Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 70 of 126
Found at i:14180379 original size:27 final size:26
Alignment explanation
Indices: 14180331--14180387 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
14180321 AAAAAGATAC
14180331 AAAATACAAAAAAATATGAAATAA-A
1 AAAATACAAAAAAATATGAAATAACA
14180356 AAAATACAAAAAAA-AGTAGAAAATAACA
1 AAAATACAAAAAAATA-T-G-AAATAACA
14180384 AAAA
1 AAAA
14180388 ATCAAGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.04
25 15 0.54
26 1 0.04
27 6 0.21
28 5 0.18
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (26 bp):
AAAATACAAAAAAATATGAAATAACA
Found at i:14181731 original size:21 final size:21
Alignment explanation
Indices: 14181683--14181737 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
14181673 AAATCTTCAA
14181683 TATAAT-AAAATTTCATTTTT
1 TATAATAAAAATTTCATTTTT
14181703 T-TCAAATAAAAATTTCATTTTT
1 TAT--AATAAAAATTTCATTTTT
14181725 TATAATAATAAAT
1 TATAATAA-AAAT
14181738 AAAAATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 8 0.27
22 19 0.63
23 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TATAATAAAAATTTCATTTTT
Found at i:14186273 original size:59 final size:59
Alignment explanation
Indices: 14186203--14186325 Score: 192
Period size: 59 Copynumber: 2.1 Consensus size: 59
14186193 TAATATAATT
* * *
14186203 ATTAATTGAATTTATATTTAATATATTATTAGTATATAAATTTTATTTACTTTTAATAA
1 ATTAATTGAATTTATATTTAATATATGATCAGTATATAAATTTTATATACTTTTAATAA
* * *
14186262 ATTAATTGAATTTATATTTAATATATGGTCAGTATATAAATTTTATATACTTTTAGTGA
1 ATTAATTGAATTTATATTTAATATATGATCAGTATATAAATTTTATATACTTTTAATAA
14186321 ATTAA
1 ATTAA
14186326 ATGATATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (59 bp):
ATTAATTGAATTTATATTTAATATATGATCAGTATATAAATTTTATATACTTTTAATAA
Found at i:14187080 original size:30 final size:30
Alignment explanation
Indices: 14187022--14187116 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
14187012 CTTATTTATG
*
14187022 TATAAATTAAAAGTTAAGAGCTTCTTTGGA
1 TATAAATTAAAAGTTAAGAGCTTATTTGGA
* * *
14187052 TATAAATTAATATTTAAG-GACTTATTTGGG
1 TATAAATTAAAAGTTAAGAG-CTTATTTGGA
* * * * *
14187082 TGA-AAAATAAATGTTAAAAACTTATTTAGA
1 T-ATAAATTAAAAGTTAAGAGCTTATTTGGA
14187112 TATAA
1 TATAA
14187117 TAAAAATATA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
29 2 0.04
30 46 0.94
31 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (30 bp):
TATAAATTAAAAGTTAAGAGCTTATTTGGA
Found at i:14188337 original size:112 final size:112
Alignment explanation
Indices: 14188137--14188364 Score: 280
Period size: 112 Copynumber: 2.0 Consensus size: 112
14188127 AAATTTGAAG
*
14188137 AAATTATTTAATATATTATCAGAAAATTTTTTTAATTTTACAAATAAAATTAACAAAATGACATT
1 AAATTATTTAATATATTATCAGAAAACTTTTTTAATTTTACAAATAAAATTAACAAAATGACATT
* * *
14188202 TATCTTTTTTAAAAAAATCGTTTTGTTATTTTTTTAAATGCACGAAA
66 GATCTTTTTTAAAAAAATCGTTTTGTTATATTTTTAAATACACGAAA
* * * * * *
14188249 AAATTATTTAATATATTGTCAGTAAACTTTTTTAATTTTATAAATGAAATTAACAAGATGGCATT
1 AAATTATTTAATATATTATCAGAAAACTTTTTTAATTTTACAAATAAAATTAACAAAATGACATT
** * * * *
14188314 GATCTTATTATT-TTAAACT-GTTTTTTTATATTTTTGAATACACTAAA
66 GATCTT-TT-TTAAAAAAATCGTTTTGTTATATTTTTAAATACACGAAA
14188361 AAAT
1 AAAT
14188365 ACGTGTCAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
112 90 0.92
113 6 0.06
114 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (112 bp):
AAATTATTTAATATATTATCAGAAAACTTTTTTAATTTTACAAATAAAATTAACAAAATGACATT
GATCTTTTTTAAAAAAATCGTTTTGTTATATTTTTAAATACACGAAA
Found at i:14199586 original size:20 final size:20
Alignment explanation
Indices: 14199563--14199603 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14199553 TTCCTTCATT
* *
14199563 TGATTAATATTTATCCTATC
1 TGATCAATATTTATCCAATC
14199583 TGATCAATATTTATCCAATC
1 TGATCAATATTTATCCAATC
14199603 T
1 T
14199604 CATATATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.46
Consensus pattern (20 bp):
TGATCAATATTTATCCAATC
Found at i:14204001 original size:20 final size:20
Alignment explanation
Indices: 14203976--14204016 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14203966 TAAACTATTA
* * *
14203976 ATAATCTTATAAAAAAGATT
1 ATAATCTAAAAAAAAAAATT
14203996 ATAATCTAAAAAAAAAAATT
1 ATAATCTAAAAAAAAAAATT
14204016 A
1 A
14204017 AATATCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATCTAAAAAAAAAAATT
Found at i:14204724 original size:16 final size:17
Alignment explanation
Indices: 14204703--14204740 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14204693 TATTTTTATA
*
14204703 TATTAAGTAA-AAAAAT
1 TATTAAATAATAAAAAT
*
14204719 TATTAAATAATATAAAT
1 TATTAAATAATAAAAAT
14204736 TATTA
1 TATTA
14204741 TTTTAGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TATTAAATAATAAAAAT
Found at i:14212056 original size:21 final size:23
Alignment explanation
Indices: 14212031--14212074 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14212021 TTAGTAATTA
14212031 TTTA-TTTATT-TATTTATATTT
1 TTTATTTTATTGTATTTATATTT
*
14212052 TTTATTTTATTGTGTTTATATTT
1 TTTATTTTATTGTATTTATATTT
14212075 ATGTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 10 0.50
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTATTTTATTGTATTTATATTT
Found at i:14212069 original size:27 final size:26
Alignment explanation
Indices: 14212031--14212083 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
14212021 TTAGTAATTA
*
14212031 TTTATTTATTTAT-TTATATTTTTTAT
1 TTTATTTATTTATATT-TATGTTTTAT
*
14212057 TTTATTGTGTTTATATTTATGTTTTAT
1 TTTATT-TATTTATATTTATGTTTTAT
14212084 ATTTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 15 0.65
28 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTATTTATTTATATTTATGTTTTAT
Found at i:14213201 original size:16 final size:15
Alignment explanation
Indices: 14213163--14213203 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
14213153 AGTATTATAA
14213163 ATTATTTATAACTATT
1 ATTA-TTATAACTATT
*
14213179 ATTATTATAATTATTT
1 ATTATTATAACTA-TT
14213195 ATTATTATA
1 ATTATTATA
14213204 TGATAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATAACTATT
Found at i:14214365 original size:15 final size:14
Alignment explanation
Indices: 14214341--14214375 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
14214331 TTATTTAGTA
14214341 TTTTTCTTAGAATT
1 TTTTTCTTAGAATT
*
14214355 TTTTGTCTTAGTATT
1 TTTT-TCTTAGAATT
14214370 TTTTTC
1 TTTTTC
14214376 ATGATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.69
Consensus pattern (14 bp):
TTTTTCTTAGAATT
Found at i:14214463 original size:25 final size:25
Alignment explanation
Indices: 14214435--14214483 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14214425 TTAATTATCC
14214435 AATGATAGAATTTATA-AAAATTTCA
1 AATGATA-AATTTATATAAAATTTCA
* *
14214460 AATGGTAAATTTCTATAAAATTTC
1 AATGATAAATTTATATAAAATTTC
14214484 TATGTGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (25 bp):
AATGATAAATTTATATAAAATTTCA
Found at i:14219900 original size:21 final size:22
Alignment explanation
Indices: 14219876--14219961 Score: 79
Period size: 21 Copynumber: 3.9 Consensus size: 22
14219866 GAACTTTTTG
*
14219876 ATGAGACTCTTTGA-TTTTCAA
1 ATGAGAATCTTTGAGTTTTCAA
* *
14219897 ATGAGAATCTTTAAAACGTATTCAA
1 ATGAGAATCTTT--GA-GTTTTCAA
*
14219922 ATGAGAATCTTTGA-ATTTCAA
1 ATGAGAATCTTTGAGTTTTCAA
14219943 A-GAAGAATCTTTGAGTTTT
1 ATG-AGAATCTTTGAGTTTT
14219962 GAGTTTCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 28 0.54
22 3 0.06
23 2 0.04
25 18 0.35
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGAGAATCTTTGAGTTTTCAA
Found at i:14219971 original size:28 final size:28
Alignment explanation
Indices: 14219931--14219984 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
14219921 AATGAGAATC
14219931 TTTGAATTTCAAA-GAAGAATCTTTGAGT
1 TTTGAATTTCAAATG-AGAATCTTTGAGT
*
14219959 TTTGAGTTTCAAATGAGAATCTTTGA
1 TTTGAATTTCAAATGAGAATCTTTGA
14219985 TATATGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (28 bp):
TTTGAATTTCAAATGAGAATCTTTGAGT
Found at i:14220387 original size:43 final size:42
Alignment explanation
Indices: 14220292--14220434 Score: 198
Period size: 42 Copynumber: 3.4 Consensus size: 42
14220282 GTCGATGAGT
* * *
14220292 AATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAAGAGT
1 AATTTATTTTTTCAAAGTTCTATTGCCTCTGTTTAGAAGAGC
* *
14220334 AATTTATTTTTTCAAAGTCCTATTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTTCAAAGTTCTATTGCCTCTGTTTAGAAGAGC
* *
14220376 AATTTATTTTTTCAAAGTTCTGTTGCCTCTGTTTA-AATAAGC
1 AATTTATTTTTTCAAAGTTCTATTGCCTCTGTTTAGAA-GAGC
14220418 AATTTATTTTTCTCAAA
1 AATTTATTTTT-TCAAA
14220435 ATCGTTGAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 84 0.93
43 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (42 bp):
AATTTATTTTTTCAAAGTTCTATTGCCTCTGTTTAGAAGAGC
Found at i:14220448 original size:43 final size:42
Alignment explanation
Indices: 14220292--14220459 Score: 155
Period size: 42 Copynumber: 4.0 Consensus size: 42
14220282 GTCGATGAGT
* * * * *
14220292 AATTTATTTTTCCAAAGTTCTATTGCCTCTATTTAGAAG-AGT
1 AATTTATTTTTTCAAAGATCTGTTGCCTCTGTTTA-AAGAAGC
* * *
14220334 AATTTATTTTTTCAAAG-TCCTATTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTTCAAAGAT-CTGTTGCCTCTGTTTAAAGAAGC
* *
