Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 95 of 106
Found at i:20059800 original size:29 final size:29
Alignment explanation
Indices: 20059768--20059830 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
20059758 TATTTTTGAG
* * *
20059768 AATTTAATTTTTTTAGTATTATTTTAAAA
1 AATTTAATCTTTATAATATTATTTTAAAA
**
20059797 AATTTAATCTTTATAATATTATTTTTTAA
1 AATTTAATCTTTATAATATTATTTTAAAA
20059826 AATTT
1 AATTT
20059831 TTAATTCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
AATTTAATCTTTATAATATTATTTTAAAA
Found at i:20059903 original size:15 final size:15
Alignment explanation
Indices: 20059885--20059968 Score: 57
Period size: 15 Copynumber: 5.7 Consensus size: 15
20059875 AATAATATTA
20059885 TAAAATTAAATTTTT
1 TAAAATTAAATTTTT
* * *
20059900 TAAAAAT-AATATTA
1 TAAAATTAAATTTTT
*
20059914 TAAAGATTACATTCTTT
1 TAAA-ATTAAATT-TTT
* *
20059931 T-AAATTATA-TTAT
1 TAAAATTAAATTTTT
*
20059944 AAAAATTAAATTTTT
1 TAAAATTAAATTTTT
*
20059959 AAAAATTAAA
1 TAAAATTAAA
20059969 AATACAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
13 2 0.04
14 17 0.33
15 26 0.50
16 4 0.08
17 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (15 bp):
TAAAATTAAATTTTT
Found at i:20059908 original size:29 final size:29
Alignment explanation
Indices: 20059861--20059964 Score: 124
Period size: 29 Copynumber: 3.6 Consensus size: 29
20059851 ATACATAGAC
*
20059861 TAAATTTTTAAAAAAATAATATTATAAAAT
1 TAAATTTTT-TAAAAATAATATTATAAAAT
20059891 TAAATTTTTTAAAAATAATATTATAAAGAT
1 TAAATTTTTTAAAAATAATATTATAAA-AT
* *
20059921 TACATTCTTTT--AAATTATATTATAAAAAT
1 TAAATT-TTTTAAAAATAATATTAT-AAAAT
20059950 TAAA-TTTTTAAAAAT
1 TAAATTTTTTAAAAAT
20059965 TAAAAATACA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.06
28 1 0.02
29 37 0.57
30 19 0.29
31 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
TAAATTTTTTAAAAATAATATTATAAAAT
Found at i:20059977 original size:29 final size:29
Alignment explanation
Indices: 20059861--20059977 Score: 96
Period size: 29 Copynumber: 4.0 Consensus size: 29
20059851 ATACATAGAC
* *
20059861 TAAATTTTTAAAAAAATAATATTATAAAAT
1 TAAATTTTT-AAAAATTAATAATATAAAAT
*
20059891 TAAATTTTTTAAAAA-TAATATTATAAAGAT
1 TAAA-TTTTTAAAAATTAATAATATAAA-AT
* * *
20059921 TACATTCTTT-TAAATT-ATATTATAAAAAT
1 TAAATT-TTTAAAAATTAATAATAT-AAAAT
* *
20059950 TAAATTTTTAAAAATTAAAAATACAAAA
1 TAAATTTTTAAAAATTAATAATATAAAA
20059978 ACTTATGACG
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.04
29 40 0.55
30 25 0.34
31 5 0.07
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
TAAATTTTTAAAAATTAATAATATAAAAT
Found at i:20061517 original size:15 final size:15
Alignment explanation
Indices: 20061497--20061527 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20061487 GATTTTATCA
20061497 ACCTTATCAAATATG
1 ACCTTATCAAATATG
20061512 ACCTTATCAAATATG
1 ACCTTATCAAATATG
20061527 A
1 A
20061528 GAATTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
ACCTTATCAAATATG
Found at i:20064124 original size:42 final size:42
Alignment explanation
Indices: 20064077--20064159 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
20064067 GCCTCACTTA
* ** *
20064077 AACTATTATAGTAAAATAGCAAGTAATTCATATTATTAAGTG
1 AACTATTATAGCAAAATAGCAAGTAAAACATATTATCAAGTG
20064119 AACTATTATAGCAAAATAGCAAGTAAAACATATTATCAAGT
1 AACTATTATAGCAAAATAGCAAGTAAAACATATTATCAAGT
20064160 CGAAGAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (42 bp):
AACTATTATAGCAAAATAGCAAGTAAAACATATTATCAAGTG
Found at i:20065527 original size:11 final size:11
Alignment explanation
Indices: 20065511--20065545 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
20065501 AAAAATTATA
20065511 TATAATATATT
1 TATAATATATT
20065522 TATAATATATT
1 TATAATATATT
* *
20065533 TATGATATTTT
1 TATAATATATT
20065544 TA
1 TA
20065546 AATTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TATAATATATT
Found at i:20066314 original size:21 final size:19
Alignment explanation
Indices: 20066290--20066334 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 19
20066280 TTTGAAATTA
20066290 ATAAAATATTATGTTTTAAAT
1 ATAAAATATTAT-TTTT-AAT
20066311 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTTAAT
20066330 ATAAA
1 ATAAA
20066335 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
20 4 0.17
21 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:20066337 original size:18 final size:19
Alignment explanation
Indices: 20066287--20066337 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
20066277 CAATTTGAAA
20066287 TTAATA-AAATATTATGTT
1 TTAATATAAATATTATGTT
20066305 TTAAATATAAAATATTAT-TT
1 TT-AATAT-AAATATTATGTT
20066325 TTAATATAAATAT
1 TTAATATAAATAT
20066338 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 4 0.13
21 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATATAAATATTATGTT
Found at i:20066871 original size:27 final size:28
Alignment explanation
Indices: 20066818--20066871 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
20066808 AAATTAGTTT
**
20066818 TATTTCAAATAATAATTTTATTAATAAA
1 TATTTCAAATAATAATTAAATTAATAAA
* *
20066846 TATTTCAAA-ATTAATTAAATTGATAA
1 TATTTCAAATAATAATTAAATTAATAA
20066872 TAATATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (28 bp):
TATTTCAAATAATAATTAAATTAATAAA
Found at i:20081510 original size:22 final size:22
Alignment explanation
Indices: 20081485--20081527 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20081475 ATCTTAAAAT
20081485 TAATTATTAT-TATTTTAAATTG
1 TAATTATTATAT-TTTTAAATTG
*
20081507 TAATTTTTATATTTTTAAATT
1 TAATTATTATATTTTTAAATT
20081528 AATATTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATTATATTTTTAAATTG
Found at i:20090952 original size:20 final size:19
Alignment explanation
Indices: 20090919--20090971 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
20090909 AAAAAATTAT
*
20090919 TTTTA-ATTATTTATTTAA
1 TTTTATATTATTTATATAA
*
20090937 TTTTATATTCATTTATATAT
1 TTTTATATT-ATTTATATAA
20090957 TTTTATATATATTTA
1 TTTTATAT-TATTTA
20090972 ATTTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 3 0.10
20 21 0.70
21 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATTATTTATATAA
Found at i:20090961 original size:10 final size:10
Alignment explanation
Indices: 20090938--20090984 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
20090928 TTTATTTAAT
20090938 TTTATAT-TCA
1 TTTATATAT-A
*
20090948 TTTATATATT
1 TTTATATATA
20090958 TTTATATATA
1 TTTATATATA
*
20090968 TTTAATTTATA
1 TTT-ATATATA
20090979 TTTATA
1 TTTATA
20090985 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 21 0.68
11 10 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATATATA
Found at i:20091003 original size:21 final size:21
Alignment explanation
Indices: 20090979--20091030 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
20090969 TTAATTTATA
20090979 TTTATAA-TAAAAAATAAATAT
1 TTTATAATTAAAAAAT-AATAT
*
20091000 TTTA-AATTTTAAAAATAATAT
1 TTTATAA-TTAAAAAATAATAT
20091021 TTTATTAATT
1 TTTA-TAATT
20091031 TAAGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 9 0.35
23 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATAATTAAAAAATAATAT
Found at i:20101110 original size:2 final size:2
Alignment explanation
Indices: 20101105--20101129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20101095 TTTTTTGCTA
20101105 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20101130 AACAATTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20105348 original size:2 final size:2
Alignment explanation
Indices: 20105341--20105373 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
20105331 TCGCACCCCA
*
20105341 TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20105374 TCTTTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:20113555 original size:41 final size:41
Alignment explanation
Indices: 20113510--20113589 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
20113500 CTTTTGATCT
* *
20113510 TATTTAACAGAAGGTTTTGTTTGCAGTTATTTCTTTCTCCA
1 TATTTAACAGAAGATTTTGTTTGCAGGTATTTCTTTCTCCA
*
20113551 TATTTAACAGAAGATTTTTTTTGCAGGTATTTCTTTCTC
1 TATTTAACAGAAGATTTTGTTTGCAGGTATTTCTTTCTC
20113590 TACTACAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (41 bp):
TATTTAACAGAAGATTTTGTTTGCAGGTATTTCTTTCTCCA
Found at i:20116860 original size:231 final size:231
Alignment explanation
Indices: 20116457--20116921 Score: 885
Period size: 231 Copynumber: 2.0 Consensus size: 231
20116447 GTTTCAATTT
20116457 TTTTATCCTAACTCACAAAAATGCTGGGCTTTGCCTTGAATCTCATAATCCACATTGAAATTTAA
1 TTTTATCCTAACTCACAAAAATGCTGGGCTTTGCCTTGAATCTCATAATCCACATTGAAATTTAA
*
20116522 GTGAAATTATAAGAGTTCGAGTTTATTTTGTATTTCATATTGGGAGTTTAGTAAAGGTATAAAGA
66 GTGAAATTATAAGAGTTCGAGTTTATTTTGTATTTCATATTGAGAGTTTAGTAAAGGTATAAAGA
20116587 GTTTCACTCTTATAAATAAGATGTTTTGGTTTTGATTTGGTAATCCCAAATAGTTAGACACCAAG
