Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 79 of 106
Found at i:15640691 original size:61 final size:61
Alignment explanation
Indices: 15640617--15640758 Score: 196
Period size: 61 Copynumber: 2.3 Consensus size: 61
15640607 TCCTCAATTG
* *
15640617 AATA-ACTTTCAAAGTATTGTTTCTACATACAAAATAGCTTGACAGGTTGATAAAAAAATC
1 AATATACTTTCAAAGTCTTGTTTCTACATACAAAATAGCTTGACAGGCTGATAAAAAAATC
* * * *
15640677 AATATACTTTCAAAGTCTTGTTTCTATATACAAAATAGTTTGCCAGGCTGGTAAAAAAATC
1 AATATACTTTCAAAGTCTTGTTTCTACATACAAAATAGCTTGACAGGCTGATAAAAAAATC
** *
15640738 GCTATACTTCCAAAGTCTTGT
1 AATATACTTTCAAAGTCTTGT
15640759 CCAACACCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 4 0.06
61 68 0.94
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (61 bp):
AATATACTTTCAAAGTCTTGTTTCTACATACAAAATAGCTTGACAGGCTGATAAAAAAATC
Found at i:15641603 original size:2 final size:2
Alignment explanation
Indices: 15641596--15641628 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15641586 CCCATAACTC
15641596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15641629 ACATATACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15646630 original size:13 final size:11
Alignment explanation
Indices: 15646602--15646636 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
15646592 TTTTTTGCAT
15646602 TTATTTTAAAA
1 TTATTTTAAAA
15646613 TTATTTTACAACA
1 TTATTTTA-AA-A
15646626 TTATTTTAAAA
1 TTATTTTAAAA
15646637 ATCTCTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.41
12 4 0.18
13 9 0.41
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:15651744 original size:22 final size:22
Alignment explanation
Indices: 15651719--15651765 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15651709 TTTTTTATTG
15651719 TTTTA-TAAGAAAAAACTCATGC
1 TTTTATTAA-AAAAAACTCATGC
* *
15651741 TTTTATTAAAAAAAATTGATGC
1 TTTTATTAAAAAAAACTCATGC
15651763 TTT
1 TTT
15651766 CAACTTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTTATTAAAAAAAACTCATGC
Found at i:15651831 original size:60 final size:60
Alignment explanation
Indices: 15651751--15652286 Score: 348
Period size: 60 Copynumber: 8.7 Consensus size: 60
15651741 TTTTATTAAA
* * *
15651751 AAAAATTGATGCTTTCAACTTATCCTTAAAAAT-ATTTTTCTTGAGAATTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCTTAAAAATCATTTTTCTTGA-AATTTTATTTTCAAG
* * ** * *
15651811 AAAAATTGGTAC-TTCTAACTTTTTTCTCAAAAATGGTGTTTTTTTTAAATTTTATTTTCAAG
1 AAAAATTGATACTTTC-AAC-TTTTTCTTAAAAATCAT-TTTTCTTGAAATTTTATTTTCAAG
* * *
15651873 AAAAATTTGATACTTTCAAC-TTTTCTTCAAAAATCTTTTTTTTTGAAATCTTTATTTTCAAA
1 AAAAA-TTGATACTTTCAACTTTTTCTT-AAAAATCATTTTTCTTGAAAT-TTTATTTTCAAG
* * *
15651935 AAAAATTAATACTTTCAATTTTTTCTCAAAAAT-ATTTTTCTTGAAATTTTCATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCTTAAAAATCATTTTTCTTGAAATTTT-ATTTTCAAG
* *** **
15651995 AAAAATTGATACTTTCAACTTTTCCTTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTATTT
1 AAAAATTGATACTTTCAACTTTTTCTT-A-AAAATC-A-TTTTTCT--TGAA-A---TTTTATTT
*
15652060 TTATTTTTGAG
56 TCA------AG
* * *
15652071 AAAAAATTGATATTTTAAACTTTTTCTCAAAAAT-ATTTTT-TTGGAAATTTTTACTTTT-AAG
1 AAA-AATTGATACTTTCAACTTTTTCTTAAAAATCATTTTTCTT-GAAA-TTTTA-TTTTCAAG
* * **
15652132 GAAAATTGATACTTTCAACTTTTCCTTAAAAAAT-ATATTTT-TT-ATTTTTTATTTTCAAAG
1 AAAAATTGATACTTTCAACTTTTTCTT-AAAAATCAT-TTTTCTTGAAATTTTATTTTC-AAG
* * * * *
15652192 AAAAA-TGATATTTTCAATTTTTTCTCAAAAAT-ATTTTT-TT--ATTTTTATTGTCAAG
1 AAAAATTGATACTTTCAACTTTTTCTTAAAAATCATTTTTCTTGAAATTTTATTTTCAAG
* *
15652247 AAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTT
1 -AAAAATTGATACTTTCAACTTTTTCTTAAAAATCATTTTT
15652287 TTTTGAAGTT
Statistics
Matches: 384, Mismatches: 56, Indels: 75
0.75 0.11 0.15
Matches are distributed among these distances:
55 3 0.01
56 15 0.04
57 36 0.09
58 12 0.03
59 28 0.07
60 84 0.22
61 59 0.15
62 58 0.15
63 16 0.04
64 4 0.01
65 7 0.02
67 9 0.02
68 5 0.01
69 1 0.00
70 8 0.02
71 5 0.01
72 5 0.01
73 1 0.00
75 2 0.01
76 6 0.02
77 20 0.05
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (60 bp):
AAAAATTGATACTTTCAACTTTTTCTTAAAAATCATTTTTCTTGAAATTTTATTTTCAAG
Found at i:15652025 original size:20 final size:20
Alignment explanation
Indices: 15652000--15652037 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15651990 TCAAGAAAAA
15652000 TTGATACTTTCAACTTTTCC
1 TTGATACTTTCAACTTTTCC
15652020 TTGATACTTTCAACTTTT
1 TTGATACTTTCAACTTTT
15652038 TCTCAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (20 bp):
TTGATACTTTCAACTTTTCC
Found at i:15652112 original size:57 final size:57
Alignment explanation
Indices: 15652020--15652288 Score: 319
Period size: 57 Copynumber: 4.6 Consensus size: 57
15652010 CAACTTTTCC
* *
15652020 TTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTATTTTTATTTTTGAGAAAAAA
1 TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTATTTTTATTTTTAAGAAAAAA
* * * *
15652077 TTGATATTTTAAACTTTTTCTCAAAAATATTTTTTTGGAAATTTTTACTTTTAAG-GAAAA
1 TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT----ATTTTTATTTTTAAGAAAAAA
* * *
15652137 TTGATACTTTCAACTTTTCCTTAAAAAATATATTTTTTATTTTTTATTTTCAA-AGAAAAA
1 TTGATACTTTCAACTTTTTC-TCAAAAATAT-TTTTTTA-TTTTTATTTTTAAGA-AAAAA
* * * *
15652197 -TGATATTTTCAATTTTTTCTCAAAAATATTTTTTTATTTTTATTGTCAAGAAAAAA
1 TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTATTTTTATTTTTAAGAAAAAA
*
15652253 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
15652289 TTGAAGTTTT
Statistics
Matches: 180, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
56 17 0.09
57 73 0.41
58 10 0.06
59 27 0.15
60 25 0.14
61 22 0.12
62 6 0.03
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (57 bp):
TTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTATTTTTATTTTTAAGAAAAAA
Found at i:15652311 original size:51 final size:50
Alignment explanation
Indices: 15652249--15652350 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 50
15652239 TTGTCAAGAA
* *
15652249 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAGTTTTT
1 AAAATTGATACTTTCAACATTTCCTCAAAAATATATTTTTTT-AAGTTTTT
* *
15652300 AAAATTTATACTTTCAACATTTCTTCAAAAATATATTTTTTTAAGTTTTT
1 AAAATTGATACTTTCAACATTTCCTCAAAAATATATTTTTTTAAGTTTTT
15652350 A
1 A
15652351 TTTCCAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 9 0.19
51 38 0.81
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (50 bp):
AAAATTGATACTTTCAACATTTCCTCAAAAATATATTTTTTTAAGTTTTT
