Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 179 of 195
Found at i:30310864 original size:199 final size:200
Alignment explanation
Indices: 30310643--30311019 Score: 686
Period size: 199 Copynumber: 1.9 Consensus size: 200
30310633 TAATAATAAA
30310643 TAAATAAATAACTATCCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAAT
1 TAAATAAATAACTATCCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAAT
*
30310708 AATCATGTAATTAAATATATAATCATGCAATTAACAATGTAAAACATGCAATTAAATATCTAATC
66 AATCATGTAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATCTAATC
*
30310773 ATGCAATTAACAATGTAAAACATGTAATT-A-AATATATAATCATGCAAATAACAATGTAAATCA
131 ATGCAATTAACAATGTAAAACATGCAATTGACAATATA-AATCATGCAAATAACAATGTAAATCA
30310836 TGCAAT
195 TGCAAT
* *
30310842 TAAATATATAACTATGCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAAT
1 TAAATAAATAACTATCCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAAT
*
30310907 AATCATGTAATTAAATATATAATCATGCAATTAACAAAGTAAAAGATGCAATTAAATATCTAATC
66 AATCATGTAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATCTAATC
30310972 ATGCAATTAACAATGTAAAACATGCAATTGACAATATAAATCATGCAA
131 ATGCAATTAACAATGTAAAACATGCAATTGACAATATAAATCATGCAA
30311020 TTAAATATAT
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
199 154 0.90
200 11 0.06
201 6 0.04
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.30
Consensus pattern (200 bp):
TAAATAAATAACTATCCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAAT
AATCATGTAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATCTAATC
ATGCAATTAACAATGTAAAACATGCAATTGACAATATAAATCATGCAAATAACAATGTAAATCAT
GCAAT
Found at i:30310930 original size:158 final size:159
Alignment explanation
Indices: 30310752--30311038 Score: 454
Period size: 158 Copynumber: 1.8 Consensus size: 159
30310742 CAATGTAAAA
* * *
30310752 CATGCAATTAAATATCTAATCATGCAATTAACAATGTAAAACATGTAATTAAATATATAATCATG
1 CATGCAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATATAATCATG
*
30310817 CAAATAACAATGTAAATCATGCAATT-A-AATATATAA-CTATGCAAATAAATATATTAATAATC
66 CAAATAACAATGTAAAACATGCAATTGACAATATA-AATC-ATGCAAATAAATATATTAATAATC
30310879 ATACAATCACACAAATAAATAAATTAATAAT
129 ATACAATCACACAAATAAATAAATTAATAAT
* * *
30310910 CATGTAATTAAATATATAATCATGCAATTAACAAAGTAAAAGATGCAATTAAATATCTAATCATG
1 CATGCAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATATAATCATG
* *
30310975 CAATTAACAATGTAAAACATGCAATTGACAATATAAATCATGCAATTAAATATATTAATAATCA
66 CAAATAACAATGTAAAACATGCAATTGACAATATAAATCATGCAAATAAATATATTAATAATCA
30311039 AGCAATTAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
158 83 0.71
159 27 0.23
160 7 0.06
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (159 bp):
CATGCAATTAAATATATAATCATGCAATTAACAAAGTAAAACATGCAATTAAATATATAATCATG
CAAATAACAATGTAAAACATGCAATTGACAATATAAATCATGCAAATAAATATATTAATAATCAT
ACAATCACACAAATAAATAAATTAATAAT
Found at i:30311029 original size:21 final size:21
Alignment explanation
Indices: 30310907--30311073 Score: 121
Period size: 21 Copynumber: 7.8 Consensus size: 21
30310897 ATAAATTAAT
*
30310907 AATCATGTAATTAAATATAT-
1 AATCATGCAATTAAATATATA
30310927 AATCATGCAATTAACA-A-AGTA
1 AATCATGCAATTAA-ATATA-TA
** *
30310948 AAAGATGCAATTAAATATCT-
1 AATCATGCAATTAAATATATA
*
30310968 AATCATGCAATTAACA-ATGTA
1 AATCATGCAATTAA-ATATATA
* *
30310989 AAACATGCAATTGACA-ATATA
1 AATCATGCAATT-AAATATATA
30311010 AATCATGCAATTAAATATATTAA
1 AATCATGCAATTAAATATA-T-A
*
30311033 TAATCAAGCAATTAAATATATTAA
1 -AATCATGCAATTAAATATA-T-A
*
30311057 TAATCATGCAATCAAAT
1 -AATCATGCAATTAAAT
30311074 TAAATATAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.01
20 33 0.28
21 46 0.38
22 2 0.02
23 1 0.01
24 37 0.31
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (21 bp):
AATCATGCAATTAAATATATA
Found at i:30311043 original size:24 final size:24
Alignment explanation
Indices: 30310894--30311149 Score: 116
Period size: 24 Copynumber: 11.5 Consensus size: 24
30310884 ATCACACAAA
* *
30310894 TAAATAAATTAATAATCATGTAAT
1 TAAATATATTAATAATCATGCAAT
30310918 T-AA-ATA-T-ATAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
* *
30310938 TAACA-A-AGTAA-AA-GATGCAAT
1 TAA-ATATATTAATAATCATGCAAT
*
30310959 T-AA-ATA-T-CTAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
*
30310979 TAACA-AT-GTAA-AA-CATGCAAT
1 TAA-ATATATTAATAATCATGCAAT
*
30311000 TGACA-ATA-T-A-AATCATGCAAT
1 T-AAATATATTAATAATCATGCAAT
*
30311021 TAAATATATTAATAATCAAGCAAT
1 TAAATATATTAATAATCATGCAAT
30311045 TAAATATATTAATAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
* * ** *
30311069 CAAAT-TA-AATATAATTTTACAA-
1 TAAATATATTA-ATAATCATGCAAT
*
30311091 AAAATTATATTAATAATCATGC---
1 TAAA-TATATTAATAATCATGCAAT
** *
30311113 -AAATATATTAATAAATCACACAAA
1 TAAATATATTAAT-AATCATGCAAT
30311137 TAAATATATTAAT
1 TAAATATATTAAT
30311150 CATGTAAACA
Statistics
Matches: 183, Mismatches: 22, Indels: 53
0.71 0.09 0.21
Matches are distributed among these distances:
19 5 0.03
20 37 0.20
21 46 0.25
22 19 0.10
23 16 0.09
24 47 0.26
25 13 0.07
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (24 bp):
TAAATATATTAATAATCATGCAAT
Found at i:30311097 original size:158 final size:155
Alignment explanation
Indices: 30310757--30311081 Score: 354
Period size: 158 Copynumber: 2.1 Consensus size: 155
30310747 TAAAACATGC
* *** * *
30310757 AATTAAATATCTAATCATGCAATTAACAATGTAAAACATGTAATTAAATATATAATCATGCAAAT
1 AATTAAATATATAATCAAAAAATTAACAAAGTAAAACATGCAATTAAATATATAATCATGCAAAT
*
30310822 AACAATGTAAATCATGCAATTAAATATATAACTATGCAAATAAATATATTAATAATCATACAATC
66 AACAATGTAAAACATGCAATTAAATATATAACTATGCAAATAAATATATTAATAATCATACAAT-
**
30310887 ACACAAATAAATAAATTAATAATCATGT
130 --ACAAATAAATAAATTAATAATCATCA
*** * * *
30310915 AATTAAATATATAATCATGCAATTAACAAAGTAAAAGATGCAATTAAATATCTAATCATGCAATT
1 AATTAAATATATAATCAAAAAATTAACAAAGTAAAACATGCAATTAAATATATAATCATGCAAAT
*
30310980 AACAATGTAAAACATGCAATTGACAATATA-AA-TCATGCAATTAAATATATTAATAATCA-AGC
66 AACAATGTAAAACATGCAATT-A-AATATATAACT-ATGCAAATAAATATATTAATAATCATA-C
* * * *
30311042 AAT-TAAATATATTAA-TAATCATGCAATCA
127 AATACAAATAAATAAATTAATAAT-C-ATCA
30311071 AATTAAATATA
1 AATTAAATATA
30311082 ATTTTACAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
154 6 0.04
155 10 0.07
156 13 0.09
158 81 0.55
159 31 0.21
160 6 0.04
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (155 bp):
AATTAAATATATAATCAAAAAATTAACAAAGTAAAACATGCAATTAAATATATAATCATGCAAAT
AACAATGTAAAACATGCAATTAAATATATAACTATGCAAATAAATATATTAATAATCATACAATA
CAAATAAATAAATTAATAATCATCA
Found at i:30311136 original size:21 final size:20
Alignment explanation
Indices: 30311096--30311138 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
30311086 TACAAAAAAT
**
30311096 TATATTAATAATCATGCAAA
1 TATATTAATAATCACACAAA
30311116 TATATTAATAAATCACACAAA
1 TATATTAAT-AATCACACAAA
30311137 TA
1 TA
30311139 AATATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (20 bp):
TATATTAATAATCACACAAA
Found at i:30311191 original size:16 final size:19
Alignment explanation
Indices: 30311170--30311212 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
30311160 AATATATTAG
30311170 GCAAATT-A-ATT-GTCAT
1 GCAAATTAATATTAGTCAT
30311186 GCAAATATAATATTAGTCAT
1 GCAAAT-TAATATTAGTCAT
30311206 GCAAATT
1 GCAAATT
30311213 CATGCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 1 0.04
19 4 0.17
20 11 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
GCAAATTAATATTAGTCAT
Found at i:30312279 original size:42 final size:43
Alignment explanation
Indices: 30312144--30312307 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
30312134 AAATGTTTCC
* * *
30312144 CCACAACTGAGACTTTGAAAATTTTGAAAAATAAAATTCTCCTT
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCC-T
* * * * *
30312188 CC-CAACTGAGGTTTTGGAACTTTTGGAAAATTAAATGCTGCC-
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACT-CCT
30312230 CCACAACTGAGGCTTTGAAAC-TTTGAAAAATAAAATACT-CT
1 CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCT
* *
30312271 CCGACAACTAAGTCTTTGAAACTTTTG-AAAATAAAAT
1 CC-ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAAT
30312308 GAGATTATTC
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 44 0.44
43 50 0.50
44 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (43 bp):
CCACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATACTCCT
Found at i:30312297 original size:85 final size:85
Alignment explanation
Indices: 30312132--30312308 Score: 218
Period size: 85 Copynumber: 2.1 Consensus size: 85
30312122 AACTTTTTTT
* * * *
30312132 TTAAATGTTTCCCCACAACTGAGACTTTGAAAATTTTGAAAAATAAAATTCTCCTTCCCAACTGA
1 TTAAATGCTGCCCCACAACTGAGACTTTGAAAACTTTGAAAAATAAAATACTCCTTCCCAACTGA
* *
30312197 GGTTTTGGAACTTTTGGAAAA
66 AGTTTTGAAACTTTT-GAAAA
*
30312218 TTAAATGCTGCCCCACAACTGAGGCTTTG-AAACTTTGAAAAATAAAATACT-C-TCCGACAACT
1 TTAAATGCTGCCCCACAACTGAGACTTTGAAAACTTTGAAAAATAAAATACTCCTTCC--CAACT
30312280 -AAGTCTTTGAAACTTTTGAAAA
64 GAAGT-TTTGAAACTTTTGAAAA
*
30312302 TAAAATG
1 TTAAATG
30312309 AGATTATTCT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
83 3 0.04
84 15 0.19
85 36 0.45
86 26 0.32
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (85 bp):
TTAAATGCTGCCCCACAACTGAGACTTTGAAAACTTTGAAAAATAAAATACTCCTTCCCAACTGA
AGTTTTGAAACTTTTGAAAA
Found at i:30313713 original size:21 final size:18
Alignment explanation
Indices: 30313666--30313713 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
