATTTAT
1 TTTTAATAAAT-AAT-TGACATAATTTAT
*
10677864 TTTTAATAAATCATTGACATAATTTAT
1 TTTTAATAAATAATTGACATAATTTAT
10677891 AAGTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 19 0.79
28 4 0.17
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTTAATAAATAATTGACATAATTTAT
Found at i:10683586 original size:54 final size:54
Alignment explanation
Indices: 10683522--10683632 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
10683512 ACAGAGCATA
10683522 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
1 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
10683576 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
1 AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
10683630 AAA
1 AAA
10683633 TGAAGATTGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.22
Consensus pattern (54 bp):
AAAGGCACAGAAAATTATCAACTACAGATGTCACCAGATTTAGCAAATACCTTC
Found at i:10687195 original size:18 final size:18
Alignment explanation
Indices: 10687168--10687204 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10687158 ATATATTATT
10687168 TACTACCATAAAAAATTA
1 TACTACCATAAAAAATTA
*
10687186 TACTATCATAAAAAATTA
1 TACTACCATAAAAAATTA
10687204 T
1 T
10687205 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
TACTACCATAAAAAATTA
Found at i:10687466 original size:34 final size:34
Alignment explanation
Indices: 10687428--10687537 Score: 89
Period size: 34 Copynumber: 3.1 Consensus size: 34
10687418 AAAACCACAA
*
10687428 TAATTGAATATTCCAACACATCAGTATTAATGTC
1 TAATTGAATATTCCAACACATCAATATTAATGTC
** * * * *
10687462 TAATT-TTTATTCTTAATA-ATTTAATATTAATTTAC
1 TAATTGAATATTC-CAACACA-TCAATATTAATGT-C
*
10687497 AATAATTGAATATTCCAACACATCATTATTAATGTC
1 --TAATTGAATATTCCAACACATCAATATTAATGTC
10687533 TAATT
1 TAATT
10687538 TTTATTCTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
33 6 0.11
34 23 0.42
35 1 0.02
36 1 0.02
37 18 0.33
38 6 0.11
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.44
Consensus pattern (34 bp):
TAATTGAATATTCCAACACATCAATATTAATGTC
Found at i:10687502 original size:71 final size:71
Alignment explanation
Indices: 10687424--10687566 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
10687414 GATCAAAACC
*
10687424 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATTTAATAT
1 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
10687489 TAATTT
66 TAATTT
*
10687495 ACAATAATTGAATATTCCAACACATCATTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
1 ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
10687560 TAATTT
66 TAATTT
10687566 A
1 A
10687567 TTAATTTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (71 bp):
ACAATAATTGAATATTCCAACACATCAGTATTAATGTCTAATTTTTATTCTTAATAATCTAATAT
TAATTT
Found at i:10687561 original size:34 final size:35
Alignment explanation
Indices: 10687452--10687577 Score: 107
Period size: 34 Copynumber: 3.6 Consensus size: 35
10687442 AACACATCAG
*
10687452 TATTAATGT-CTAATTTTTATTCTTAATAATTTAA
1 TATTAATGTACTAATTTTTATTCTTAATAATCTAA
* ** * * *
10687486 TATTAATTTACAATAATTGAATATTC-CAACACATC-AT
1 TATTAATGTAC--TAATT-TTTATTCTTAATA-ATCTAA
10687523 TATTAATGT-CTAATTTTTATTCTTAATAATCTAA
1 TATTAATGTACTAATTTTTATTCTTAATAATCTAA
* *
10687557 TATTAATTTATTAATTTTTAT
1 TATTAATGTACTAATTTTTAT
10687578 ATCAAAATTT
Statistics
Matches: 69, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
33 8 0.12
34 25 0.36
35 11 0.16
36 1 0.01
37 17 0.25
38 7 0.10
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (35 bp):
TATTAATGTACTAATTTTTATTCTTAATAATCTAA
Found at i:10689282 original size:16 final size:15
Alignment explanation
Indices: 10689258--10689287 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10689248 TATATTGGAC
10689258 TTTTTTATATTTTCT
1 TTTTTTATATTTTCT
10689273 TTTTTATATATTTTC
1 TTTTT-TATATTTTC
10689288 AATCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATATTTTCT
Found at i:10694452 original size:22 final size:22
Alignment explanation
Indices: 10694388--10694492 Score: 95
Period size: 23 Copynumber: 4.6 Consensus size: 22
10694378 ACAGCTCGTA
* *
10694388 AGAGCTTACTGTTTCAGCTTATT
1 AGAGCTTACTG-TTCAGCTCAAT
* * *
10694411 GGAGCTTATTGATTTAGCTCGAA-
1 AGAGCTTACTG-TTCAGCTC-AAT
*
10694434 AGATCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
10694456 AGAGCTTACCTTTTTCAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
10694480 AGAGCTTACTGTT
1 AGAGCTTACTGTT
10694493 TATCAGCTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 25 0.38
24 21 0.32