14220376 AATTTATTTTTTCAAAGTTCTGTTGCCTCTGTTTAAATAAGC
1 AATTTATTTTTTCAAAGATCTGTTGCCTCTGTTTAAAGAAGC
* *
14220418 AATTTATTTTTCTCAAA-ATC-GTTGAGCCTCTATTTAGAGAAG
1 AATTTATTTTT-TCAAAGATCTGTT--GCCTCTGTTTAAAGAAG
14220460 ATTTGTTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
41 6 0.06
42 82 0.76
43 20 0.19
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (42 bp):
AATTTATTTTTTCAAAGATCTGTTGCCTCTGTTTAAAGAAGC
Found at i:14221411 original size:13 final size:13
Alignment explanation
Indices: 14221395--14221419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14221385 CCAAGCCATA
14221395 CCCCTGAGCCACG
1 CCCCTGAGCCACG
14221408 CCCCTGAGCCAC
1 CCCCTGAGCCAC
14221420 TTTTTGTGTT
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:0.16, C:0.56, G:0.20, T:0.08
Consensus pattern (13 bp):
CCCCTGAGCCACG
Found at i:14221640 original size:26 final size:26
Alignment explanation
Indices: 14221605--14221661 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
14221595 ATCCAGTCAT
*
14221605 GAAATTTATA-AAAATTTTAAA-TGA
1 GAAATTTCTATAAAATTTTAAAGTGA
*
14221629 TAAATTTCTATAAAATTTTAAAGTGA
1 GAAATTTCTATAAAATTTTAAAGTGA
14221655 GAAATTT
1 GAAATTT
14221662 TTGTCTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 11 0.39
26 9 0.32
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (26 bp):
GAAATTTCTATAAAATTTTAAAGTGA
Found at i:14223286 original size:53 final size:53
Alignment explanation
Indices: 14223142--14223307 Score: 176
Period size: 53 Copynumber: 3.0 Consensus size: 53
14223132 AATTAGAATT
* * * *
14223142 TTTTTTTTAATTTCTAAATTTTTCACCATTTTGGCCTATTTAGAAATTCTCTATTT-
1 TTTTTTTTAATTTCTAAATTTTT-ACTATTTGGGTCAATTTAG-AATTCT-T-TTTA
*
14223198 TATTTTTTTAATTTCTAAATTTTT-CATAATATGGGTCAATTTAGAATT-TTTTTA
1 T-TTTTTTTAATTTCTAAATTTTTAC-T-ATTTGGGTCAATTTAGAATTCTTTTTA
*
14223252 TTTTTTTTAATTTCTAAATTTTGTACTATTTGGGTCAATTTAGAACTTGTTTTTA
1 TTTTTTTTAATTTCTAAATTTT-TACTATTTGGGTCAATTTAGAA-TTCTTTTTA
14223307 T
1 T
14223308 ATCTTTGAAA
Statistics
Matches: 96, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
53 41 0.43
54 6 0.06
55 10 0.10
56 5 0.05
57 34 0.35
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (53 bp):
TTTTTTTTAATTTCTAAATTTTTACTATTTGGGTCAATTTAGAATTCTTTTTA
Found at i:14224615 original size:17 final size:17
Alignment explanation
Indices: 14224569--14224621 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
14224559 ACTCAACATC
14224569 TATTTTTCATTTTT-TTCA
1 TATTTTT-ATTTTTATT-A
14224587 TATTTTGT-TTTTTATTA
1 TATTTT-TATTTTTATTA
14224604 TATTTTTATTTTTCATTA
1 TATTTTTATTTTT-ATTA
14224622 ACAGAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.03
17 17 0.55
18 12 0.39
19 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTTATTTTTATTA
Found at i:14224846 original size:43 final size:43
Alignment explanation
Indices: 14224798--14224963 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
14224788 ATAAAAACTT
* *
14224798 CTATAAATAGAGG-TTCAACAACTTTGAAAAATAAATAAATCTC
1 CTATAAACAGAGGCTT-AACAACTTTGAAAAATAAATAAGTCTC
* *
14224841 CTATAAGCAGAGGCTCAACAACTTTGAAAAATAAATAACGT-TC
1 CTATAAACAGAGGCTTAACAACTTTGAAAAATAAATAA-GTCTC
* ** * *
14224884 CTCTAAACAGAGGCTTAATGACTTTGAAAAATAAACAAGGCTC
1 CTATAAACAGAGGCTTAACAACTTTGAAAAATAAATAAGTCTC
* * * * *
14224927 TTGTAAATAGAGGCTTAACGACTTTAAAAAATAAATA
1 CTATAAACAGAGGCTTAACAACTTTGAAAAATAAATA
14224964 GGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 100 0.97
44 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (43 bp):
CTATAAACAGAGGCTTAACAACTTTGAAAAATAAATAAGTCTC
Found at i:14224976 original size:26 final size:28
Alignment explanation
Indices: 14224930--14224996 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 28
14224920 AAGGCTCTTG
* *
14224930 TAAATAGAGGCTTAACGACTT-TAAAAAA
1 TAAATA-AGGCTCAACCACTTCTAAAAAA
*
14224958 TAAAT-AGGCTCAACCACTTCTGAAAAA
1 TAAATAAGGCTCAACCACTTCTAAAAAA
14224985 TAAATAAGGCTC
1 TAAATAAGGCTC
14224997 CTCTAATTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.35
27 11 0.32
28 11 0.32
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.24
Consensus pattern (28 bp):
TAAATAAGGCTCAACCACTTCTAAAAAA
Found at i:14225070 original size:44 final size:44
Alignment explanation
Indices: 14224963--14225239 Score: 261
Period size: 44 Copynumber: 6.3 Consensus size: 44
14224953 AAAAATAAAT
* ** *
14224963 AGGCTCAACCACTTCTGAAAAATAAATAAGGCTCCTCTAATTAG
1 AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
* * * * * * *
14225007 AGGTTCAATAATTTTTGAAAAATAAAAAAGGTTTCTCTAAACAA
1 AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
* * *
14225051 AGGCTTAACAACTTCTGAAAAATAAATAAGGCTTCTTTAAACAA
1 AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
* * * *
14225095 AGACTCAACAACTTCTGAAAAATAAATAAGACTCCTCTAAATAG
1 AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
* * ** *
14225139 AGGCTCAACAACTTTTAAAAAAATAAATAAAACTCCTCT-AATAA
1 AGGCTCAACAACTTCT-GAAAAATAAATAAGGCTCCTCTAAACAA
* * ** * *
14225183 AGGCCCAACAACTT-TAAAAAATAAATAAAACTCCTCTAAATAG
1 AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
*
14225226 AGGCTCAATAACTT
1 AGGCTCAACAACTT
14225240 TAGAAAATAA
Statistics
Matches: 196, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.11
43 17 0.09
44 137 0.70
45 20 0.10
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.26
Consensus pattern (44 bp):
AGGCTCAACAACTTCTGAAAAATAAATAAGGCTCCTCTAAACAA
Found at i:14226293 original size:13 final size:12
Alignment explanation
Indices: 14226268--14226310 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
14226258 TTGAGTCTTC
*
14226268 TTTTTTCATTTT
1 TTTTTTTATTTT
14226280 TTTTGTTTATTTT
1 TTTT-TTTATTTT
14226293 TATTTTTTATTTT
1 T-TTTTTTATTTT
14226306 TTTTT
1 TTTTT
14226311 GAAACATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.29
13 17 0.61
14 3 0.11
ACGTcount: A:0.09, C:0.02, G:0.02, T:0.86
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:14234317 original size:13 final size:14
Alignment explanation
Indices: 14234286--14234330 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
14234276 ATTTTCAATG
14234286 ATTTTTTAAATAAAA
1 ATTTTTT-AATAAAA
*
14234301 ATTTTTTAA-AAAT
1 ATTTTTTAATAAAA
*
14234314 ATTTTTTAAGAAAA
1 ATTTTTTAATAAAA
14234328 ATT
1 ATT
14234331 GAAAGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 8 0.30
15 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTTTTTAATAAAA
Found at i:14234430 original size:59 final size:59
Alignment explanation
Indices: 14234293--14234600 Score: 333
Period size: 59 Copynumber: 5.1 Consensus size: 59
14234283 ATGATTTTTT
* * * *
14234293 AAATAAAAATTTTTTAAAAATAT-TTTTTAA-GAAAAATTGAAAGTTTTAATTTTTCTTAA
1 AAAT-AAAA-TTTTCAAAAATATATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGA
* *
14234352 AAATTAAAA-CTTCAAAAAATATATTTTTAAGGAAAAATTGAAAGTGTCAATTTTTCTTGA
1 AAA-TAAAATTTTC-AAAAATATATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGA
*
14234412 AAATAAAATTTTCAAAAATATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTT-TT-A
1 AAATAAAATTTTCAAAAATATATTTTTAAGGAAAAA-TTGAAAGTATCAATTTTTCTTGA
* * *
14234469 AAATAAAATTTTCAAGAAAAAAAGGGTATTTTTAAGGAAAAGTTGAAAGTGTCAATTTTTCTTGA
1 AAATAAAATTTTC---AAAAATA---TATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGA
* * * *
14234534 AAATAAAATTATCAAAAA-AGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 AAATAAAATTTTCAAAAATA-TATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGA
14234593 AAATAAAA
1 AAATAAAA
14234601 ATGTTAAAAT
Statistics
Matches: 218, Mismatches: 16, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
57 16 0.07
58 16 0.07
59 96 0.44
60 39 0.18
61 1 0.00
62 5 0.02
63 25 0.11
64 7 0.03
65 13 0.06
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.37
Consensus pattern (59 bp):
AAATAAAATTTTCAAAAATATATTTTTAAGGAAAAATTGAAAGTATCAATTTTTCTTGA
Found at i:14234520 original size:122 final size:118
Alignment explanation
Indices: 14234293--14234600 Score: 392
Period size: 122 Copynumber: 2.6 Consensus size: 118
14234283 ATGATTTTTT
* * * *
14234293 AAATAAAAATTTTTTAAAAATAT-TTTTTAAGAAAAA-TTGAAAGTTTTAATTTTTCTTAAAAAT
1 AAAT-AAAA-TTTTCAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-
*
14234356 TAAAACTTCAAAAAATATATTTTTAAGGAAAAATTGAAAGTGTCAATTTTTCTTGA
63 TAAAACTTCAAAAAAAATATTTTTAAGGAAAAATTGAAAGTGTCAATTTTTCTTGA
14234412 AAATAAAATTTTCAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT-TT-AAAATAA
1 AAATAAAATTTTCAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
* *
14234475 AATTTTCAAGAAAAAAAGGGTATTTTTAAGGAAAAGTTGAAAGTGTCAATTTTTCTTGA
66 AA-CTTC-A-AAAAAAA---TATTTTTAAGGAAAAATTGAAAGTGTCAATTTTTCTTGA
* * * *
14234534 AAATAAAATTATCAAAAA-AGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 AAATAAAATTTTCAAAAATA-TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
14234598 AAA
65 AAA
14234601 ATGTTAAAAT
Statistics
Matches: 168, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
116 5 0.03
117 19 0.11
118 19 0.11
119 26 0.15
121 1 0.01
122 87 0.52
123 2 0.01
124 9 0.05
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.37
Consensus pattern (118 bp):
AAATAAAATTTTCAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
AACTTCAAAAAAAATATTTTTAAGGAAAAATTGAAAGTGTCAATTTTTCTTGA