131 GTTTCACTCTTATAAATAAGATGTTTTGGTTTTGATTTGGTAATCCCAAATAGTTAGACACCAAG
*
20116652 AGAATAGCTAAATGAGTAGGCTATTAAAATGATGTA
196 AGAATAGCTAAATGAATAGGCTATTAAAATGATGTA
20116688 TTTTATCCTAACTCACAAAAATGCTGGGCTTTGCCTTGAATCTCATAATCCACATTGAAATTTAA
1 TTTTATCCTAACTCACAAAAATGCTGGGCTTTGCCTTGAATCTCATAATCCACATTGAAATTTAA
* *
20116753 GTGAAATTATAAGAGTTCGAGTTTATTTTGTATTTCATATTGAGATTTTAGTAAAGGTATAAAGG
66 GTGAAATTATAAGAGTTCGAGTTTATTTTGTATTTCATATTGAGAGTTTAGTAAAGGTATAAAGA
20116818 GTTTCACTCTTATAAATAAGATGTTTTGGTTTTGATTTGGTAATCCCAAATAGTTAGACACCAAG
131 GTTTCACTCTTATAAATAAGATGTTTTGGTTTTGATTTGGTAATCCCAAATAGTTAGACACCAAG
*
20116883 AGAATAGCTAAATGAATAGGCTATTAAAATGGTGTA
196 AGAATAGCTAAATGAATAGGCTATTAAAATGATGTA
20116919 TTT
1 TTT
20116922 GATTTTTGGA
Statistics
Matches: 229, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 229 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (231 bp):
TTTTATCCTAACTCACAAAAATGCTGGGCTTTGCCTTGAATCTCATAATCCACATTGAAATTTAA
GTGAAATTATAAGAGTTCGAGTTTATTTTGTATTTCATATTGAGAGTTTAGTAAAGGTATAAAGA
GTTTCACTCTTATAAATAAGATGTTTTGGTTTTGATTTGGTAATCCCAAATAGTTAGACACCAAG
AGAATAGCTAAATGAATAGGCTATTAAAATGATGTA
Found at i:20118403 original size:8 final size:8
Alignment explanation
Indices: 20118392--20118421 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
20118382 TTAATATGAA
20118392 TATATAAT
1 TATATAAT
20118400 TATATAAT
1 TATATAAT
*
20118408 TATATAAA
1 TATATAAT
20118416 TATATA
1 TATATA
20118422 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TATATAAT
Found at i:20126207 original size:28 final size:27
Alignment explanation
Indices: 20126175--20126262 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 27
20126165 AGGACAAGTT
20126175 AGACTGAACCCAATAAACCGACACGAAG
1 AGACTGAACCCAA-AAACCGACACGAAG
* ** *
20126203 AGACT-AACTCAAAGGCCAAGGACACGTA-
1 AGACTGAACCCAAAAACC---GACACGAAG
*
20126231 AGACTGAACCCAAGAAACCCACACGAAG
1 AGACTGAACCCAA-AAACCGACACGAAG
20126259 AGAC
1 AGAC
20126263 CAGTCCATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
26 3 0.07
27 12 0.27
28 14 0.31
29 13 0.29
30 3 0.07
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.07
Consensus pattern (27 bp):
AGACTGAACCCAAAAACCGACACGAAG
Found at i:20126217 original size:56 final size:56
Alignment explanation
Indices: 20126151--20126262 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
20126141 TTGGACCCAA
* * *
20126151 TAACTAAAAGGCCAAGGACAAGTTAGACTGAACCCAATAAACCGACACGAAGAGAC
1 TAACTAAAAGGCCAAGGACAAGTAAGACTGAACCCAAGAAACCCACACGAAGAGAC
* *
20126207 TAACTCAAAGGCCAAGGACACGTAAGACTGAACCCAAGAAACCCACACGAAGAGAC
1 TAACTAAAAGGCCAAGGACAAGTAAGACTGAACCCAAGAAACCCACACGAAGAGAC
20126263 CAGTCCATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.09
Consensus pattern (56 bp):
TAACTAAAAGGCCAAGGACAAGTAAGACTGAACCCAAGAAACCCACACGAAGAGAC
Found at i:20129815 original size:21 final size:21
Alignment explanation
Indices: 20129768--20129825 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
20129758 TATTATTAGC
* * * *
20129768 AATAATAGTATTAATATTATT
1 AATAATAGTAGTAGTAGTAAT
*
20129789 ATTAATAGTAGTAGTAGTAAT
1 AATAATAGTAGTAGTAGTAAT
20129810 AATAATAGTAGTAGTA
1 AATAATAGTAGTAGTA
20129826 ATATGTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
AATAATAGTAGTAGTAGTAAT
Found at i:20129818 original size:18 final size:18
Alignment explanation
Indices: 20129791--20129828 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20129781 ATATTATTAT
*
20129791 TAATAGTAGTAGTAGTAA
1 TAATAATAGTAGTAGTAA
20129809 TAATAATAGTAGTAGTAA
1 TAATAATAGTAGTAGTAA
20129827 TA
1 TA
20129829 TGTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (18 bp):
TAATAATAGTAGTAGTAA
Found at i:20141726 original size:21 final size:20
Alignment explanation
Indices: 20141701--20141740 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
20141691 ATATGATTTA
20141701 AAATTTAATAAAATTATAAAT
1 AAATTTAATAAAATT-TAAAT
20141722 AAATTTAATAAAATTTAAA
1 AAATTTAATAAAATTTAAA
20141741 AATTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTAATAAAATTTAAAT
Found at i:20141733 original size:9 final size:10
Alignment explanation
Indices: 20141699--20141739 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
20141689 TAATATGATT
20141699 TAAAATTTAA
1 TAAAATTTAA
20141709 TAAAATTATAA
1 TAAAATT-TAA
20141720 -ATAAATTTAA
1 TA-AAATTTAA
20141730 TAAAATTTAA
1 TAAAATTTAA
20141740 AAATTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATTTAA
Found at i:20144267 original size:20 final size:20
Alignment explanation
Indices: 20144242--20144288 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
20144232 GATCGTATTT
20144242 TTAAAATAATTATTTAATTA
1 TTAAAATAATTATTTAATTA
** *
20144262 TTAAAATTTTTATTTAGTTA
1 TTAAAATAATTATTTAATTA
*
20144282 CTAAAAT
1 TTAAAAT
20144289 TTAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAAAATAATTATTTAATTA
Found at i:20144289 original size:20 final size:20
Alignment explanation
Indices: 20144251--20144290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20144241 TTTAAAATAA
*
20144251 TTATTTAATTATTAAAATTT
1 TTATTTAATTACTAAAATTT
*
20144271 TTATTTAGTTACTAAAATTT
1 TTATTTAATTACTAAAATTT
20144291 AAATAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTATTTAATTACTAAAATTT
Found at i:20145910 original size:23 final size:24
Alignment explanation
Indices: 20145880--20145931 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
20145870 AAAATTGTAG
20145880 ATATTAAAAT-TTAAATTTTAA-AT
1 ATATTAAAATGTT-AATTTTAAGAT
20145903 ATATT-AAATGTTAATTTTAAGAT
1 ATATTAAAATGTTAATTTTAAGAT
*
20145926 AGATTA
1 ATATTA
20145932 CATAAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
ATATTAAAATGTTAATTTTAAGAT
Found at i:20148831 original size:28 final size:28
Alignment explanation
Indices: 20148753--20148831 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
20148743 ATAAAATAGA
* * *
20148753 TAAATAATCACTTAATTTTATAATTTATT
1 TAAATAATCATTTAAATAT-TAATTTATT
* *
20148782 TAAATAATTATTTAAGTATTAATTT-TT
1 TAAATAATCATTTAAATATTAATTTATT
20148809 TAAATTTAATCATTTAAAT-TTAA
1 TAAA--TAATCATTTAAATATTAA
20148832 GTAAATGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
27 6 0.14
28 10 0.24
29 26 0.62
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (28 bp):
TAAATAATCATTTAAATATTAATTTATT
Found at i:20149651 original size:14 final size:14
Alignment explanation
Indices: 20149622--20149662 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
20149612 GAACAGTACC
* *
20149622 AAATTTTTTATTAA
1 AAATATTTTAATAA
20149636 AAATA-TTTAATAA
1 AAATATTTTAATAA
20149649 AAATATTTTAATAA
1 AAATATTTTAATAA
20149663 GATTCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATATTTTAATAA
Found at i:20152934 original size:38 final size:38
Alignment explanation
Indices: 20152883--20152960 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
20152873 ATGTTGAATT
20152883 TAGAATATGGTTTCAATAGTTATGTCATGGAATAAAAG
1 TAGAATATGGTTTCAATAGTTATGTCATGGAATAAAAG
20152921 TAGAATATGGTTTCAATAGTTATGTCATGGAATAAAAG
1 TAGAATATGGTTTCAATAGTTATGTCATGGAATAAAAG
20152959 TA
1 TA
20152961 ATGTCCCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (38 bp):
TAGAATATGGTTTCAATAGTTATGTCATGGAATAAAAG
Found at i:20155429 original size:24 final size:23
Alignment explanation
Indices: 20155383--20155466 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
20155373 TAAAATACGA
*
20155383 TATAAAAATAATATATATAAAAAT
1 TATAAAAATAATATA-ATTAAAAT
20155407 TATAAAAATAATATAACTTAAAAT
1 TATAAAAATAATATAA-TTAAAAT
* * *
20155431 TTTAATAAA-ATTATAATTAAATT
1 TATAA-AAATAATATAATTAAAAT
20155454 TAATAAAATATAA
1 T-ATAAAA-ATAA
20155467 AATATATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 10 0.20
24 35 0.71
25 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
TATAAAAATAATATAATTAAAAT
Found at i:20155439 original size:11 final size:11
Alignment explanation
Indices: 20155425--20155462 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20155415 TAATATAACT
20155425 TAAAATTTTAA
1 TAAAATTTTAA
*
20155436 TAAAATTATAA
1 TAAAATTTTAA
*
20155447 TTAAA-TTTAA
1 TAAAATTTTAA
20155457 TAAAAT
1 TAAAAT
20155463 ATAAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:20155501 original size:18 final size:18
Alignment explanation
Indices: 20155390--20155501 Score: 54
Period size: 18 Copynumber: 6.4 Consensus size: 18
20155380 CGATATAAAA
*
20155390 ATAATA-TATATAAAAATT
1 ATAATATTA-ATATAAATT
* * *
20155408 ATAAAAATAATATAACTT
1 ATAATATTAATATAAATT
* *
20155426 AAAATTTTAATA-AAATT
1 ATAATATTAATATAAATT
* *
20155443 ATAAT-TAAAT-TTAA-T
1 ATAATATTAATATAAATT
* * *
20155458 AAAATATAAAATATATATT
1 ATAATAT-TAATATAAATT
* *
20155477 TTTATATTAATATAAATT
1 ATAATATTAATATAAATT
20155495 ATAATAT
1 ATAATAT
20155502 AATTTTTATA
Statistics
Matches: 67, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