30313656 CTTCTTCCTC
30313666 TTTTTTTTTTTTAATTTT
1 TTTTTTTTTTTTAATTTT
30313684 TTTGCTTTTTTTTTACATATTT
1 TTT--TTTTTTTTTA-AT-TTT
*
30313706 TATTTTTT
1 TTTTTTTT
30313714 ATTTCCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
20 15 0.60
21 2 0.08
22 5 0.20
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTTTAATTTT
Found at i:30318992 original size:18 final size:17
Alignment explanation
Indices: 30318969--30319002 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30318959 AAAATCATTC
*
30318969 ATGCAATTATACATAATT
1 ATGCAATAATA-ATAATT
30318987 ATGCAATAATAATAAT
1 ATGCAATAATAATAAT
30319003 CACATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (17 bp):
ATGCAATAATAATAATT
Found at i:30319075 original size:20 final size:20
Alignment explanation
Indices: 30319039--30319077 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30319029 AATATATTAT
*
30319039 AATATAAAATGATATGCAAC
1 AATATAAAATGACATGCAAC
30319059 AATATAAAAT-ACCATGCAA
1 AATATAAAATGA-CATGCAA
30319078 ATATATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (20 bp):
AATATAAAATGACATGCAAC
Found at i:30319358 original size:20 final size:20
Alignment explanation
Indices: 30319333--30319547 Score: 114
Period size: 21 Copynumber: 10.1 Consensus size: 20
30319323 GAATATATTA
*
30319333 ATAATCATGTAATTAAATAT
1 ATAATCATGCAATTAAATAT
30319353 ATAATCATGCAATTAACA-AT
1 ATAATCATGCAATTAA-ATAT
* *
30319373 GTAAAACATGCAATTAAATAT
1 AT-AATCATGCAATTAAATAT
*
30319394 TTAATCATGCAATTAACA-AT
1 ATAATCATGCAATTAA-ATAT
*
30319414 ATAAAACATGCAATTAAATATATT
1 AT-AATCATGCAATT-AA-ATA-T
* *
30319438 AATAATCATGCCATCAAATTAAAT
1 -ATAATCATGCAATTAAA-T--AT
* *
30319462 ATAATCTTACAATTAAATAT
1 ATAATCATGCAATTAAATAT
* *
30319482 ATTAATAAT-C-ATGCAAATATT
1 A-TAATCATGCAAT-TAAATA-T
* *
30319503 AATAAATCATACAAATAAATAT
1 -AT-AATCATGCAATTAAATAT
**
30319525 ATTAATCATGCAAACAAATAT
1 A-TAATCATGCAATTAAATAT
30319546 AT
1 AT
30319548 TAGGTAAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 40
0.71 0.11 0.19
Matches are distributed among these distances:
19 2 0.01
20 45 0.30
21 54 0.36
22 13 0.09
23 23 0.15
24 12 0.08
25 3 0.02
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:30319388 original size:41 final size:41
Alignment explanation
Indices: 30319338--30319436 Score: 171
Period size: 41 Copynumber: 2.4 Consensus size: 41
30319328 TATTAATAAT
* *
30319338 CATGTAATTAAATATATAATCATGCAATTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
*
30319379 CATGCAATTAAATATTTAATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
30319420 CATGCAATTAAATATAT
1 CATGCAATTAAATATAT
30319437 TAATAATCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (41 bp):
CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
Found at i:30319522 original size:43 final size:45
Alignment explanation
Indices: 30319414--30319530 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 45
30319404 AATTAACAAT
* *
30319414 ATAAAACATGCAATTAAATATATTAATAATCATGCCATCAAATTAA
1 ATAAATCATACAATTAAATATATTAATAATCATGCCA-CAAATTAA
*
30319460 ATATAATCTTACAATTAAATATATTAATAATCATG-CA-AATATT-A
1 ATA-AATCATACAATTAAATATATTAATAATCATGCCACAA-ATTAA
*
30319504 ATAAATCATACAAATAAATATATTAAT
1 ATAAATCATACAATTAAATATATTAAT
30319531 CATGCAAACA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 22 0.34
44 6 0.09
45 3 0.05
46 5 0.08
47 28 0.44
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (45 bp):
ATAAATCATACAATTAAATATATTAATAATCATGCCACAAATTAA
Found at i:30320170 original size:14 final size:13
Alignment explanation
Indices: 30320138--30320172 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
30320128 AAAATACAAA
30320138 TAAAATTTTAAAC
1 TAAAATTTTAAAC
*
30320151 TTAAATTTTAAAC
1 TAAAATTTTAAAC
30320164 TCAAAATTT
1 T-AAAATTT
30320173 ATTTTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAAATTTTAAAC
Found at i:30321656 original size:30 final size:30
Alignment explanation
Indices: 30321617--30321690 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
30321607 ATTAATTATT
* *
30321617 TAAT-TTTTTATTTATATATATTTATATAA
1 TAATATTTTTATTTATATATATTTAAAAAA
* ** *
30321646 TGATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTATTTATATATATTTAAAAAA
30321676 TAATATTTTATATTT
1 TAATATTTT-TATTT
30321691 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 3 0.09
30 28 0.82
31 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TAATATTTTTATTTATATATATTTAAAAAA
Found at i:30321687 original size:21 final size:22
Alignment explanation
Indices: 30321657--30321708 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
30321647 GATATTTTTA
30321657 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
30321677 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
30321699 AATATTTTAT
1 AATATTTTAT
30321709 TAATTTCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:30323643 original size:23 final size:24
Alignment explanation
Indices: 30323598--30323643 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
30323588 TTTTATTGTA
** *
30323598 TTTTTTATATAAGAATCTGAAAAT
1 TTTTTTATATAAGAAAATAAAAAT
30323622 TTTTTTATA-AAGAAAATAAAAA
1 TTTTTTATATAAGAAAATAAAAA
30323644 CTCAATGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
TTTTTTATATAAGAAAATAAAAAT
Found at i:30328777 original size:2 final size:2
Alignment explanation
Indices: 30328772--30328799 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30328762 TGTGTGTGTC
30328772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30328800 AAATATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30332305 original size:14 final size:13
Alignment explanation
Indices: 30332266--30332308 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
30332256 GTTGAATATT
30332266 ATAATTGAAAA-AA
1 ATAATT-AAAATAA
*
30332279 ATAATTCAAATAA
1 ATAATTAAAATAA
30332292 ATAATATAAAATAA
1 ATAAT-TAAAATAA
30332306 ATA
1 ATA
30332309 TAATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 3 0.12
13 13 0.50
14 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAATTAAAATAA
Found at i:30334012 original size:26 final size:26
Alignment explanation
Indices: 30333962--30334018 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
30333952 TTTTTATTGT
30333962 TAAAAATTATATTTAATTAAT-AAAAA
1 TAAAAATTATATTTAA-TAATAAAAAA
*
30333988 TAAAAATTATTTTTTAA-AATAAAAAAA
1 TAAAAATTA-TATTTAATAAT-AAAAAA
30334015 TAAA
1 TAAA
30334019 GAAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.11
26 9 0.33
27 15 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TAAAAATTATATTTAATAATAAAAAA
Found at i:30334105 original size:27 final size:27
Alignment explanation
Indices: 30334050--30334108 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
30334040 AATATTTTTA
* *
30334050 ATTTATTTAATTATAAATATAATATAT
1 ATTTATTTAATTATAAATATAAAAAAT
30334077 ATTTA-TTAATTA-ATAATATTAAAAAAT
1 ATTTATTTAATTATA-AATA-TAAAAAAT
30334104 ATTTA
1 ATTTA
30334109 AATTTGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 11 0.39
27 16 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTATTTAATTATAAATATAAAAAAT
Found at i:30334184 original size:31 final size:31
Alignment explanation
Indices: 30334146--30334215 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
30334136 ATATTTATCT
30334146 TTTATTTTCACAATTA-AAAATAT-TTTTTATA
1 TTTATTTT--CAATTATAAAATATATTTTTATA
* * *
30334177 TTTATTTTTAATTATCAAATATATTTTTATT
1 TTTATTTTCAATTATAAAATATATTTTTATA
30334208 TTTATTTT
1 TTTATTTT
30334216 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.15
30 6 0.18
31 23 0.68
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTATTTTCAATTATAAAATATATTTTTATA
Found at i:30338972 original size:3 final size:3
Alignment explanation
Indices: 30338966--30338994 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30338956 CTCTTCTTTC
30338966 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30338995 GTTTTCCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30340137 original size:41 final size:41
Alignment explanation
Indices: 30340078--30340157 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
30340068 ACAAAGACTA
*
30340078 AAAAAAAAAGTAAGAACCCCTAGTAGATCACCTAGATGCTG
1 AAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGCTG
* * *
30340119 AAAAAAAACGTAAAAACCCTTATTAGATCACCTAGATGC
1 AAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGC
30340158 CCAGTAGGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (41 bp):
AAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGCTG
Found at i:30342315 original size:15 final size:17
Alignment explanation
Indices: 30342279--30342315 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
30342269 ATATATATAT
30342279 GTAAAATATGGAAAGAA
1 GTAAAATATGGAAAGAA
30342296 G-AAAAT-TGGAAA-AA
1 GTAAAATATGGAAAGAA
30342310 GTAAAA
1 GTAAAA
30342316 CCAAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 5 0.26
17 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (17 bp):
GTAAAATATGGAAAGAA
Found at i:30344702 original size:4 final size:4
Alignment explanation
Indices: 30344693--30344722 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
30344683 TAAAACCCAA
30344693 AAAT AAAT AAAT AAAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A
30344723 TAATGTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:30344708 original size:13 final size:13