Found at i:14245316 original size:58 final size:57
Alignment explanation
Indices: 14245159--14245327 Score: 180
Period size: 57 Copynumber: 2.9 Consensus size: 57
14245149 TTTTTTTAAC
** ** *
14245159 AAAAAAAAAGAGCTCAAATTGAAAACCTGTAAATGGTGGCTTAAGTTCAAAAAAATA
1 AAAAAAAAAGAGCTCAAATTGAAAACCTGTAAAAAGTGATTTGAGTTCAAAAAAATA
* * ** ** *
14245216 AAATAAAAAGAGCTCAAATTAAAAACCCAT-AAAAGCCAATTTGGGTTCTAAAAAAA-A
1 AAAAAAAAAGAGCTCAAATTGAAAACCTGTAAAAAG-TGATTTGAGTTC-AAAAAAATA
*
14245273 AAAAAAAAGAGAGCTCAAATTGAAAACCTGTAAAAAGTGATTTGAGTTCCAAAAA
1 AAAAAAAA-AGAGCTCAAATTGAAAACCTGTAAAAAGTGATTTGAGTTCAAAAAA
14245328 GGAGGGCTTG
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
56 3 0.03
57 45 0.51
58 35 0.40
59 5 0.06
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (57 bp):
AAAAAAAAAGAGCTCAAATTGAAAACCTGTAAAAAGTGATTTGAGTTCAAAAAAATA
Found at i:14246320 original size:86 final size:85
Alignment explanation
Indices: 14246124--14246567 Score: 310
Period size: 86 Copynumber: 5.2 Consensus size: 85
14246114 AGTCTAGATT
* * * * *
14246124 ATTCATTTTAACCTTTGGTTCAATCCAAGTCATTTTATTTTTAAAATTTGACATATGCCAGATCC
1 ATTCATTTCAAACTTTGATTCAATCCAAGTCA-TTTATTTTTTAATTTTGACATATGCCAGATCC
* *
14246189 TTCTT-GGCTTAGTCCAAGTC
65 TTCTTCAGCTTAGTCCAAGAC
*** * * *
14246209 ATTTGCTTCAAACTTCGATTTAATCCAAGTCATTATATTTTTTAATTTTGACATATGCCAGATCA
1 ATTCATTTCAAACTTTGATTCAATCCAAGTCATT-TATTTTTTAATTTTGACATATGCCAGATCC
14246274 TTCTTCAGCTTAGTCCAAGAC
65 TTCTTCAGCTTAGTCCAAGAC
* * *
14246295 ATTCATTTCAAACTTTGATTCAATCC-AGATCATTT-TGTTTTTAGATTTTGGCATATACTAGAT
1 ATTCATTTCAAACTTTGATTCAATCCAAG-TCATTTAT-TTTTTA-ATTTTGACATATGCCAGAT
*
14246358 CCTTCTTCAGCTTAGTCC-AGATT
63 CCTTCTTCAGCTTAGTCCAAGA-C
* ** ** * * * ** * * *
14246381 ATTCATTTTAGGCTTCAATTCAATCTAGGTCATGTTGGTTTTTGGATTTCGATC-TATGTCAAAT
1 ATTCATTTCAAACTTTGATTCAATCCAAGTCAT-TT-ATTTTTTAATTTTGA-CATATGCCAGAT
* **
14246445 CCTTCTTC-GACCTAGTCCAAGGT
63 CCTTCTTCAG-CTTAGTCCAAGAC
* * * * * * *
14246468 ATTCATTTCAGACTTCGATTCCATCCAGGTCATTT-TGTTTTTAGATTTTGACTTATGTCAAATC
1 ATTCATTTCAAACTTTGATTCAATCCAAGTCATTTAT-TTTTTA-ATTTTGACATATGCCAGATC
* ** * *
14246532 TTTCTTTTGCTTAGTCTAAG-T
64 CTTCTTCAGCTTAGTCCAAGAC
*
14246553 ATTCATTTCAGACTT
1 ATTCATTTCAAACTT
14246568 CAATTTCAAC
Statistics
Matches: 290, Mismatches: 52, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
84 4 0.01
85 89 0.31
86 130 0.45
87 59 0.20
88 7 0.02
89 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (85 bp):
ATTCATTTCAAACTTTGATTCAATCCAAGTCATTTATTTTTTAATTTTGACATATGCCAGATCCT
TCTTCAGCTTAGTCCAAGAC
Found at i:14247916 original size:60 final size:57
Alignment explanation
Indices: 14247844--14248011 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 57
14247834 TTTTTTAATA
*
14247844 AAAATTTTAAAAATATATTTTTGAGGAAAAATTGAAAGTATCACTTTTTCTTAAAAATT
1 AAAATTTAAAAAATATATTTTTGAGGAAAAATTGAAAGTATCACTTTTT-TTAAAAA-T
* * *
14247903 AAAACTTTAAAAAATATATTTTTGAGTAAAAGTTGAAACTATCAACTTTTTTTAAAAAT
1 AAAA-TTTAAAAAATATATTTTTGAGGAAAAATTGAAAGTATC-ACTTTTTTTAAAAAT
** * * *
14247962 AAATATTTCAAAAAGGATATTTTTTA-GAAAAAGTTGAAAGCATCAATTTT
1 AAA-ATTT-AAAAAATATATTTTTGAGGAAAAA-TTGAAAGTATCACTTTT
14248012 CTTTTATCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
59 20 0.22
60 65 0.71
61 7 0.08
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (57 bp):
AAAATTTAAAAAATATATTTTTGAGGAAAAATTGAAAGTATCACTTTTTTTAAAAAT
Found at i:14248022 original size:14 final size:14
Alignment explanation
Indices: 14248003--14248029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14247993 AGTTGAAAGC
14248003 ATCAATTTTCTTTT
1 ATCAATTTTCTTTT
14248017 ATCAATTTTCTTT
1 ATCAATTTTCTTT
14248030 GAGAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (14 bp):
ATCAATTTTCTTTT
Found at i:14248135 original size:59 final size:59
Alignment explanation
Indices: 14248048--14248213 Score: 192
Period size: 59 Copynumber: 2.8 Consensus size: 59
14248038 ATTTTTTTTA
* * * *
14248048 AAAAAAGACACTTTTAAGGAAAAGTTGAAAGTGTCAATTTTCCTTTAAAATAAAATTCTC
1 AAAAAAGA-ATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTC
* *
14248108 AAAAAAGAATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTC
1 AAAAAAGAATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTC
* * *
14248167 AAAAAAAAATATTTTTTAA--AAAAAGTTAAAAGTATCAATTTTTCTTG
1 -AAAAAAGA-A-TTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTTG
14248214 TATAACAGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
59 45 0.49
60 20 0.22
61 21 0.23
62 6 0.07
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (59 bp):
AAAAAAGAATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAATTCTC
Found at i:14252188 original size:14 final size:13
Alignment explanation
Indices: 14252169--14252200 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
14252159 AAATGTTTAA
14252169 TTATTTTTTATTCT
1 TTATTTTTTATT-T
14252183 TTATTTTTTATTT
1 TTATTTTTTATTT
14252196 TTATT
1 TTATT
14252201 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:14257403 original size:14 final size:14
Alignment explanation
Indices: 14257384--14257410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14257374 TCGGTTATTT
14257384 AACCGAACCGATTG
1 AACCGAACCGATTG
14257398 AACCGAACCGATT
1 AACCGAACCGATT
14257411 TTAATCAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (14 bp):
AACCGAACCGATTG
Found at i:14258731 original size:152 final size:152
Alignment explanation
Indices: 14258454--14258750 Score: 357
Period size: 152 Copynumber: 2.0 Consensus size: 152
14258444 AAAAGTTAAT
** * * * **
14258454 AAAAAGGTTAATTGGTATTTGTTGAGCCAGCTAAAAAACCTGCAAGTTGGATATTAAGACTATTT
1 AAAAAGGCCAATTGGTATATGTTGAGACAGCTAAAAAACCTACAAGTTGGATATTAAGACTACAT
* * *
14258519 ATTTGACACCTAATAAAAATTAAATATTTGACAAATGGCTTAAAATAATTAATTGATTTGTGCGG
66 AGTTGACACCTAATAAAAATTAAATATTTGACAAATGACTTAAAATAACTAATTGATTTGTGCGG
14258584 ATTCAGGAAAAAGTTCAAAAGG
131 ATTCAGGAAAAAGTTCAAAAGG
* * * *
14258606 AAAAAGGCCAATTGGATATATGTTGAGACGGCTAAAGAAGCTACAAGTTGGATATTAAGACTCCA
1 AAAAAGGCCAATTGG-TATATGTTGAGACAGCTAAAAAACCTACAAGTTGGATATTAAGACTACA
* ** *
14258671 TCGTTGACGGCTAAT-AAAATTTAATATTTGACAAATGACTTAAAGA-AACTAATT-AGTTTGTG
65 TAGTTGACACCTAATAAAAATTAAATATTTGACAAATGACTTAAA-ATAACTAATTGA-TTTGTG
* * *
14258733 TGGATTTATGAAAAAGTT
128 CGGATTCAGGAAAAAGTT
14258751 AAGAAGACTA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
151 1 0.01
152 68 0.56
153 52 0.43
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (152 bp):
AAAAAGGCCAATTGGTATATGTTGAGACAGCTAAAAAACCTACAAGTTGGATATTAAGACTACAT
AGTTGACACCTAATAAAAATTAAATATTTGACAAATGACTTAAAATAACTAATTGATTTGTGCGG
ATTCAGGAAAAAGTTCAAAAGG
Found at i:14260334 original size:16 final size:16
Alignment explanation
Indices: 14260289--14260354 Score: 50
Period size: 17 Copynumber: 4.2 Consensus size: 16
14260279 TAATTTTTAA
14260289 ATAA-AAATAT-TAA-
1 ATAATAAATATATAAT
* *
14260302 ATAATAATTTTATTAAT
1 ATAATAAATATA-TAAT
14260319 ATAATAAATATATAAT
1 ATAATAAATATATAAT
*
14260335 -TAAATAAATACTAAAAT
1 AT-AATAAATA-TATAAT
14260352 ATA
1 ATA
14260355 TATTTTTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 1 0.02
16 15 0.37
17 16 0.39
18 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATAAATATATAAT
Found at i:14260895 original size:3 final size:3
Alignment explanation
Indices: 14260887--14260936 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
14260877 ATTTTTAATT
*
14260887 TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14260935 TT
1 TT
14260937 TAGTTTATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14261228 original size:13 final size:12
Alignment explanation
Indices: 14261204--14261243 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
14261194 ATTTTAAGAA
14261204 TTTTGAGATTTT
1 TTTTGAGATTTT
14261216 TTTTGACGATTTT
1 TTTTGA-GATTTT
*
14261229 TTTTGGAAATTTT
1 TTTT-GAGATTTT
14261242 TT
1 TT
14261244 GAAAATTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 6 0.24
13 17 0.68
14 2 0.08
ACGTcount: A:0.17, C:0.03, G:0.15, T:0.65
Consensus pattern (12 bp):
TTTTGAGATTTT
Found at i:14261824 original size:6 final size:6
Alignment explanation
Indices: 14261813--14261851 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
14261803 ATTTTTTATC
*
14261813 TTTTTA TTTTTA TTTTTA TTTTT- TTTTTC TTTTT- TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
14261852 CAATGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.90
Consensus pattern (6 bp):
TTTTTA
Found at i:14261852 original size:11 final size:11
Alignment explanation
Indices: 14261813--14261851 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14261803 ATTTTTTATC
14261813 TTTTTATTTTT
1 TTTTTATTTTT
14261824 ATTTTTATTTTT
1 -TTTTTATTTTT
*
14261836 TTTTTCTTTTT
1 TTTTTATTTTT
14261847 TTTTT
1 TTTTT
14261852 CAATGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:14261941 original size:59 final size:59
Alignment explanation
Indices: 14261857--14262009 Score: 215
Period size: 59 Copynumber: 2.6 Consensus size: 59
14261847 TTTTTCAATG
*
14261857 ATTTTCC-TAAAATAAAATTCCCAAAAAAATATTTTT-GATG-AAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAATAAAATTTCCAAAAAAATATTTTTCGA-GAAAAAGTTGAAAGTATCA
* *