15 5 0.07
16 7 0.10
17 12 0.18
18 36 0.54
19 7 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATTAATATAAATT
Found at i:20155501 original size:30 final size:29
Alignment explanation
Indices: 20155453--20155512 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
20155443 ATAATTAAAT
20155453 TTAATAAAATATAAAATATATATTTTTATA
1 TTAATAAAATATAAAATATA-ATTTTTATA
*
20155483 TTAATATAAAT-TATAATATAATTTTTATA
1 TTAATA-AAATATAAAATATAATTTTTATA
20155512 T
1 T
20155513 AAAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.36
30 14 0.50
31 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAATAAAATATAAAATATAATTTTTATA
Found at i:20155519 original size:30 final size:30
Alignment explanation
Indices: 20155434--20155519 Score: 91
Period size: 25 Copynumber: 3.2 Consensus size: 30
20155424 TTAAAATTTT
*
20155434 AATA-AAATTATAAT-TAA-ATTTA-ATAA
1 AATATAAATTATAATATAATTTTTATATAA
*
20155460 AATATAAA--AT-ATAT-ATTTTTATAT-T
1 AATATAAATTATAATATAATTTTTATATAA
20155485 AATATAAATTATAATATAATTTTTATATAA
1 AATATAAATTATAATATAATTTTTATATAA
20155515 AATAT
1 AATAT
20155520 TATATAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
24 3 0.06
25 15 0.31
26 6 0.12
27 5 0.10
28 4 0.08
29 10 0.21
30 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AATATAAATTATAATATAATTTTTATATAA
Found at i:20155561 original size:33 final size:33
Alignment explanation
Indices: 20155516--20155585 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
20155506 TTTATATAAA
*
20155516 ATATTATATAAA-TACATAAATTATTAATATTTT-
1 ATATAATATAAATTA-ATAAATTATTAA-ATTTTC
*
20155549 ATATAATATAAATTATTAAATTATTAAATTTTC
1 ATATAATATAAATTAATAAATTATTAAATTTTC
20155582 ATAT
1 ATAT
20155586 TTATTATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 26 0.79
34 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (33 bp):
ATATAATATAAATTAATAAATTATTAAATTTTC
Found at i:20155570 original size:8 final size:8
Alignment explanation
Indices: 20155532--20155578 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
20155522 TATAAATACA
20155532 TAAATTAT
1 TAAATTAT
20155540 TAATATT-T
1 TAA-ATTAT
* *
20155548 TATATAAT
1 TAAATTAT
20155556 ATAAATTAT
1 -TAAATTAT
20155565 TAAATTAT
1 TAAATTAT
20155573 TAAATT
1 TAAATT
20155579 TTCATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.06
8 21 0.66
9 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TAAATTAT
Found at i:20155925 original size:25 final size:25
Alignment explanation
Indices: 20155890--20155940 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
20155880 CACAAAAAGA
*
20155890 CAAACATGTTTGGTATGGAATAAGC
1 CAAACAAGTTTGGTATGGAATAAGC
20155915 CAAACAAGTTTGGTATGGAATAAGC
1 CAAACAAGTTTGGTATGGAATAAGC
20155940 C
1 C
20155941 CCAAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (25 bp):
CAAACAAGTTTGGTATGGAATAAGC
Found at i:20155989 original size:98 final size:95
Alignment explanation
Indices: 20155872--20156063 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 95
20155862 AAGGTAAATC
20155872 AATAAATTCACAAAAAGACAAACATGTTTGGTATGGAATAAGCCAAACAAGTTTGGTATGGAATA
1 AATAAATTCACAAAAAGACAAACATGTTTGGTATGGAATAAGCCAAACAAGTTTGGTATGGAATA
20155937 AGCCCCAAGAAAATTAAGATTCTTACAAGAATT
66 AGCCCCAAGAAAATT---ATTCTTACAAGAATT
20155970 AATAAATTCACAAAAAGACAAACATGTTTGGTATGGAATAAGCCAAACAAGTTTGGTATGGAATA
1 AATAAATTCACAAAAAGACAAACATGTTTGGTATGGAATAAGCCAAACAAGTTTGGTATGGAATA
20156035 AGCCCCAAGAAAATTATTCTTACAAGAAT
66 AGCCCCAAGAAAATTATTCTTACAAGAAT
20156064 AAACAAATGT
Statistics
Matches: 94, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
95 14 0.15
98 80 0.85
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (95 bp):
AATAAATTCACAAAAAGACAAACATGTTTGGTATGGAATAAGCCAAACAAGTTTGGTATGGAATA
AGCCCCAAGAAAATTATTCTTACAAGAATT
Found at i:20156023 original size:25 final size:25
Alignment explanation
Indices: 20155988--20156038 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
20155978 CACAAAAAGA
*
20155988 CAAACATGTTTGGTATGGAATAAGC
1 CAAACAAGTTTGGTATGGAATAAGC
20156013 CAAACAAGTTTGGTATGGAATAAGC
1 CAAACAAGTTTGGTATGGAATAAGC
20156038 C
1 C
20156039 CCAAGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (25 bp):
CAAACAAGTTTGGTATGGAATAAGC
Found at i:20156438 original size:23 final size:24
Alignment explanation
Indices: 20156412--20156456 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20156402 AATAGGTTGC
20156412 AACTTAATG-TAAAAAAAAATTGT
1 AACTTAATGATAAAAAAAAATTGT
*
20156435 AACTTAATGATAGAAAAAAATT
1 AACTTAATGATAAAAAAAAATT
20156457 ATGGATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (24 bp):
AACTTAATGATAAAAAAAAATTGT
Found at i:20165262 original size:41 final size:40
Alignment explanation
Indices: 20165190--20165270 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
20165180 AAATTTAAAT
** *
20165190 ATTAATTTCAATAAAATTTATTTATTATAAATTTATTATTA
1 ATTAATTTCAATAAAATTTAAATATTATAAA-TAATTATTA
20165231 ATTAATTGT-AATAAAATATTAAATATT-TAAATAATTATTA
1 ATTAATT-TCAATAAAAT-TTAAATATTATAAATAATTATTA
20165271 CTTATAGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 8 0.23
41 19 0.54
42 8 0.23
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (40 bp):
ATTAATTTCAATAAAATTTAAATATTATAAATAATTATTA
Found at i:20168070 original size:29 final size:29
Alignment explanation
Indices: 20168019--20168115 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
20168009 TTATTAATTT
* *
20168019 ATTTAAATATATATTTTTATTTTTA-TTAC
1 ATTTAAATAAATA-TTTAATTTTTATTTAC
*
20168048 ATTTAAATAAATATTTAACTTTTAATTTAC
1 ATTTAAATAAATATTTAA-TTTTTATTTAC
* *
20168078 ATTCAAATAAATCTTTAATTTTTAATTTA-
1 ATTTAAATAAATATTTAATTTTT-ATTTAC
20168107 ATCTTAAAT
1 AT-TTAAAT
20168116 TTATACTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.07
29 23 0.40
30 30 0.53
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTTAAATAAATATTTAATTTTTATTTAC
Found at i:20172699 original size:14 final size:14
Alignment explanation
Indices: 20172680--20172707 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20172670 ATTATATAAA
20172680 ATATTAAAATTTAT
1 ATATTAAAATTTAT
20172694 ATATTAAAATTTAT
1 ATATTAAAATTTAT
20172708 TTTATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTAAAATTTAT
Found at i:20172713 original size:17 final size:16
Alignment explanation
Indices: 20172680--20172726 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
20172670 ATTATATAAA
20172680 ATATTAAAATTTA--T
1 ATATTAAAATTTATTT
20172694 ATATTAAAATTTATTTT
1 ATATTAAAATTTA-TTT
*
20172711 ATATAAAAATTATATT
1 ATATTAAAATT-TATT
20172727 ACAAGTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 13 0.46
17 13 0.46
18 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTAAAATTTATTT
Found at i:20172824 original size:6 final size:5
Alignment explanation
Indices: 20172807--20172856 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
20172797 AAAAATTTAA
* *
20172807 ATTAT ATTAT ATTCAT ATT-T A-AAT TTTAT ATTAT ATTTAT ATTAT ATTAT
1 ATTAT ATTAT ATT-AT ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT
20172857 GATAATGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.08
5 24 0.65
6 10 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:20172840 original size:24 final size:22
Alignment explanation
Indices: 20172801--20172856 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 22
20172791 TTATAAAAAA
20172801 ATTTAAATTATATTATATTCAT
1 ATTTAAATTATATTATATTCAT
20172823 ATTTAAA-T-T-TTATATT-AT
1 ATTTAAATTATATTATATTCAT
*
20172841 ATTTATATTATATTAT
1 ATTTAAATTATATTAT
20172857 GATAATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.27
19 8 0.27
20 2 0.07
21 5 0.17
22 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTAAATTATATTATATTCAT
Found at i:20172847 original size:11 final size:11
Alignment explanation
Indices: 20172808--20172854 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
20172798 AAAATTTAAA
20172808 TTATATTATAT
1 TTATATTATAT
* *
20172819 TCATATTTAAATT
1 TTATA-TTATA-T
20172832 TTATATTATAT
1 TTATATTATAT
20172843 TTATATTATAT
1 TTATATTATAT
20172854 T
1 T
20172855 ATGATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 17 0.57
12 8 0.27
13 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTATAT
Found at i:20173548 original size:3 final size:3
Alignment explanation
Indices: 20173535--20173567 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
20173525 AAATTAAGAG
20173535 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT AT
20173568 ATTTTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20174923 original size:23 final size:23
Alignment explanation
Indices: 20174890--20174936 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20174880 TGTGTGTGTG
*
20174890 TGTTTTTTTTTACCTGTTG-ATTT
1 TGTTTTGTTTT-CCTGTTGAATTT
*
20174913 TGTTTTGTTTTGCTGTTGAATTT