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:10694476 original size:46 final size:45
Alignment explanation
Indices: 10694379--10694492 Score: 117
Period size: 46 Copynumber: 2.5 Consensus size: 45
10694369 AGACTCACCA
* * * *
10694379 CAGCTCGTAAGAGCTTACTGTTTCAGCTTATTGGAGCTTATTGATTT
1 CAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTATT-ATTT
*
10694426 -AGCTCGAAAGATCTTACTGTTCAGCTCAATAGAGCTTACCTT-TTT
1 CAGCTCGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTA--TTATTT
10694471 CAGCTC-AATAGAGCTTACTGTT
1 CAGCTCGAA-AGAGCTTACTGTT
10694493 TATCAGCTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
45 21 0.37
46 34 0.60
47 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (45 bp):
CAGCTCGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTATTATTT
Found at i:10699997 original size:26 final size:26
Alignment explanation
Indices: 10699961--10700068 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
10699951 TGAAATTCCA
10699961 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10699987 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10700013 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
10700039 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10700065 ATCA
1 ATCA
10700069 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10705817 original size:26 final size:26
Alignment explanation
Indices: 10705781--10705888 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
10705771 TGAAATTCCA
10705781 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10705807 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10705833 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
10705859 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10705885 ATCA
1 ATCA
10705889 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10710081 original size:22 final size:22
Alignment explanation
Indices: 10710018--10710123 Score: 99
Period size: 22 Copynumber: 4.6 Consensus size: 22
10710008 ACAACTCGTA
* *
10710018 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
10710041 GGAGCTTA-TCGATTCAGCTCGAA-
1 AGAGCTTACT-G-TTCAGCTC-AAT
10710064 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
10710086 AGAGCTTACTGTTTTCATCTCAAT
1 AGAGCTTACTG--TTCAGCTCAAT
*
10710110 AGAGTTTACTGTTC
1 AGAGCTTACTGTTC
10710124 GTCAGCTCAG
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.03
22 23 0.33
23 23 0.33
24 22 0.31
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:10710107 original size:24 final size:24
Alignment explanation
Indices: 10710018--10710132 Score: 107
Period size: 24 Copynumber: 4.9 Consensus size: 24
10710008 ACAACTCGTA
*
10710018 AGAGCTTACTGTTTT-AGCTCATT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
10710041 GGAGCTTA-TCG-ATTCAGCTCGAA-
1 AGAGCTTACT-GTTTTCAGCTC-AAT
10710064 AGAGCTTACTG--TTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
*
10710086 AGAGCTTACTGTTTTCATCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
10710110 AGAGTTTACTGTTCGTCAGCTCA
1 AGAGCTTACTGTT-TTCAGCTCA
10710133 GGAGGAGCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.03
22 22 0.29
23 21 0.28
24 24 0.32
25 7 0.09
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAT
Found at i:10715186 original size:47 final size:47
Alignment explanation
Indices: 10715129--10715287 Score: 201
Period size: 47 Copynumber: 3.2 Consensus size: 47
10715119 TTACATAGAT
*
10715129 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
10715176 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
10715223 CACATAATCACATCTTTCAGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACAT-ATCACA-----CAGATGCCATATCCCAGATATGGTCTTATACAG-AAG
10715277 CACATATCACA
1 CACATATCACA
10715288 TGTTGTCATG
Statistics
Matches: 97, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
47 49 0.51
48 6 0.06
53 35 0.36
54 7 0.07
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:10719586 original size:44 final size:44
Alignment explanation
Indices: 10719512--10719605 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
10719502 TGATGGAACC
* *
10719512 GAAGTTGCAATGGAGCAGGTTAGAGTTACAAACCTTATCTC-CAT
1 GAAGTTGCAATGGAGCAGATTAGAGATACAAACCTTATCTCTC-T
** **
10719556 GAAGTTGCCGTGGAGCAGATT-GAAGATACAAGTCTTATCTCTCT
1 GAAGTTGCAATGGAGCAGATTAG-AGATACAAACCTTATCTCTCT
10719600 GAAGTT
1 GAAGTT
10719606 ACAGTGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 1 0.02
44 40 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTTGCAATGGAGCAGATTAGAGATACAAACCTTATCTCTCT