14261914 ATTTTTCTTAAAAATAAAATTTTCAAAAAAATATTTTTCGAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTT-AAAATAAAATTTCCAAAAAAATATTTTTCGAGAAAAAGTTGAAAGTATCA
*
14261974 ATTTTCCTTAAAATAAAATTTCTAAAATAAA-ATTTT
1 ATTTTCCTTAAAATAAAATTTCCAAAA-AAATATTTT
14262010 CAAAAAAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
57 6 0.07
58 1 0.01
59 48 0.56
60 30 0.35
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (59 bp):
ATTTTCCTTAAAATAAAATTTCCAAAAAAATATTTTTCGAGAAAAAGTTGAAAGTATCA
Found at i:14262012 original size:73 final size:73
Alignment explanation
Indices: 14261924--14262066 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
14261914 ATTTTTCTTA
* *
14261924 AAAATAAAATTTTCAAAAAAATA-TTTTTCGAGAAAAAGTTGAAAGT-ATCAA-TTTTCCTTAAA
1 AAAATAAAATTTTCAAAAAAATACATTTT-GAGAAAAAATTGAAAGTAAT-AATTTTTCCTTAAA
14261986 ATAAAATTTCT
64 A-AAAATTTCT
*
14261997 AAAATAAAATTTTCAAAAAAATACATTTTGAGAAAAAATTGAAAGTAATAATTTTTCTTTAAAAA
1 AAAATAAAATTTTCAAAAAAATACATTTTGAGAAAAAATTGAAAGTAATAATTTTTCCTTAAAAA
14262062 AAATT
66 AAATT
14262067 GTTAAGAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
73 47 0.73
74 17 0.27
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (73 bp):
AAAATAAAATTTTCAAAAAAATACATTTTGAGAAAAAATTGAAAGTAATAATTTTTCCTTAAAAA
AAATTTCT
Found at i:14262014 original size:14 final size:14
Alignment explanation
Indices: 14261982--14262008 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14261972 CAATTTTCCT
14261982 TAAAATAAAATTTC
1 TAAAATAAAATTTC
14261996 TAAAATAAAATTT
1 TAAAATAAAATTT
14262009 TCAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAAAATTTC
Found at i:14262137 original size:57 final size:57
Alignment explanation
Indices: 14261996--14262186 Score: 208
Period size: 57 Copynumber: 3.3 Consensus size: 57
14261986 ATAAAATTTC
* * * *
14261996 TAAAATAAAATTTTCAAAAAAATACATTTT-GAGAAAAAATTGAAAGTAATAATTTTTCTT
1 TAAAA-AAAATTGTCAAGAAAA-ACATTTTGGAG-AAAAGTTGAAAGTAACAA-TTTTCTT
* *
14262056 TAAAAAAAATTGTTAAGAAAAACATTTTGGAGAAAAGTTGAAAGTACCAATTTTCTT
1 TAAAAAAAATTGTCAAGAAAAACATTTTGGAGAAAAGTTGAAAGTAACAATTTTCTT
* * *
14262113 TGAAAAAAATTGTCAAGAAAAACATTTTAGG-GAAAAGTTAAAAGTATCAATTTTTCTT
1 TAAAAAAAATTGTCAAGAAAAACATTTT-GGAGAAAAGTTGAAAGTAACAA-TTTTCTT
*
14262171 AAAATAAAAATT-TCAA
1 TAAA-AAAAATTGTCAA
14262187 ATGCTTTAAG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
57 50 0.43
58 37 0.32
59 23 0.20
60 5 0.04
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.33
Consensus pattern (57 bp):
TAAAAAAAATTGTCAAGAAAAACATTTTGGAGAAAAGTTGAAAGTAACAATTTTCTT
Found at i:14266733 original size:451 final size:453
Alignment explanation
Indices: 14265867--14266751 Score: 1182
Period size: 451 Copynumber: 2.0 Consensus size: 453
14265857 GGGCATTACT
*
14265867 ATAGCTATGTGAATCATGTCTTTACTGAAAAGACAGAAGAATCAATCCAAGCTTTTGATTTAGAT
1 ATAGCTATGTGAATCATGTCTTTACTGAAAAGACAGAAGAACCAATCCAAGCTTTTGATTTAGAT
* *
14265932 GACTTGAAAAAGAAAGAAAAAAAAAAGACAAAGGTGGTGGAGTCTTAGAAAGATTCGAGTATTAG
66 GACTTGAAAAAGAAAGAAAAAAAAAAGACAAAGGCGGTGGAATCTTAGAAAGATTCGAGTATTAG
* * * * *
14265997 TATGCTGAAACAAAGGCTACAGGCTGTAGAAAGAATTGAGTTTTATGGTTCTATCGATGCTGTTG
131 TATGCTGAAACAAAGACTACAGACTGTAGAAAGAATTGAGTTTTATAGTTCTATCGATACTATTG
* * * *
14266062 GACTGTGCTTAATCCCATATATGGTTATTCTACCAAAGTTCAAAGTACCAAAATTTGAGAAATAT
196 GACTATGCTTAATCCCAAATATGGTTATTCCACCAAAATTCAAAGTACCAAAATTTGAGAAATAT
* * * * * *
14266127 GATAGTACAAAGTGTCCAAAGATTCATATCACCATGTACTGTCAGAAGATGGCAACCCATGCTTA
261 AATAGTACAAAGTGCCCAAAGACTCATATCACCATGTACTATCAGAAGATAGCAACCCATGCTCA
14266192 TAATGAAAAATTATTAATGCATATTTTTCAAGATAGCCTTACAAGCTCTGCTGCTAGGTGGTATG
326 TAATGAAAAATTATTAATGCATATTTTTCAAGATAGCCTTACAAGCTCTGCTGCTAGGTGGTATG
* * * *
14266257 TCCGGCTGGACAGAACTCGCATCCATTCTTGGTGCGATATGACCCATAACCCTGGACATTATC
391 TCCAGCTGGACAGAACTCACATCCATTCTTAGAGCGATATGACCCATAACCCTGGACATTATC
* **
14266320 ATAGCTATGTGAATCATGTCTTTATTGAAAAGGTA-ATAGAACCAATCCAAG-TTCTTGATTTAG
1 ATAGCTATGTGAATCATGTCTTTACTGAAAAGACAGA-AGAACCAATCCAAGCTT-TTGATTTAG
* * * * *
14266383 ATTACTTGAAAGAGAAAGAAAAAAAAAAG-CAAAGGCGTTGGAATTTTA-AGAAGATTTGAAG-A
64 ATGACTTGAAAAAGAAAGAAAAAAAAAAGACAAAGGCGGTGGAATCTTAGA-AAGATTCG-AGTA
* * *
14266445 TTAGTATGCTGGAACAAAGACTA-TGACTGTAGAAGGAATT-AGGTTTTATAGTTCTATCGATAC
127 TTAGTATGCTGAAACAAAGACTACAGACTGTAGAAAGAATTGA-GTTTTATAGTTCTATCGATAC
* *
14266508 TATTAGG-CTATGCTTAATCCCAAATATGGTTATTCCACTAAAATTTAAAGTACCAAAATTTGAG
191 TATT-GGACTATGCTTAATCCCAAATATGGTTATTCCACCAAAATTCAAAGTACCAAAATTTGAG
** * *
14266572 AAATATAAT-G-ACACGAAGTGCCCAAAGACTCATATCATTATGTATTATC-GAAAGATAGCAGC
255 AAATATAATAGTACA--AAGTGCCCAAAGACTCATATCACCATGTACTATCAG-AAGATAGCAAC
* * *
14266634 CCATGCTCATAATGAAAAATTATTAATGCATGTTTTTCAAGATAGCCTTACAGGCTCTGTTGCTA
317 CCATGCTCATAATGAAAAATTATTAATGCATATTTTTCAAGATAGCCTTACAAGCTCTGCTGCTA
* * * *
14266699 GGTGGTATGTTCAGCTGGATAGTTA-TCACATCCATTCTTAGAGTGATATGACC
382 GGTGGTATGTCCAGCTGGACAG-AACTCACATCCATTCTTAGAGCGATATGACC
14266752 TATGACTTTA
Statistics
Matches: 376, Mismatches: 46, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
449 3 0.01
450 3 0.01
451 237 0.63
452 50 0.13
453 83 0.22
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (453 bp):
ATAGCTATGTGAATCATGTCTTTACTGAAAAGACAGAAGAACCAATCCAAGCTTTTGATTTAGAT
GACTTGAAAAAGAAAGAAAAAAAAAAGACAAAGGCGGTGGAATCTTAGAAAGATTCGAGTATTAG
TATGCTGAAACAAAGACTACAGACTGTAGAAAGAATTGAGTTTTATAGTTCTATCGATACTATTG
GACTATGCTTAATCCCAAATATGGTTATTCCACCAAAATTCAAAGTACCAAAATTTGAGAAATAT
AATAGTACAAAGTGCCCAAAGACTCATATCACCATGTACTATCAGAAGATAGCAACCCATGCTCA
TAATGAAAAATTATTAATGCATATTTTTCAAGATAGCCTTACAAGCTCTGCTGCTAGGTGGTATG
TCCAGCTGGACAGAACTCACATCCATTCTTAGAGCGATATGACCCATAACCCTGGACATTATC
Found at i:14273173 original size:14 final size:14
Alignment explanation
Indices: 14273156--14273187 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14273146 AAATGGAAGA
14273156 AAAATAAAAAAATG
1 AAAATAAAAAAATG
*
14273170 AAAATGAAAAAATG
1 AAAATAAAAAAATG
14273184 AAAA
1 AAAA
14273188 AACTCAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATG
Found at i:14273180 original size:22 final size:20
Alignment explanation
Indices: 14273129--14273189 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
14273119 GTACTATGCT
14273129 TGAAA-AAAATAATAAAAAAA
1 TGAAAGAAAA-AATAAAAAAA
*
14273149 TGGAAG-AAAAATAAAAAAA
1 TGAAAGAAAAAATAAAAAAA
14273168 TGAAAATGAAAAAATGAAAAAA
1 TG-AAA-GAAAAAAT-AAAAAA
14273190 CTCAAGGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 12 0.35
20 9 0.26
21 1 0.03
22 6 0.18
23 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.13
Consensus pattern (20 bp):
TGAAAGAAAAAATAAAAAAA
Found at i:14274244 original size:44 final size:44
Alignment explanation
Indices: 14274190--14274413 Score: 254
Period size: 44 Copynumber: 5.1 Consensus size: 44
14274180 ATTAGAAAAG
* * *
14274190 CTTTGTTTATTTTTTTAAAGTTGTTGAGCCTCTATTTAGAGGAA
1 CTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAA
* * *
14274234 CTTTATTTATTTTTCCAAAGTCGTTGAGCTTCT-TATTAGAGGAG
1 CTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTAT-TTAGAGGAA
* * * * * *
14274278 CCTTGTTTATTTTTTCAAAGTCATTAAGCATCTGTTTAGAGGAA
1 CTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAA
* *
14274322 CCTTATTTATTTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAA
1 CTTTATTTATTTTTT-CAAAGTCGTTGAGCCTCTATTTAGAGGAA
* * * *
14274367 CTTT-GTTATTTTTTCAAAGTCATTGAGCCTCTACTTAGAGGAG
1 CTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAA
14274410 CTTT
1 CTTT
14274414 GATCAAAATT
Statistics
Matches: 152, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
43 30 0.20
44 94 0.62
45 28 0.18
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.46
Consensus pattern (44 bp):
CTTTATTTATTTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAA
Found at i:14274329 original size:88 final size:89
Alignment explanation
Indices: 14274192--14274408 Score: 296
Period size: 88 Copynumber: 2.5 Consensus size: 89
14274182 TAGAAAAGCT
* ** *
14274192 TTGTTTATTTTTTTAAAGTTGTTGAGCCTCTATTTAGAGGAACTTTATTTA-TTTTTCCAAAGTC
1 TTGTTTATTTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACCTTATTTATTTTTTCCAAAGTC
* *
14274256 GTTGAGCTTCT-TATTAGAGGAGCC
66 GTTGAGCCTCTAT-TTAGAGGAACC
* * * *
14274280 TTGTTTATTTTTTCAAAGTCATTAAGCATCTGTTTAGAGGAACCTTATTTATTTTTTCCAAAGTT
1 TTGTTTATTTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACCTTATTTATTTTTTCCAAAGTC
*
14274345 GTTGAGCCTCTATTTAGAGGAACT
66 GTTGAGCCTCTATTTAGAGGAACC
*
14274369 TTG-TTATTTTTTCAAAGTCATTGAGCCTCTACTTAGAGGA
1 TTGTTTATTTTTTCAAAGTCATTGAGCCTCTATTTAGAGGA
14274409 GCTTTGATCA
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
88 77 0.69
89 34 0.30
90 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.45
Consensus pattern (89 bp):
TTGTTTATTTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACCTTATTTATTTTTTCCAAAGTC
GTTGAGCCTCTATTTAGAGGAACC
Found at i:14274453 original size:17 final size:16
Alignment explanation
Indices: 14274430--14274468 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14274420 AATTTTAATT
*
14274430 AAAAAAATAA-TAAAA
1 AAAAAAAAAAGTAAAA
14274445 AACAAAAAAAAGTAAAA
1 AA-AAAAAAAAGTAAAA
14274462 AAAAAAA
1 AAAAAAA
14274469 GTCGAGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAAGTAAAA
Found at i:14275657 original size:59 final size:58
Alignment explanation
Indices: 14275572--14275774 Score: 238
Period size: 59 Copynumber: 3.5 Consensus size: 58
14275562 TTTTTCAATG
* * *
14275572 ATTTTTC-T-AAAATAAAATTTCCAAAAAAATATTTTTGAAAAAAAGTTAAAAGTATCA
1 ATTTTTCTTGAAAATAAAATTT-CTAAAAAGTATTTTTGAAAAAAAGTTGAAAGTATCA
* **
14275629 A-TTTTCTTTGAAAGTAAAATTTCTAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATTCA
1 ATTTTTC-TTGAAAATAAAATTTCTAAAAAGTATTTTTGAAAAAAAGTTGAAAGTA-TCA
*
14275688 ATTTTTCTTGAAAATAAAATTTTTTTAAAAAGTATTTTT-AAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAAATAAAA--TTTCTAAAAAGTATTTTTGAA-AAAAAGTTGAAAGTATCA
14275748 ATTTTTCTT-AAAATAAAAGTTT-TAAAA
1 ATTTTTCTTGAAAATAAAA-TTTCTAAAA
14275775 TAAAATTTTC
Statistics
Matches: 127, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
56 5 0.04
57 6 0.05
58 32 0.25
59 35 0.28
60 18 0.14
61 31 0.24
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (58 bp):
ATTTTTCTTGAAAATAAAATTTCTAAAAAGTATTTTTGAAAAAAAGTTGAAAGTATCA
Found at i:14275774 original size:14 final size:13
Alignment explanation
Indices: 14275755--14275792 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
14275745 TCAATTTTTC
14275755 TTAAAATAAAAGTT
1 TTAAAATAAAA-TT
14275769 TTAAAATAAAATT
1 TTAAAATAAAATT
*
14275782 TTCAAA-AAAAT
1 TTAAAATAAAAT
14275793 ACATTTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:14275838 original size:58 final size:57
Alignment explanation
Indices: 14275776--14275930 Score: 145
Period size: 57 Copynumber: 2.7 Consensus size: 57
14275766 GTTTTAAAAT
*
14275776 AAAATT-TTCAAAAAAATACATTTT-AGAGAAAAATTGAAAGTACCAATTTTTCTTTAAA
1 AAAATTGTT-AAAAAAA-ACATTTTGAG-GAAAAATTGAAAGTACCAATTTTTCTTGAAA
* * * * *
14275834 AAAATTGTTAAGAAAAACATTTTGAGGAAAAGTTGGAATTATCAATTTTTCTTGAAAAA
1 AAAATTGTTAAAAAAAACATTTTGAGGAAAAATTGAAAGTACCAATTTTTCTTG--AAA
* * **
14275893 AAAATTGTCAAGAAAAATGTTTT-AGGAAAAAGTTGAAA
1 AAAATTGTTAAAAAAAACATTTTGAGGAAAAA-TTGAAA
14275931 ACATCAATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
57 30 0.37
58 21 0.26
59 30 0.37
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (57 bp):
AAAATTGTTAAAAAAAACATTTTGAGGAAAAATTGAAAGTACCAATTTTTCTTGAAA
Found at i:14275906 original size:59 final size:57
Alignment explanation
Indices: 14275769--14275955 Score: 187
Period size: 59 Copynumber: 3.2 Consensus size: 57
14275759 AATAAAAGTT
* * * * * *
14275769 TTAAAATAAAATTTTCAAAAAAATACATTTTAGAGAAAAATTGAAAGTACCAATTTTTC
1 TTAAAAAAAAATTGTCAAGAAAA-ACATTTTAG-GAAAAGTTGAAAATATCAATTTTTC
* * * *
14275828 TT-TAAAAAAATTGTTAAGAAAAACATTTTGAGGAAAAGTTGGAATTATCAATTTTTC
1 TTAAAAAAAAATTGTCAAGAAAAACATTTT-AGGAAAAGTTGAAAATATCAATTTTTC
** * *
14275885 TTGAAAAAAAAATTGTCAAGAAAAATGTTTTAGGAAAAAGTTGAAAACATCAATTTTCC
1 TT-AAAAAAAAATTGTCAAGAAAAACATTTTAGG-AAAAGTTGAAAATATCAATTTTTC
14275944 TTAAAATAAAAA
1 TTAAAA-AAAAA
14275956 CTTCCAAATG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
57 30 0.28
58 24 0.23
59 52 0.49
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (57 bp):
TTAAAAAAAAATTGTCAAGAAAAACATTTTAGGAAAAGTTGAAAATATCAATTTTTC
Found at i:14278134 original size:23 final size:20
Alignment explanation
Indices: 14278108--14278165 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
14278098 TCATATTAAA
14278108 ATATATTTAAAATATCTTATAAT
1 ATATATTTAAAA-AT-TTAT-AT
*
14278131 ATATAATTAAAAATTTATAT
1 ATATATTTAAAAATTTATAT
*
14278151 TTATATTTATAAAAT
1 ATATATTTA-AAAAT
14278166 ATTTTTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 9 0.29
21 9 0.29
22 2 0.06
23 11 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATATTTAAAAATTTATAT
Found at i:14278760 original size:3 final size:3
Alignment explanation
Indices: 14278752--14278777 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14278742 TTGCAACTAC
14278752 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14278778 AAGGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14281684 original size:29 final size:31
Alignment explanation
Indices: 14281649--14281709 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
14281639 TCTGAATATA
*
14281649 AAAAACATGAC-A-ACTTTTGTATCCGATTT
1 AAAAACATGACAAGACTTTTGTATCCAATTT
14281678 AAAAACATGACAAAGACTTTTGTATCCAATTT
1 AAAAACATGAC-AAGACTTTTGTATCCAATTT
14281710 TCAACAGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.39
31 1 0.04
32 16 0.57
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (31 bp):
AAAAACATGACAAGACTTTTGTATCCAATTT
Found at i:14281699 original size:162 final size:165
Alignment explanation
Indices: 14281516--14281843 Score: 590
Period size: 163 Copynumber: 2.0 Consensus size: 165
14281506 TCTGAATATA
* **
14281516 AAAAACATGACAAAGACTTTTGTATCCGATTTTCAACAGTGCAAGATGAATT-AAAAAAAAGGTT
1 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
14281580 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
66 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
14281645 TATAAAAAACATGAC-A-ACTTTTGTATCCGATTT
131 TATAAAAAACATGACAAGACTTTTGTATCCGATTT
14281678 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
1 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
*
14281743 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTGACTTCTCACCAAACTTTTTGCTTCTGAA
66 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
14281808 TATAAAAAACATGACAAAGACTTTTGTATCCGATTT
131 TATAAAAAACATGAC-AAGACTTTTGTATCCGATTT
14281844 TCAACGGTGC
Statistics
Matches: 158, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
162 51 0.32
163 89 0.56
165 1 0.01
166 17 0.11
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (165 bp):
AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
TATAAAAAACATGACAAGACTTTTGTATCCGATTT
Found at i:14281917 original size:133 final size:134
Alignment explanation
Indices: 14281678--14281927 Score: 448
Period size: 133 Copynumber: 1.9 Consensus size: 134
14281668 TATCCGATTT
14281678 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
1 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
*
14281743 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTGACTTCTCACCAAACTTTTTGCTTCTGAA
66 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
14281808 TATA
131 TATA
* * *
14281812 AAAAACATGACAAAGACTTTTGTATCCGATTTTCAACGGTGCAAGATGAATT-AAAAAAAAGGTA
1 AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
*
14281876 TTGATCAGAGTAAGATGCATGTTCTTAACCGTTGGTCACTTCTCACCAAACT
66 TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACT
14281928 GTCTGCCTGC
Statistics
Matches: 111, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
133 61 0.55
134 50 0.45
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (134 bp):
AAAAACATGACAAAGACTTTTGTATCCAATTTTCAACAGTGCAAGATGAATTAAAAAAAAAGGCA
TTGATCAGAGTAAGATGCATGTTCTGAACCGTTGGTCACTTCTCACCAAACTTTTTGCTTCTGAA
TATA
Found at i:14282215 original size:21 final size:22
Alignment explanation
Indices: 14282189--14282229 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14282179 TGAAATTATT
* *
14282189 TTTTAT-TTTTTAATTTATTTC
1 TTTTATCTTTTGAATATATTTC
14282210 TTTTATCTTTTGAATATATT
1 TTTTATCTTTTGAATATATT
14282230 AAAATGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTTGAATATATTTC
Found at i:14283571 original size:3 final size:3
Alignment explanation
Indices: 14283565--14283590 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14283555 TTTTTATTTT
14283565 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
14283591 TGTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14283624 original size:10 final size:10
Alignment explanation
Indices: 14283601--14283686 Score: 61
Period size: 10 Copynumber: 8.2 Consensus size: 10
14283591 TGTTTAATTT
14283601 TTTTTCTTT-
1 TTTTTCTTTC
*
14283610 ATTTTCTTTC
1 TTTTTCTTTC
14283620 TTTTTCTTT-
1 TTTTTCTTTC
*
14283629 TCTTTCCGTTTC
1 T-TTTTC-TTTC
14283641 TGCGTTTGTC-TTC
1 T---TTT-TCTTTC
*
14283654 TTCTTCCTTTC
1 TT-TTTCTTTC
14283665 TTTTTCTTTC
1 TTTTTCTTTC
14283675 TTTTTCTTTC
1 TTTTTCTTTC
14283685 TT
1 TT
14283687 CTTCATCCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
9 9 0.15
10 33 0.54
11 10 0.16
12 1 0.02
13 4 0.07
14 3 0.05
15 1 0.02
ACGTcount: A:0.01, C:0.22, G:0.05, T:0.72
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:14285201 original size:12 final size:12
Alignment explanation
Indices: 14285179--14285207 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14285169 TAATTAAAAT
14285179 TAAAA-AATTAA
1 TAAAATAATTAA
14285190 TAAAATAATTAA
1 TAAAATAATTAA
14285202 TAAAAT
1 TAAAAT
14285208 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:14285964 original size:23 final size:23
Alignment explanation
Indices: 14285940--14285983 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14285930 AAAAAGGTCA
14285940 AAAACAAAAA-AAAAAACAAAAC
1 AAAACAAAAATAAAAAACAAAAC
*
14285962 AAATCAAAAATAAAAAACAAAA
1 AAAACAAAAATAAAAAACAAAA
14285984 AAATTCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (23 bp):
AAAACAAAAATAAAAAACAAAAC
Found at i:14291507 original size:21 final size:21
Alignment explanation
Indices: 14291481--14291521 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14291471 CATACACTAT
*
14291481 ATTTTTTGTTAAAACATTGTA