1 TGTTTTGTTTTCCTGTTGAATTT
20174936 T
1 T
20174937 ATAGAAGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.68
Consensus pattern (23 bp):
TGTTTTGTTTTCCTGTTGAATTT
Found at i:20181080 original size:2 final size:2
Alignment explanation
Indices: 20181073--20181099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20181063 GCATAAATAT
20181073 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
20181100 TAGACAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20181944 original size:2 final size:2
Alignment explanation
Indices: 20181937--20181973 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
20181927 ATCATATCAA
20181937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20181974 CCCATTATTT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20187604 original size:14 final size:14
Alignment explanation
Indices: 20187585--20187613 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20187575 CAATTATAAA
20187585 AATATTTTAAAATT
1 AATATTTTAAAATT
20187599 AATATTTTAAAATT
1 AATATTTTAAAATT
20187613 A
1 A
20187614 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTTAAAATT
Found at i:20200926 original size:15 final size:15
Alignment explanation
Indices: 20200902--20200953 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
20200892 TATTAAGTTA
*
20200902 AATT-ATTATTTATT
1 AATTAATTATTTAAT
* *
20200916 AGTTGATTATTTAAT
1 AATTAATTATTTAAT
20200931 AATTAATTATTTAAT
1 AATTAATTATTTAAT
20200946 AATGTAAT
1 AAT-TAAT
20200954 AATTGATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 3 0.09
15 25 0.78
16 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
AATTAATTATTTAAT
Found at i:20200939 original size:23 final size:23
Alignment explanation
Indices: 20200913--20200962 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
20200903 ATTATTATTT
* * *
20200913 ATTAGTTGATTATTTAATAATTA
1 ATTAGTTAATAATGTAATAATTA
* *
20200936 ATTATTTAATAATGTAATAATTG
1 ATTAGTTAATAATGTAATAATTA
20200959 ATTA
1 ATTA
20200963 TATATTTAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTAGTTAATAATGTAATAATTA
Found at i:20203606 original size:3 final size:3
Alignment explanation
Indices: 20203593--20203636 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
20203583 GAAGCATCAG
*
20203593 TCT TTT TCT TCT TCT TCT TCT TCT T-T TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
20203637 ATGATCCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:20203621 original size:20 final size:20
Alignment explanation
Indices: 20203596--20203636 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20203586 GCATCAGTCT
20203596 TTTTCTTCTTCTTCTTCTTC
1 TTTTCTTCTTCTTCTTCTTC
20203616 TTTTCTTCTTCTTCTTCTTC
1 TTTTCTTCTTCTTCTTCTTC
20203636 T
1 T
20203637 ATGATCCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTCTTCTTCTTC
Found at i:20203623 original size:17 final size:17
Alignment explanation
Indices: 20203601--20203634 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20203591 AGTCTTTTTC
20203601 TTCTTCTTCTTCTTCTT
1 TTCTTCTTCTTCTTCTT
20203618 TTCTTCTTCTTCTTCTT
1 TTCTTCTTCTTCTTCTT
20203635 CTATGATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTCTTCTTCTTCTT
Found at i:20208245 original size:19 final size:22
Alignment explanation
Indices: 20208203--20208264 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 22
20208193 AAATAAATAT
20208203 ATAAAATAATATTAAT-TT-TT-
1 ATAAAATAATATT-ATCTTATTA
20208223 -TAAAA-AA-ATTAT-TTATTA
1 ATAAAATAATATTATCTTATTA
20208241 ATAAAATAATATTATCTTATTA
1 ATAAAATAATATTATCTTATTA
20208263 AT
1 AT
20208265 CTCATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 2 0.06
19 10 0.28
20 2 0.06
21 5 0.14
22 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAATAATATTATCTTATTA
Found at i:20215254 original size:2 final size:2
Alignment explanation
Indices: 20215241--20215274 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
20215231 CTTAGTAATC
*
20215241 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20215275 CTGTGTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20217402 original size:66 final size:67
Alignment explanation
Indices: 20217306--20217440 Score: 182
Period size: 66 Copynumber: 2.0 Consensus size: 67
20217296 GATAAAAGTA
* * ** ** *
20217306 AAACTTAATAAATAAAATAATAAAATAAATTGATTAGGTTGAATACCCAAATAACCCACGATGAA
1 AAACTTAATAAATAAAATAATAAAACAAATTAATTAAATCCAATACCCAAATAACCCAAGATGAA
20217371 AT
66 AT
* *
20217373 AAACTTAATAAAT-AAATAATAAAACAAATTAATTAAATCCAATGCCCAAATAACTCAAGATGAA
1 AAACTTAATAAATAAAATAATAAAACAAATTAATTAAATCCAATACCCAAATAACCCAAGATGAA
20217437 AT
66 AT
20217439 AA
1 AA
20217441 GGTGTCTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 46 0.78
67 13 0.22
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (67 bp):
AAACTTAATAAATAAAATAATAAAACAAATTAATTAAATCCAATACCCAAATAACCCAAGATGAA
AT
Found at i:20217517 original size:42 final size:41
Alignment explanation
Indices: 20217456--20217538 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 41
20217446 CTATAGGTTC
20217456 AATCCATCATTTTTCACTTTTAAAGTGAAATACCATAGATT
1 AATCCATCATTTTTCACTTTTAAAGTGAAATACCATAGATT
*
20217497 AATCCATCATGTTTTCACTTTTAAGGTGAAATACCATAGATT
1 AATCCATCAT-TTTTCACTTTTAAAGTGAAATACCATAGATT
20217539 TTAAATTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 10 0.25
42 30 0.75
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (41 bp):
AATCCATCATTTTTCACTTTTAAAGTGAAATACCATAGATT
Found at i:20220540 original size:4 final size:4
Alignment explanation
Indices: 20220531--20220562 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
20220521 AAACTTGTGA
20220531 TAAT TAAT TAAT TAAT TAAT TAAT TAA- TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
20220563 TGATATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:20222232 original size:26 final size:26
Alignment explanation
Indices: 20222203--20222259 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
20222193 CATACTTAAT
* *
20222203 TCTTTCTTTTTTTCCTCGTCCTGCAA
1 TCTTTCTTGTTTTCCTCGTACTGCAA
20222229 TCTTTCTTGTTTTCCTCGTACTGCAA
1 TCTTTCTTGTTTTCCTCGTACTGCAA
20222255 TCTTT
1 TCTTT
20222260 TTTAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.09, C:0.28, G:0.09, T:0.54
Consensus pattern (26 bp):
TCTTTCTTGTTTTCCTCGTACTGCAA
Found at i:20233218 original size:50 final size:50
Alignment explanation
Indices: 20233149--20233251 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
20233139 ATGATCTATA
*
20233149 AAAGGCTATGGTGGATTATCAATTGCTTGACACCCATTGATAAGATAAAT
1 AAAGGCTATGGTGGATTATCAATTGCTTGACACCCATCGATAAGATAAAT
20233199 AAAGGCTATGGTGGATTATCAATTGCTTGACACCCATCGATAAGATAAAT
1 AAAGGCTATGGTGGATTATCAATTGCTTGACACCCATCGATAAGATAAAT
20233249 AAA
1 AAA
20233252 TGCTGAAGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (50 bp):
AAAGGCTATGGTGGATTATCAATTGCTTGACACCCATCGATAAGATAAAT
Found at i:20236221 original size:21 final size:21
Alignment explanation
Indices: 20236197--20236238 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20236187 GGAAAAAAAA
20236197 ATAACTAGTTAAGAGAAACAT
1 ATAACTAGTTAAGAGAAACAT
*
20236218 ATAACTAGTTAGGAGAAACAT
1 ATAACTAGTTAAGAGAAACAT
20236239 CCACACTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (21 bp):
ATAACTAGTTAAGAGAAACAT
Found at i:20238961 original size:183 final size:179
Alignment explanation
Indices: 20238627--20238979 Score: 539
Period size: 183 Copynumber: 1.9 Consensus size: 179
20238617 CAAATTTAAA
*
20238627 TAATTTATAAATATTAATGTATCATTTTTACTTCTAATCACTAACTATAATGACATAACAAGTAA
1 TAATTTATAAATATTAATGTATCATTTATACTTCTAATCACTAACTATAATGACATAACAAGTAA
*
20238692 TTAAAACATAGACATTAAGTTAGAAGTTAAATTACAGGAAAAAATCTAATCTGATTTAAATAAAT
66 TTAAAACATAGACATCAAGTTAGAAGTTAAATTACAGGAAAAAATCTAATCTGATTTAAATAAAT
*
20238757 TATTTGTCTTGAAGTACCAGGGACGGCTTGACTTGTAATAATGTATATT
131 TATTTGTCTTGAAGTACCAGGGACAGCTTGACTTGTAATAATGTATATT
*
20238806 TAATTTATAAATATTAATGTGTCATTTATACTTCTAA-CAACTAACCGTAATGACATGACATAAC
1 TAATTTATAAATATTAATGTATCATTTATACTTCTAATC-ACTAA-C-T-AT-A-ATGACATAAC
* * * * *
20238870 AAGTAATTAAAACGTGGACATCAAGTTCGAAGTTAAATTGCAGG-AAAAGTCTAATCTGATTTAA
60 AAGTAATTAAAACATAGACATCAAGTTAGAAGTTAAATTACAGGAAAAAATCTAATCTGATTTAA
* *
20238934 ATAAATTGTTTGTCTTGAAGTACCAGGGACAGCTTGGCTTGTAATA
125 ATAAATTATTTGTCTTGAAGTACCAGGGACAGCTTGACTTGTAATA
20238980 GAGTTGGATG
Statistics
Matches: 157, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
178 1 0.01
179 40 0.25
180 1 0.01
181 1 0.01
182 2 0.01
183 63 0.40
184 49 0.31
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (179 bp):
TAATTTATAAATATTAATGTATCATTTATACTTCTAATCACTAACTATAATGACATAACAAGTAA
TTAAAACATAGACATCAAGTTAGAAGTTAAATTACAGGAAAAAATCTAATCTGATTTAAATAAAT
TATTTGTCTTGAAGTACCAGGGACAGCTTGACTTGTAATAATGTATATT
Found at i:20240370 original size:16 final size:17