Alignment explanation
Indices: 30344692--30344725 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
30344682 TTAAAACCCA
30344692 AAAATAAATAAAT
1 AAAATAAATAAAT
30344705 AAAATAAATAAAT
1 AAAATAAATAAAT
30344718 AAATATAA
1 AAA-ATAA
30344726 TGTTAGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:30351400 original size:15 final size:15
Alignment explanation
Indices: 30351377--30351406 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30351367 ATATCTCTGC
*
30351377 ATATTTATACAGTTT
1 ATATGTATACAGTTT
30351392 ATATGTATACAGTTT
1 ATATGTATACAGTTT
30351407 TTGTGGTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
ATATGTATACAGTTT
Found at i:30354393 original size:16 final size:16
Alignment explanation
Indices: 30354372--30354427 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
30354362 CAGATTTTGG
30354372 GGGGTTTTGGATTTTA
1 GGGGTTTTGGATTTTA
* *
30354388 GGGG-TTTAGATTTAA
1 GGGGTTTTGGATTTTA
*
30354403 GGGATTTTGGATCTTTA
1 GGGGTTTTGGAT-TTTA
30354420 GGGGTTTT
1 GGGGTTTT
30354428 AGAAACTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.38
16 10 0.31
17 10 0.31
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (16 bp):
GGGGTTTTGGATTTTA
Found at i:30354442 original size:33 final size:30
Alignment explanation
Indices: 30354376--30354444 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 30
30354366 TTTTGGGGGG
*
30354376 TTTTGGATTTTAGGGGTTTAGATTTAAGGGA
1 TTTTGGATTTTAGGGGTTTAGACTTAA-GGA
30354407 TTTTGGATCTTTAGGGGTTTTAGAAACTTAA-GA
1 TTTTGGAT-TTTAGGGG-TTTAG--ACTTAAGGA
30354440 TTTTG
1 TTTTG
30354445 AAAATTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 8 0.24
32 8 0.24
33 12 0.36
35 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (30 bp):
TTTTGGATTTTAGGGGTTTAGACTTAAGGA
Found at i:30354707 original size:3 final size:3
Alignment explanation
Indices: 30354701--30354730 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30354691 ATAATTATTC
30354701 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30354731 CTTAAGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30354832 original size:22 final size:22
Alignment explanation
Indices: 30354807--30354857 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
30354797 ATAATTAGAT
30354807 ATTTATCCTAATAAAATTAAAC
1 ATTTATCCTAATAAAATTAAAC
30354829 ATTTATCCTAATAAAATTAAAC
1 ATTTATCCTAATAAAATTAAAC
30354851 ATTTATC
1 ATTTATC
30354858 ATGCATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTTATCCTAATAAAATTAAAC
Found at i:30354911 original size:17 final size:18
Alignment explanation
Indices: 30354861--30354913 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
30354851 ATTTATCATG
30354861 CATAATATATAAAAAAATA
1 CATAATATAT-AAAAAATA
* *
30354880 CTTAAAATA-ACAAAAATA
1 CATAATATATA-AAAAATA
30354898 -ATAATATATAAAAAAT
1 CATAATATATAAAAAAT
30354914 TAGAAAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
CATAATATATAAAAAATA
Found at i:30356032 original size:20 final size:20
Alignment explanation
Indices: 30356007--30356045 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30355997 CCAATATTAT
*
30356007 TATTATCATTGTTAAAAAAA
1 TATTATCATTATTAAAAAAA
*
30356027 TATTATTATTATTAAAAAA
1 TATTATCATTATTAAAAAA
30356046 TGTAGACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
TATTATCATTATTAAAAAAA
Found at i:30356621 original size:85 final size:86
Alignment explanation
Indices: 30356381--30356662 Score: 318
Period size: 87 Copynumber: 3.3 Consensus size: 86
30356371 GGTCTTACAG
* * * * * *
30356381 AATGGTACCCGAAGGTTTTATAAAATCGATTGGGACAACACCGCAAGTTGAGAATAATGAATCGA
1 AATGATACCCGAAGG-TCTATAGAATCGACTGGGACAACACCTCAAGTCGAGAATAATGAATCGA
* * *
30356446 TTGGGATAACATCATGAATCAA
65 TCGGGATAACATCACGAATCGA
* * ** * *
30356468 AATTATACCCGGAGGTCTTATAGAATCGACTGGGACAATGTCGT-AAGTCGAGAATAATGAATCA
1 AATGATACCCGAAGGTC-TATAGAATCGACTGGGACAA-CACCTCAAGTCGAGAATAATGAATCG
*
30356532 ATCGGGATAACATTACGAATCGA
64 ATCGGGATAACATCACGAATCGA
* * *
30356555 AATGATACCCGAAGGTCT-TAGAATCGACTGGGACAACACCTCAAGTCAAGAATAACGAATTGAT
1 AATGATACCCGAAGGTCTATAGAATCGACTGGGACAACACCTCAAGTCGAGAATAATGAATCGAT
*
30356619 CGGGATAACACCACGAATCGA
66 CGGGATAACATCACGAATCGA
* *
30356640 AATTACACCCGAAGGTCT-TAGAA
1 AATGATACCCGAAGGTCTATAGAA
30356663 ATCAAGATCT
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
84 2 0.01
85 76 0.47
86 2 0.01
87 82 0.50
88 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (86 bp):
AATGATACCCGAAGGTCTATAGAATCGACTGGGACAACACCTCAAGTCGAGAATAATGAATCGAT
CGGGATAACATCACGAATCGA
Found at i:30357279 original size:32 final size:32
Alignment explanation
Indices: 30357241--30357679 Score: 414
Period size: 33 Copynumber: 13.5 Consensus size: 32
30357231 TTGAGGCTAA
* *
30357241 ATAAACTGGGCTTAAATTTTAATGAAGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* * ** *
30357273 CTAAACTGGACTTAAAACCTCATTTAAGGCCAG
1 ATAAACTGGGCTT-AAATTTCATTGAAGGCCAG
* * *
30357306 ATAAACTAGGCTTAAATGTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* * *
30357338 ATAAACTAGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAA-TTTCATTGAAGGCCAG
* * *
30357371 ATAAATTTGGCTTAAAGCTTCATT-AATGGCCAG
1 ATAAACTGGGCTTAAA-TTTCATTGAA-GGCCAG
* * * *
30357404 ATAAATTTGGCTTAAAGCTTCATT-AATGGTCAG
1 ATAAACTGGGCTTAAA-TTTCATTGAA-GGCCAG
* *
30357437 ATAAACTGGGCTTAAATGTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* *
30357469 ATAAACTAGGCTTAAATGTCATTGAAGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* * *
30357501 ATAAACTGGGCCTAAATTTTATTGAAAGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* *
30357533 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAA-TTTCATTGAAGGCCAG
* * *
30357566 ATAAACTGGACTTAAATGTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
* * * *
30357598 ATAAATTGGGCTTAAAGTTTTATTGATGACCAG
1 ATAAACTGGGCTTAAA-TTTCATTGAAGGCCAG
* * * * *
30357631 ATAAATTGGGCTTAAAGCTTCATTGATGACTAG
1 ATAAACTGGGCTTAAA-TTTCATTGAAGGCCAG
30357664 ATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAA
30357680 ACTTTATTTT
Statistics
Matches: 351, Mismatches: 50, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
32 153 0.44
33 198 0.56
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (32 bp):
ATAAACTGGGCTTAAATTTCATTGAAGGCCAG
Found at i:30357310 original size:65 final size:64
Alignment explanation
Indices: 30357241--30357679 Score: 422
Period size: 65 Copynumber: 6.7 Consensus size: 64
30357231 TTGAGGCTAA
* * * * * *
30357241 ATAAACTGGGCTTAAATTTTAATGAAGGCCAGCTAAACTGGACTTAAAACCTCATTTAAGGCCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACTGG-CTTAAAGCTTCATTGAAGGCCAG
* * * *
30357306 ATAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTAGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACT-GGCTTAAAGCTTCATTGAAGGCCAG
* * *
30357371 ATAAATTTGGCTTAAA-GCTTCATT-AATGGCCAGATAAATTTGGCTTAAAGCTTCATT-AATGG
1 ATAAACTGGGCTTAAATG-TT-ATTGAA-GGCCAGATAAA-CTGGCTTAAAGCTTCATTGAA-GG
*
30357433 TCAG
61 CCAG
* *
30357437 ATAAACTGGGCTTAAATGTCATTGATGGCCAGATAAACTAGGCTTAAA--TGTCATTGAAGGCCA
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACT-GGCTTAAAGCT-TCATTGAAGGCCA
30357500 G
64 G
* * * *
30357501 ATAAACTGGGCCTAAATTTTATTGAAAGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACT-GGCTTAAAGCTTCATTGAAGGCCAG
* * * * * * * *
30357566 ATAAACTGGACTTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAAGTTTTATTGATGACCAG
1 ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACT-GGCTTAAAGCTTCATTGAAGGCCAG
* * * *
30357631 ATAAATTGGGCTTAAA-GCTTCATTGATGACTAGATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAATG-TT-ATTGAAGGCCAGATAAACT-GGCTTAAA
30357680 ACTTTATTTT
Statistics
Matches: 313, Mismatches: 46, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.00
64 55 0.18
65 176 0.56
66 79 0.25
67 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (64 bp):
ATAAACTGGGCTTAAATGTTATTGAAGGCCAGATAAACTGGCTTAAAGCTTCATTGAAGGCCAG
Found at i:30371789 original size:27 final size:26
Alignment explanation
Indices: 30371740--30371794 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
30371730 TTGAGTTAAA
* **
30371740 TTTAAAGAAATTTTTCATCTAAAAATT
1 TTTAAAAAAATTTACCATCT-AAAATT
*
30371767 TTTAAAAAAATTTACCATTTAAAATT
1 TTTAAAAAAATTTACCATCTAAAATT
30371793 TT
1 TT
30371795 AAGAATCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAAAAAAATTTACCATCTAAAATT
Found at i:30373292 original size:18 final size:18
Alignment explanation
Indices: 30373255--30373299 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
30373245 TCATATTCAC
* *
30373255 AAGAATTTTCAGTTTCGT
1 AAGAATTTTAAATTTCGT
*
30373273 AAGAATTTTAAATTTTGT
1 AAGAATTTTAAATTTCGT
*
30373291 AAAAATTTT
1 AAGAATTTT
30373300 TCAGCTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (18 bp):
AAGAATTTTAAATTTCGT
Found at i:30373410 original size:31 final size:31
Alignment explanation
Indices: 30373347--30373436 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
30373337 TTTTTGTGAG
* * * *
30373347 ATTTCAGTTTTGCAAGAATTTGAT-TCTCAAA
1 ATTTTAGTTTCGCAAGAATTT-ATATTTTAAA
30373378 ATTTTAGTTTCGCAAGAATTTATATTTTAAA
1 ATTTTAGTTTCGCAAGAATTTATATTTTAAA
* *
30373409 ATTTTCATTTTCACAAGAATTTA-ATTTT
1 ATTTT-AGTTTCGCAAGAATTTATATTTT
30373437 TCAGATTCGC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
30 2 0.04
31 34 0.67
32 15 0.29