Found at i:15653300 original size:7 final size:7
Alignment explanation
Indices: 15653285--15653314 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15653275 TTGCTTCTAT
*
15653285 TTATCTA
1 TTATTTA
15653292 TTATTTA
1 TTATTTA
15653299 TTATTTA
1 TTATTTA
15653306 TTATTTA
1 TTATTTA
15653313 TT
1 TT
15653315 TTGAAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTTA
Found at i:15658001 original size:2 final size:2
Alignment explanation
Indices: 15657994--15658018 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15657984 TTAATCTCAA
15657994 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15658019 AAAGTTAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15666497 original size:12 final size:12
Alignment explanation
Indices: 15666480--15666510 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15666470 TCATGGCACC
15666480 AAGGAGGCTAGA
1 AAGGAGGCTAGA
15666492 AAGGAGGCTAGA
1 AAGGAGGCTAGA
*
15666504 AAAGAGG
1 AAGGAGG
15666511 TCTTGTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.42, T:0.06
Consensus pattern (12 bp):
AAGGAGGCTAGA
Found at i:15678976 original size:37 final size:37
Alignment explanation
Indices: 15678935--15679111 Score: 167
Period size: 37 Copynumber: 4.6 Consensus size: 37
15678925 TTAGGTCCGT
*
15678935 CTATTATGTTCAATGTAAGATTCAAGATTTTTCCTTC
1 CTATTATGTTCAATGTGAGATTCAAGATTTTTCCTTC
* *
15678972 CTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTC
1 CTATTATGTTCAATGTGAGATTCAAGATTTTTCCTTC
* * * *
15679009 CTATTATGTTCTATGTGAGATTTAGGACTCTTTT-TTAGGTC
1 CTATTATGTTCAATGTGAGATTCAAGA-T-TTTTCCT---TC
* * *
15679050 TGTCTATTATGTTCGATGTGAGATTCATGATTTTTCTTTC
1 ---CTATTATGTTCAATGTGAGATTCAAGATTTTTCCTTC
* *
15679090 TTATTATGTTCTATGTGAGATT
1 CTATTATGTTCAATGTGAGATT
15679112 TAGGACTCTT
Statistics
Matches: 120, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
37 78 0.65
38 3 0.03
39 4 0.03
40 2 0.02
41 2 0.02
42 4 0.03
43 3 0.03
44 24 0.20
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.50
Consensus pattern (37 bp):
CTATTATGTTCAATGTGAGATTCAAGATTTTTCCTTC
Found at i:15679057 original size:81 final size:81
Alignment explanation
Indices: 15678972--15679170 Score: 344
Period size: 81 Copynumber: 2.4 Consensus size: 81
15678962 TTTTTCCTTC
15678972 CTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTCCTATTATGTTCTATGTGAGATTTAGGAC
1 CTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTCCTATTATGTTCTATGTGAGATTTAGGAC
* *
15679037 TCTTTTTTAGGTCTGT
66 TCTTCTTTAGGTCCGT
* *
15679053 CTATTATGTTCGATGTGAGATTCATGATTTTTCTTTCTTATTATGTTCTATGTGAGATTTAGGAC
1 CTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTCCTATTATGTTCTATGTGAGATTTAGGAC
15679118 TCTTCTTTAGGTCCGT
66 TCTTCTTTAGGTCCGT
*
15679134 CTATTATGTTCGATGTGAGATTCGAGATTTTTTCTTT
1 CTATTATGTTCGATGTGAGATTCAAGA-TTTTTCTTT
15679171 TATACCTTAG
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 102 0.92
82 9 0.08
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.50
Consensus pattern (81 bp):
CTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTCCTATTATGTTCTATGTGAGATTTAGGAC
TCTTCTTTAGGTCCGT
Found at i:15679099 original size:118 final size:118
Alignment explanation
Indices: 15678891--15679111 Score: 352
Period size: 118 Copynumber: 1.9 Consensus size: 118
15678881 AAGTGACCCT
15678891 CTATTATGTTCGATGTGAGATTTAAGACTCTTCTTTAGGTCCGTCTATTATGTTCAATGTAAGAT
1 CTATTATGTTCGATGTGAGATTTAAGACTCTTCTTTAGGTCCGTCTATTATGTTCAATGTAAGAT
15678956 TCAAGATTTTTCCTTCCTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTC
66 TCAAGATTTTTCCTTCCTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTC
* * * * * *
15679009 CTATTATGTTCTATGTGAGATTTAGGACTCTTTTTTAGGTCTGTCTATTATGTTCGATGTGAGAT
1 CTATTATGTTCGATGTGAGATTTAAGACTCTTCTTTAGGTCCGTCTATTATGTTCAATGTAAGAT
* * * *
15679074 TCATGATTTTTCTTTCTTATTATGTTCTATGTGAGATT
66 TCAAGATTTTTCCTTCCTATTATGTTCGATGTGAGATT
15679112 TAGGACTCTT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 93 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.48
Consensus pattern (118 bp):
CTATTATGTTCGATGTGAGATTTAAGACTCTTCTTTAGGTCCGTCTATTATGTTCAATGTAAGAT
TCAAGATTTTTCCTTCCTATTATGTTCGATGTGAGATTCAAGATTTTTCTTTC
Found at i:15679124 original size:37 final size:37
Alignment explanation
Indices: 15679054--15679125 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
15679044 TAGGTCTGTC
* * *
15679054 TATTATGTTCGATGTGAGATTCATGATTTTTCTTTCT
1 TATTATGTTCGATGTGAGATTCAGGACTCTTCTTTCT
* *
15679091 TATTATGTTCTATGTGAGATTTAGGACTCTTCTTT
1 TATTATGTTCGATGTGAGATTCAGGACTCTTCTTT
15679126 AGGTCCGTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.53
Consensus pattern (37 bp):
TATTATGTTCGATGTGAGATTCAGGACTCTTCTTTCT
Found at i:15683563 original size:15 final size:17
Alignment explanation
Indices: 15683540--15683575 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
15683530 AAAACACCCC
15683540 AAAAGAAAAAAGAAA-T
1 AAAAGAAAAAAGAAACT
15683556 AAAA-AAAAAAGAAACT
1 AAAAGAAAAAAGAAACT
15683572 AAAA
1 AAAA
15683576 CCATTATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAGAAACT
Found at i:15686533 original size:12 final size:13
Alignment explanation
Indices: 15686501--15686533 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
15686491 TCGTTTTCTA
15686501 AAAAGAG-AGAGG
1 AAAAGAGAAGAGG
15686513 AAAAGAGAAGAGG
1 AAAAGAGAAGAGG
15686526 -AAAGAGAA
1 AAAAGAGAA
15686534 CGAGTAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAGAGG
Found at i:15686825 original size:17 final size:17
Alignment explanation
Indices: 15686805--15686837 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15686795 TTTTTTATAT
*
15686805 TTTATTTATTTTTTTTC
1 TTTATGTATTTTTTTTC
15686822 TTTATGTATTTTTTTT
1 TTTATGTATTTTTTTT
15686838 AAAATATTTT
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:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTATGTATTTTTTTTC
Found at i:15688068 original size:30 final size:31
Alignment explanation
Indices: 15688034--15688100 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
15688024 ATTAATTAAT
* * * *
15688034 TATTTATT-TATATATATATTTATATAATGA
1 TATTTATTAAATATATATATTTAAAAAATAA
*
15688064 TATTT-TTAAATATTTATATTTAAAAAATAA
1 TATTTATTAAATATATATATTTAAAAAATAA
15688094 TATTTAT
1 TATTTAT
15688101 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.07
30 27 0.90