Alignment explanation
Indices: 20240340--20240372 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20240330 ATAAACTATA
*
20240340 TTTTTTAAATTTTAAAT
1 TTTTTTAAATATTAAAT
20240357 TTTTTTAAA-ATTAAAT
1 TTTTTTAAATATTAAAT
20240373 AATTATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTAAATATTAAAT
Found at i:20242665 original size:2 final size:2
Alignment explanation
Indices: 20242658--20242719 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
20242648 TTTGGAGAGT
*
20242658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20242700 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
20242720 CACACACGTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20243175 original size:2 final size:2
Alignment explanation
Indices: 20243168--20243192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20243158 TGAAGAGTTC
20243168 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20243193 GTGCATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20246444 original size:31 final size:33
Alignment explanation
Indices: 20246386--20246463 Score: 115
Period size: 31 Copynumber: 2.4 Consensus size: 33
20246376 ATAATATCAA
20246386 TAATAAATATAAAAATAATATAATTTAAAATTT
1 TAATAAATATAAAAATAATATAATTTAAAATTT
*
20246419 TAATAAA-ATAAAAAT-ATATATTTTAAAATTT
1 TAATAAATATAAAAATAATATAATTTAAAATTT
*
20246450 TATATTAATATAAA
1 TA-ATAAATATAAA
20246464 TTATTATACA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 17 0.41
32 12 0.29
33 12 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TAATAAATATAAAAATAATATAATTTAAAATTT
Found at i:20247438 original size:21 final size:21
Alignment explanation
Indices: 20247400--20247441 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20247390 AGTTTAGGAC
*
20247400 GGAGGACGAGCCATAAGATGA
1 GGAGGACGAGCCAGAAGATGA
20247421 GGAGGACGATGCC-GAAGATGA
1 GGAGGACGA-GCCAGAAGATGA
20247442 TTAACAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.36, C:0.14, G:0.40, T:0.10
Consensus pattern (21 bp):
GGAGGACGAGCCAGAAGATGA
Found at i:20257508 original size:33 final size:33
Alignment explanation
Indices: 20257454--20257600 Score: 107
Period size: 33 Copynumber: 4.5 Consensus size: 33
20257444 GCCCACTTAC
* * * *
20257454 AGGGGCATCTTCCCCAG-TACTTAACCTAATTAT
1 AGGGGCATCAT-CCCTGCTACTTGACCTGATTAT
* *
20257487 AGGGGCATCATCCCTGCTACTTGACCCGCTTAT
1 AGGGGCATCATCCCTGCTACTTGACCTGATTAT
* * ** * *
20257520 ATGGGCACCATCCCTGCTGTTTGGCCTGTTTAT
1 AGGGGCATCATCCCTGCTACTTGACCTGATTAT
* * * * *
20257553 AGGCGCATCATCCCTACTACTTGTCCTGCTTAA
1 AGGGGCATCATCCCTGCTACTTGACCTGATTAT
**
20257586 AGTAGCATCATCCCT
1 AGGGGCATCATCCCT
20257601 ACTAGTCCTG
Statistics
Matches: 89, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
32 4 0.04
33 85 0.96
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (33 bp):
AGGGGCATCATCCCTGCTACTTGACCTGATTAT
Found at i:20257601 original size:33 final size:32
Alignment explanation
Indices: 20257557--20257647 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 32
20257547 GTTTATAGGC
*
20257557 GCATCATCCCTACTACTTGTCCTGCTTAAAGTA
1 GCATCATCCCTACTA-TTGTCCTGCTTAAAGGA
20257590 GCATCATCCCTACTA--GTCCTGCTTAAAGGA
1 GCATCATCCCTACTATTGTCCTGCTTAAAGGA
* *
20257620 GTATCATCCATACTAATTGTCCTGCTTA
1 GCATCATCCCTACT-ATTGTCCTGCTTA
20257648 CAGCTATATC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 26 0.50
31 1 0.02
33 25 0.48
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
GCATCATCCCTACTATTGTCCTGCTTAAAGGA
Found at i:20257658 original size:33 final size:33
Alignment explanation
Indices: 20257559--20257660 Score: 122
Period size: 33 Copynumber: 3.2 Consensus size: 33
20257549 TTATAGGCGC
* *
20257559 ATCATCCCTACTACTTGTCCTGCTTAAAGTAGC
1 ATCATCCCTACTAATTGTCCTGCTTAAAGTAGT
*
20257592 ATCATCCCTACT-A--GTCCTGCTTAAAGGAGT
1 ATCATCCCTACTAATTGTCCTGCTTAAAGTAGT
* *
20257622 ATCATCCATACTAATTGTCCTGCTTACAGCTA-T
1 ATCATCCCTACTAATTGTCCTGCTTAAAG-TAGT
20257655 ATCATC
1 ATCATC
20257661 TTTACAAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
30 26 0.44
31 1 0.02
33 31 0.53
34 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (33 bp):
ATCATCCCTACTAATTGTCCTGCTTAAAGTAGT
Found at i:20264415 original size:27 final size:26
Alignment explanation
Indices: 20264360--20264415 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
20264350 ATTTTAATAA
* **
20264360 ATTTTTTTAAAAATTTTATTTTTTAT
1 ATTTTTTTAAAAATTATATTAATTAT
20264386 ATTTATTTTAAAAATTAATATTAATT-T
1 ATTT-TTTTAAAAATT-ATATTAATTAT
20264413 ATT
1 ATT
20264416 AATAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.16
27 15 0.60
28 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTTTTAAAAATTATATTAATTAT
Found at i:20266151 original size:34 final size:34
Alignment explanation
Indices: 20266112--20266176 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
20266102 TAAAATTTAT
* *
20266112 GGATATGTATTTTT-ATTAAGTTATATAATTTTTG
1 GGATATATATTTTTGA-TAAATTATATAATTTTTG
20266146 GGATATATATTTTTGATAAATTATATAATTT
1 GGATATATATTTTTGATAAATTATATAATTT
20266177 ATCATTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (34 bp):
GGATATATATTTTTGATAAATTATATAATTTTTG
Found at i:20266346 original size:25 final size:25
Alignment explanation
Indices: 20266318--20266365 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20266308 TAAATATTTT
20266318 AAAAACTATTAAATTTATAAATTCA
1 AAAAACTATTAAATTTATAAATTCA
* * *
20266343 AAAAATTTTTAAATTTTTAAATT
1 AAAAACTATTAAATTTATAAATT
20266366 TGTAAGTCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAACTATTAAATTTATAAATTCA
Found at i:20270020 original size:17 final size:17
Alignment explanation
Indices: 20269998--20270067 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
20269988 CAATGGATGA
20269998 AAAATGAGAAAAAAAAG
1 AAAATGAGAAAAAAAAG
20270015 AAAATGATGAAAAAAAA-
1 AAAATGA-GAAAAAAAAG
* *
20270032 AAAA-CA-AAAAAAAAA
1 AAAATGAGAAAAAAAAG
**
20270047 AAAAAAAGAAAAAAAAG
1 AAAATGAGAAAAAAAAG
20270064 AAAA
1 AAAA
20270068 AAAATGAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
14 8 0.17
15 4 0.09
16 2 0.04
17 23 0.50
18 9 0.20
ACGTcount: A:0.84, C:0.01, G:0.10, T:0.04
Consensus pattern (17 bp):
AAAATGAGAAAAAAAAG
Found at i:20270028 original size:1 final size:1
Alignment explanation
Indices: 20270024--20270071 Score: 69
Period size: 1 Copynumber: 48.0 Consensus size: 1
20270014 GAAAATGATG
* * *
20270024 AAAAAAAAAAAACAAAAAAAAAAAAAAAAAGAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20270072 TGAGAAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.94, C:0.02, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:20270032 original size:21 final size:21
Alignment explanation
Indices: 20270006--20270087 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
20269996 GAAAAATGAG
*
20270006 AAAAAAAAGAAAATGATGAAA
1 AAAAAAAAGAAAATGAAGAAA
*
20270027 AAAAAAAA-ACAAA--AAAAAA
1 AAAAAAAAGA-AAATGAAGAAA
**
20270046 AAAAAAAAGAAAAAAAAGAAA
1 AAAAAAAAGAAAATGAAGAAA
**
20270067 AAAAATGAGAAAATGAAGAAA
1 AAAAAAAAGAAAATGAAGAAA
20270088 GAGATTCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.30
20 2 0.04
21 33 0.66
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAAAATGAAGAAA
Found at i:20270079 original size:10 final size:9
Alignment explanation
Indices: 20270004--20270071 Score: 73
Period size: 9 Copynumber: 7.1 Consensus size: 9
20269994 ATGAAAAATG
20270004 AGAAAAAAA
1 AGAAAAAAA
20270013 AGAAAATGATGAA
1 AGAAAA--A--AA
*
20270026 AAAAAAAAA
1 AGAAAAAAA
*
20270035 ACAAAAAAA
1 AGAAAAAAA
*
20270044 AAAAAAAAA
1 AGAAAAAAA
20270053 AGAAAAAAA
1 AGAAAAAAA
20270062 AGAAAAAAA
1 AGAAAAAAA
20270071 A
1 A
20270072 TGAGAAAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
9 42 0.82
11 2 0.04
13 7 0.14
ACGTcount: A:0.87, C:0.01, G:0.09, T:0.03
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:20271334 original size:42 final size:42
Alignment explanation
Indices: 20271267--20272130 Score: 1193
Period size: 42 Copynumber: 21.0 Consensus size: 42
20271257 GTCTAGGAGT
*
20271267 ATTTATTTTT-CAAAGTTCCGT--TGCCTCTGTTTAGAGGAGAA
1 ATTTATTTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
20271308 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271350 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
20271392 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271433 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271475 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271516 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
20271558 ATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271598 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271640 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
20271681 ATTTATTTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