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (31 bp):
ATTTTAGTTTCGCAAGAATTTATATTTTAAA
Found at i:30374875 original size:7 final size:7
Alignment explanation
Indices: 30374865--30374943 Score: 68
Period size: 7 Copynumber: 10.6 Consensus size: 7
30374855 CTTTTTTTTT
30374865 TTTTTCA
1 TTTTTCA
30374872 TTTTTCA
1 TTTTTCA
*
30374879 CTTTTCA
1 TTTTTCA
*
30374886 CTTTTCA
1 TTTTTCA
30374893 CTTTTTCA
1 -TTTTTCA
30374901 TTTTTTTCA
1 --TTTTTCA
*
30374910 TTTTTAA
1 TTTTTCA
*
30374917 TTTTTTA
1 TTTTTCA
30374924 TTTTTTTCA
1 --TTTTTCA
*
30374933 TTTTTAA
1 TTTTTCA
30374940 TTTT
1 TTTT
30374944 ACTTTATCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
7 42 0.69
8 6 0.10
9 13 0.21
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:30374908 original size:9 final size:9
Alignment explanation
Indices: 30374894--30374937 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
30374884 CACTTTTCAC
30374894 TTTTTCATT
1 TTTTTCATT
30374903 TTTTTCA--
1 TTTTTCATT
*
30374910 TTTTT-AAT
1 TTTTTCATT
30374918 TTTTT-ATT
1 TTTTTCATT
30374926 TTTTTCATT
1 TTTTTCATT
30374935 TTT
1 TTT
30374938 AATTTTACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.16
8 12 0.39
9 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCATT
Found at i:30374930 original size:23 final size:23
Alignment explanation
Indices: 30374880--30374943 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
30374870 CATTTTTCAC
* *
30374880 TTTTCACTTTTCACTTTTTCATTT
1 TTTTCA-TTTTTAATTTTTCATTT
*
30374904 TTTTCATTTTTAATTTTTTATTT
1 TTTTCATTTTTAATTTTTCATTT
30374927 TTTTCATTTTTAATTTT
1 TTTTCATTTTTAATTTT
30374944 ACTTTATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 31 0.84
24 6 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTCATTTTTAATTTTTCATTT
Found at i:30374942 original size:16 final size:17
Alignment explanation
Indices: 30374887--30374922 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
30374877 CACTTTTCAC
*
30374887 TTTTCACTTTTTCATTT
1 TTTTCACTTTTTAATTT
30374904 TTTTCA-TTTTTAATTT
1 TTTTCACTTTTTAATTT
30374920 TTT
1 TTT
30374923 ATTTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCACTTTTTAATTT
Found at i:30374943 original size:14 final size:15
Alignment explanation
Indices: 30374865--30374943 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
30374855 CTTTTTTTTT
*
30374865 TTTTTCA-TTTTTCA
1 TTTTTCATTTTTTAA
* * * *
30374879 CTTTTCACTTTTCAC
1 TTTTTCATTTTTTAA
*
30374894 TTTTTCATTTTTTTCA
1 TTTTTCA-TTTTTTAA
* *
30374910 TTTTTAATTTTTTATT
1 TTTTTCATTTTTTA-A
30374926 TTTTTCA-TTTTTAA
1 TTTTTCATTTTTTAA
30374940 TTTT
1 TTTT
30374944 ACTTTATCTA
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
14 10 0.21
15 22 0.46
16 16 0.33
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTCATTTTTTAA
Found at i:30375368 original size:14 final size:15
Alignment explanation
Indices: 30375347--30375376 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30375337 AAGGGTTCTT
*
30375347 ATTTTTTTTTTTTAC
1 ATTTTTTTCTTTTAC
30375362 ATTTTTTTCTTTTAC
1 ATTTTTTTCTTTTAC
30375377 TCTCTATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTTCTTTTAC
Found at i:30380648 original size:13 final size:13
Alignment explanation
Indices: 30380632--30380656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30380622 ATAAAATATT
30380632 TAAAATAAATAAA
1 TAAAATAAATAAA
30380645 TAAAATAAATAA
1 TAAAATAAATAA
30380657 GTAAGTAAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:30381457 original size:24 final size:24
Alignment explanation
Indices: 30381404--30381450 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30381394 GATCATTCAA
*
30381404 ATATAATATTAATCATGCAATAAC
1 ATATAATATCAATCATGCAATAAC
*
30381428 ATATAATATCATATCATTCAATA
1 ATATAATATCA-ATCATGCAATA
30381451 TATATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATAATATCAATCATGCAATAAC
Found at i:30381572 original size:21 final size:21
Alignment explanation
Indices: 30381543--30381659 Score: 143
Period size: 21 Copynumber: 5.7 Consensus size: 21
30381533 TTAAATATAT
30381543 AATCATGCAATTAACAATGTA
1 AATCATGCAATTAACAATGTA
* *
30381564 AAACATGCAATTAA-ATATCT-
1 AATCATGCAATTAACA-ATGTA
30381584 AATCATGCAATTAACAATGTA
1 AATCATGCAATTAACAATGTA
* * *
30381605 AAACATGTAATT-A-AATATA
1 AATCATGCAATTAACAATGTA
30381624 TAATCATGCAATTAACAATGTA
1 -AATCATGCAATTAACAATGTA
30381646 AATCATGCAATTAA
1 AATCATGCAATTAA
30381660 ATATATAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
19 5 0.06
20 28 0.35
21 42 0.52
22 5 0.06
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.30
Consensus pattern (21 bp):
AATCATGCAATTAACAATGTA
Found at i:30381576 original size:41 final size:41
Alignment explanation
Indices: 30381526--30381905 Score: 399
Period size: 41 Copynumber: 9.4 Consensus size: 41
30381516 AATTAATAAT
*
30381526 CATGTAATTAAATATATAATCATGCAATTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
*
30381567 CATGCAATTAAATATCTAATCATGCAATTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
* *
30381608 CATGTAATTAAATATATAATCATGCAATTAACAATGTAAAT
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
* *
30381649 CATGCAATTAAATATATAA-CTATGCAAATAA-ATATATTAATAA
1 CATGCAATTAAATATATAATC-ATGCAATTAACA-AT-GTAA-AA
* * * * * *
30381692 TCATACAATCACACAAATAA--AT--AAGTT---AA--T-AAT
1 -CATGCAATTAAATATATAATCATGCAA-TTAACAATGTAAAA
*
30381725 CATGTAATTAAATATATAATCATGCAATTAACAAAT-TAAAA
1 CATGCAATTAAATATATAATCATGCAATTAAC-AATGTAAAA
* * *
30381766 GATGCAATTAAATATCTAATCATACAATTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
* *
30381807 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAT
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
* * * * *
30381848 CATGCAATTAAATACATAATCATGTAATTGACAATATAAAT
1 CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
30381889 CATGCAATTAAATATAT
1 CATGCAATTAAATATAT
30381906 TAATAATCAA
Statistics
Matches: 286, Mismatches: 36, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
32 13 0.05
33 1 0.00
34 3 0.01
35 3 0.01
36 2 0.01
38 1 0.00
39 3 0.01
40 8 0.03
41 232 0.81
42 5 0.02
43 1 0.00
44 14 0.05
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (41 bp):
CATGCAATTAAATATATAATCATGCAATTAACAATGTAAAA
Found at i:30381698 original size:199 final size:199
Alignment explanation
Indices: 30381475--30381866 Score: 714
Period size: 199 Copynumber: 2.0 Consensus size: 199
30381465 CAATAATAAT
30381475 AAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAATAATCATGTAATTAAATA
1 AAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAATAATCATGTAATTAAATA
*
30381540 TATAATCATGCAATTAAC-AATGTAAAACATGCAATTAAATATCTAATCATGCAATTAACAATGT
66 TATAATCATGCAATTAACAAAT-TAAAACATGCAATTAAATATCTAATCATACAATTAACAATGT
* * *
30381604 AAAACATGTAATTAAATATATAATCATGCAATTAACAATGTAAATCATGCAATTAAATATATAAC
130 AAAACATGCAATTAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAATACATAAC
30381669 TATGC
195 TATGC
*
30381674 AAATAAATATATTAATAATCATACAATCACACAAATAAATAAGTTAATAATCATGTAATTAAATA
1 AAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAATAATCATGTAATTAAATA
*
30381739 TATAATCATGCAATTAACAAATTAAAAGATGCAATTAAATATCTAATCATACAATTAACAATGTA
66 TATAATCATGCAATTAACAAATTAAAACATGCAATTAAATATCTAATCATACAATTAACAATGTA
30381804 AAACATGCAATTAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAATACATAA
131 AAACATGCAATTAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAATACATAA
30381867 TCATGTAATT
Statistics
Matches: 186, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
199 183 0.98
200 3 0.02
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (199 bp):
AAATAAATATATTAATAATCATACAATCACACAAATAAATAAATTAATAATCATGTAATTAAATA
TATAATCATGCAATTAACAAATTAAAACATGCAATTAAATATCTAATCATACAATTAACAATGTA
AAACATGCAATTAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAATACATAACT
ATGC
Found at i:30381816 original size:21 final size:21
Alignment explanation
Indices: 30381722--30381899 Score: 158
Period size: 21 Copynumber: 8.7 Consensus size: 21
30381712 ATAAGTTAAT
*
30381722 AATCATGTAATT-A-AATATA
1 AATCATGCAATTAACAATATA
30381741 TAATCATGCAATTAACAA-ATTA
1 -AATCATGCAATTAACAATA-TA
** *
30381763 AAAGATGCAATT-A-AATATCT
1 AATCATGCAATTAACAATAT-A
* *
30381783 AATCATACAATTAACAATGTA
1 AATCATGCAATTAACAATATA
*
30381804 AAACATGCAATT-A-AATATA
1 AATCATGCAATTAACAATATA
30381823 TAATCATGCAATTAACAATATA
1 -AATCATGCAATTAACAATATA
*
30381845 AATCATGCAATT-A-AATACA
1 AATCATGCAATTAACAATATA
* *
30381864 TAATCATGTAATTGACAATATA
1 -AATCATGCAATTAACAATATA
30381886 AATCATGCAATTAA
1 AATCATGCAATTAA
30381900 ATATATTAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 25
0.75 0.11 0.15
Matches are distributed among these distances:
19 13 0.10
20 46 0.36
21 49 0.39
22 19 0.15
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (21 bp):
AATCATGCAATTAACAATATA
Found at i:30381949 original size:24 final size:24
Alignment explanation
Indices: 30381709--30382025 Score: 127
Period size: 20 Copynumber: 14.5 Consensus size: 24
30381699 ATCACACAAA
*
30381709 TAAATA-AGTTAATAATCATGTAAT
1 TAAATATA-TTAATAATCATGCAAT
30381733 T-AA-ATA-T-ATAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
*
30381753 TAACA-A-ATTAA-AA-GATGCAAT
1 TAA-ATATATTAATAATCATGCAAT
* *
30381774 T-AA-ATA-T-CTAATCATACAAT
1 TAAATATATTAATAATCATGCAAT
*
30381794 TAACA-AT-GTAA-AA-CATGCAAT
1 TAA-ATATATTAATAATCATGCAAT