31 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTTATTAAATATATATATTTAAAAAATAA
Found at i:15688108 original size:21 final size:21
Alignment explanation
Indices: 15688072--15688123 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
15688062 GATATTTTTA
15688072 AATATTTATA-TTTAAAAAAT
1 AATATTTATATTTTAAAAAAT
15688092 AATATTTATATTTTAAAAAAT
1 AATATTTATATTTTAAAAAAT
15688113 AATATTT-TATT
1 AATATTTATATT
15688124 AATTTCGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:15690338 original size:14 final size:14
Alignment explanation
Indices: 15690319--15690349 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15690309 ATTGCTCGAA
15690319 TTTATAGTTGAGGT
1 TTTATAGTTGAGGT
*
15690333 TTTATAGTTGGGGT
1 TTTATAGTTGAGGT
15690347 TTT
1 TTT
15690350 CTACTATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
TTTATAGTTGAGGT
Found at i:15695760 original size:22 final size:23
Alignment explanation
Indices: 15695735--15695792 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
15695725 ATTAGGAAAC
15695735 AAATA-CAACTAAAACACCAAAG
1 AAATACCAACTAAAACACCAAAG
*
15695757 AAATACCAACAAAAACACCAAAG
1 AAATACCAACTAAAACACCAAAG
*
15695780 AAATATCAA-TAAA
1 AAATACCAACTAAA
15695793 TTTACTAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.66, C:0.21, G:0.03, T:0.10
Consensus pattern (23 bp):
AAATACCAACTAAAACACCAAAG
Found at i:15696247 original size:15 final size:16
Alignment explanation
Indices: 15696227--15696258 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15696217 ACAAACAAAA
15696227 AGGATAAAAA-ATAAT
1 AGGATAAAAATATAAT
15696242 AGGATAAAAATATAAT
1 AGGATAAAAATATAAT
15696258 A
1 A
15696259 AGCTTCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (16 bp):
AGGATAAAAATATAAT
Found at i:15697329 original size:2 final size:2
Alignment explanation
Indices: 15697322--15697346 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15697312 CTATCAATGA
15697322 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15697347 CATGCCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15720548 original size:31 final size:31
Alignment explanation
Indices: 15720512--15720570 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
15720502 CTAAAACCTA
*
15720512 AAATTTTTTATTCTTTTATCAAATATATCCC
1 AAATTTTTTATTCTTTTATAAAATATATCCC
15720543 AAATTTTTTATTCTTTTATAAAATATAT
1 AAATTTTTTATTCTTTTATAAAATATAT
15720571 AGTTATGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (31 bp):
AAATTTTTTATTCTTTTATAAAATATATCCC
Found at i:15720729 original size:3 final size:3
Alignment explanation
Indices: 15720721--15720752 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15720711 TCTATGAGTT
15720721 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
15720753 GAATGAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15724796 original size:2 final size:2
Alignment explanation
Indices: 15724783--15724823 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
15724773 ACCAAGTCAT
* * *
15724783 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15724824 GTGTGTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15724796 original size:8 final size:8
Alignment explanation
Indices: 15724783--15724835 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
15724773 ACCAAGTCAT
15724783 TATATATG
1 TATATATG
*
15724791 TATATATA
1 TATATATG
*
15724799 TATATATA
1 TATATATG
15724807 TATATGTATG
1 TATA--TATG
15724817 TATATATG
1 TATATATG
* *
15724825 TGTGTATG
1 TATATATG
15724833 TAT
1 TAT
15724836 GTATTCTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
8 31 0.82
10 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:15724800 original size:12 final size:12
Alignment explanation
Indices: 15724783--15724839 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
15724773 ACCAAGTCAT
15724783 TATATATGTATA
1 TATATATGTATA
15724795 TATATA--TATA
1 TATATATGTATA
*
15724805 TATATATGTATG
1 TATATATGTATA
* *
15724817 TATATATGTGTG
1 TATATATGTATA
*
15724829 TATGTATGTAT
1 TATATATGTAT
15724840 TCTGATCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 10 0.26
12 29 0.74
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (12 bp):
TATATATGTATA
Found at i:15729046 original size:25 final size:25
Alignment explanation
Indices: 15729012--15729062 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15729002 AAAGCTGTAA
*
15729012 AAATCCGATTTTCCTACATTAGTGC
1 AAATCCGATTCTCCTACATTAGTGC
*
15729037 AAATCCGATTCTCTTACATTAGTGC
1 AAATCCGATTCTCCTACATTAGTGC
15729062 A
1 A
15729063 GCTTGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (25 bp):
AAATCCGATTCTCCTACATTAGTGC
Found at i:15750552 original size:2 final size:2
Alignment explanation
Indices: 15750545--15750577 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15750535 AGGATTTAGC
15750545 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15750578 TGTCTTCCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15758229 original size:30 final size:30
Alignment explanation
Indices: 15758194--15758252 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
15758184 CCATTATTGC
15758194 ATTTATGTTATATAAAATATAAATAATTTT
1 ATTTATGTTATATAAAATATAAATAATTTT
15758224 ATTTATGTTATATAAAATATAAATAATTT
1 ATTTATGTTATATAAAATATAAATAATTT
15758253 ATGTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTATGTTATATAAAATATAAATAATTTT
Found at i:15760831 original size:14 final size:13
Alignment explanation
Indices: 15760806--15760830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15760796 AACCATCCAA
15760806 AAATTAAAAAAAT
1 AAATTAAAAAAAT
15760819 AAATTAAAAAAA
1 AAATTAAAAAAA
15760831 AAAAAAACTG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAAAAAAAT
Found at i:15763869 original size:3 final size:3
Alignment explanation
Indices: 15763861--15763893 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15763851 GAACGTTAAC
15763861 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15763894 CAATTGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15764504 original size:28 final size:29
Alignment explanation
Indices: 15764464--15764532 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
15764454 TATTAACGAT
**
15764464 TATTTAACTTTTACTTAATAAAAATAA-A
1 TATTTAAAATTTACTTAATAAAAATAACA
* * *
15764492 TATTTAAAATTTATTTAATTACAATAACA
1 TATTTAAAATTTACTTAATAAAAATAACA
*
15764521 TA-ATAAAATTTA
1 TATTTAAAATTTA