20271722 ATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271762 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271804 ATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271845 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
20271887 ATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
20271927 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
20271969 ATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
20272009 ATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
20272049 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * **
20272091 ATTTATTTTT-CAAAGTCGTAGAGCCTCTGTCAAGAGGAGC
1 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
20272131 TAAAAAAAAA
Statistics
Matches: 755, Mismatches: 45, Indels: 46
0.89 0.05 0.05
Matches are distributed among these distances:
40 167 0.22
41 280 0.37
42 304 0.40
43 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:20271420 original size:83 final size:83
Alignment explanation
Indices: 20271290--20272109 Score: 1335
Period size: 83 Copynumber: 10.0 Consensus size: 83
20271280 AGTTCCGTTG
* * *
20271290 CCTCTGTTTAGAGGAGAAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
20271355 TTTTTCCAAAGTCGTGGTA
65 TTTTTCCAAAGTCGTGGTA
*
20271374 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
20271439 TTTTCCAAAGTCGTGGTA
66 TTTTCCAAAGTCGTGGTA
* *
20271457 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAT
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
20271522 TTTTCCAAAGTCGTGGTA
66 TTTTCCAAAGTCGTGGTA
20271540 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
20271603 TTTTTCCAAAGTCGTGGTA
65 TTTTTCCAAAGTCGTGGTA
* *
20271622 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAT
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
*
20271687 TTTTCCAAAGTTCGT--TG
66 TTTTCCAAAG-TCGTGGTA
*
20271704 CCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
20271767 TTTTTCCAAAGTCGTGGTA
65 TTTTTCCAAAGTCGTGGTA
* *
20271786 CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAT
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
20271851 TTTTCCAAAGTCGTGGTA
66 TTTTCCAAAGTCGTGGTA
20271869 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
20271932 TTTTTCCAAAGTCGTGGTA
65 TTTTTCCAAAGTCGTGGTA
20271951 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
* *
20272014 -CTTTCCAAAGTTCGT--TG
65 TTTTTCCAAAG-TCGTGGTA
*
20272031 CCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTGTTGAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
20272096 TTTTT-CAAAGTCGT
65 TTTTTCCAAAGTCGT
20272110 AGAGCCTCTG
Statistics
Matches: 698, Mismatches: 23, Indels: 33
0.93 0.03 0.04
Matches are distributed among these distances:
80 31 0.04
81 66 0.09
82 279 0.40
83 289 0.41
84 33 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (83 bp):
CCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
TTTTCCAAAGTCGTGGTA
Found at i:20272341 original size:20 final size:20
Alignment explanation
Indices: 20272258--20272336 Score: 140
Period size: 20 Copynumber: 4.0 Consensus size: 20
20272248 CAGGTCCGGG
20272258 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
20272278 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
20272298 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
20272318 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
20272337 GCCCAAATGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:20272643 original size:11 final size:12
Alignment explanation
Indices: 20272623--20272655 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
20272613 TTATCTAGAT
*
20272623 TTTTTTTTTTAA
1 TTTTTATTTTAA
20272635 -TTTTATTTTAA
1 TTTTTATTTTAA
20272646 TTTTTATTTT
1 TTTTTATTTT
20272656 GGAGGGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:20273059 original size:31 final size:31
Alignment explanation
Indices: 20272990--20273060 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
20272980 GGAAATTTCC
* * *
20272990 AGATTCCGGCGAAAATTCCGGCGACATTTGA
1 AGATTCCGGCGAAAATTCCGGCAAAACTTGA
**
20273021 ATTTTCCGGC-ACAAATTCCGGCAAAACTTGA
1 AGATTCCGGCGA-AAATTCCGGCAAAACTTGA
20273052 AGATTCCGG
1 AGATTCCGG
20273061 TGCCCAACCC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (31 bp):
AGATTCCGGCGAAAATTCCGGCAAAACTTGA
Found at i:20273794 original size:161 final size:161
Alignment explanation
Indices: 20273528--20273986 Score: 777
Period size: 156 Copynumber: 2.9 Consensus size: 161
20273518 ATTTTGATCT
* * *
20273528 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
20273592 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
20273657 TTGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTAATTGGC
20273690 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
20273755 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
20273820 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTAATTGGC
* *
20273851 TGATCTTGA-----TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAATAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
20273911 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
20273976 GAGAATAATTT
131 GAGAATAATTT
20273987 TCAACAACTA
Statistics
Matches: 287, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
156 125 0.44
161 112 0.39
162 46 0.16
163 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGC
Found at i:20276361 original size:5 final size:5
Alignment explanation
Indices: 20276353--20276444 Score: 66
Period size: 5 Copynumber: 17.8 Consensus size: 5
20276343 TTATTTAAAG
*
20276353 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT -AAAAT AAA-AT
* *
20276399 AAAGT AAAAT AAAAAT AAAA- AAAAT AAAGT AAAGAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA-AT -AAAAT AAAA
20276445 GAATATTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 40 0.57
6 16 0.23
7 7 0.10
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:20276391 original size:22 final size:21
Alignment explanation
Indices: 20276348--20276437 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 21
20276338 GGATTTTATT
20276348 TAAAGAAAA-TAAAATAATAAAA
1 TAAAGAAAAGTAAAAT-A-AAAA
* *
20276370 CAAAATAAAAGTGAAAATAAAAA
1 -TAAAGAAAAGT-AAAATAAAAA
20276393 TAAAGAAAAGTAAAATAAAAA
1 TAAAGAAAAGTAAAATAAAAA
* * *
20276414 TAAA-AAAAATAAAGTAAAGA
1 TAAAGAAAAGTAAAATAAAAA
20276434 TAAA
1 TAAA
20276438 AATAAAAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
20 17 0.29
21 14 0.24
22 9 0.16
23 11 0.19
24 2 0.03
25 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.16
Consensus pattern (21 bp):
TAAAGAAAAGTAAAATAAAAA
Found at i:20276394 original size:6 final size:6
Alignment explanation
Indices: 20276353--20276444 Score: 62
Period size: 6 Copynumber: 14.5 Consensus size: 6
20276343 TTATTTAAAG
* * *
20276353 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AA-AATA
* *
20276402 GTAAAATA AAAATA AAAAAA ATAAAGTA AAGATA AAAATA AAA
1 --AAAATA AAAATA AAAATA A-AAA-TA AAAATA AAAATA AAA
20276445 GAATATTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
5 5 0.07
6 43 0.63
7 13 0.19
8 5 0.07
9 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20276436 original size:26 final size:27
Alignment explanation
Indices: 20276383--20276444 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
20276373 AATAAAAGTG
20276383 AAAATAAAAATAAAGAAAAGTAAAATA
1 AAAATAAAAATAAAGAAAAGTAAAATA
*
20276410 AAAATAAAAA-AAA-TAAAGTAAAGATA
1 AAAATAAAAATAAAGAAAAGTAAA-ATA
20276436 AAAATAAAA
1 AAAATAAAA
20276445 GAATATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 8 0.24
26 15 0.45
27 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (27 bp):
AAAATAAAAATAAAGAAAAGTAAAATA
Found at i:20276437 original size:47 final size:50
Alignment explanation
Indices: 20276349--20276443 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 50
20276339 GATTTTATTT
20276349 AAAGAAAATAAAATAATAAAACAAAATAAAAGTGAAAATAAAAATAAAGA
1 AAAGAAAATAAAATAATAAAACAAAATAAAAGTGAAAATAAAAATAAAGA
20276399 AAAGTAAAAT-AAA-AATAAAA-AAAAT-AAAGT-AAAGATAAAAATAAA
1 AAAG-AAAATAAAATAATAAAACAAAATAAAAGTGAAA-ATAAAAATAAA
20276444 AGAATATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
46 3 0.07
47 16 0.37
48 5 0.12
49 7 0.16
50 7 0.16
51 5 0.12
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (50 bp):
AAAGAAAATAAAATAATAAAACAAAATAAAAGTGAAAATAAAAATAAAGA
Found at i:20277425 original size:4 final size:4
Alignment explanation
Indices: 20277413--20277564 Score: 50
Period size: 4 Copynumber: 38.0 Consensus size: 4
20277403 TATATTAATT
* * * *
20277413 AATA GATA AAT- AATA ATATA TATA AATA GATA AAT- AAT- AATA CATA
1 AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AATA AATA AATA
* * * * * * *
20277459 TATA TATC AACA GATA AAT- AATA AAAA TAATAA AATAA AATA AATA TATATT