Found at i:10721354 original size:4 final size:4
Alignment explanation
Indices: 10721345--10721379 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
10721335 GTATATGTGT
*
10721345 TTTA TTTA TTTA CTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
10721380 TCTTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:10721363 original size:12 final size:12
Alignment explanation
Indices: 10721346--10721408 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
10721336 TATATGTGTT
10721346 TTATTTATTTAC
1 TTATTTATTTAC
*
10721358 TTATTTATTTAT
1 TTATTTATTTAC
*
10721370 TTATTTATTTTC
1 TTATTTATTTAC
10721382 TTTATTT-TATTA-
1 -TTATTTAT-TTAC
10721394 TTA-TTATTTTAC
1 TTATTTA-TTTAC
10721406 TTA
1 TTA
10721409 ATTAATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.05
11 6 0.14
12 26 0.62
13 8 0.19
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTTAC
Found at i:10722940 original size:20 final size:20
Alignment explanation
Indices: 10722915--10722956 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10722905 TTTTCCAAGT
*
10722915 TGAGGTTCACAAACTAGCTC
1 TGAGGTTCACAAACTAACTC
10722935 TGAGGTTCACAAACTAACTC
1 TGAGGTTCACAAACTAACTC
10722955 TG
1 TG
10722957 GGTCTGCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
TGAGGTTCACAAACTAACTC
Found at i:10727805 original size:15 final size:14
Alignment explanation
Indices: 10727763--10727812 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
10727753 ATAACTTTGC
*
10727763 ATGCAAATGATGTG
1 ATGCAAATGATGAG
10727777 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
10727792 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
10727806 ATGCAAA
1 ATGCAAA
10727813 AAAGAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:10731866 original size:24 final size:23
Alignment explanation
Indices: 10731823--10731915 Score: 79
Period size: 24 Copynumber: 4.1 Consensus size: 23
10731813 GTATATATAT
10731823 GTATAAAA-TA-AATAAGTAAATAA
1 GTATAAAAGTATAA-AA-TAAATAA
10731846 GTGATAAAAGTATAAAATAAATAA
1 GT-ATAAAAGTATAAAATAAATAA
* * *
10731870 GTATATAA--ATAATATATATAA
1 GTATAAAAGTATAAAATAAATAA
* *
10731891 -AATAAAAGTATAAAATATATAA
1 GTATAAAAGTATAAAATAAATAA
10731913 GTA
1 GTA
10731916 AGTGAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.19
22 12 0.21
23 8 0.14
24 15 0.26
25 4 0.07
26 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
GTATAAAAGTATAAAATAAATAA
Found at i:10731871 original size:15 final size:15
Alignment explanation
Indices: 10731823--10731915 Score: 81
Period size: 15 Copynumber: 6.2 Consensus size: 15
10731813 GTATATATAT
10731823 GTATAAAATAAATAA
1 GTATAAAATAAATAA
10731838 GTA-AATAAGTGATAA-AA
1 GTATAA-AA-T-A-AATAA
10731855 GTATAAAATAAATAA
1 GTATAAAATAAATAA
10731870 GTATATAAAT-AATATA
1 GTATA-AAATAAATA-A
10731886 -TATAAAAT-AA-AA
1 GTATAAAATAAATAA
*
10731898 GTATAAAATATATAA
1 GTATAAAATAAATAA
10731913 GTA
1 GTA
10731916 AGTGAATAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
12 1 0.02
13 9 0.14
14 11 0.17
15 26 0.39
16 7 0.11
17 8 0.12
18 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
GTATAAAATAAATAA
Found at i:10731899 original size:43 final size:44
Alignment explanation
Indices: 10731849--10731954 Score: 153
Period size: 43 Copynumber: 2.4 Consensus size: 44
10731839 TAAATAAGTG
10731849 ATAAAAGTATAAAATAAATAAGTATA-TAAATAATATATA-TAAA
1 ATAAAAGTATAAAATAAATAAGTA-AGTAAATAATATATATTAAA
* * *
10731892 ATAAAAGTATAAAATATATAAGTAAGTGAATAATATATATTTGAA
1 ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATA-TTAAA
10731937 ATAAAAGTATAAAATAAA
1 ATAAAAGTATAAAATAAA
10731955 CGAAGTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 35 0.62
45 20 0.36
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (44 bp):
ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATATTAAA
Found at i:10734373 original size:20 final size:20
Alignment explanation
Indices: 10734350--10734391 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10734340 TCCATTCAAC
10734350 CAAACACAAGAATACTATTA
1 CAAACACAAGAATACTATTA
*
10734370 CAAACACACGAATACTATTA
1 CAAACACAAGAATACTATTA
10734390 CA
1 CA
10734392 GTTATATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (20 bp):
CAAACACAAGAATACTATTA
Found at i:10737374 original size:18 final size:18
Alignment explanation
Indices: 10737351--10737428 Score: 89
Period size: 18 Copynumber: 4.7 Consensus size: 18
10737341 CCACCACCAA
10737351 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