15764533 AAATAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (29 bp):
TATTTAAAATTTACTTAATAAAAATAACA
Found at i:15770772 original size:25 final size:26
Alignment explanation
Indices: 15770716--15770772 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 26
15770706 TTTGAAAAAT
* * * *
15770716 AATATAATAATAAATTTTTAATATCC
1 AATAAAATAATAAATTTTTAAAAACA
15770742 AA-AAAATAAT-AATTTTTAAAAACA
1 AATAAAATAATAAATTTTTAAAAACA
15770766 AATAAAA
1 AATAAAA
15770773 AGAAGTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 13 0.50
25 11 0.42
26 2 0.08
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAAAATAATAAATTTTTAAAAACA
Found at i:15776417 original size:22 final size:24
Alignment explanation
Indices: 15776376--15776420 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15776366 TTTAGGTTGA
*
15776376 TTTTTTTATGTAAAAGAAATTATT
1 TTTTTTTATATAAAAGAAATTATT
15776400 TTTTTTTA-ATAAAA-AAATTAT
1 TTTTTTTATATAAAAGAAATTAT
15776421 AAGTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTTTATATAAAAGAAATTATT
Found at i:15798422 original size:30 final size:30
Alignment explanation
Indices: 15798386--15798445 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15798376 ATAGCTGTCA
15798386 CCTTCAAGTCCTTGAAACGAAATATTGAAC
1 CCTTCAAGTCCTTGAAACGAAATATTGAAC
*
15798416 CCTTCAAGTCCTTGAAACTAAATATTGAAC
1 CCTTCAAGTCCTTGAAACGAAATATTGAAC
15798446 TGTACAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (30 bp):
CCTTCAAGTCCTTGAAACGAAATATTGAAC
Found at i:15799347 original size:2 final size:2
Alignment explanation
Indices: 15799340--15799386 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
15799330 TTTATTAAGA
* * *
15799340 AT AT AT AT CT AT AT AT -T AT AT AT AT AG AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15799381 AT AT AT
1 AT AT AT
15799387 GTATCATTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15807860 original size:22 final size:22
Alignment explanation
Indices: 15807832--15807873 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15807822 ATCTGTATAT
*
15807832 ATTTGTATCCCTAAACTTAAGA
1 ATTTGTATCCCTAAAATTAAGA
*
15807854 ATTTGTATCTCTAAAATTAA
1 ATTTGTATCCCTAAAATTAA
15807874 AGATAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
ATTTGTATCCCTAAAATTAAGA
Found at i:15808158 original size:26 final size:26
Alignment explanation
Indices: 15808107--15808170 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
15808097 GAAGCAAAAT
*
15808107 TTTTA-GCCTTCATTGCTGACTTCTA
1 TTTTAGGCCTTCATTGCTGACTCCTA
*
15808132 TTTTAGGCCTTCATTGTTGAAC-CCTA
1 TTTTAGGCCTTCATTGCTG-ACTCCTA
*
15808158 -TTAAGGCCTTCAT
1 TTTTAGGCCTTCAT
15808171 AGCCATTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.50
26 15 0.44
27 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (26 bp):
TTTTAGGCCTTCATTGCTGACTCCTA
Found at i:15812596 original size:6 final size:6
Alignment explanation
Indices: 15812568--15812703 Score: 69
Period size: 6 Copynumber: 22.7 Consensus size: 6
15812558 CGCTGTTGGG
* * * * *
15812568 GCTGCT GCTGCT GCTGCT GCTGTT GCTGTT GTTGTT GTTGTT G-TAGTT
1 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCT-GTT
* * * * * ** * *
15812616 GTTGCT GCTGTT GTTGTT GTTGTA ATTGTT GCTGTT G-TGGCT GTTGTT
1 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCT-GTT GCTGTT
* * * * *
15812664 GTTGTT GCTGTT GTTGCT GCTGCT GCTGTT GTTGTT GCTG
1 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTG
15812704 AGCATGCCTC
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
5 2 0.02
6 102 0.96
7 2 0.02
ACGTcount: A:0.02, C:0.13, G:0.34, T:0.51
Consensus pattern (6 bp):
GCTGTT
Found at i:15812600 original size:3 final size:3
Alignment explanation
Indices: 15812588--15812700 Score: 100
Period size: 3 Copynumber: 37.7 Consensus size: 3
15812578 CTGCTGCTGC
* * * *
15812588 TGT TGC TGT TGT TGT TGT TGT TGT AGT TGT TGC TGC TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
** * * * * * *
15812636 TGT AAT TGT TGC TGT TGT GGC TGT TGT TGT TGT TGC TGT TGT TGC TGC
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
* *
15812684 TGC TGC TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TG
15812701 CTGAGCATGC
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.03, C:0.09, G:0.34, T:0.55
Consensus pattern (3 bp):
TGT
Found at i:15812606 original size:15 final size:15
Alignment explanation
Indices: 15812588--15812703 Score: 124
Period size: 15 Copynumber: 7.5 Consensus size: 15
15812578 CTGCTGCTGC
15812588 TGTTGCTGTTGTTGT
1 TGTTGCTGTTGTTGT
* *
15812603 TGTTGTTGTAGTTGT
1 TGTTGCTGTTGTTGT
*
15812618 TGCTGCTGTTGTTGT
1 TGTTGCTGTTGTTGT
* *
15812633 TGTTGTAATTGTTGCTGT
1 TGTTG---CTGTTGTTGT
*
15812651 TGTGGCTGTTGTTGT
1 TGTTGCTGTTGTTGT
*
15812666 TGTTGCTGTTGTTGC
1 TGTTGCTGTTGTTGT
* *
15812681 TGCTGCTGCTGTTGT
1 TGTTGCTGTTGTTGT
15812696 TGTTGCTG
1 TGTTGCTG
15812704 AGCATGCCTC
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
15 69 0.85
18 12 0.15
ACGTcount: A:0.03, C:0.09, G:0.34, T:0.54
Consensus pattern (15 bp):
TGTTGCTGTTGTTGT
Found at i:15812814 original size:15 final size:15
Alignment explanation
Indices: 15812734--15812814 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
15812724 GCTGTTGCAA
*
15812734 CTGCAGTTGTTGCTG
1 CTGCTGTTGTTGCTG
*
15812749 CTGCTGCTGTTGCTG
1 CTGCTGTTGTTGCTG
* * **
15812764 TTGATGTTGAGGCTG
1 CTGCTGTTGTTGCTG
* * *
15812779 TTGCGGTTGCTGCTG
1 CTGCTGTTGTTGCTG
15812794 -TAGCTGTTGTTGCTG
1 CT-GCTGTTGTTGCTG
15812809 CTGCTG
1 CTGCTG
15812815 CTCCCGCGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
14 1 0.02
15 49 0.96
16 1 0.02
ACGTcount: A:0.05, C:0.19, G:0.36, T:0.41
Consensus pattern (15 bp):
CTGCTGTTGTTGCTG
Found at i:15816578 original size:26 final size:25
Alignment explanation
Indices: 15816549--15816601 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
15816539 TTCCAATTCG
15816549 ATTTTCTATATTTATTAAATTTTTTT
1 ATTTTCTATATTT-TTAAATTTTTTT
**
15816575 ATTTTCTATATTTTTTGATTTTTTT
1 ATTTTCTATATTTTTAAATTTTTTT
15816600 AT
1 AT
15816602 ATTAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (25 bp):
ATTTTCTATATTTTTAAATTTTTTT
Found at i:15817138 original size:16 final size:16
Alignment explanation
Indices: 15817117--15817148 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15817107 AATCACTTTT
*
15817117 TAAATTTAATATTTAA
1 TAAATTTAAAATTTAA
15817133 TAAATTTAAAATTTAA