30381815 T-AA-ATA-T-ATAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
30381835 TAACA-ATA-T-A-AATCATGCAAT
1 TAA-ATATATTAATAATCATGCAAT
* *
30381856 T-AA-ATA--CATAATCATGTAAT
1 TAAATATATTAATAATCATGCAAT
*
30381876 TGACA-ATA-T-A-AATCATGCAAT
1 T-AAATATATTAATAATCATGCAAT
* *
30381897 TAAATATATTAATAATCAAGTAAT
1 TAAATATATTAATAATCATGCAAT
30381921 TAAATATATTAATAATCATGCAAT
1 TAAATATATTAATAATCATGCAAT
* * ** * *
30381945 CAAAT-TA-AATATAATTTTACAAA
1 TAAATATATTA-ATAATCATGCAAT
30381968 TAAATATATTAATAATCATGC---
1 TAAATATATTAATAATCATGCAAT
** *
30381989 -AAATATATTAATAAATCACACAAA
1 TAAATATATTAAT-AATCATGCAAT
30382013 TAAATATATTAAT
1 TAAATATATTAAT
30382026 CATGTAAACA
Statistics
Matches: 231, Mismatches: 28, Indels: 67
0.71 0.09 0.21
Matches are distributed among these distances:
18 1 0.00
19 16 0.07
20 58 0.25
21 53 0.23
22 25 0.11
23 20 0.09
24 45 0.19
25 13 0.06
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (24 bp):
TAAATATATTAATAATCATGCAAT
Found at i:30381973 original size:47 final size:45
Alignment explanation
Indices: 30381921--30382025 Score: 140
Period size: 47 Copynumber: 2.3 Consensus size: 45
30381911 ATCAAGTAAT
***
30381921 TAAATATATTAATAATCATGC-AATCAAATTAAATATAATTTTACAAA
1 TAAATATATTAATAATCATGCAAAT-AAATT-AATA-AATCACACAAA
*
30381968 TAAATATATTAATAATCATGCAAATATATTAATAAATCACACAAA
1 TAAATATATTAATAATCATGCAAATAAATTAATAAATCACACAAA
30382013 TAAATATATTAAT
1 TAAATATATTAAT
30382026 CATGTAAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
45 21 0.40
46 4 0.08
47 25 0.47
48 3 0.06
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (45 bp):
TAAATATATTAATAATCATGCAAATAAATTAATAAATCACACAAA
Found at i:30382028 original size:240 final size:238
Alignment explanation
Indices: 30381534--30382028 Score: 592
Period size: 240 Copynumber: 2.1 Consensus size: 238
30381524 ATCATGTAAT
* *
30381534 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAATTAAATATCTAATCATGCAATTAAC
1 TAAATATATAATCATACAATTAACAATGTAAAACATGCAATTAAATATATAATCATGCAATTAAC
* * * *
30381599 AATGTAAAACATGTAATTAAATATATAATCATGCAATTAACAATGTAAATCATGCAATTAAATAT
66 AATATAAAACATGCAATTAAATACATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* *
30381664 ATAACTATGCAAATAAATATATTAATAATCATACAATCACACAAATAAATAAGTTAATAATCATG
131 ATAACTATGCAAATAAATATATTAATAATCATACAATCAAACAAAT-AATAAGTTAACAA-CATG
* * * ** *
30381729 TAATTAAATATATAATCATGCAATTAACAAATTAAAAGATGCAAT
194 AAATTAAATATATAATCATGCAAATAACAAATTAAAACACACAAA
*
30381774 TAAATATCTAATCATACAATTAACAATGTAAAACATGCAATTAAATATATAATCATGCAATTAAC
1 TAAATATATAATCATACAATTAACAATGTAAAACATGCAATTAAATATATAATCATGCAATTAAC
* * *
30381839 AATATAAATCATGCAATTAAATACATAATCATGTAATTGACAATATAAATCATGCAATTAAATAT
66 AATATAAAACATGCAATTAAATACATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
* * * *
30381904 ATTAA-TAAT-CAAGTAATTAAATATATTAATAATCATGCAATCAAATTAAAT-ATAATTTTACA
131 A-TAACT-ATGC-A--AA-TAAATATATTAATAATCATACAATCAAA-CAAATAATAAGTTAACA
* ** *
30381966 A-AT-AAA-TATAT-TAATAATCATGCAAATATATTAA-TAAATCACACAAA
189 ACATGAAATTAAATAT-ATAATCATGCAAATA-ACAAATTAAAACACACAAA
30382013 TAAATATATTAATCAT
1 TAAATATA-TAATCAT
30382029 GTAAACAAAT
Statistics
Matches: 218, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
238 1 0.00
239 33 0.15
240 135 0.62
241 8 0.04
243 11 0.05
244 26 0.12
245 4 0.02
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (238 bp):
TAAATATATAATCATACAATTAACAATGTAAAACATGCAATTAAATATATAATCATGCAATTAAC
AATATAAAACATGCAATTAAATACATAATCATGCAATTAACAATATAAATCATGCAATTAAATAT
ATAACTATGCAAATAAATATATTAATAATCATACAATCAAACAAATAATAAGTTAACAACATGAA
ATTAAATATATAATCATGCAAATAACAAATTAAAACACACAAA
Found at i:30382067 original size:16 final size:19
Alignment explanation
Indices: 30382046--30382088 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
30382036 AATATATTAG
30382046 GCAAATT-A-ATT-GTCAT
1 GCAAATTAATATTAGTCAT
30382062 GCAAATATAATATTAGTCAT
1 GCAAAT-TAATATTAGTCAT
30382082 GCAAATT
1 GCAAATT
30382089 CATGCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 1 0.04
19 4 0.17
20 11 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
GCAAATTAATATTAGTCAT
Found at i:30382663 original size:23 final size:23
Alignment explanation
Indices: 30382637--30382680 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30382627 CTCATATTTT
*
30382637 CTTTT-TTGTTTTTATTTTTTACC
1 CTTTTATT-TTTTTAATTTTTACC
30382660 CTTTTATTTTTTTAATTTTTA
1 CTTTTATTTTTTTAATTTTTA
30382681 TCATTGACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (23 bp):
CTTTTATTTTTTTAATTTTTACC
Found at i:30383148 original size:42 final size:43
Alignment explanation
Indices: 30383025--30383177 Score: 161
Period size: 42 Copynumber: 3.6 Consensus size: 43
30383015 ACAACTGAGA
* * *
30383025 CTTTGAAACTTTTGAAAAATAAAATTCTCCTCCACAACTGAGG
1 CTTTGAAACTTTTGAAAAATAAAATACTCCTCCATAACTAAGG
* * * * * *
30383068 TTTTTGGAACTTTTGGAAAATTAAATGCTGCC-CTATAACTAAGG
1 -CTTTGAAACTTTTGAAAAATAAAATACT-CCTCCATAACTAAGG
*
30383112 CTTTGAAAC-TTTGAAAAATAAAATACT-CTCCGATAACTAAGT
1 CTTTGAAACTTTTGAAAAATAAAATACTCCTCC-ATAACTAAGG
30383154 CTTTGAAACTTTTG-AAAATAAAAT
1 CTTTGAAACTTTTGAAAAATAAAAT
30383178 GAGATTATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 43 0.48
43 11 0.12
44 32 0.36
45 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (43 bp):
CTTTGAAACTTTTGAAAAATAAAATACTCCTCCATAACTAAGG
Found at i:30389949 original size:20 final size:20
Alignment explanation
Indices: 30389912--30389950 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30389902 AATATATTAT
* *
30389912 AATATAAAATGCTATGCAAC
1 AATATAAAATACCATGCAAC
*
30389932 AATATAAAATACCGTGCAA
1 AATATAAAATACCATGCAA
30389951 ATATATAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
AATATAAAATACCATGCAAC
Found at i:30390232 original size:20 final size:20
Alignment explanation
Indices: 30390207--30390310 Score: 81
Period size: 20 Copynumber: 5.1 Consensus size: 20
30390197 AAATATATTA
30390207 ATAATCATGTAATTAAATAT
1 ATAATCATGTAATTAAATAT
30390227 ATAATCATGTAATTAACA-AT
1 ATAATCATGTAATTAA-ATAT
* *
30390247 GTAAAACAT-TCAATTAAATA-
1 AT-AATCATGT-AATTAAATAT
*
30390267 ATTAATCATGCAATTAACA-AT
1 A-TAATCATGTAATTAA-ATAT
* *
30390288 ATAAAACATGCAATTAAATAT
1 AT-AATCATGTAATTAAATAT
30390309 AT
1 AT
30390311 TATTTTAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
20 35 0.51
21 33 0.49
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAATCATGTAATTAAATAT
Found at i:30390262 original size:41 final size:41
Alignment explanation
Indices: 30390212--30390310 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
30390202 TATTAATAAT
* * *
30390212 CATGTAATTAAATATATAATCATGTAATTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
*
30390253 CATTCAATTAAATA-ATTAATCATGCAATTAACAATATAAAA
1 CATGCAATTAAATATA-TAATCATGCAATTAACAATATAAAA
30390294 CATGCAATTAAATATAT
1 CATGCAATTAAATATAT
30390311 TATTTTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.02
41 49 0.96
42 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (41 bp):
CATGCAATTAAATATATAATCATGCAATTAACAATATAAAA
Found at i:30390263 original size:21 final size:20
Alignment explanation
Indices: 30390232--30390304 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
30390222 AATATATAAT
*
30390232 CATGTAATTAACAATGTAAAA
1 CATGCAATTAACAAT-TAAAA
* * *
30390253 CATTCAATTAAATAATT-AAT
1 CATGCAATT-AACAATTAAAA
30390273 CATGCAATTAACAATATAAAA
1 CATGCAATTAACAAT-TAAAA
30390294 CATGCAATTAA
1 CATGCAATTAA
30390305 ATATATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.12
20 11 0.26
21 21 0.50
22 5 0.12
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (20 bp):
CATGCAATTAACAATTAAAA
Found at i:30392660 original size:30 final size:30
Alignment explanation
Indices: 30392621--30392694 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
30392611 ATTAATTATT
* *
30392621 TAAT-TTTTTATTTATATATATTTATATAA
1 TAATATTTTTATTTATATATATTTAAAAAA
* ** *
30392650 TGATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTATTTATATATATTTAAAAAA
30392680 TAATATTTTATATTT
1 TAATATTTT-TATTT
30392695 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 3 0.09
30 28 0.82
31 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TAATATTTTTATTTATATATATTTAAAAAA
Found at i:30392691 original size:21 final size:22
Alignment explanation
Indices: 30392661--30392712 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
30392651 GATATTTTTA
30392661 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
30392681 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
30392703 AATATTTTAT
1 AATATTTTAT
30392713 TAATTTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:30393276 original size:23 final size:23
Alignment explanation
Indices: 30393250--30393293 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
30393240 ATATTTATAT
*
30393250 TTAAAAAATCATTAA-ATAATTCA
1 TTAAAAAACCA-TAACATAATTCA
*
30393273 TTAACAAACCATAACATAATT
1 TTAAAAAACCATAACATAATT
30393294 AGAGTCTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
TTAAAAAACCATAACATAATTCA
Found at i:30394543 original size:23 final size:24
Alignment explanation
Indices: 30394498--30394543 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
30394488 TTTTATTGTA
** *
30394498 TTTTTTATATAAGAATCTGAAAAT
1 TTTTTTATATAAGAAAATAAAAAT
30394522 TTTTTTATA-AAGAAAATAAAAA
1 TTTTTTATATAAGAAAATAAAAA