1 AATA AATA AATA AATA AATA AATA AATA -AAT-A AAT-A AATA AATA -A-ATA
* * *
20277511 AATA AATA GTAAT- AATA AATA AATG AAT- AATA AATA CATA AA-A TATA
1 AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
20277558 AA-A AATA
1 AATA AATA
20277565 CATATATATA
Statistics
Matches: 110, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
3 23 0.21
4 66 0.60
5 15 0.14
6 6 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:20277431 original size:24 final size:24
Alignment explanation
Indices: 20277399--20277551 Score: 81
Period size: 24 Copynumber: 6.3 Consensus size: 24
20277389 AATAATAAGG
20277399 ATAAT-ATATTAATTAATAGATAA
1 ATAATAATATTAATTAATAGATAA
*
20277422 ATAATAATA-TATATAAATAGATAA
1 ATAATAATATTA-ATTAATAGATAA
*
20277446 ATAATAATACATATATATATCAACAGATAA
1 ATAATAAT--AT-TA-AT-T-AATAGATAA
* *
20277476 ATAATAAAAATAA-TAA-A-ATAAA
1 ATAATAATATTAATTAATAGAT-AA
*
20277498 ATAAATATATATTAATAAATAG-T-A
1 AT-AATA-ATATTAATTAATAGATAA
* *
20277522 ATAATAA-ATAAATGAATA-ATAA
1 ATAATAATATTAATTAATAGATAA
20277544 ATACATAA
1 ATA-ATAA
20277552 AATATAAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
21 12 0.12
22 10 0.10
23 21 0.20
24 31 0.30
25 2 0.02
26 4 0.04
27 2 0.02
28 6 0.06
30 15 0.15
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (24 bp):
ATAATAATATTAATTAATAGATAA
Found at i:20277462 original size:30 final size:30
Alignment explanation
Indices: 20277379--20277580 Score: 101
Period size: 30 Copynumber: 7.0 Consensus size: 30
20277369 AAAAATGATA
20277379 AAATAAA-AAA-AATAATAAGGATA-ATATAT
1 AAATAAATAAATAATAATAA--ATATATATAT
* * *
20277408 TAATTAATAGAT-A-AAT-AATAATATATAT
1 AAATAAATAAATAATAATAAAT-ATATATAT
* *
20277436 AAATAGATAAATAATAATACATATATATAT
1 AAATAAATAAATAATAATAAATATATATAT
* * * *
20277466 CAACAGATAAATAATAA-AAATA-ATAAAAT
1 AAATAAATAAATAATAATAAATATAT-ATAT
* * *
20277495 AAAATAAATATATATTAATAAATA-GTA-AT
1 -AAATAAATAAATAATAATAAATATATATAT
*
20277524 -AATAAATAAATGAATAATAAATACATA-A-
1 AAATAAATAAAT-AATAATAAATATATATAT
*
20277552 AATATAAA-AAATACAT-ATATATATATATA
1 AA-ATAAATAAATA-ATAATAAATATATATA
20277581 AAAAAACAAG
Statistics
Matches: 134, Mismatches: 23, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
26 2 0.01
27 11 0.08
28 37 0.28
29 29 0.22
30 47 0.35
31 8 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (30 bp):
AAATAAATAAATAATAATAAATATATATAT
Found at i:20277514 original size:60 final size:60
Alignment explanation
Indices: 20277413--20277569 Score: 153
Period size: 60 Copynumber: 2.6 Consensus size: 60
20277403 TATATTAATT
* * *
20277413 AATAGATAAATAATAATATATATAAATAGATAAATAATAATACATATA-TATATCAACAGATAAA
1 AATA-ATAAATAATAA-A-ATATAAATAAATAAATATTAATA-A-ATAGTA-AT-AACAAATAAA
20277477 T-
59 TG
* *
20277478 AATAA-AAATAATAAAATA-AAATAAATATATATTAATAAATAGTAATAATAAATAAATG
1 AATAATAAATAATAAAATATAAATAAATAAATATTAATAAATAGTAATAACAAATAAATG
*
20277536 AATAATAAATACATAAAATATAAA-AAATACATAT
1 AATAATAAATA-ATAAAATATAAATAAATAAATAT
20277570 ATATATATAT
Statistics
Matches: 81, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
57 9 0.11
58 10 0.12
59 8 0.10
60 33 0.41
61 6 0.07
62 1 0.01
63 9 0.11
64 1 0.01
65 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (60 bp):
AATAATAAATAATAAAATATAAATAAATAAATATTAATAAATAGTAATAACAAATAAATG
Found at i:20277895 original size:7 final size:7
Alignment explanation
Indices: 20277891--20277926 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
20277881 AATTTTTTGT
20277891 TTTTTTA
1 TTTTTTA
*
20277898 TTTTTTT
1 TTTTTTA
20277905 TATTTTTA
1 T-TTTTTA
20277913 TTTTTTA
1 TTTTTTA
20277920 TTTTTTA
1 TTTTTTA
20277927 AATTTGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:20277902 original size:15 final size:14
Alignment explanation
Indices: 20277882--20277926 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
20277872 ATCATAGGTA
20277882 ATTTTTTGTTTTTTT
1 ATTTTTT-TTTTTTT
20277897 ATTTTTTTTATTTTT
1 ATTTTTTTT-TTTTT
*
20277912 ATTTTTTATTTTTT
1 ATTTTTTTTTTTTT
20277926 A
1 A
20277927 AATTTGATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 8 0.29
15 20 0.71
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.84
Consensus pattern (14 bp):
ATTTTTTTTTTTTT
Found at i:20277916 original size:13 final size:13
Alignment explanation
Indices: 20277900--20277924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20277890 TTTTTTTATT
20277900 TTTTTTATTTTTA
1 TTTTTTATTTTTA
20277913 TTTTTTATTTTT
1 TTTTTTATTTTT
20277925 TAAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:20277984 original size:41 final size:41
Alignment explanation
Indices: 20277939--20278162 Score: 254
Period size: 41 Copynumber: 5.4 Consensus size: 41
20277929 TTTGATCAAA
* * *
20277939 GCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATG
*
20277980 GCTCCTCTAATA-AGAGGCTCAAC-ACTTTTAAAAAATAAATG
1 GCTCCTCTAA-ACAGAGGCTCAACAAC-TTTGAAAAATAAATG
* * * *
20278021 GCTCCTTTAATCAGAGGCTCAATAACTTTGAAAAGTAAATG
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATG
* ** *
20278062 GCTCCTCTAAACAGAGGCACCTCAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATG
* * * * *
20278103 GCTTCTCTAAACAGAGGCAACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGC-TCAACAACTTTGAAAAATAAATG
20278145 GCTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAGAGGC
20278163 AACGAAACTT
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 117 0.74
42 40 0.25
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATG
Found at i:20278038 original size:82 final size:82
Alignment explanation
Indices: 20277939--20278190 Score: 285
Period size: 82 Copynumber: 3.0 Consensus size: 82
20277929 TTTGATCAAA
* * * * *
20277939 GCTCCTCTAAGCAGAGGCTCAACGATTTTGAAAAATAAATGGCTCCTCTAATA-AGAGGCTCAAC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCCTCTAA-ACAGAGGCACAAC
*
20278003 ACTTTTAAAAAATAAATG
65 ACTTTTAAAAAATAAATT
* * * **
20278021 GCTCCTTTAATCAGAGGCTCAATAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACCTCA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACAAC-
*
20278086 AC-TTTGAAAAATAAATT
65 ACTTTTAAAAAATAAATT
* * * *
20278103 GCTTCTCTAAACAGAGGCAACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGC-TCAACAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGC-AC-A
*
20278168 A-ACTTTAAAAAAATAAATT
63 ACACTTTTAAAAAATAAATT
20278187 GCTC
1 GCTC
20278191 ATTGACAATC
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
81 1 0.01
82 81 0.57
83 41 0.29
84 18 0.13
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCCTCTAAACAGAGGCACAACA
CTTTTAAAAAATAAATT
Found at i:20278143 original size:42 final size:42
Alignment explanation
Indices: 20277939--20278190 Score: 230
Period size: 41 Copynumber: 6.1 Consensus size: 42
20277929 TTTGATCAAA
* * * * * *
20277939 GCTCCTCTAAGCAGAGGC-TCAACGATTTTGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAATAAATT
* * * *
20277980 GCTCCTCTAATA-AGAGGC-TCAAC-ACTTTTAAAAAATAAATG
1 GCTCCTCTAA-ACAGAGGCAACCACAAC-TTTGAAAAATAAATT
* * * * * * *
20278021 GCTCCTTTAATCAGAGGC-TCAATAACTTTGAAAAGTAAATG
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAATAAATT
*
20278062 GCTCCTCTAAACAGAGGC-ACCTCAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAATAAATT
* *
20278103 GCTTCTCTAAACAGAGGCAACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAATAAATT
* *
20278145 GCTCCTCTAAACAGAGGCAACGA-AACTTTAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAACCACAACTTT-GAAAAATAAATT
20278187 GCTC
1 GCTC
20278191 ATTGACAATC
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 123 0.68
42 58 0.32
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCAACCACAACTTTGAAAAATAAATT
Found at i:20279695 original size:11 final size:11
Alignment explanation
Indices: 20279679--20279754 Score: 59
Period size: 11 Copynumber: 6.5 Consensus size: 11
20279669 CAATTTGAAT
20279679 ATTTTTTTTTC
1 ATTTTTTTTTC
20279690 ATTTTTTTTCTTTC
1 A--TTTTTT-TTTC
20279704 A-TTTTTTTTC
1 ATTTTTTTTTC
*
20279714 -TCTATTTTTTC
1 AT-TTTTTTTTC
20279725 -TTTTTTTTTC
1 ATTTTTTTTTC
20279735 ATCATTTTTTTCTC
1 AT--TTTTTTT-TC
20279749 ATTTTT
1 ATTTTT
20279755 CATCCATTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
10 12 0.22
11 16 0.30
12 4 0.07
13 13 0.24
14 9 0.17
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:20279703 original size:14 final size:14
Alignment explanation
Indices: 20279680--20279723 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
20279670 AATTTGAATA
20279680 TTTTTT-TTTCATT
1 TTTTTTCTTTCATT
20279693 TTTTTTCTTTCATT
1 TTTTTTCTTTCATT
*
20279707 TTTTTTCTCT-ATT
1 TTTTTTCTTTCATT
20279720 TTTT
1 TTTT
20279724 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTTCATT
Found at i:20279721 original size:25 final size:25
Alignment explanation
Indices: 20279679--20279754 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