1 TAAATTTAAAATTTAA
15817149 ATTATAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATTTAAAATTTAA
Found at i:15820676 original size:24 final size:24
Alignment explanation
Indices: 15820640--15820685 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15820630 TCATCTTATT
* *
15820640 TACTGACAATGTATGAAATATATA
1 TACTAACAATGTATCAAATATATA
*
15820664 TACTAACACTGTATCAAATATA
1 TACTAACAATGTATCAAATATA
15820686 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (24 bp):
TACTAACAATGTATCAAATATATA
Found at i:15822166 original size:20 final size:21
Alignment explanation
Indices: 15822141--15822184 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
15822131 AATAAAAACT
*
15822141 TTATAAAT-ATTAT-ATTTAAA
1 TTAT-AATGATTATGATATAAA
15822161 TTATAATGATTATGATATAAA
1 TTATAATGATTATGATATAAA
15822182 TTA
1 TTA
15822185 ATTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.43
21 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TTATAATGATTATGATATAAA
Found at i:15822380 original size:16 final size:16
Alignment explanation
Indices: 15822334--15822382 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
15822324 TTAATGTATC
* *
15822334 ATTAGTTTAATTTAAA
1 ATTAATTTAATATAAA
15822350 TATTAATTTAA-ATAAA
1 -ATTAATTTAATATAAA
*
15822366 ATTTATTTAATATAAA
1 ATTAATTTAATATAAA
15822382 A
1 A
15822383 CTTTTAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.32
16 10 0.36
17 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTAATTTAATATAAA
Found at i:15827476 original size:19 final size:18
Alignment explanation
Indices: 15827449--15827491 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
15827439 CGGTTATTAT
* *
15827449 TTTATAAAATATTTAAATA
1 TTTAAAAAATAATTAAA-A
*
15827468 TTTAAAAAATAATTATAA
1 TTTAAAAAATAATTAAAA
15827486 TTTAAA
1 TTTAAA
15827492 TAGATGGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAAAATAATTAAAA
Found at i:15831768 original size:22 final size:22
Alignment explanation
Indices: 15831734--15831775 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15831724 CAACGGTTCG
15831734 GGGTCGATCTGGCTCAATCTAA
1 GGGTCGATCTGGCTCAATCTAA
* * *
15831756 GGGTCTATTTGGCTTAATCT
1 GGGTCGATCTGGCTCAATCT
15831776 GAGCCAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (22 bp):
GGGTCGATCTGGCTCAATCTAA
Found at i:15832659 original size:18 final size:18
Alignment explanation
Indices: 15832636--15832670 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15832626 ACCTCCTTTG
*
15832636 TTTTTTTCTTTTCTTGTA
1 TTTTTTTATTTTCTTGTA
*
15832654 TTTTTTTATTTTTTTGT
1 TTTTTTTATTTTCTTGT
15832671 TTAATTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTTTATTTTCTTGTA
Found at i:15833050 original size:50 final size:50
Alignment explanation
Indices: 15832996--15833112 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 50
15832986 ACTTTAAAAT
* *
15832996 TTGAAAAAATCTCTTCTCAACAGAGGCTCAACAAC-TTTAAAATGCTAATA
1 TTGAAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATGCT-ATA
* * * *
15833046 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTTAAAATTCTATC
1 TTGAAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATGCTATA
*
15833096 TTGAAAAGAGCTCCTCT
1 TTGAAAAAAGCTCCTCT
15833113 AGGTAGAGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 48 0.83
51 10 0.17
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (50 bp):
TTGAAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTTAAAATGCTATA
Found at i:15833166 original size:20 final size:20
Alignment explanation
Indices: 15833129--15833167 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15833119 AGGTTTAATG
*
15833129 AAAATAAATTAGACTATCAA
1 AAAATAAATTAGAATATCAA
* *
15833149 AAAATAACTTCGAATATCA
1 AAAATAAATTAGAATATCA
15833168 TCATCGAAGG
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:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAATAAATTAGAATATCAA
Found at i:15833184 original size:24 final size:23
Alignment explanation
Indices: 15833157--15833204 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
15833147 AAAAAATAAC
* *
15833157 TTCGAATATCATCATCGAAGGAAA
1 TTCGAATATCACCATC-AAGAAAA
15833181 TTCGAATATCACCATCAAGAAAA
1 TTCGAATATCACCATCAAGAAAA
15833204 T
1 T
15833205 GCAAACCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (23 bp):
TTCGAATATCACCATCAAGAAAA
Found at i:15833529 original size:197 final size:197
Alignment explanation
Indices: 15833150--15833797 Score: 597
Period size: 197 Copynumber: 3.3 Consensus size: 197
15833140 GACTATCAAA
* * * * * * *
15833150 AAATAACTTCGAATATCATCATCGAAGGAAA-TTCGAATATCACCATCAAGAAAATGCAAACCAA
1 AAATGACTTCGGATATCACCATCGAAGAAAACAT-GAATATCACCATCAAAAAAATGTAAA-CAA
** * * * * * * * * *
15833214 -CCTTTGACACTTGGATATCACTACTGAAAATATGCAAATGACTTCGGATATCACCA-TCAAAGA
64 TTTTTTAATAC-TCGATATCACCACCGAGAATATGCAAATGACTTCGGATATCATCACT-GAAGG
* * * * * *** ** **
15833277 AAATAATAATATCACCATCGAGAAAATGCAAATTATTTTTTAATGCTTTGATATCACCACCGA-A
127 AAACAAGAATATCACCATTGAGAAAATGTAAATAAAGCTTTAACACTCGGATATCACCACCGAGA
*
15833341 ATATAC
192 ATATGC
* * * *
15833347 AAATGACTTCGGATATCACCATTGAAGGAAACAAT-AATATCACCATCGAGAAAATGTAAACAAT
1 AAATGACTTCGGATATCACCATCGAAGAAAAC-ATGAATATCACCATCAAAAAAATGTAAACAAT
* * * *
15833411 TTTTTAATGCTTTGATATCACCACCGAGAATATGCAAATGACTTCGGATATCGTCATTGAAGGAA
65 TTTTTAATAC-TCGATATCACCACCGAGAATATGCAAATGACTTCGGATATCATCACTGAAGGAA
** * *
15833476 ACTCGAATATCATCATTGAGAAAATGTAATTAAAGCTTTAACACTCGGATATCACCACCGAGAAT
129 ACAAGAATATCACCATTGAGAAAATGTAAATAAAGCTTTAACACTCGGATATCACCACCGAGAAT
15833541 ATGC
194 ATGC
* * * **
15833545 AAATGACTTCGGATATTACCATCGAAGAAAACTTGAATATCACCATTAAAAAAATGTAAATGATT
1 AAATGACTTCGGATATCACCATCGAAGAAAACATGAATATCACCATCAAAAAAATGTAAACAATT
* *
15833610 TTTTAATACTCGATATCACCACCGATAATATGCAAATGACTTTGGATATCATCACTGAAGGAAAC
66 TTTTAATACTCGATATCACCACCGAGAATATGCAAATGACTTCGGATATCATCACTGAAGGAAAC
* * *** ** ** *
15833675 AATAATATCACCATTGAGAAAATGTAAATGATTTTTTAATGCTTTGATATCACCATCGAGAATAT
131 AAGAATATCACCATTGAGAAAATGTAAATAAAGCTTTAACACTCGGATATCACCACCGAGAATAT
15833740 GC
196 GC
** * * * *
15833742 AAATGACTTCGGATATCGTCACCGAAAAAAAC-TCGAATATCACCATCGAGAAAATG
1 AAATGACTTCGGATATCACCATCGAAGAAAACAT-GAATATCACCATCAAAAAAATG
15833798 CAATTAAAGC
Statistics
Matches: 370, Mismatches: 74, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
196 4 0.01
197 296 0.80
198 69 0.19
199 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (197 bp):