10737369 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
* *
10737387 CTCCA-T-----TACTTA
1 CTCCACTAGCCACACTTG
10737399 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
10737417 CTCCACTA-CCAC
1 CTCCACTAGCCAC
10737429 TTGTACCTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 9 0.18
13 1 0.02
17 5 0.10
18 35 0.70
ACGTcount: A:0.23, C:0.45, G:0.08, T:0.24
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:10737403 original size:30 final size:30
Alignment explanation
Indices: 10737364--10737421 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10737354 CACTAGCCAC
*
10737364 ACTTGCTCCACTAGCCACACTTGCTCCATT
1 ACTTACTCCACTAGCCACACTTGCTCCATT
10737394 ACTTACTCCACTAGCCACACTTGCTCCA
1 ACTTACTCCACTAGCCACACTTGCTCCA
10737422 CTACCACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.41, G:0.09, T:0.28
Consensus pattern (30 bp):
ACTTACTCCACTAGCCACACTTGCTCCATT
Found at i:10740403 original size:24 final size:23
Alignment explanation
Indices: 10740355--10740406 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
10740345 CTTTTTTTGT
*
10740355 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
10740378 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
10740402 TATTA
1 TATTA
10740407 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:10740566 original size:25 final size:25
Alignment explanation
Indices: 10740361--10740596 Score: 123
Period size: 25 Copynumber: 9.5 Consensus size: 25
10740351 TTGTTATTAT
* * *
10740361 TATATTTCTTAATATTATATTATATA
1 TATATTT-TTTATACTATATTATGTA
*
10740387 TATATTCTTTTA-A-TATATTA-G-G
1 TATATT-TTTTATACTATATTATGTA
* ** * *
10740409 TATATTCTAAATTCTATATTACGTA
1 TATATTTTTTATACTATATTATGTA
* * *
10740434 TATATATATTATACTATTTTATGTA
1 TATATTTTTTATACTATATTATGTA
* * *
10740459 TATATCTTTAATACTATATTATTTA
1 TATATTTTTTATACTATATTATGTA
*
10740484 TATATATATTTT-TACATGTTATCTTATGTA
1 TATAT-T-TTTTATAC----TATATTATGTA
*
10740514 TATA--TTTTA-ATTATATTATGTA
1 TATATTTTTTATACTATATTATGTA
*
10740536 TGTATTTTTTATACTATATTATGTA
1 TATATTTTTTATACTATATTATGTA
* * * *
10740561 CATATTTTTAATA-T-TATCACGTA
1 TATATTTTTTATACTATATTATGTA
*
10740584 TTTATTTTTTATA
1 TATATTTTTTATA
10740597 TATGTACATA
Statistics
Matches: 158, Mismatches: 37, Indels: 33
0.69 0.16 0.14
Matches are distributed among these distances:
21 2 0.01
22 19 0.12
23 24 0.15
24 14 0.09
25 65 0.41
26 17 0.11
27 4 0.03
30 13 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATTTTTTATACTATATTATGTA
Found at i:10740576 original size:20 final size:20
Alignment explanation
Indices: 10740551--10740609 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
10740541 TTTTTATACT
10740551 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
10740571 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
10740594 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
10740610 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:10744622 original size:14 final size:15
Alignment explanation
Indices: 10744600--10744647 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
10744590 AAAATTATTG
10744600 ATATATTATATTTTT
1 ATATATTATATTTTT
10744615 AT-TATTATTAGTATTTT
1 ATATATTA-TA-T-TTTT
10744632 ATATATTATATTTTT
1 ATATATTATATTTTT
10744647 A
1 A
10744648 AAAAATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.17
15 9 0.31
16 2 0.07
17 8 0.28
18 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
ATATATTATATTTTT
Found at i:10748396 original size:50 final size:50
Alignment explanation
Indices: 10748321--10748470 Score: 248
Period size: 50 Copynumber: 3.0 Consensus size: 50
10748311 CCATGGAAAC
10748321 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
10748371 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
10748421 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
10748471 CAACTCAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 89 0.98
51 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:10748683 original size:31 final size:31
Alignment explanation
Indices: 10748477--10748676 Score: 301
Period size: 31 Copynumber: 6.5 Consensus size: 31
10748467 ATGACAACTC
*
10748477 AAAAATGGTAGCTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
10748508 AAAAGTGGTAGTTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* *
10748539 AAAAGTGGTAGCTTCTGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
10748570 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* *
10748601 AAAAGTGGTAGCTCCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* **
10748632 AAAAATGGTAGCACCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
10748663 AATAGTGGTAGCTT
1 AAAAGTGGTAGCTT
10748677 TGGCTACAAG
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
Found at i:10748694 original size:7 final size:7
Alignment explanation
Indices: 10748682--10748710 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10748672 AGCTTTGGCT
10748682 ACAAGTG
1 ACAAGTG
10748689 ACAAGTG
1 ACAAGTG
10748696 ACAAGTG
1 ACAAGTG
10748703 ACAAGTG
1 ACAAGTG
10748710 A
1 A
10748711 TTTCTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:10748786 original size:47 final size:47
Alignment explanation
Indices: 10748717--10748839 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
10748707 GTGATTTCTA
* * *
10748717 TATAATACCATATCTGGGATATGGCATCGGTGTGATATATG-CTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTAC-G
* * *
10748764 TATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTACG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACG
* * *
10748811 TGTAAGACCATAACTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
10748840 TTGTGTAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 62 0.95
48 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACG
Found at i:10759285 original size:19 final size:19
Alignment explanation
Indices: 10759261--10759305 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
10759251 ATGAATAAGT
10759261 GTTGAATGCTTGTTAAGAG
1 GTTGAATGCTTGTTAAGAG
10759280 GTTGAATGCTTGTTAAGAG
1 GTTGAATGCTTGTTAAGAG
10759299 GTTGAAT
1 GTTGAAT
10759306 TGAATACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (19 bp):
GTTGAATGCTTGTTAAGAG
Found at i:10771017 original size:19 final size:20
Alignment explanation
Indices: 10770989--10771027 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10770979 TCCCATTATT
10770989 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
10771008 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
10771028 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:10771045 original size:25 final size:23
Alignment explanation
Indices: 10771008--10771053 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
10770998 TTTGTTTTAA
*
10771008 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
10771031 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
10771054 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:10771994 original size:30 final size:30
Alignment explanation
Indices: 10771960--10772022 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
10771950 ACTTAACAAG
10771960 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
10771990 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
10772020 CAA
1 CAA
10772023 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:10788418 original size:22 final size:23
Alignment explanation
Indices: 10788393--10788451 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
10788383 CAACCAAATC
10788393 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
10788415 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
10788438 ACA-TCATCACATAT
1 A-ATTCAT-ACATAT
10788452 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:10793099 original size:37 final size:37
Alignment explanation
Indices: 10793057--10793225 Score: 198
Period size: 37 Copynumber: 4.6 Consensus size: 37
10793047 ATAATACTCG
*
10793057 ATTGAGCTTTATTCAGTATATCGATAGATATCGCTCA
1 ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
* * *
10793094 GTTGAGCTTTATTTAGTATATTC-ATAGATTTCTCTCA
1 ATTGAGCTTTATTCAGTATA-TCGATAGATTTCGCTCA
* * * **
10793131 ATTGAGATTTATTCAGTATATCCATATATTTTTCTCA
1 ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
10793168 ATTGAGCTTTATTCAGTATATCCG-TAGATTTCGCTCA
1 ATTGAGCTTTATTCAGTATAT-CGATAGATTTCGCTCA
* * *
10793205 CTTAAACTTTATTCAGTATAT
1 ATTGAGCTTTATTCAGTATAT
10793226 TAGTAGATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
36 2 0.02
37 107 0.96
38 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (37 bp):
ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
Found at i:10814912 original size:70 final size:66
Alignment explanation
Indices: 10814781--10814912 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 66
10814771 ATATATAATA
* ** *
10814781 TAATGGTTTTGTCTTTTAACTTAATTAGTAAACTTTATCAAAACAATGTAGTTTTAACTTTTAAC
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACTTTATCAAAACAACGTAGTTTTAACTTTTAAC