20279669 CAATTTGAAT
*
20279679 ATTTTTTTTTCATTTTTTTTCTTTC
1 ATTTTTTTTTCATATTTTTTCTTTC
20279704 ATTTTTTTTCTC-TATTTTTTCTTT-
1 ATTTTTTTT-TCATATTTTTTCTTTC
**
20279728 -TTTTTTCATCAT-TTTTTTC--TC
1 ATTTTTTTTTCATATTTTTTCTTTC
20279749 ATTTTT
1 ATTTTT
20279755 CATCCATTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.02
22 14 0.32
23 7 0.16
25 20 0.45
26 2 0.05
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (25 bp):
ATTTTTTTTTCATATTTTTTCTTTC
Found at i:20279724 original size:21 final size:23
Alignment explanation
Indices: 20279681--20279754 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
20279671 ATTTGAATAT
** *
20279681 TTTTTTTTCATTTTTTTTCTTTCA
1 TTTTTTTTCATCATATTT-TTTCA
*
20279705 TTTTTTTTC-TC-TATTTTTTCT
1 TTTTTTTTCATCATATTTTTTCA
*
20279726 TTTTTTTTCATCATTTTTTTCTCA
1 TTTTTTTTCATCATATTTTT-TCA
20279750 TTTTT
1 TTTTT
20279755 CATCCATTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
21 13 0.31
22 6 0.14
23 7 0.17
24 16 0.38
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTTTCATCATATTTTTTCA
Found at i:20279735 original size:31 final size:32
Alignment explanation
Indices: 20279693--20279754 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
20279683 TTTTTTCATT
20279693 TTTTTTCTTTCAT-TTTTTTTCTCTATTTTTTC
1 TTTTTTCTTTCATATTTTTTTCTC-ATTTTTTC
20279725 TTTTTT-TTTCATCATTTTTTTCTCATTTTT
1 TTTTTTCTTTCAT-ATTTTTTTCTCATTTTT
20279755 CATCCATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.21
32 12 0.43
33 10 0.36
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTTTCTTTCATATTTTTTTCTCATTTTTTC
Found at i:20283774 original size:22 final size:21
Alignment explanation
Indices: 20283760--20283825 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 21
20283750 AAACAAAATG
20283760 AAAGTGAAAATAAAAATAAAGA
1 AAAGT-AAAATAAAAATAAAGA
*
20283782 AAAGTAAAATAAAAATAAAAAATA
1 AAAGTAAAATAAAAAT---AAAGA
20283806 AAAGTAAAGATAAAAATAAA
1 AAAGTAAA-ATAAAAATAAA
20283826 AGCATATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
21 11 0.28
22 8 0.21
24 12 0.31
25 8 0.21
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (21 bp):
AAAGTAAAATAAAAATAAAGA
Found at i:20283775 original size:6 final size:6
Alignment explanation
Indices: 20283736--20283826 Score: 60
Period size: 6 Copynumber: 14.5 Consensus size: 6
20283726 TTATTTAAAG
* * * *
20283736 AAAAT- AAAATA ATAAA-A CAAAATG AAAGTG AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AA-AATA
* *
20283785 GTAAAATA AAAATAA AAAATA AAAGTA AAGATA AAAATA AAA
1 --AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AAA
20283827 GCATATTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 45 0.66
7 13 0.19
8 3 0.04
9 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20283804 original size:46 final size:45
Alignment explanation
Indices: 20283731--20283825 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 45
20283721 GGATTTTATT
* *
20283731 TAAAGAAAATAAAATAATAAAACAAAATGAAAGTGAAA-ATAAAAA
1 TAAAGAAAATAAAATAATAAAAAAAAATAAAAGT-AAAGATAAAAA
20283776 TAAAGAAAAGTAAAATAA-AAATAAAAAATAAAAGTAAAGATAAAAA
1 TAAAGAAAA-TAAAATAATAAA-AAAAAATAAAAGTAAAGATAAAAA
20283822 TAAA
1 TAAA
20283826 AGCATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
45 15 0.33
46 30 0.67
ACGTcount: A:0.75, C:0.01, G:0.08, T:0.16
Consensus pattern (45 bp):
TAAAGAAAATAAAATAATAAAAAAAAATAAAAGTAAAGATAAAAA
Found at i:20283827 original size:13 final size:13
Alignment explanation
Indices: 20283790--20283827 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20283780 GAAAAGTAAA
*
20283790 ATAAAAATAAAAA
1 ATAAAAATAAAAG
*
20283803 ATAAAAGT-AAAG
1 ATAAAAATAAAAG
20283815 ATAAAAATAAAAG
1 ATAAAAATAAAAG
20283828 CATATTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAG
Found at i:20283827 original size:18 final size:18
Alignment explanation
Indices: 20283766--20283827 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
20283756 AATGAAAGTG
*
20283766 AAAATAAAAATAAAG--A
1 AAAATAAAAGTAAAGATA
* *
20283782 AAAGTAAAA-TAAAAATAA
1 AAAATAAAAGTAAAGAT-A
20283800 AAAATAAAAGTAAAGATA
1 AAAATAAAAGTAAAGATA
20283818 AAAATAAAAG
1 AAAATAAAAG
20283828 CATATTAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 4 0.11
16 8 0.21
18 20 0.53
19 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (18 bp):
AAAATAAAAGTAAAGATA
Found at i:20284784 original size:24 final size:26
Alignment explanation
Indices: 20284747--20284798 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
20284737 AAAAAAAGAA
*
20284747 AAAAAAAGAGAAAAAATGATAA-AAT
1 AAAAAAAGAGAAAAAAAGATAATAAT
*
20284772 AAAAAAA-ATAAAAAAAGATAATAAT
1 AAAAAAAGAGAAAAAAAGATAATAAT
20284797 AA
1 AA
20284799 GGATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (26 bp):
AAAAAAAGAGAAAAAAAGATAATAAT
Found at i:20284785 original size:25 final size:26
Alignment explanation
Indices: 20284746--20284798 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
20284736 AAAAAAAAGA
20284746 AAAAAAAAGAGAAAAAATGATAA-AAT
1 AAAAAAAAGAGAAAAAA-GATAATAAT
*
20284772 AAAAAAAATA-AAAAAAGATAATAAT
1 AAAAAAAAGAGAAAAAAGATAATAAT
20284797 AA
1 AA
20284799 GGATAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 11 0.44
26 9 0.36
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (26 bp):
AAAAAAAAGAGAAAAAAGATAATAAT
Found at i:20284804 original size:36 final size:35
Alignment explanation
Indices: 20284737--20284804 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
20284727 CAATCGAGTA
*
20284737 AAAAAAAGAAAAAAAAAGAGAAAAAATGATAAAAT
1 AAAAAAAGAAAAAAAAAGAGAAAAAAGGATAAAAT
* *
20284772 AAAAAAA-ATAAAAAAAGATAATAATAAGGATAA
1 AAAAAAAGAAAAAAAAAGAGAA-AA-AAGGATAA
20284805 TATATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.43
35 9 0.32
36 7 0.25
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (35 bp):
AAAAAAAGAAAAAAAAAGAGAAAAAAGGATAAAAT
Found at i:20284827 original size:4 final size:4
Alignment explanation
Indices: 20284815--20284994 Score: 61
Period size: 4 Copynumber: 43.5 Consensus size: 4
20284805 TATATTAATT
* * *
20284815 AATA GATA AAT- AATA ATATA TATA AATA GATA AAT- AAT- AATA CATATA
1 AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AATA AATA -A-ATA
* * * * *
20284863 TATC AATA GATA AAT- AATA AAAA TAATAA AATAA AATA AATA TATATT
1 AATA AATA AATA AATA AATA AATA -AAT-A AAT-A AATA AATA -A-ATA
* * * *
20284911 AATA AATA GTAAT- AATA AATA CATA AA-A TATA AA-A AATA CATA TAT-
1 AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
20284957 ATTA AATA AATA AATAA AATAA AATAA AATAA AATA AA
1 AATA AATA AATA AAT-A AAT-A AAT-A AAT-A AATA AA
20284995 AACAAGGTGG
Statistics
Matches: 134, Mismatches: 25, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
3 21 0.16
4 69 0.51
5 35 0.26
6 9 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:20284836 original size:28 final size:26
Alignment explanation
Indices: 20284801--20284977 Score: 120
Period size: 24 Copynumber: 7.2 Consensus size: 26
20284791 AATAATAAGG
20284801 ATAATATAT-TAATTAATAGATAAATA
1 ATAATATATATAA-TAATAGATAAATA
20284827 ATAATATATAT-A-AATAGATAAATA
1 ATAATATATATAATAATAGATAAATA
*
20284851 ATAATACATATATATCAATAGATAAATA
1 ATAATATATATA-AT-AATAGATAAATA
20284879 ATAA-A-A-ATAATAA-A-AT-AA-A
1 ATAATATATATAATAATAGATAAATA
20284898 ATAAATATATATTAATAAATAG-T-AATA
1 AT-AATATATA-TAAT-AATAGATAAATA
* *
20284925 ATAA-ATACATAA-AAT--ATAAAAA
1 ATAATATATATAATAATAGATAAATA
* *
20284947 ATACATATATATTA-AATAAATAAATA
1 ATA-ATATATATAATAATAGATAAATA
20284973 A-AATA
1 ATAATA
20284978 AAATAAAATA
Statistics
Matches: 125, Mismatches: 6, Indels: 42
0.72 0.03 0.24
Matches are distributed among these distances:
19 3 0.02
20 4 0.03
21 4 0.03
22 11 0.09
23 4 0.03
24 43 0.34
25 10 0.08
26 25 0.20
27 5 0.04
28 16 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATATATATAATAATAGATAAATA
Found at i:20284870 original size:14 final size:12
Alignment explanation
Indices: 20284801--20284958 Score: 64
Period size: 13 Copynumber: 12.9 Consensus size: 12
20284791 AATAATAAGG
20284801 ATAATATAT-TA
1 ATAATATATATA
*
20284812 ATTAATAGATAAATA
1 A-TAAT--ATATATA
20284827 ATAATATATATAA
1 ATAATATATAT-A
20284840 ATAGATA-A-ATA
1 ATA-ATATATATA
*
20284851 ATAATACATATA
1 ATAATATATATA
*
20284863 TATCAATAGATA-A
1 -AT-AATATATATA
* *
20284876 ATAATAAAAATA
1 ATAATATATATA
*
20284888 ATAA-A-ATAAA
1 ATAATATATATA
20284898 ATAAATATATATTA
1 AT-AATATATA-TA
20284912 ATAA-ATAGTAATA
1 ATAATATA-T-ATA
*
20284925 ATAA-ATACATA
1 ATAATATATATA
* *
20284936 A-AATATAAAAA
1 ATAATATATATA
20284947 ATACATATATAT
1 ATA-ATATATAT
20284959 TAAATAAATA
Statistics
Matches: 114, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
10 10 0.09
11 25 0.22
12 26 0.23
13 29 0.25
14 21 0.18
15 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (12 bp):
ATAATATATATA
Done.