AAATGACTTCGGATATCACCATCGAAGAAAACATGAATATCACCATCAAAAAAATGTAAACAATT
TTTTAATACTCGATATCACCACCGAGAATATGCAAATGACTTCGGATATCATCACTGAAGGAAAC
AAGAATATCACCATTGAGAAAATGTAAATAAAGCTTTAACACTCGGATATCACCACCGAGAATAT
GC
Found at i:15833711 original size:296 final size:295
Alignment explanation
Indices: 15833150--15833833 Score: 967
Period size: 296 Copynumber: 2.3 Consensus size: 295
15833140 GACTATCAAA
* * * * * *** *
15833150 AAATAACTTCGAATATCATCATCGAAGGAAATTCGAATATCACCATCAAGAAAATGCAAACCAAC
1 AAATGACTTCGGATATCGTCATCGAAGGAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
* * *
15833215 CTTTGACACTTGGATATCACTACTGAAAATATGCAAATGACTTCGGATATCACCATCAAAGAAAA
66 CTTTAACACTTGGATATCACCACCGAAAATATGCAAATGACTTCGGATATCACCATCAAAGAAAA
* * * * *
15833280 TAATAATATCACCATCGAGAAAATGCAAATTATTTTTTAATGCTTTGATATCACCACCGAAATAT
131 T-ATAATATCACCATCAAAAAAATGCAAATGATTTTTTAATACTTCGATATCACCACCGAAATAT
*
15833345 ACAAATGACTTCGGATATCACCATTGAAGGAAACAATAATATCACCATCGAGAAAATGTAAACAA
195 ACAAATGACTTCGGATATCACCACTGAAGGAAACAATAATATCACCATCGAGAAAATGTAAACAA
15833410 TTTTTTAATGCTTTGATATCACCACCGAGAATATGC
260 TTTTTTAATGCTTTGATATCACCACCGAGAATATGC
* * * *
15833446 AAATGACTTCGGATATCGTCATTGAAGGAAACTCGAATATCATCATTGAGAAAATGTAATTAAAG
1 AAATGACTTCGGATATCGTCATCGAAGGAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
* * * *
15833511 CTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGATATTACCATCGAAGAAAA
66 CTTTAACACTTGGATATCACCACCGAAAATATGCAAATGACTTCGGATATCACCATCAAAGAAAA
* *
15833576 CT-TGAATATCACCATTAAAAAAATGTAAATGATTTTTTAATAC-TCGATATCACCACCGATAAT
131 -TAT-AATATCACCATCAAAAAAATGCAAATGATTTTTTAATACTTCGATATCACCACCGA-AAT
* * * * *
15833639 ATGCAAATGACTTTGGATATCATCACTGAAGGAAACAATAATATCACCATTGAGAAAATGTAAAT
193 ATACAAATGACTTCGGATATCACCACTGAAGGAAACAATAATATCACCATCGAGAAAATGTAAAC
* *
15833704 GATTTTTTAATGCTTTGATATCACCATCGAGAATATGC
258 AATTTTTTAATGCTTTGATATCACCACCGAGAATATGC
* **
15833742 AAATGACTTCGGATATCGTCACCGAAAAAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
1 AAATGACTTCGGATATCGTCATCGAAGGAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
*
15833807 CTTTAACATTTGGATATCACCACCGAA
66 CTTTAACACTTGGATATCACCACCGAA
15833834 GAAAACTCGA
Statistics
Matches: 340, Mismatches: 45, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
295 16 0.05
296 323 0.95
297 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (295 bp):
AAATGACTTCGGATATCGTCATCGAAGGAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
CTTTAACACTTGGATATCACCACCGAAAATATGCAAATGACTTCGGATATCACCATCAAAGAAAA
TATAATATCACCATCAAAAAAATGCAAATGATTTTTTAATACTTCGATATCACCACCGAAATATA
CAAATGACTTCGGATATCACCACTGAAGGAAACAATAATATCACCATCGAGAAAATGTAAACAAT
TTTTTAATGCTTTGATATCACCACCGAGAATATGC
Found at i:15833812 original size:99 final size:99
Alignment explanation
Indices: 15833150--15833832 Score: 667
Period size: 99 Copynumber: 6.9 Consensus size: 99
15833140 GACTATCAAA
* * * * * * *
15833150 AAATAACTTCGAATATCATCATCGAAGGAAATTCGAATATCACCATCAAGAAAATGCAAACCAA-
1 AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAA-TAAT
** * * * * * *
15833214 CCTTTGACACTTGGATATCACTACTGAAAATATGC
65 TTTTTAATACTTTGATATCACCACCGAGAATATGC
* * * * * *
15833249 AAATGACTTCGGATATCACCATC-AAAGAAAATAATAATATCACCATCGAGAAAATGCAAATTAT
1 AAATGACTTCGGATATCATCATCGAAGGAAACT-AGAATATCACCATCGAGAAAATGTAAATAAT
* *
15833313 TTTTTAATGCTTTGATATCACCACCGA-AATATAC
65 TTTTTAATACTTTGATATCACCACCGAGAATATGC
* * * * *
15833347 AAATGACTTCGGATATCACCATTGAAGGAAACAATAATATCACCATCGAGAAAATGTAAACAATT
1 AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAATT
*
15833412 TTTTAATGCTTTGATATCACCACCGAGAATATGC
66 TTTTAATACTTTGATATCACCACCGAGAATATGC
* * * * * * **
15833446 AAATGACTTCGGATATCGTCATTGAAGGAAACTCGAATATCATCATTGAGAAAATGTAATTAAAG
1 AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAATT
* * **
15833511 CTTTAACACTCGGATATCACCACCGAGAATATGC
66 TTTTAATACTTTGATATCACCACCGAGAATATGC
* * * * ** * *
15833545 AAATGACTTCGGATATTACCATCGAAGAAAACTTGAATATCACCATTAAAAAAATGTAAATGATT
1 AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAATT
* *
15833610 TTTTAATAC-TCGATATCACCACCGATAATATGC
66 TTTTAATACTTTGATATCACCACCGAGAATATGC
* * * * *
15833643 AAATGACTTTGGATATCATCA-CTGAAGGAAACAATAATATCACCATTGAGAAAATGTAAATGAT
1 AAATGACTTCGGATATCATCATC-GAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAAT
* *
15833707 TTTTTAATGCTTTGATATCACCATCGAGAATATGC
65 TTTTTAATACTTTGATATCACCACCGAGAATATGC
* * ** * * * **
15833742 AAATGACTTCGGATATCGTCACCGAAAAAAACTCGAATATCACCATCGAGAAAATGCAATTAAAG
1 AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAATT
* *
15833807 CTTTAACA-TTTGGATATCACCACCGA
66 TTTTAATACTTT-GATATCACCACCGA
15833833 AGAAAACTCG
Statistics
Matches: 485, Mismatches: 91, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
97 1 0.00
98 177 0.36
99 306 0.63
100 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.27
Consensus pattern (99 bp):
AAATGACTTCGGATATCATCATCGAAGGAAACTAGAATATCACCATCGAGAAAATGTAAATAATT
TTTTAATACTTTGATATCACCACCGAGAATATGC
Found at i:15833852 original size:165 final size:165
Alignment explanation
Indices: 15833650--15833998 Score: 423
Period size: 165 Copynumber: 2.1 Consensus size: 165
15833640 TGCAAATGAC
* * * * **
15833650 TTTGGATATCATCACTGAAGGAAACAATAATATCACCATTGAGAAAATGTAAATGATTTTTTAAT
1 TTTGGATATCACCACCGAAGAAAACAAGAATATCACCATCAAGAAAATGTAAATGATTTTTTAAT
* * * **
15833715 GCTTTG-ATATCACCA-TCGAGAATATGCAAATGACTTCGGATATCGTCACCGAAAAAAACTCGA
66 GC-TCGAATATCACCACT-AAAAATATGCAAATGACTTCGGATATCACCACCGAAAAAAACTCGA
* * *
15833778 ATATCACCATCGAGAAAATGCAATTAAAGCTTTAACA
129 ACATCACCATCGAGAAAATGCAAATAAACCTTTAACA
**
15833815 TTTGGATATCACCACCGAAGAAAACTCGAATATCACCATCAAGAAAATGTAAATGATTTTTTAAT
1 TTTGGATATCACCACCGAAGAAAACAAGAATATCACCATCAAGAAAATGTAAATGATTTTTTAAT
* ** **
15833880 GCTCGAATATCACCACTAAAAATATGCAAATGACTTTGGATATCACCATTGAAGGAAACTCGAAC
66 GCTCGAATATCACCACTAAAAATATGCAAATGACTTCGGATATCACCACCGAAAAAAACTCGAAC
* *
15833945 ATCATCATCGAGAAAATGCAAATCAACCTTTAACA
131 ATCACCATCGAGAAAATGCAAATAAACCTTTAACA
* * * *
15833980 CTCGGATATTACCATCGAA
1 TTTGGATATCACCACCGAA
15833999 AATATGCAAA
Statistics
Matches: 155, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
164 2 0.01
165 152 0.98
166 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (165 bp):
TTTGGATATCACCACCGAAGAAAACAAGAATATCACCATCAAGAAAATGTAAATGATTTTTTAAT