30394544 CTCAATGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
TTTTTTATATAAGAAAATAAAAAT
Found at i:30399507 original size:16 final size:16
Alignment explanation
Indices: 30399486--30399518 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30399476 AAGACTTGAA
30399486 GAATATTTTTGTAAAG
1 GAATATTTTTGTAAAG
*
30399502 GAATATTTTTTTAAAG
1 GAATATTTTTGTAAAG
30399518 G
1 G
30399519 TAATTATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
GAATATTTTTGTAAAG
Found at i:30400704 original size:13 final size:13
Alignment explanation
Indices: 30400686--30400735 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
30400676 GTTGAATATT
30400686 ATAATTAAAAAAA
1 ATAATTAAAAAAA
* *
30400699 ATAATTCAAATAA
1 ATAATTAAAAAAA
30400712 ATAATATAAAATAAA
1 ATAAT-TAAAA-AAA
30400727 TATAATTAA
1 -ATAATTAA
30400736 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 5 0.17
16 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATTAAAAAAA
Found at i:30400741 original size:29 final size:26
Alignment explanation
Indices: 30400686--30400764 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 26
30400676 GTTGAATATT
30400686 ATAATTAAAAAAAATAATTCAAATAA
1 ATAATTAAAAAAAATAATTCAAATAA
* *
30400712 ATAATATAAAATAAATATAATT-AATTTA
1 ATAAT-TAAAA-AAA-ATAATTCAAATAA
**
30400740 A-AATT-TTAAAAATAATTCAAATAA
1 ATAATTAAAAAAAATAATTCAAATAA
30400764 A
1 A
30400765 GTAAAATTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 6 0.14
24 8 0.19
25 1 0.02
26 6 0.14
27 8 0.19
28 8 0.19
29 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAATTAAAAAAAATAATTCAAATAA
Found at i:30408041 original size:42 final size:42
Alignment explanation
Indices: 30407980--30408061 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
30407970 AACAAAGACT
*
30407980 AAAAAAAAAAGTAAGAACCCCTAGTAGATCACCTAGATGCTG
1 AAAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGCTG
* * *
30408022 AAAAAAAAACGTAAAAACCCTTATTAGATCACCTAGATGC
1 AAAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGC
30408062 CCAGTAGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.18
Consensus pattern (42 bp):
AAAAAAAAAAGTAAAAACCCCTAGTAGATCACCTAGATGCTG
Found at i:30410218 original size:15 final size:16
Alignment explanation
Indices: 30410192--30410229 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
30410182 ATATATGTAT
30410192 GTAAAATATGGAAAGAA
1 GTAAAATATGGAAA-AA
30410209 G-AAAAT-TGGAAAAA
1 GTAAAATATGGAAAAA
30410223 GTAAAAT
1 GTAAAAT
30410230 CAAAACTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 5 0.25
17 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (16 bp):
GTAAAATATGGAAAAA
Found at i:30411861 original size:17 final size:18
Alignment explanation
Indices: 30411830--30411863 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30411820 ACACTCTCTT
30411830 CCAATAATCACATTTTCC
1 CCAATAATCACATTTTCC
*
30411848 CCAAT-ATCATATTTTC
1 CCAATAATCACATTTTC
30411864 TTTGGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (18 bp):
CCAATAATCACATTTTCC
Found at i:30412604 original size:4 final size:4
Alignment explanation
Indices: 30412595--30412624 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
30412585 TAAAACCCAA
30412595 AAAT AAAT AAAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT A
30412625 TAATGTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:30412608 original size:9 final size:9
Alignment explanation
Indices: 30412594--30412627 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
30412584 TTAAAACCCA
30412594 AAAATAAAT
1 AAAATAAAT
30412603 AAAATAAAT
1 AAAATAAAT
30412612 -AAATAAAT
1 AAAATAAAT
30412620 AAATATAA
1 AAA-ATAA
30412628 TGTTAGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 11 0.48
10 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATAAAT
Found at i:30419973 original size:15 final size:15
Alignment explanation
Indices: 30419950--30419979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30419940 ATATCTCTGC
*
30419950 ATATTTATACAGTTT
1 ATATGTATACAGTTT
30419965 ATATGTATACAGTTT
1 ATATGTATACAGTTT
30419980 TTGTGGTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
ATATGTATACAGTTT
Found at i:30422969 original size:16 final size:15
Alignment explanation
Indices: 30422948--30423003 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
30422938 TAGATTTTGG
30422948 GGGGTTTCTGATTTTA
1 GGGGTTT-TGATTTTA
* *
30422964 GGGGTTTAGATTTAA
1 GGGGTTTTGATTTTA
*
30422979 GGGATTTTGGATCTTTA
1 GGGGTTTT-GAT-TTTA
30422996 GGGGTTTT
1 GGGGTTTT
30423004 AGAAACTTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.38
16 10 0.31
17 10 0.31
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (15 bp):
GGGGTTTTGATTTTA
Found at i:30423275 original size:3 final size:3
Alignment explanation
Indices: 30423269--30423320 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
30423259 AAAAATAATA
*
30423269 ATT ATT ATT -CT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30423316 ATT AT
1 ATT AT
30423321 CTTAAGCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30423480 original size:18 final size:19
Alignment explanation
Indices: 30423433--30423482 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
30423423 ATCATGCATA
*
30423433 AATATAT-AAAAAATACTT
1 AATATATAAAAAAATACAT
30423451 AA-A-ATAACAAAAATA-AT
1 AATATATAA-AAAAATACAT
30423468 AATATATAAAAAAAT
1 AATATATAAAAAAAT
30423483 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 5 0.19
18 16 0.59
19 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
AATATATAAAAAAATACAT
Found at i:30424624 original size:18 final size:18
Alignment explanation
Indices: 30424593--30424628 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30424583 CAATATTATT
*
30424593 ATTATCATTGTTAAAAAA
1 ATTATCATTATTAAAAAA
*
30424611 ATTATTATTATTAAAAAA
1 ATTATCATTATTAAAAAA
30424629 TATAGACCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTATCATTATTAAAAAA
Found at i:30424915 original size:37 final size:37
Alignment explanation
Indices: 30424829--30424922 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
30424819 AACAAAAACG
* * * *
30424829 ATTGGAACAACACCGCGAGTCGAGAAGTAAAGAATCG
1 ATTGGGACAACACCGCGAATCGAGAAATAAAGAATCA
* * * *
30424866 ATCGAGATAACACCGTGAATCGAGAAATAAAGAATCA
1 ATTGGGACAACACCGCGAATCGAGAAATAAAGAATCA
*
30424903 ATTGGGACAACACCACGAAT
1 ATTGGGACAACACCGCGAAT
30424923 TGAAATCATG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (37 bp):
ATTGGGACAACACCGCGAATCGAGAAATAAAGAATCA
Found at i:30425105 original size:87 final size:85
Alignment explanation
Indices: 30424972--30425230 Score: 333
Period size: 85 Copynumber: 3.0 Consensus size: 85
30424962 GGTTTTACAA
* * *
30424972 AATCGATTGGGACAATACCGCAAGTCAAGAATAATGAATCGATTGGGATAACATCGTGAATCGAA
1 AATCGACTGAGACAATACCGCAAGTCGAGAATAATGAATCGATTGGGATAACATCGTGAATCGAA
* *
30425037 ATTATGCCCGGAGGTCTTATAG
66 ATTATACCCGAAGGTC-T-TAG
* *
30425059 AATCGACTGAGATAATACCGCAAGTCGAGAATAATGAATCAATTGGGATAACA-C-TACGAATCG
1 AATCGACTGAGACAATACCGCAAGTCGAGAATAATGAATCGATTGGGATAACATCGT--GAATCG
30425122 AAATTATACCCGAAGGTCTTAG
64 AAATTATACCCGAAGGTCTTAG
* * * * * *
30425144 AATCGACTGGGACAATACCTCAAGTCGAGAATAATAAATCGATCGAGATAACATCGCGAATCGAA
1 AATCGACTGAGACAATACCGCAAGTCGAGAATAATGAATCGATTGGGATAACATCGTGAATCGAA
**
30425209 ATTCCACCCGAAGGTCTTAG
66 ATTATACCCGAAGGTCTTAG
30425229 AA
1 AA
30425231 ATCAAGATCT
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
85 78 0.52
86 3 0.02
87 70 0.46
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (85 bp):
AATCGACTGAGACAATACCGCAAGTCGAGAATAATGAATCGATTGGGATAACATCGTGAATCGAA
ATTATACCCGAAGGTCTTAG
Found at i:30425936 original size:33 final size:33
Alignment explanation
Indices: 30425812--30426185 Score: 426
Period size: 33 Copynumber: 11.5 Consensus size: 33
30425802 TTGGGGCTAA
* * * *
30425812 ATAAACTGGGCTTAAA-TTTTAATGAAGGCCA-
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
30425843 ACTAAACTGGACTTAAAACCTT-ATTTGA-GGCCAG
1 A-TAAACTGGGCTT-AAAGCTTCA-TTGATGGCCAG
*
30425877 -TAAACTAGGCTTAAA--TGTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
30425908 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
30425941 ATAAACTTGGCTTAAAGCTTCATTAATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* **
30425974 ATAAACTGGGCTTAAAACTTCATTGATGGTAAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
*
30426007 ATAAACTGGGCTTAAA--TGTCATTGATGGCTAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
* * * *
30426039 ATAAACTAGGCTTAAA-TTTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
*
30426071 ATAAACTGGGCTTAAAGCTTCATTGATGGCTAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
30426104 ATAAACTGGACTTAAAGTTTCATTGATGGTCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
30426137 ATAAACTTGGCTTAAAGCTTCATTGATGACCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
30426170 ATAAACTGGGCTTAAA
1 ATAAACTGGGCTTAAA
30426186 ACTTTATTTT
Statistics
Matches: 295, Mismatches: 34, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.00
30 5 0.02
31 12 0.04
32 88 0.30
33 183 0.62
34 6 0.02
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
Found at i:30426081 original size:163 final size:163
Alignment explanation
Indices: 30425877--30426185 Score: 494
Period size: 163 Copynumber: 1.9 Consensus size: 163
30425867 TTGAGGCCAG
*
30425877 TAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