10814846 T
66 T
** *
10814847 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGACGTAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAAC-TTTATCAAAACAACGTAGTTTTAACTTT
10814912 T
62 T
10814913 CTTATTTGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 19 0.35
67 3 0.05
68 2 0.04
69 6 0.11
70 25 0.45
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (66 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACTTTATCAAAACAACGTAGTTTTAACTTTTAAC
T
Found at i:10817566 original size:18 final size:20
Alignment explanation
Indices: 10817543--10817588 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
10817533 TTTACAAGGG
10817543 TTTAATTTATATTT-GA-AA
1 TTTAATTTATATTTAGAGAA
* *
10817561 TTTAATATATTTTTAGAGAA
1 TTTAATTTATATTTAGAGAA
10817581 TTTAATTT
1 TTTAATTT
10817589 TTGTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTAATTTATATTTAGAGAA
Found at i:10822213 original size:26 final size:26
Alignment explanation
Indices: 10822181--10822230 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
10822171 TAACTCAAAC
*
10822181 AATTTCACTTGATTCGACTTGACTCA
1 AATTTCACTTCATTCGACTTGACTCA
*
10822207 AATTTCATTTCATTCGACTTGACT
1 AATTTCACTTCATTCGACTTGACT
10822231 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTCACTTCATTCGACTTGACTCA
Found at i:10828253 original size:2 final size:2
Alignment explanation
Indices: 10828246--10828317 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
10828236 TTGATTTGGT
* * *
10828246 TG TG TG TG TA TA TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10828288 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10828318 CAAATGGCCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10830929 original size:27 final size:27
Alignment explanation
Indices: 10830898--10830949 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
10830888 AGAAGAATGG
10830898 GCAACTTATTGTATTAGAAGGGACTGT
1 GCAACTTATTGTATTAGAAGGGACTGT
10830925 GCAACTTATTGTATTAGAAGGGACT
1 GCAACTTATTGTATTAGAAGGGACT
10830950 ATCCAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCAACTTATTGTATTAGAAGGGACTGT
Found at i:10832640 original size:12 final size:12
Alignment explanation
Indices: 10832623--10832648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10832613 GATAAAATAT
10832623 TTAAATTCAAAA
1 TTAAATTCAAAA
10832635 TTAAATTCAAAA
1 TTAAATTCAAAA
10832647 TT
1 TT
10832649 TAAAAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAATTCAAAA
Found at i:10833618 original size:61 final size:61
Alignment explanation
Indices: 10833529--10833645 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
10833519 AATTAATCAC
10833529 ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCATAT
1 ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCATAT
* * *
10833590 ATTAATATTAAATTAATAAAAT-TCTATCTAGATAAATATTTAATTTAATTTAATAT
1 ATTAATATCAAATAAATAAAATAT-TATCTAGATAAATATTAAATTTAATTTAATAT
10833646 TAAATTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCATAT
Found at i:10835133 original size:87 final size:87
Alignment explanation
Indices: 10834989--10835461 Score: 793
Period size: 87 Copynumber: 5.4 Consensus size: 87
10834979 AGATCTGTTA
* * *
10834989 TCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
10835054 CGTGAAAGCCAAATCAGCTATA
66 CGTGAAAGCCAAATCAGCTATG
10835076 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
**
10835141 CGTGAAAAACAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
10835163 TCCTCGATCTGCACCCTGCCAATACATAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
10835228 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
10835250 TCTTCGATCTGCTCCTTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACG
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
10835315 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
10835337 TCTTCGATCTGCCCCCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
10835402 CATGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
10835424 TCCTCGATCTGCTCTCTGCCAATACAGAGACGCCAAAT
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAAT
10835462 TTGTTGTCTT
Statistics
Matches: 360, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 360 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:10835476 original size:44 final size:44
Alignment explanation
Indices: 10835427--10835594 Score: 273
Period size: 44 Copynumber: 3.8 Consensus size: 44
10835417 AGCTATGTCC
* *
10835427 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATTTGTTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