GCTCGAATATCACCACTAAAAATATGCAAATGACTTCGGATATCACCACCGAAAAAAACTCGAAC
ATCACCATCGAGAAAATGCAAATAAACCTTTAACA
Found at i:15833890 original size:66 final size:66
Alignment explanation
Indices: 15833761--15833895 Score: 153
Period size: 66 Copynumber: 2.0 Consensus size: 66
15833751 CGGATATCGT
* * * * *
15833761 CACCGAAAAAAACTCGAATATCACCATCGAGAAAATGCAATTAAAGCTTTAACATTTGGATATCA
1 CACCGAAAAAAACTCGAATATCACCATCAAGAAAATGCAAATAAAGCTTTAACACTCGAATATCA
15833826 C
66 C
* * * *** **
15833827 CACCGAAGAAAACTCGAATATCACCATCAAGAAAATGTAAATGATTTTTTAATGCTCGAATATCA
1 CACCGAAAAAAACTCGAATATCACCATCAAGAAAATGCAAATAAAGCTTTAACACTCGAATATCA
15833892 C
66 C
15833893 CAC
1 CAC
15833896 TAAAAATATG
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (66 bp):
CACCGAAAAAAACTCGAATATCACCATCAAGAAAATGCAAATAAAGCTTTAACACTCGAATATCA
C
Found at i:15833938 original size:264 final size:262
Alignment explanation
Indices: 15833555--15834059 Score: 688
Period size: 264 Copynumber: 1.9 Consensus size: 262
15833545 AAATGACTTC
* * * *
15833555 GGATATTACCATCGAAGAAAACTTGAATATCACCATTAAAAAAATGTAAATGATTTTTTAATACT
1 GGATATCACCACCGAAGAAAACTCGAATATCACCATCAAAAAAATGTAAATGATTTTTTAATACT
* * * * *
15833620 CGATATCACCACCGATAATATGCAAATGACTTTGGATATCATCACTGAAGGAAACAATAATATCA
66 CGATATCACCACCAAAAATATGCAAATGACTTTGGATATCACCACTGAAGGAAACAAGAACATCA
* * * *** ** ** *
15833685 CCATTGAGAAAATGTAAATGATTTTTTAATGCTTTGATATCACCATCGAGAATATGCAAATGAC-
131 CCATCGAGAAAATGCAAATCAACCTTTAACACTCGGATATCACCATCGAAAATATGCAAATGACG
** *
15833749 TTCGGATATCGTCACCGAAAAAAACTCGAATATCACCATCGAGAAAATGCAATTAAAGCTTTAAC
196 TT-GGATATCACCACC-AAAAAAACTCGAATATCACCATCAAGAAAATGCAATTAAAGCTTTAAC
15833814 ATTT
259 ATTT
* *
15833818 GGATATCACCACCGAAGAAAACTCGAATATCACCATCAAGAAAATGTAAATGATTTTTTAATGCT
1 GGATATCACCACCGAAGAAAACTCGAATATCACCATCAAAAAAATGTAAATGATTTTTTAATACT
* * **
15833883 CGAATATCACCACTAAAAATATGCAAATGACTTTGGATATCACCATTGAAGGAAACTCGAACATC
66 CG-ATATCACCACCAAAAATATGCAAATGACTTTGGATATCACCACTGAAGGAAACAAGAACATC
* *
15833948 ATCATCGAGAAAATGCAAATCAACCTTTAACACTCGGATATTACCATCGAAAATATGCAAATGAC
130 ACCATCGAGAAAATGCAAATCAACCTTTAACACTCGGATATCACCATCGAAAATATGCAAATGAC
*
15834013 GTTGGATATCACCACCAAAGAAACTCGAATATCACCATCAAGAAAAT
195 GTTGGATATCACCACCAAAAAAACTCGAATATCACCATCAAGAAAAT
15834060 ACAAATAATT
Statistics
Matches: 208, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
263 90 0.43
264 116 0.56
265 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (262 bp):
GGATATCACCACCGAAGAAAACTCGAATATCACCATCAAAAAAATGTAAATGATTTTTTAATACT
CGATATCACCACCAAAAATATGCAAATGACTTTGGATATCACCACTGAAGGAAACAAGAACATCA
CCATCGAGAAAATGCAAATCAACCTTTAACACTCGGATATCACCATCGAAAATATGCAAATGACG
TTGGATATCACCACCAAAAAAACTCGAATATCACCATCAAGAAAATGCAATTAAAGCTTTAACAT
TT
Found at i:15834001 original size:99 final size:98
Alignment explanation
Indices: 15833815--15834065 Score: 297
Period size: 99 Copynumber: 2.5 Consensus size: 98
15833805 AGCTTTAACA
* * * *** *
15833815 TTTGGATATCACCACCGAAGAAAACTCGAATATCACCATCAAGAAAATGTAAATGATTTTTTAAT
1 TTTGGATATCACCA-CGAAGGAAACTCGAATATCACCATCAAGAAAATGCAAATCAACCTTTAAC
*
15833880 GCTCGAATATCACCACTAAAAATATGCAAATGAC
65 ACTCGAATATCACCACTAAAAATATGCAAATGAC
* * * *
15833914 TTTGGATATCACCATTGAAGGAAACTCGAACATCATCATCGAGAAAATGCAAATCAACCTTTAAC
1 TTTGGATATCACCA-CGAAGGAAACTCGAATATCACCATCAAGAAAATGCAAATCAACCTTTAAC
* * *
15833979 ACTCGGATATTACCA-TCGAAAATATGCAAATGAC
65 ACTCGAATATCACCACT-AAAAATATGCAAATGAC
* * * *
15834013 GTTGGATATCACCACCAAAGAAACTCGAATATCACCATCAAGAAAATACAAAT
1 TTTGGATATCACCACGAAGGAAACTCGAATATCACCATCAAGAAAATGCAAAT
15834066 AATTTTTTAA
Statistics
Matches: 127, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
98 33 0.26
99 94 0.74
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (98 bp):
TTTGGATATCACCACGAAGGAAACTCGAATATCACCATCAAGAAAATGCAAATCAACCTTTAACA
CTCGAATATCACCACTAAAAATATGCAAATGAC
Found at i:15834066 original size:23 final size:23
Alignment explanation
Indices: 15834018--15834066 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
15834008 ATGACGTTGG
* *
15834018 ATATCACCACCAAAGAAACTCGA
1 ATATCACCACCAAAGAAAATCAA
*
15834041 ATATCACCATC-AAGAAAATACAA
1 ATATCACCACCAAAGAAAAT-CAA
15834064 ATA
1 ATA
15834067 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.16
Consensus pattern (23 bp):
ATATCACCACCAAAGAAAATCAA
Found at i:15834124 original size:42 final size:42
Alignment explanation
Indices: 15834078--15834191 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
15834068 TTTTTTAATG
* * * * *
15834078 CTCGAATATCACTACTGAAAAAATGTAAATCAACCCTTGACA
1 CTCGAATATCACTACCGAGAAAATGCAAATCAAACCTTAACA
* * * *
15834120 CTCGAATATTACCACCGAGAAGATGCAATTCAAACCTTAACA
1 CTCGAATATCACTACCGAGAAAATGCAAATCAAACCTTAACA
*
15834162 CTCGAATATCATTACCGAGAAAATGCAAAT
1 CTCGAATATCACTACCGAGAAAATGCAAAT
15834192 AATTTTTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (42 bp):
CTCGAATATCACTACCGAGAAAATGCAAATCAAACCTTAACA
Found at i:15834620 original size:35 final size:35
Alignment explanation
Indices: 15834574--15834689 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
15834564 GAAATGTAAG
15834574 AATGTCTTTTCTTAAAATGATGCT-CATGAGATGCA
1 AATGTCTTTTCTTAAAATGATG-TACATGAGATGCA
* * *
15834609 AATGTCCTTTCTTAAAATAATGTATATGAGATGCA
1 AATGTCTTTTCTTAAAATGATGTACATGAGATGCA
* * *
15834644 AATGTCTTTTCTTAAAAAGATATACATGAAATGCA
1 AATGTCTTTTCTTAAAATGATGTACATGAGATGCA
15834679 AATGTCTTTTC
1 AATGTCTTTTC
15834690 CAAAAATACT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 1 0.01
35 70 0.99
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (35 bp):
AATGTCTTTTCTTAAAATGATGTACATGAGATGCA
Found at i:15835982 original size:24 final size:22
Alignment explanation
Indices: 15835942--15835990 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
15835932 CAATCATCTC
* * *
15835942 TTTTTTTCTTTCTCTTTCTTCTT
1 TTTTTTTCTTCCACTTT-TGCTT
15835965 TTTTTTTGCTTCCACTTTTGCTT
1 TTTTTTT-CTTCCACTTTTGCTT
15835988 TTT
1 TTT
15835991 CTTGTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTTTTCTTCCACTTTTGCTT
Found at i:15837386 original size:23 final size:22
Alignment explanation
Indices: 15837360--15837403 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15837350 TTTAAAATAA
*
15837360 CAAAAAAATATTTTAAAAAATTC
1 CAAAAAAATA-TTAAAAAAATTC
15837383 CAAAAAAATATTAAAAAAATT
1 CAAAAAAATATTAAAAAAATT
15837404 TACACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