1 ATTTTTTATTAAAACATTGTA
*
14291502 ATTTTTTATTAGAACATTGT
1 ATTTTTTATTAAAACATTGT
14291522 CTTTGATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (21 bp):
ATTTTTTATTAAAACATTGTA
Found at i:14291979 original size:17 final size:17
Alignment explanation
Indices: 14291957--14291989 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14291947 GAACATAATT
*
14291957 ATATTACACAAAATATG
1 ATATTACAAAAAATATG
14291974 ATATTACAAAAAATAT
1 ATATTACAAAAAATAT
14291990 AATCATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
ATATTACAAAAAATATG
Found at i:14293494 original size:30 final size:31
Alignment explanation
Indices: 14293459--14293534 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
14293449 AAACTATACA
14293459 AATAATTTTAATTTATT-T-CTTAAATAAATT
1 AATAATTTT-ATTTATTATGCTTAAATAAATT
** *
14293489 AATAATCATATTTATTATGTTTAAATAAATT
1 AATAATTTTATTTATTATGCTTAAATAAATT
*
14293520 ATAAAATTTTTATTT
1 A-ATAA-TTTTATTT
14293535 TTAAATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
29 7 0.19
30 8 0.22
31 12 0.33
32 3 0.08
33 6 0.17
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (31 bp):
AATAATTTTATTTATTATGCTTAAATAAATT
Found at i:14293538 original size:26 final size:29
Alignment explanation
Indices: 14293470--14293542 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 29
14293460 ATAATTTTAA
14293470 TTTATTTCTTAAATAAATTAATAATCATATT
1 TTTATTT-TTAAATAAATTAATAA-CATATT
*
14293501 TATTATGTTTAAATAAATT-ATAA-A-ATT
1 T-TTATTTTTAAATAAATTAATAACATATT
14293528 TTTATTTTTAAATAA
1 TTTATTTTTAAATAA
14293543 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 1 0.03
30 4 0.10
31 12 0.31
32 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (29 bp):
TTTATTTTTAAATAAATTAATAACATATT
Found at i:14293553 original size:16 final size:17
Alignment explanation
Indices: 14293524--14293557 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14293514 TAAATTATAA
*
14293524 AATTTTTATTTTTAAAT
1 AATTTTTATATTTAAAT
14293541 AATTTTT-TATTTAAAT
1 AATTTTTATATTTAAAT
14293557 A
1 A
14293558 CTAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTTATATTTAAAT
Found at i:14295208 original size:126 final size:126
Alignment explanation
Indices: 14294977--14295232 Score: 440
Period size: 126 Copynumber: 2.0 Consensus size: 126
14294967 CCAACAATGA
*
14294977 ACCAACACAACAGCCTATGTCAGCAGATCACAACAATGGCTATCAGCAAAAACCATATCGACAGC
1 ACCAACACAACAGCCTATGTCAGCAGATCACAACAATGGCTATCAGCAAAAACCACATCGACAGC
*
14295042 CACAGCCACCTGAAGGTGCTGCATCGTCACGGGAGCCTCTTCCAGTTCCAGAAGGGTACCC
66 CACAGCCACCTGAAGGCGCTGCATCGTCACGGGAGCCTCTTCCAGTTCCAGAAGGGTACCC
* * *
14295103 ACCAACACAACAGCCTATGTCAGCAGATCAGACCAATGGCTATCAGCAAAAACCACATCGTCAGC
1 ACCAACACAACAGCCTATGTCAGCAGATCACAACAATGGCTATCAGCAAAAACCACATCGACAGC
* **
14295168 TACAGCCACCTGAAGGCGCTGCATCGTCACGGGATTCTCTTCCAGTTCCAGAAGGGTACCC
66 CACAGCCACCTGAAGGCGCTGCATCGTCACGGGAGCCTCTTCCAGTTCCAGAAGGGTACCC
14295229 ACCA
1 ACCA
14295233 CCTCGACCTC
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (126 bp):
ACCAACACAACAGCCTATGTCAGCAGATCACAACAATGGCTATCAGCAAAAACCACATCGACAGC
CACAGCCACCTGAAGGCGCTGCATCGTCACGGGAGCCTCTTCCAGTTCCAGAAGGGTACCC
Found at i:14296873 original size:14 final size:14
Alignment explanation
Indices: 14296854--14296880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14296844 AAATATTTGC
14296854 AAATATTAAATTTT
1 AAATATTAAATTTT
14296868 AAATATTAAATTT
1 AAATATTAAATTT
14296881 GTTAAGTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATTAAATTTT
Found at i:14298833 original size:16 final size:18
Alignment explanation
Indices: 14298814--14298849 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14298804 AATCTTTTCG
14298814 AAAATA-AATTTTT-AAA
1 AAAATATAATTTTTCAAA
14298830 AAAATATAATTTTTCAAA
1 AAAATATAATTTTTCAAA
14298848 AA
1 AA
14298850 TATTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 7 0.39
18 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATATAATTTTTCAAA
Found at i:14298850 original size:16 final size:16
Alignment explanation
Indices: 14298808--14298852 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14298798 GTCATAAATC
*
14298808 TTTTCGAAAATA-AAT
1 TTTTCAAAAATATAAT
*
14298823 TTTTAAAAAAATATAAT
1 TTTT-CAAAAATATAAT
14298840 TTTTCAAAAATAT
1 TTTTCAAAAATAT
14298853 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 4 0.16
16 14 0.56
17 7 0.28
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
TTTTCAAAAATATAAT
Found at i:14302799 original size:1 final size:1
Alignment explanation
Indices: 14302758--14302782 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14302748 TTGGGTTAGA
14302758 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
14302783 GCATTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14303863 original size:26 final size:26
Alignment explanation
Indices: 14303826--14303877 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14303816 ATGTTTTTGC
*
14303826 AGCAATACAGTTTAATCAGAGAAAGT
1 AGCAATAAAGTTTAATCAGAGAAAGT
14303852 AGCAATAAAGTTTAATCAGAGAAAGT
1 AGCAATAAAGTTTAATCAGAGAAAGT
14303878 TAATCAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (26 bp):
AGCAATAAAGTTTAATCAGAGAAAGT
Found at i:14307971 original size:123 final size:123
Alignment explanation
Indices: 14307762--14307986 Score: 310
Period size: 123 Copynumber: 1.8 Consensus size: 123
14307752 ATCAATGCGG
* * * * *
14307762 TTGCCAGAATTCGATAGGACCAGAGCTGGGGTTGTTGCTGTAGACGATGGTGATGGTGTTGCTGA
1 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
* *
14307827 GAGTGCTGCAGTACCAGAACTGGAACAGGTGAGGCTACTGGACATTCTATCAATCCAC
66 GACTGCTGCAGAACCAGAACTGGAACAGGTGAGGCTACTGGACATTCTATCAATCCAC
*
14307885 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGAGGAAGGTGATGGTGCTGCTGA
1 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
* * * *
14307950 GTCTTCTG-TGAAGCC-GAAACTGGAACTGGTGAGGCTA
66 GACTGCTGCAGAA-CCAG-AACTGGAACAGGTGAGGCTA
14307987 ATACCCATCC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
122 3 0.03
123 85 0.97
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (123 bp):
TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
GACTGCTGCAGAACCAGAACTGGAACAGGTGAGGCTACTGGACATTCTATCAATCCAC
Found at i:14308000 original size:123 final size:123
Alignment explanation
Indices: 14307762--14308023 Score: 303
Period size: 123 Copynumber: 2.1 Consensus size: 123
14307752 ATCAATGCGG
* * * * *
14307762 TTGCCAGAATTCGATAGGACCAGAGCTGGGGTTGTTGCTGTAGACGATGGTGATGGTGTTGCTGA
1 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
* * * ** * *
14307827 GAGTGCTGCAGTACCAGAACTGGAACAGGTGAGGCTACTGGACATTCTATCAATCCAC
66 GACTGCTGCAGAACCAGAACTGGAACAGGTGAGGCTAATACACATCCTATCAATACAC
*
14307885 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGAGGAAGGTGATGGTGCTGCTGA
1 TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
* * * * * *
14307950 GTCTTCTG-TGAAGCC-GAAACTGGAACTGGTGAGGCTAATACCCATCCTATCAATACGC
66 GACTGCTGCAGAA-CCAG-AACTGGAACAGGTGAGGCTAATACACATCCTATCAATACAC
* *
14308008 TTGGCAGAACTCGATA
1 TTGCCAGAATTCGATA
14308024 GGATCAGGCC
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
122 3 0.03
123 113 0.97
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (123 bp):
TTGCCAGAATTCGATAAGACAAGAGCTGGGGCTGTTGCTGTAGACGAAGGTGATGGTGCTGCTGA
GACTGCTGCAGAACCAGAACTGGAACAGGTGAGGCTAATACACATCCTATCAATACAC
Found at i:14308064 original size:6 final size:6
Alignment explanation
Indices: 14308053--14308096 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
14308043 TGCAATTGAG
*
14308053 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GTTGGT GA
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
14308097 AGCTTCCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (6 bp):
GATGGT
Found at i:14308880 original size:104 final size:104
Alignment explanation
Indices: 14308772--14308978 Score: 310
Period size: 104 Copynumber: 2.0 Consensus size: 104
14308762 CAAACCTTTA
* * * **
14308772 TGCACTCTTTCAATATAACCAAACACAT-ACTCATATGCTCCCATATATCATACCTATGTGGACC
1 TGCACTCTTTCAACATAACCAAACACATAAC-CATATGCTCACATACATCATACCTATGTAAACC
14308836 CT-TTCAGTCTCCTCTAGTCCACTCACAAACAAACATGCAG
65 CTCTT-AGTCTCCTCTAGTCCACTCACAAACAAACATGCAG
* * *
14308876 TGCACTCTTTCAACATAACTAAACACATAACCATATGCTCATATACATCATACCTATGTAAATCC
1 TGCACTCTTTCAACATAACCAAACACATAACCATATGCTCACATACATCATACCTATGTAAACCC
14308941 TCTTAGTCTCCTCTAGTCCACTCACAAACAAACATGCA
66 TCTTAGTCTCCTCTAGTCCACTCACAAACAAACATGCA
14308979 CACTCATAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
104 89 0.96
105 4 0.04
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.28
Consensus pattern (104 bp):
TGCACTCTTTCAACATAACCAAACACATAACCATATGCTCACATACATCATACCTATGTAAACCC
TCTTAGTCTCCTCTAGTCCACTCACAAACAAACATGCAG
Found at i:14309273 original size:15 final size:15
Alignment explanation
Indices: 14309222--14309264 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
14309212 TATCTATTAA
14309222 AAATTTTTTTTTTTT
1 AAATTTTTTTTTTTT
14309237 AAATTTTTTTTTTTT
1 AAATTTTTTTTTTTT
14309252 AAATTTTTTTTTT
1 AAATTTTTTTTTT
14309265 GCAAGTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
AAATTTTTTTTTTTT
Found at i:14310099 original size:10 final size:9
Alignment explanation