**
10835471 TCGATCTGCTCTCTGCCAATACAGAGATACCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
* *
10835515 TCGATCTGCTCTCTGCCAATATAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
*
10835559 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATC
10835595 ATCTTGGATT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 115 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
Found at i:10836574 original size:1 final size:1
Alignment explanation
Indices: 10836563--10836632 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
10836553 GGCCTCTCCA
* * * * * * * * *
10836563 TTTTTTCTTTTTTCTTTTTTTTTTTCTTTTTTCTTTTTTTTCTCTTTTTCTTTTATTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10836628 TTTTT
1 TTTTT
10836633 GAAATAGAAG
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:10836586 original size:18 final size:18
Alignment explanation
Indices: 10836563--10836632 Score: 92
Period size: 17 Copynumber: 4.0 Consensus size: 18
10836553 GGCCTCTCCA
10836563 TTTTTTCTTTTTTCTTTTT
1 TTTTTTCTTTTTTC-TTTT
10836582 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCTTTT
*
10836600 TTTTCTC-TTTTTC-TTT
1 TTTTTTCTTTTTTCTTTT
*
10836616 TATTTTCTTTTTT-TTTT
1 TTTTTTCTTTTTTCTTTT
10836633 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.17
17 14 0.30
18 10 0.22
19 14 0.30
ACGTcount: A:0.01, C:0.11, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTTTT
Found at i:10836587 original size:19 final size:19
Alignment explanation
Indices: 10836563--10836631 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
10836553 GGCCTCTCCA
10836563 TTTTTTCTTTTTTCTTTTT
1 TTTTTTCTTTTTTCTTTTT
10836582 TTTTTTCTTTTTTC-TTTT
1 TTTTTTCTTTTTTCTTTTT
*
10836600 TTTTCTC-TTTTTCTTTTAT
1 TTTTTTCTTTTTTCTTTT-T
10836619 TTTCTTT-TTTTTT
1 TTT-TTTCTTTTTT
10836632 TGAAATAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 6 0.14
18 13 0.30
19 18 0.41
20 7 0.16
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTTTT
Found at i:10836628 original size:7 final size:7
Alignment explanation
Indices: 10836563--10836616 Score: 67
Period size: 7 Copynumber: 7.6 Consensus size: 7
10836553 GGCCTCTCCA
10836563 TTTTTTC
1 TTTTTTC
10836570 TTTTTTC
1 TTTTTTC
10836577 -TTTTT-
1 TTTTTTC
10836582 TTTTTTC
1 TTTTTTC
10836589 TTTTTTC
1 TTTTTTC
10836596 TTTTTTTTC
1 --TTTTTTC
10836605 TCTTTTTC
1 T-TTTTTC
10836613 TTTT
1 TTTT
10836617 ATTTTCTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
6 10 0.24
7 18 0.43
8 7 0.17
9 7 0.17
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:10843274 original size:35 final size:35
Alignment explanation
Indices: 10843235--10843304 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
10843225 ATAGGGAGAG
10843235 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
1 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
10843270 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
1 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
10843305 TTCCCAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (35 bp):
AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
Found at i:10843444 original size:21 final size:23
Alignment explanation
Indices: 10843418--10843462 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10843408 AAAAGGTATC
*
10843418 TACAAATTAA-ATC-TCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
10843439 TACAAAATAATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
10843462 T
1 T
10843463 GCATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TACAAAATAATATCTTCTAAGAT
Found at i:10843478 original size:19 final size:19
Alignment explanation
Indices: 10843454--10843558 Score: 175
Period size: 17 Copynumber: 5.8 Consensus size: 19
10843444 AATAATATCT
10843454 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10843473 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
10843491 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
10843508 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10843527 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
10843544 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
10843559 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
17 33 0.41
18 16 0.20
19 32 0.40
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10843532 original size:36 final size:36
Alignment explanation
Indices: 10843454--10843558 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