1 TAAACTAGGCTTAAATGTCATTGAAGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
**
30425942 TAAACTTGG-CTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGGTAA
66 TAAAC-TGGACTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGACAA
30426006 GATAAACTGGGCTTAAATGTCATTGATGGCTAGA
130 GATAAACTGGGCTTAAATGTCATTGATGGCTAGA
* * *
30426040 TAAACTAGGCTTAAATTTTATTGAAGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCTAGA
1 TAAACTAGGCTTAAATGTCATTGAAGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
* * * * * *
30426105 TAAACTGGACTTAAAGTTTCATTGATGGTCAGATAAACTTGGCTTAAAGCTTCATTGATGACCAG
66 TAAACTGGACTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGACAAG
30426170 ATAAACTGGGCTTAAA
131 ATAAACTGGGCTTAAA
30426186 ACTTTATTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
162 3 0.02
163 130 0.98
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (163 bp):
TAAACTAGGCTTAAATGTCATTGAAGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGGCCAGA
TAAACTGGACTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGACAAG
ATAAACTGGGCTTAAATGTCATTGATGGCTAGA
Found at i:30426083 original size:130 final size:131
Alignment explanation
Indices: 30425812--30426185 Score: 474
Period size: 130 Copynumber: 2.9 Consensus size: 131
30425802 TTGGGGCTAA
** * *
30425812 ATAAACTGGGCTTAAATTTTAATGAA-GGCCA-ACTAAACTGGACTTAAAACCTT-ATTTGA-GG
1 ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGA-TAAACTGGACTTAAAA-CTTCA-TTGATGG
* *
30425873 CCAG-TAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTGGGCTTAAAGCTTCATTGATGG
63 TCAGATAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTGGGCTTAAAGCTTCATTGAAGG
30425937 CCAG
128 CCAG
* * *
30425941 ATAAACTTGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGGTAA
1 ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGACTTAAAACTTCATTGATGGTCA
* * * * *
30426006 GATAAACTGGGCTTAAATGTCATTGATGGCTAGATAAACTAGGCTTAAA-TTTTATTGAAGGCCA
66 GATAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTGGGCTTAAAGCTTCATTGAAGGCCA
30426070 G
131 G
* * **
30426071 ATAAACTGGGCTTAAAGCTTCATTGATGGCTAGATAAACTGGACTTAAAGTTTCATTGATGGTCA
1 ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGACTTAAAACTTCATTGATGGTCA
* *
30426136 GATAAACTTGGCTTAAA-GCTTCATTGATGACCAGATAAACTGGGCTTAAA
66 GATAAACTAGGCTTAAATG--TCATTGATGGCCAGATAAACTGGGCTTAAA
30426186 ACTTTATTTT
Statistics
Matches: 213, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
129 29 0.14
130 112 0.53
131 72 0.34
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (131 bp):
ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGACTTAAAACTTCATTGATGGTCA
GATAAACTAGGCTTAAATGTCATTGATGGCCAGATAAACTGGGCTTAAAGCTTCATTGAAGGCCA
G
Found at i:30427187 original size:4 final size:4
Alignment explanation
Indices: 30427178--30427207 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
30427168 TCAAACGCCC
30427178 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
30427208 TTACCCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:30432530 original size:18 final size:19
Alignment explanation
Indices: 30432494--30432531 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
30432484 ACATGTAAAG
* *
30432494 AGAAAATTTATTTTTTTTT
1 AGAAAATGTATTTTCTTTT
30432513 AGAAAATGT-TTTTCTTTT
1 AGAAAATGTATTTTCTTTT
30432531 A
1 A
30432532 TCATCCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
AGAAAATGTATTTTCTTTT
Found at i:30434260 original size:16 final size:16
Alignment explanation
Indices: 30434236--30434296 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
30434226 GATTTCAGAT
*
30434236 TTTTGGGGGTTTTGGA
1 TTTTAGGGGTTTTGGA
30434252 TTTTAGGGG-TTTGGA
1 TTTTAGGGGTTTTGGA
* *
30434267 TTTAAGGGATTTTGGA
1 TTTTAGGGGTTTTGGA
30434283 TCTTTAGGGGTTTT
1 T-TTTAGGGGTTTT
30434297 AAAAACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
15 13 0.34
16 15 0.39
17 10 0.26
ACGTcount: A:0.13, C:0.02, G:0.36, T:0.49
Consensus pattern (16 bp):
TTTTAGGGGTTTTGGA
Found at i:30434264 original size:24 final size:24
Alignment explanation
Indices: 30434219--30434265 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30434209 AAAGTTTAAA
**
30434219 GGTTTTGGATTTCAGATTTTTGGG
1 GGTTTTGGATTTCAGAGGTTTGGG
* *
30434243 GGTTTTGGATTTTAGGGGTTTGG
1 GGTTTTGGATTTCAGAGGTTTGG
30434266 ATTTAAGGGA
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:0.11, C:0.02, G:0.38, T:0.49
Consensus pattern (24 bp):
GGTTTTGGATTTCAGAGGTTTGGG
Found at i:30434321 original size:15 final size:16
Alignment explanation
Indices: 30434293--30434323 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30434283 TCTTTAGGGG
30434293 TTTTAAAAACTTAAGA
1 TTTTAAAAACTTAAGA
30434309 TTTTAAAAA-TTAAGA
1 TTTTAAAAACTTAAGA
30434324 ATTAGTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTTAAAAACTTAAGA
Found at i:30434764 original size:35 final size:34
Alignment explanation
Indices: 30434707--30434775 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
30434697 ATCATGCATA
30434707 AATATATAAAAAATACTTAAAATAACAAAAAAAAT
1 AATATATAAAAAATACTTAAAATAA-AAAAAAAAT
*
30434742 AATATATAAAAAA-A-TTAAAAAATTAAAAAAAAAT
1 AATATATAAAAAATACTT--AAAATAAAAAAAAAAT
30434776 TTTTTTACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
33 2 0.06
34 10 0.32
35 19 0.61
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (34 bp):
AATATATAAAAAATACTTAAAATAAAAAAAAAAT
Found at i:30435477 original size:18 final size:18
Alignment explanation
Indices: 30435454--30435492 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
30435444 CCATTTGTGT
*
30435454 GTTTCTGTTGAGAGAGGG
1 GTTTCTGATGAGAGAGGG
* *
30435472 GTTTCTGATGGGCGAGGG
1 GTTTCTGATGAGAGAGGG
30435490 GTT
1 GTT
30435493 GGTTGGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.08, G:0.46, T:0.33
Consensus pattern (18 bp):
GTTTCTGATGAGAGAGGG
Found at i:30438848 original size:18 final size:16
Alignment explanation
Indices: 30438825--30438872 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
30438815 TCTTTTTAAG
30438825 AAAAATTTATAATTTCT
1 AAAAATTTATAATTT-T
30438842 CAAAAATTTAT--TTTT
1 -AAAAATTTATAATTTT
*
30438857 AAAAAGTTATAATTTT
1 AAAAATTTATAATTTT
30438873 TTTCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 7 0.26
18 10 0.37
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (16 bp):
AAAAATTTATAATTTT
Found at i:30439348 original size:2 final size:2
Alignment explanation
Indices: 30439341--30439372 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30439331 TGCTTGATTC
*
30439341 CT CT CT CT CT CT CT CT CT AT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30439373 TCCAAGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30444437 original size:23 final size:24
Alignment explanation
Indices: 30444376--30444438 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
30444366 TTTTTTAAAA
30444376 AATTATTTTAATCAAAATATATTTCGT
1 AATTATTTT-AT-AAAATATATTTC-T
30444403 AATT-TTTTATAAAATA-ATATT-T
1 AATTATTTTATAAAATATAT-TTCT
30444425 AATTATTTTATAAA
1 AATTATTTTATAAA
30444439 TTGGTGCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 8 0.24
25 2 0.06
26 4 0.12
27 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTATTTTATAAAATATATTTCT
Found at i:30445566 original size:14 final size:14
Alignment explanation
Indices: 30445547--30445577 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30445537 TTGGAATACA
30445547 GAGAGAGGGAGAGG
1 GAGAGAGGGAGAGG
30445561 GAGAGAGGGAGAGG
1 GAGAGAGGGAGAGG
30445575 GAG
1 GAG
30445578 GGGGGACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (14 bp):
GAGAGAGGGAGAGG
Found at i:30446273 original size:2 final size:2
Alignment explanation
Indices: 30446266--30446296 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30446256 TCCAAACTCA
30446266 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30446297 TAAGGAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:30454375 original size:24 final size:20
Alignment explanation
Indices: 30454326--30454367 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
30454316 TTAGTTAGAC
30454326 TATAATTTATTAATTTATTAT
1 TATAA-TTATTAATTTATTAT
30454347 T-TAATTATGTAATTTGATTAT
1 TATAATTAT-TAATTT-ATTAT
30454368 GATATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATAATTATTAATTTATTAT
Found at i:30454397 original size:17 final size:17
Alignment explanation
Indices: 30454365--30454414 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
30454355 GTAATTTGAT
30454365 TATGATATAATAATTTA
1 TATGATATAATAATTTA
30454382 TATGAATATAAT-ATTTA
1 TATG-ATATAATAATTTA
*
30454399 -ATTATAATAATAATTT
1 TATGAT-ATAATAATTT
30454415 TAACAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 7 0.24
17 13 0.45
18 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TATGATATAATAATTTA
Found at i:30454407 original size:18 final size:18
Alignment explanation
Indices: 30454358--30454417 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
30454348 TAATTATGTA
* *
30454358 ATTTGATTATGATATAAT
1 ATTTAATTATAATATAAT
30454376 AATTT-A-TATGAATATAAT
1 -ATTTAATTAT-AATATAAT
30454394 ATTTAATTATAATAATAAT
1 ATTTAATTATAAT-ATAAT
30454413 -TTTAA
1 ATTTAA
30454418 CAAATATATC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.19
18 17 0.47
19 12 0.33
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
ATTTAATTATAATATAAT
Found at i:30457585 original size:34 final size:35