Indices: 14310079--14310103 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14310069 AAATTTCAAA
14310079 TTTTATTTT
1 TTTTATTTT
14310088 TTTTATTTT
1 TTTTATTTT
14310097 TTTTATT
1 TTTTATT
14310104 CATATCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTATTTT
Found at i:14310129 original size:2 final size:2
Alignment explanation
Indices: 14310117--14310150 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14310107 ATCTTATCAC
14310117 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14310151 TTCGTTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14311185 original size:16 final size:17
Alignment explanation
Indices: 14311145--14311185 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
14311135 ATTTTAAAAA
*
14311145 ATAATATTTAATACTTT
1 ATAATTTTTAATACTTT
*
14311162 -TAAATTTTAATA-TTT
1 ATAATTTTTAATACTTT
14311177 ATAATTTTT
1 ATAATTTTT
14311186 TCTTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATAATTTTTAATACTTT
Found at i:14311365 original size:7 final size:7
Alignment explanation
Indices: 14311346--14311389 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
14311336 TTTAATTTGA
14311346 ATTAAAT
1 ATTAAAT
14311353 -TTAAAT
1 ATTAAAT
14311359 ATTAAAT
1 ATTAAAT
14311366 ATTAAAT
1 ATTAAAT
14311373 A-T--AT
1 ATTAAAT
14311377 ATTAAAT
1 ATTAAAT
14311384 -TTAAAT
1 ATTAAAT
14311390 CAAATTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
4 3 0.09
5 1 0.03
6 13 0.39
7 16 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTAAAT
Found at i:14311399 original size:18 final size:17
Alignment explanation
Indices: 14311354--14311421 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 17
14311344 GAATTAAATT
14311354 TAAATATTAAATATTAAA
1 TAAATATTAAAT-TTAAA
*
14311372 TATATATTAAATTTAAA
1 TAAATATTAAATTTAAA
* *
14311389 TCAAATTTTAAA-TTGAA
1 T-AAATATTAAATTTAAA
*
14311406 -AAGTATTAAATTTAAA
1 TAAATATTAAATTTAAA
14311422 AGATGAAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 8 0.20
16 4 0.10
17 10 0.24
18 19 0.46
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATATTAAATTTAAA
Found at i:14311535 original size:20 final size:20
Alignment explanation
Indices: 14311502--14311544 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14311492 TAATTATTTT
* * *
14311502 ATATTTAAATTTATTTTAAA
1 ATATTAAAAATTATGTTAAA
14311522 ATATTAAAAATTATGTTAAA
1 ATATTAAAAATTATGTTAAA
14311542 ATA
1 ATA
14311545 ATATATACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATTAAAAATTATGTTAAA
Found at i:14312035 original size:20 final size:20
Alignment explanation
Indices: 14311990--14312031 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
14311980 ATATTACTTT
14311990 AAAAT-TTTAATAAAAATTA
1 AAAATATTTAATAAAAATTA
* *
14312009 TATATATTTAAT-AAAATTA
1 AAAATATTTAATAAAAATTA
14312028 AAAA
1 AAAA
14312032 ATATATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 2
0.75 0.17 0.08
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATATTTAATAAAAATTA
Found at i:14317608 original size:52 final size:51
Alignment explanation
Indices: 14317519--14317675 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 51
14317509 TAGACAAAAA
* * * * *
14317519 GACTTGCAAAAGAAAAATTCTAAGAGAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAA-AGGATTCTTAATAGGCAAGTTT
14317571 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAAGGATTCTTAATAGGCAAGTTT
* * * * *
14317623 AACTTAC-AGAAAAAGAATTCTAAGAAGAAAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAA-AAGAAAAGGATTCTTAATAGGCAAGTTT
14317675 G
1 G
14317676 TATGATTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.02
52 83 0.91
53 6 0.07
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:14318669 original size:52 final size:52
Alignment explanation
Indices: 14318604--14318744 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 52
14318594 ACAAAAAAAA
* * * * * *
14318604 AATTCTAAGAGAAAAAAAATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAG
1 AATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTTAACGTACAAGAGAAG
*
14318656 AATTCTAAAAGAAAAAAGATTCTTAATAAGCAAGTTTAACGTACAAGAGAAG
1 AATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTTAACGTACAAGAGAAG
* * ** *
14318708 AATTCTAAAAGGAGAAGGATTCTTAATGAGCAAGTTT
1 AATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTT
14318745 GTATTGTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (52 bp):
AATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTTAACGTACAAGAGAAG
Found at i:14322714 original size:19 final size:21
Alignment explanation
Indices: 14322673--14322713 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14322663 TTATAAAAAA
*
14322673 TAATATTTTTATCTATTTTTT
1 TAATATTTATATCTATTTTTT
14322694 TAATATTTATATC-ATTTTTT
1 TAATATTTATATCTATTTTTT
14322714 ATGTTCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TAATATTTATATCTATTTTTT
Found at i:14330554 original size:22 final size:22
Alignment explanation
Indices: 14330529--14330578 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14330519 TTATTAGGTC
*
14330529 AATTTTATGTTGA-ATTTTTACA
1 AATTTTATGTTCAGATTTTTA-A
14330551 AATTTT-TGTTCAGATTTTTAA
1 AATTTTATGTTCAGATTTTTAA
*
14330572 TATTTTA
1 AATTTTA
14330579 AATGTGACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (22 bp):
AATTTTATGTTCAGATTTTTAA
Found at i:14331214 original size:30 final size:27
Alignment explanation
Indices: 14331178--14331252 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 27
14331168 ATATATATTT
14331178 TTAAAATAAAAATATATTAGTTCTAATTAA
1 TTAAAATAAAAATATATTA-TT-TAA-TAA
*
14331208 TTAAAATAATAATTTATATTATTTAATAA
1 TTAAAATAA-AA-ATATATTATTTAATAA
14331237 --AAATATAAAAATATAT
1 TTAAA-ATAAAAATATAT
14331253 ATGTAAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
26 5 0.12
27 5 0.12
28 4 0.10
29 3 0.08
30 12 0.30
31 4 0.10
32 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
TTAAAATAAAAATATATTATTTAATAA
Found at i:14332356 original size:24 final size:24
Alignment explanation
Indices: 14332325--14332371 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
14332315 CATCATTTGC
14332325 TTTTTAGAA-CA-AGCAAAAATATA
1 TTTTTAGAATCATAG-AAAAATATA
14332348 TTTTCTAGAATCATAGAAAAATAT
1 TTTT-TAGAATCATAGAAAAATAT
14332372 TTGTCATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 10 0.48
26 2 0.10
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (24 bp):
TTTTTAGAATCATAGAAAAATATA
Found at i:14332583 original size:21 final size:20
Alignment explanation
Indices: 14332521--14332584 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
14332511 AATATAAAAT
14332521 ATTTTTTA-TAA-AATTTAA
1 ATTTTTTATTAATAATTTAA
** *
14332539 A-TTTTTATTTTTATTTTAA
1 ATTTTTTATTAATAATTTAA
14332558 TATTTTTTATTAATAATTTATA
1 -ATTTTTTATTAATAATTTA-A
14332580 ATTTT
1 ATTTT
14332585 AATATAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
17 6 0.17
18 2 0.06
19 6 0.17
20 1 0.03
21 19 0.54
22 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTATTAATAATTTAA
Found at i:14332596 original size:41 final size:38
Alignment explanation
Indices: 14332518--14332596 Score: 95
Period size: 41 Copynumber: 2.0 Consensus size: 38
14332508 ATAAATATAA
* * **
14332518 AATATTTTTTATAAAATTTAAATTTTTATTTTTATTTT
1 AATATTTTTTATAAAATTTAAATTTTAATATAAATTTT
14332556 AATATTTTTTATTAATAATTTATAATTTTAATATAAATTTT
1 AATATTTTTTA-TAA-AATTTA-AATTTTAATATAAATTTT
14332597 TATTGAGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 11 0.32
39 3 0.09
40 6 0.18
41 14 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (38 bp):
AATATTTTTTATAAAATTTAAATTTTAATATAAATTTT
Found at i:14339991 original size:21 final size:22
Alignment explanation
Indices: 14339967--14340007 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14339957 ATAAAATATA
*
14339967 TATTTTTAA-TTTTATTAAATT
1 TATTTATAATTTTTATTAAATT
14339988 TATTTATAATTTTTATTAAA
1 TATTTATAATTTTTATTAAA
14340008 ATTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTATAATTTTTATTAAATT
Found at i:14340480 original size:5 final size:5
Alignment explanation
Indices: 14340470--14340496 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14340460 TTTAATTTCA
14340470 AATCT AATCT AATCT AATCT AATCT AA
1 AATCT AATCT AATCT AATCT AATCT AA
14340497 CATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (5 bp):
AATCT
Found at i:14340856 original size:14 final size:14
Alignment explanation
Indices: 14340837--14340867 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14340827 GATCTTTTTT
14340837 ATTTTGATTTAAAA
1 ATTTTGATTTAAAA
14340851 ATTTTGATTTAAAA
1 ATTTTGATTTAAAA
14340865 ATT
1 ATT
14340868 ATATTTTTAA
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:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTTTGATTTAAAA
Found at i:14340873 original size:13 final size:14
Alignment explanation
Indices: 14340841--14340873 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14340831 TTTTTTATTT
*
14340841 TGATTTAAAAATTT
1 TGATTTAAAAATTA
14340855 TGATTTAAAAATTA
1 TGATTTAAAAATTA
14340869 T-ATTT
1 TGATTT
14340874 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TGATTTAAAAATTA
Found at i:14340941 original size:29 final size:29
Alignment explanation