10843444 AATAATATCT
10843454 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCATATCATA
10843491 TCTAAGATTGTATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCATA
10843527 TCTAAGATTGTATCATATCTAAGATTGCATAT
1 TCTAAGATTGTATCATATCTAAGATTGCATAT
10843559 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 19 0.28
36 38 0.57
37 10 0.15
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCATA
Found at i:10843805 original size:42 final size:43
Alignment explanation
Indices: 10843746--10843855 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
10843736 GGCTATTACA
*
10843746 GGGTGTATACTTTCTTCCTTAACATTGAGCG-ACTCTAATATC
1 GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
*
10843788 GGGTGTATACTTTCTTCCTTAACATTGGGCGAACTCCAATATC
1 GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
*
10843831 GGGTGTATACTTTATTCCTTAACAT
1 GGGTGTATACTTTCTTCCTTAACAT
10843856 CGGGGGGATG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (43 bp):
GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
Found at i:10845223 original size:20 final size:20
Alignment explanation
Indices: 10845178--10845224 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10845168 CCAAACACAA
10845178 AACCAAAAACCTAACACTTC
1 AACCAAAAACCTAACACTTC
** *
10845198 -ACCAAAAGGCTAACCCTTC
1 AACCAAAAACCTAACACTTC
10845217 AACCAAAA
1 AACCAAAA
10845225 TCAAGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (20 bp):
AACCAAAAACCTAACACTTC
Found at i:10853160 original size:21 final size:20
Alignment explanation
Indices: 10853102--10853173 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
10853092 AGTGGACAGC
*
10853102 TGTTGCT-TTGCT-TGCTGC
1 TGTTGCTGTTGCTGTGCTGT
* *
10853120 TGTTGCTGCTGCTGCCGCTGT
1 TGTTGCTGTTGCTG-TGCTGT
10853141 TGTTGCTGTTGCTGATGCTGT
1 TGTTGCTGTTGCTG-TGCTGT
*
10853162 TGTTGTTGTTGC
1 TGTTGCTGTTGC
10853174 AGTAGCTGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.16
19 4 0.09
21 33 0.75
ACGTcount: A:0.01, C:0.19, G:0.32, T:0.47
Consensus pattern (20 bp):
TGTTGCTGTTGCTGTGCTGT
Found at i:10853162 original size:18 final size:18
Alignment explanation
Indices: 10853100--10853169 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
10853090 TGAGTGGACA
10853100 GCTGTTGCT-TTGCTTGCT
1 GCTGTTGCTGTTGC-TGCT
*
10853118 GCTGTTGCTGCTGCTGCCGCT
1 GCTGTTGCTG-T--TGCTGCT
* *
10853139 GTTGTTGCTGTTGCTGAT
1 GCTGTTGCTGTTGCTGCT
*
10853157 GCTGTTGTTGTTG
1 GCTGTTGCTGTTG
10853170 TTGCAGTAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 25 0.60
20 2 0.05
21 12 0.29
22 3 0.07
ACGTcount: A:0.01, C:0.20, G:0.33, T:0.46
Consensus pattern (18 bp):
GCTGTTGCTGTTGCTGCT
Found at i:10856719 original size:3 final size:3
Alignment explanation
Indices: 10856713--10856746 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
10856703 GAGCCATTAA
*
10856713 CTG CTG CTG CTG CTG CTG CTG CTG CTG TTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
10856747 ATATTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.35
Consensus pattern (3 bp):
CTG
Found at i:10857289 original size:6 final size:6
Alignment explanation
Indices: 10857278--10857309 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
10857268 GTATAACTGC
10857278 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TG
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TG
10857310 TGGAAGCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (6 bp):
TGCTGT
Found at i:10859611 original size:59 final size:59
Alignment explanation
Indices: 10859544--10859664 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
10859534 AAAATAGAAC
10859544 AGTCACAAAACTTCCAGATTAATTGTTTTGTCGTAAATTATAGATCAAGAAAAAGAAAA
1 AGTCACAAAACTTCCAGATTAATTGTTTTGTCGTAAATTATAGATCAAGAAAAAGAAAA
10859603 AGTCACAAAACTTCCAGATTAATTGTTTTGTCGTAAATTATAGATCAAGAAAAAGAAAA
1 AGTCACAAAACTTCCAGATTAATTGTTTTGTCGTAAATTATAGATCAAGAAAAAGAAAA
10859662 AGT
1 AGT
10859665 AAGTTTGGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (59 bp):
AGTCACAAAACTTCCAGATTAATTGTTTTGTCGTAAATTATAGATCAAGAAAAAGAAAA
Found at i:10861287 original size:26 final size:24
Alignment explanation
Indices: 10861258--10861306 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10861248 TTCATTTTAT
10861258 ATTTAATCTCAATATATTTTTTGGGA
1 ATTTAATCTC--TATATTTTTTGGGA
* *
10861284 ATTTATTCTCTTTATTTTTTGGG
1 ATTTAATCTCTATATTTTTTGGG
10861307 TTTAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.57
Consensus pattern (24 bp):
ATTTAATCTCTATATTTTTTGGGA
Done.