Alignment explanation
Indices: 30457546--30457623 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
30457536 ATACTCTAAG
* *
30457546 AAATATGTCACT-CATT-AATTAAAGTTGAATTTAA
1 AAATATATCACTCCATTGAATTAAA-TTAAATTTAA
*
30457580 AAATATATCACTCCATTGATTTAAATTAAATTTAA
1 AAATATATCACTCCATTGAATTAAATTAAATTTAA
30457615 AAATGATAT
1 AAAT-ATAT
30457624 TTTTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 11 0.29
35 17 0.45
36 10 0.26
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.38
Consensus pattern (35 bp):
AAATATATCACTCCATTGAATTAAATTAAATTTAA
Found at i:30460415 original size:2 final size:2
Alignment explanation
Indices: 30460408--30460447 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30460398 TTAAAGTCTT
30460408 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30460448 ATCTTGTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30465727 original size:22 final size:22
Alignment explanation
Indices: 30465700--30465751 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
30465690 ATTTGTGGAG
30465700 TTCTAAATACA-TCTCATTTTTC
1 TTCTAAATACACTC-CATTTTTC
* *
30465722 TTCTAAACACACTCCATTTTTT
1 TTCTAAATACACTCCATTTTTC
*
30465744 TTTTAAAT
1 TTCTAAAT
30465752 TTTTTTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (22 bp):
TTCTAAATACACTCCATTTTTC
Found at i:30466478 original size:40 final size:42
Alignment explanation
Indices: 30466396--30466474 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 42
30466386 GTTCAGTTTA
30466396 ATTAAAATTATTATAAAATTTTAATAATTGATAAAAAATATTT
1 ATTAAAA-TATTATAAAATTTTAATAATTGATAAAAAATATTT
*
30466439 ATTAAAA-ATTAT-AAATTTTAA-ATTTG-TAAAAAATAT
1 ATTAAAATATTATAAAATTTTAATAATTGATAAAAAATAT
30466475 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 10 0.29
39 4 0.11
40 9 0.26
41 5 0.14
43 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (42 bp):
ATTAAAATATTATAAAATTTTAATAATTGATAAAAAATATTT
Found at i:30471775 original size:2 final size:2
Alignment explanation
Indices: 30471768--30471815 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
30471758 TCCAAGTAAA
30471768 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30471810 AG AG AG
1 AG AG AG
30471816 GGATGCATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30481363 original size:3 final size:3
Alignment explanation
Indices: 30481355--30481396 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
30481345 AAAGAGTCAA
30481355 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30481397 TAAAAGGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30483357 original size:78 final size:78
Alignment explanation
Indices: 30483228--30483378 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
30483218 TTGTTGAGAC
* * *
30483228 GTGGAAGTTACCTTATAACACAGACCTTAGAAATCACACGTGAGAAGCAGTCCCTCATACAGGCT
1 GTGGAAGATACCTTATAACACAGACCTCAGAAATCACACGTGAGAAGCAGTCCCTCATACAGACT
30483293 GGTATGCTTAGAT
66 GGTATGCTTAGAT
* * *
30483306 GTGGAAGATACCTTATATCACAGACCTCAGAGATCACTCGTGAGAAGCAGTCCCTCATACAGACT
1 GTGGAAGATACCTTATAACACAGACCTCAGAAATCACACGTGAGAAGCAGTCCCTCATACAGACT
30483371 GGTATGCT
66 GGTATGCT
30483379 CATAGACATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (78 bp):
GTGGAAGATACCTTATAACACAGACCTCAGAAATCACACGTGAGAAGCAGTCCCTCATACAGACT
GGTATGCTTAGAT
Found at i:30489774 original size:35 final size:34
Alignment explanation
Indices: 30489710--30489808 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
30489700 AAATTACCAT
* *
30489710 AAATTCATTTTC-GAAATTTTCTTTAATGTACCAA-
1 AAATTCATTTTCGGAAA-CTTCTTCAATGTA-CAAG
* *
30489744 AAATTTATTTTTTGGAAACTTCTTCAATGTACAAG
1 AAATTCA-TTTTCGGAAACTTCTTCAATGTACAAG
* *
30489779 AAATTCATTTTCGGAAACTTATTCACTGTA
1 AAATTCATTTTCGGAAACTTCTTCAATGTA
30489809 TTGAAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 29 0.54
35 21 0.39
36 4 0.07
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (34 bp):
AAATTCATTTTCGGAAACTTCTTCAATGTACAAG
Found at i:30495453 original size:33 final size:33
Alignment explanation
Indices: 30495402--30495471 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
30495392 AAATAATAAA
*
30495402 AAAATATAGACTAGGAACATCCTTCTATGCATG
1 AAAATATAGACTAAGAACATCCTTCTATGCATG
*
30495435 AAAATATAGGCTAAGAACATCCTTCTATGCATG
1 AAAATATAGACTAAGAACATCCTTCTATGCATG
30495468 AAAA
1 AAAA
30495472 CTTTTAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (33 bp):
AAAATATAGACTAAGAACATCCTTCTATGCATG
Found at i:30496807 original size:37 final size:37
Alignment explanation
Indices: 30496733--30496805 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
30496723 TTATATTCAA
*
30496733 ATTTAATTCAATTTAATATTACATAAAATTATATTTT
1 ATTTAATTCAATTTAAAATTACATAAAATTATATTTT
30496770 ATTTAATTTC-ATTTAAAATTA-ATAAAA-TATTATTTT
1 ATTTAA-TTCAATTTAAAATTACATAAAATTA-TATTTT
30496806 TAATATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 2 0.06
36 12 0.36
37 16 0.48
38 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTAATTCAATTTAAAATTACATAAAATTATATTTT
Found at i:30496816 original size:23 final size:24
Alignment explanation
Indices: 30496781--30496825 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
30496771 TTTAATTTCA
* *
30496781 TTTAAAATTAATA-AAATATTATT
1 TTTAAAATAAATATAAAAATTATT
*
30496804 TTTAATATAAATATAAAAATTA
1 TTTAAAATAAATATAAAAATTA
30496826 AATAAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTAAAATAAATATAAAAATTATT
Found at i:30496840 original size:21 final size:22
Alignment explanation
Indices: 30496805--30496855 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
30496795 AATATTATTT
* *
30496805 TTAATATAAATATAAAAATTAAA
1 TTAA-ATATATATAAAAATAAAA
*
30496828 -TAAATATATATAAATATAAAA
1 TTAAATATATATAAAAATAAAA
30496849 TTAAATA
1 TTAAATA
30496856 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATATATATAAAAATAAAA
Found at i:30497871 original size:24 final size:24
Alignment explanation
Indices: 30497826--30497872 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30497816 AATATATTTC
* *
30497826 ATTAATTTTAATTTCATCATTATA
1 ATTAATATTAATTTCATAATTATA
30497850 ATTAATATTATATTT-ATAATTAT
1 ATTAATATTA-ATTTCATAATTAT
30497873 TTTTAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAATATTAATTTCATAATTATA
Found at i:30506844 original size:55 final size:55
Alignment explanation
Indices: 30506760--30506867 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
30506750 GTTTGCTTCA
*
30506760 GTTTAAGTCTTATGAATGTTGCCACATGCATACATTTTAAACGAATAAATGCTCG
1 GTTTAAGTCTTATGAATGTTGCCACATGCATACAATTTAAACGAATAAATGCTCG
* *
30506815 GTTTAAGTCTTATGAATGTTGCCAGATGCATACAATTTAAATGAATAAATGCT
1 GTTTAAGTCTTATGAATGTTGCCACATGCATACAATTTAAACGAATAAATGCT
30506868 TTCTTCATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (55 bp):
GTTTAAGTCTTATGAATGTTGCCACATGCATACAATTTAAACGAATAAATGCTCG
Found at i:30510706 original size:21 final size:21
Alignment explanation
Indices: 30510680--30510730 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
30510670 GGTAAGCTCA
*
30510680 TTTCCATTGAAAATT-ACTTCT
1 TTTCCACT-AAAATTCACTTCT
30510701 TTTCCACTAAAATTCACTTCT
1 TTTCCACTAAAATTCACTTCT
30510722 CTTTGCCAC
1 -TTT-CCAC
30510731 CCAATACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 13 0.50
22 3 0.12
23 4 0.15
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.43
Consensus pattern (21 bp):
TTTCCACTAAAATTCACTTCT
Found at i:30515623 original size:89 final size:88
Alignment explanation
Indices: 30515529--30515704 Score: 325
Period size: 89 Copynumber: 2.0 Consensus size: 88
30515519 ATACAAATAC
30515529 TTATAACTTTTTACATAAGAAAAATTAACAAATTTTAAATTAATTTTAAGCATGTAATTTAATAG
1 TTATAACTTTTTACATAAGAAAAATTAACAAATTTTAAATTAATTTTAAGCATGTAATTTAATAG
30515594 TAAATACATATTTTTGTTGGTGTT
66 TAAATACAT-TTTTTGTTGGTGTT
*
30515618 TTATAACTTTTTACATAAGAAAAATTAACAAATTTTAAATTAATTTTAAGCATGTAATTTAGTAG
1 TTATAACTTTTTACATAAGAAAAATTAACAAATTTTAAATTAATTTTAAGCATGTAATTTAATAG
*
30515683 TAAATACATTTTTTTTTGGTGT
66 TAAATACATTTTTTGTTGGTGT
30515705 GATAATTACA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 12 0.14
89 73 0.86
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (88 bp):
TTATAACTTTTTACATAAGAAAAATTAACAAATTTTAAATTAATTTTAAGCATGTAATTTAATAG
TAAATACATTTTTTGTTGGTGTT
Found at i:30515889 original size:17 final size:17
Alignment explanation
Indices: 30515867--30515903 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30515857 CTTGCAAATT
30515867 TAAAATTAA-ACAATAAA
1 TAAAATTAATA-AATAAA
30515884 TAAAATTAATAAATAAA
1 TAAAATTAATAAATAAA
30515901 TAA
1 TAA
30515904 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATTAATAAATAAA
Found at i:30528624 original size:6 final size:7
Alignment explanation
Indices: 30528605--30528629 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30528595 AGTTCTCACA
30528605 CATTTTT
1 CATTTTT
30528612 CATTTTT
1 CATTTTT
30528619 CATTTTT
1 CATTTTT
30528626 CATT
1 CATT
30528630 GTGCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:30534328 original size:7 final size:7
Alignment explanation
Indices: 30534316--30534340 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30534306 GTGCTCGAGT
30534316 GCATACA
1 GCATACA
30534323 GCATACA
1 GCATACA
30534330 GCATACA
1 GCATACA
30534337 GCAT
1 GCAT
30534341 GGTGTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.28, G:0.16, T:0.16
Consensus pattern (7 bp):
GCATACA
Done.