Indices: 14340876--14340943 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
14340866 TTATATTTTT
*
14340876 AAAAAATTTATGTAAGACATTAAAAATAC
1 AAAAATTTTATGTAAGACATTAAAAATAC
* ** * *
14340905 AAGCAATTTTATGTAAGATTTTGAAAATGC
1 AA-AAATTTTATGTAAGACATTAAAAATAC
14340935 AAAAATTTT
1 AAAAATTTT
14340944 CATCTTAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (29 bp):
AAAAATTTTATGTAAGACATTAAAAATAC
Found at i:14341949 original size:23 final size:23
Alignment explanation
Indices: 14341923--14341972 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
14341913 TAATAATAAT
14341923 AATTATTATAATTATGATTAAAA
1 AATTATTATAATTATGATTAAAA
*
14341946 AATTATTATAATTGTGATTAAAA
1 AATTATTATAATTATGATTAAAA
14341969 AATT
1 AATT
14341973 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
AATTATTATAATTATGATTAAAA
Found at i:14341995 original size:14 final size:13
Alignment explanation
Indices: 14341962--14342010 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
14341952 TATAATTGTG
14341962 ATTAAAAAATTTT
1 ATTAAAAAATTTT
*
14341975 AAATAAAAAATTTAT
1 -ATTAAAAAATTT-T
14341990 ATTAAATAAATTTT
1 ATTAAA-AAATTTT
14342004 ATTAAAA
1 ATTAAAA
14342011 TTAATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 1 0.03
14 23 0.74
15 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAAAAAATTTT
Found at i:14345687 original size:15 final size:15
Alignment explanation
Indices: 14345667--14345705 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14345657 ATATTTATAG
* *
14345667 ATAAATGAATAACAA
1 ATAAATAAAGAACAA
*
14345682 ATAAATAAAGAACCA
1 ATAAATAAAGAACAA
14345697 ATAAATAAA
1 ATAAATAAA
14345706 ATAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (15 bp):
ATAAATAAAGAACAA
Found at i:14348319 original size:12 final size:12
Alignment explanation
Indices: 14348297--14348325 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14348287 TAATTAAAAT
14348297 TAAAA-AATTAA
1 TAAAATAATTAA
14348308 TAAAATAATTAA
1 TAAAATAATTAA
14348320 TAAAAT
1 TAAAAT
14348326 TTTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:14350069 original size:17 final size:17
Alignment explanation
Indices: 14350039--14350084 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
14350029 ATAAAGATTT
* *
14350039 ATATAAAAGTACATTAC
1 ATATAAATGCACATTAC
* *
14350056 TTATAAATGCACATTTC
1 ATATAAATGCACATTAC
14350073 ATATAAATGCAC
1 ATATAAATGCAC
14350085 TTGTGATTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (17 bp):
ATATAAATGCACATTAC
Found at i:14351230 original size:21 final size:21
Alignment explanation
Indices: 14351206--14351252 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14351196 ATTATGTTTG
14351206 AAGATAGATTTATATTCTTTA
1 AAGATAGATTTATATTCTTTA
* *
14351227 AAGATTGATTTGTATTCTTTA
1 AAGATAGATTTATATTCTTTA
14351248 AAGAT
1 AAGAT
14351253 GAAAGAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (21 bp):
AAGATAGATTTATATTCTTTA
Found at i:14353755 original size:35 final size:34
Alignment explanation
Indices: 14353716--14353879 Score: 132
Period size: 35 Copynumber: 4.6 Consensus size: 34
14353706 AAAAAGATAT
* * *
14353716 TGGGATTGAACCACGAGTCAATGAATAATGATGAC
1 TGGGACTGAACCACGAGTCAA-GAATAAAGACGAC
* * * * *
14353751 TGGGATTGAACTACGAGCCAAAGAATCACAAGACAAT
1 TGGGACTGAACCACGAGTC-AAGAAT-A-AAGACGAC
* *
14353788 TGGGACTGAACCATGAGTCAAGAGGATAAAGATGAC
1 TGGGACTGAACCACGAGTCAAGA--ATAAAGACGAC
* *
14353824 CGGGACTGAACCACGAGTCAAGAAATAATGACGA-
1 TGGGACTGAACCACGAGTCAAG-AATAAAGACGAC
*
14353858 TCGGGACTGAACTACGAGTCAA
1 T-GGGACTGAACCACGAGTCAA
14353880 AAAAATAATA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
35 48 0.47
36 32 0.31
37 21 0.20
38 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (34 bp):
TGGGACTGAACCACGAGTCAAGAATAAAGACGAC
Found at i:14353886 original size:36 final size:35
Alignment explanation
Indices: 14353789--14353923 Score: 119
Period size: 36 Copynumber: 3.8 Consensus size: 35
14353779 CAAGACAATT
* ** * *
14353789 GGGACTGAACCATGAGTCAAGAGGATAA-AGATGACC
1 GGGACTGAACCACGAGTCAA-AAAATAATA-ACGATC
* *
14353825 GGGACTGAACCACGAGTCAAGAAATAATGACGATC
1 GGGACTGAACCACGAGTCAAAAAATAATAACGATC
*
14353860 GGGACTGAACTACGAGTCAAAAAAATAATAACGATC
1 GGGACTGAACCACGAGTC-AAAAAATAATAACGATC
** * *
14353896 GGGGTTAAACCACGAGTCGAAAGAATAA
1 GGGACTGAACCACGAGTC-AAAAAATAA
14353924 ATGTGACTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
35 25 0.31
36 56 0.69
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.15
Consensus pattern (35 bp):
GGGACTGAACCACGAGTCAAAAAATAATAACGATC
Found at i:14359218 original size:17 final size:18
Alignment explanation
Indices: 14359187--14359220 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14359177 ATGGGTTAGT
*
14359187 TAAAGTCTTTGTTACCAA
1 TAAAGTCTTTCTTACCAA
14359205 TAAA-TCTTTCTTACCA
1 TAAAGTCTTTCTTACCA
14359221 TCTACACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (18 bp):
TAAAGTCTTTCTTACCAA
Found at i:14366413 original size:14 final size:15
Alignment explanation
Indices: 14366375--14366406 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14366365 GGTCTTTACC
*
14366375 TTTGGATTTTTAGGT
1 TTTGGATTTTAAGGT
14366390 TTTGGATTTTAAGGT
1 TTTGGATTTTAAGGT
14366405 TT
1 TT
14366407 GGGTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:14366470 original size:28 final size:29
Alignment explanation
Indices: 14366421--14366487 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
14366411 TTTTTTTAAT
* * *
14366421 TTTAGGGTTTCATGTTTGGGTTTTGA-AG
1 TTTAGGGTTTCATGTTTAGGTTTGGAGAA
*
14366449 TTTAGGGTTTTA-GTTTTAGGTTTGGAGAA
1 TTTAGGGTTTCATG-TTTAGGTTTGGAGAA
14366478 TTTAGGGTTT
1 TTTAGGGTTT
14366488 GGAGGTTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.64
29 11 0.33
ACGTcount: A:0.16, C:0.01, G:0.31, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTCATGTTTAGGTTTGGAGAA
Found at i:14366506 original size:22 final size:23
Alignment explanation
Indices: 14366466--14366509 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
14366456 TTTTAGTTTT
14366466 AGGTTTGGAGAATTTAGGGTTTGG
1 AGGTTTGGAG-ATTTAGGGTTTGG
14366490 AGGTTTGGAG-TTTAGGGTTT
1 AGGTTTGGAGATTTAGGGTTT
14366510 CAATTTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (23 bp):
AGGTTTGGAGATTTAGGGTTTGG
Found at i:14366870 original size:3 final size:3
Alignment explanation
Indices: 14366864--14366909 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
14366854 TATTCAATTT
**
14366864 TTA TTA TTTA TTA TTA TTTA TTA AAA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14366910 TAGCATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14367319 original size:27 final size:27
Alignment explanation
Indices: 14367289--14367342 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14367279 CTGGATCCTC
*
14367289 TTATGCTCAAAATGACGTCGTTTTGCT
1 TTATGCTCAAAACGACGTCGTTTTGCT
*
14367316 TTATGCTTAAAACGACGTCGTTTTGCT
1 TTATGCTCAAAACGACGTCGTTTTGCT
14367343 CCTATGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TTATGCTCAAAACGACGTCGTTTTGCT
Found at i:14372957 original size:21 final size:20
Alignment explanation
Indices: 14372933--14372988 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
14372923 AAATAAATTT
14372933 ATTTAAAATATAAATAAAAAA
1 ATTTAAAATATAAAT-AAAAA
*
14372954 ATTTAAAAATTATTAATAAAAA
1 ATTT-AAAA-TATAAATAAAAA
14372976 A-TTAAAA-ATAAAT
1 ATTTAAAATATAAAT
14372989 CTATTTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 5 0.16
20 4 0.13
21 6 0.19
22 10 0.32
23 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTAAAATATAAATAAAAA
Found at i:14372974 original size:22 final size:23
Alignment explanation
Indices: 14372933--14372984 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
14372923 AAATAAATTT
14372933 ATTT-AAAA-TATAAATAAAAAA
1 ATTTAAAAATTATAAATAAAAAA
*
14372954 ATTTAAAAATTATTAAT-AAAAA
1 ATTTAAAAATTATAAATAAAAAA
14372976 A-TTAAAAAT
1 ATTTAAAAAT
14372985 AAATCTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.43
22 10 0.36
23 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTAAAAATTATAAATAAAAAA
Found at i:14379697 original size:18 final size:17
Alignment explanation
Indices: 14379656--14379700 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
14379646 TTGTTTAATT
*
14379656 TTTATTATTATATTTAA
1 TTTATTATTATATCTAA
*
14379673 TAATATTATTATTATCTAA
1 T-TTATTATTA-TATCTAA
14379692 TTTATTATT
1 TTTATTATT
14379701 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATTATATCTAA
Found at i:14380618 original size:12 final size:12
Alignment explanation
Indices: 14380585--14380618 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14380575 ATTCTTTTTT
*
14380585 TTTTTTATTAAC
1 TTTTTTATTTAC
*
14380597 ATTTTTATTTAC
1 TTTTTTATTTAC
14380609 TTTTTTATTT
1 TTTTTTATTT
14380619 GACTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTATTTAC
Found at i:14380715 original size:14 final size:16
Alignment explanation
Indices: 14380678--14380709 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14380668 TAAAAATATA
14380678 TATT-ATTTTCTTTTT
1 TATTAATTTTCTTTTT
14380693 TATTAATTTTCTTTTT
1 TATTAATTTTCTTTTT
14380709 T
1 T
14380710 TAATTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTAATTTTCTTTTT
Done.