CAAAAAAATATTAAAAAAATTC
Found at i:15838974 original size:12 final size:12
Alignment explanation
Indices: 15838949--15838992 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
15838939 TTTTTTGGTA
*
15838949 TTTATTTATTTAT
1 TTTATTTA-GTAT
15838962 TTTATTTAGTAT
1 TTTATTTAGTAT
*
15838974 TTTATTTGGTAT
1 TTTATTTAGTAT
15838986 TTT-TTTA
1 TTTATTTA
15838993 TGATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 3 0.11
12 17 0.61
13 8 0.29
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTATTTAGTAT
Found at i:15839110 original size:18 final size:18
Alignment explanation
Indices: 15839057--15839111 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
15839047 TGAAAGCATC
*
15839057 AATTTTTCTTGAAAATCA
1 AATTTTTCTTGAAAATAA
15839075 AA---TT-TT-AAAA-AA
1 AATTTTTCTTGAAAATAA
15839087 ATATTTTTCTTGAAAATAA
1 A-ATTTTTCTTGAAAATAA
15839106 AATTTT
1 AATTTT
15839112 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 11 0.38
19 3 0.10
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (18 bp):
AATTTTTCTTGAAAATAA
Found at i:15839197 original size:95 final size:95
Alignment explanation
Indices: 15839024--15839197 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 95
15839014 AAAAAAATTT
* * * *
15839024 AAAAACTATTTTTGAGGAAAAGTTGAAAGCATCAATTTTTCTTGAAAATCAAATTTTAAAAAAAT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTTCTTGAAAATAAAATTTCAAAAAAAG
* **
15839089 ATTTTTCTTGAAAATAAAATTTTAAAATAA
66 ATATTTCGAGAAAATAAAATTTTAAAATAA
* *
15839119 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAAAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTTCTTGAAAATAAAATTTCA-AAAAAA
*
15839184 GCTATTT-GAGAAAA
65 GATATTTCGAGAAAA
15839198 AATTGAAAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
95 58 0.85
96 10 0.15
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (95 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTTCTTGAAAATAAAATTTCAAAAAAAG
ATATTTCGAGAAAATAAAATTTTAAAATAA
Found at i:15839288 original size:59 final size:56
Alignment explanation
Indices: 15839120--15839290 Score: 157
Period size: 60 Copynumber: 2.9 Consensus size: 56
15839110 TTAAAATAAA
* * * *
15839120 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAG
1 AAAAATACTTTTGAGGAAAA-TTGAAAGTATCAATTTTT-TTAAAATAAAAATTTAAG
* * *
15839178 AAAAA-AGCTATTTGAGAAAAAATTGAAAGTACCAACTTTTTTAAAAAATAAAAATTATTAAG
1 AAAAATA-CT-TTTGAG-GAAAATTGAAAGTATCAA-TTTTTT-TAAAATAAAAA-T-TTAAG
*
15839240 AAAAATA-TTTTAAGGAGAAATTGAAAGTATCAATTTTCTTTAAAATAAAAA
1 AAAAATACTTTTGAGGA-AAATTGAAAGTATCAATTTT-TTTAAAATAAAAA
15839291 CTCTCAAATG
Statistics
Matches: 92, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
57 1 0.01
58 6 0.07
59 34 0.37
60 39 0.42
61 2 0.02
62 9 0.10
63 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.33
Consensus pattern (56 bp):
AAAAATACTTTTGAGGAAAATTGAAAGTATCAATTTTTTTAAAATAAAAATTTAAG
Found at i:15843807 original size:23 final size:23
Alignment explanation
Indices: 15843781--15843825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15843771 GGCAGAAACT
15843781 TAAAACTTGACACATGG-GATGGC
1 TAAAACTTGA-ACATGGTGATGGC
**
15843804 TAAATGTTGAACATGGTGATGG
1 TAAAACTTGAACATGGTGATGG
15843826 ATTGCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (23 bp):
TAAAACTTGAACATGGTGATGGC
Found at i:15844517 original size:46 final size:47
Alignment explanation
Indices: 15844442--15844961 Score: 317
Period size: 46 Copynumber: 11.0 Consensus size: 47
15844432 ATGAAGTCAT
* * **
15844442 ACATTTTCACATAAGAATC-TTCATTTCTTAAATGAGAATCTTTAAG
1 ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
*
15844488 ATATTTTCAAATAAGAATCTTTGA-GTCTTAAATGAGAATCTTTAAG
1 ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
* * *
15844534 ACATTTTCAAATGAGAATCTTTGA-ATCTTAAATGAAAATCTTTAAG
1 ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
* * * *
15844580 ACATTTCTTAAATGAA-AATCTTTAAGATGTTTTCAAATTAGAATCTTT--G
1 ACATTT-TCAAAT-AAGAATCTTT--GACGTCTT-AAATGAGAATCTTTAAG
* * *
15844629 A-GTTTTC-AATGAGAATCTTTAAGACGT-TTATTGAATAAGAATCTTT--G
1 ACATTTTCAAATAAGAATCTTT--GACGTCTTA---AATGAGAATCTTTAAG
* * * *
15844676 A-GTCTT-AAATGAA-AATTTTTAAAACGTTTCTTAAATGAGAATCTTTAAG
1 ACATTTTCAAAT-AAGAATCTTT--GACG--TCTTAAATGAGAATCTTTAAG
* * * * * * * *
15844725 ACGTTTTCAAATGAGAATTTTTAAGACATTTTCAAATAAGAATTTTTTAG
1 ACATTTTCAAATAAGAATCTTT--GACGTCTT-AAATGAGAATCTTTAAG
* * * * *
15844775 ---TCTT-AAATGAGAATTTTTAAGACGTTTCTTAAATGAAAATCTTTAAA
1 ACATTTTCAAATAAGAATCTTT--GACG--TCTTAAATGAGAATCTTTAAG
* * *
15844822 ATATTTTCAAATGAGAATCTTT-AAGTCTTAAATGAGAATCTTTAAG
1 ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
* *
15844868 ACATTTTCAAAAAAGAATCTTTGA-GTCTTAAATGAGAATCTTTATG
1 ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
* * * *
15844914 ACAATTTCAAAAAAAAAATCTTTGA-GTCTCAAATGAGAATCTTTAAG
1 ACATTTTC-AAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
15844961 A
1 A
15844962 GGTTTCTTAA
Statistics
Matches: 391, Mismatches: 53, Indels: 59
0.78 0.11 0.12
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 187 0.48
47 112 0.29
48 10 0.03
49 10 0.03
50 28 0.07
51 40 0.10
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (47 bp):
ACATTTTCAAATAAGAATCTTTGACGTCTTAAATGAGAATCTTTAAG
Found at i:15844594 original size:72 final size:72
Alignment explanation
Indices: 15844513--15844869 Score: 375
Period size: 72 Copynumber: 5.0 Consensus size: 72
15844503 AATCTTTGAG
*
15844513 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAAAATCTTTA
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAGAATCTTTA
*
15844578 AGACATT
66 AGACGTT
* ** * * * *
15844585 TCTTAAATGAAAATCTTTAAGATGTTTTCAAATTAGAATCTTTGAGTTTTCAATGAGAATCTTTA
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAGAATCTTTA
15844650 AGACGTT
66 AGACGTT
* * * * * * * *
15844657 TATTGAATAAGAATCTTT--GA-GTCTT-AAATGAAAATTTTTAAAACGTTTCTTAAATGAGAAT
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTT-GAA----TCTTAAATGAGAAT
15844718 CTTTAAGACGTT
61 CTTTAAGACGTT
* * * * * * *
15844730 T-TCAAATGAGAATTTTTAAGACATTTTCAAATAAGAATTTTTTAGTCTTAAATGAGAATTTTTA
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAGAATCTTTA
15844794 AGACGTT
66 AGACGTT
* * *
15844801 TCTTAAATGAAAATCTTTAAAATATTTTCAAATGAGAATCTTT-AAGTCTTAAATGAGAATCTTT
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAA-TCTTAAATGAGAATCTTT
15844865 AAGAC
65 AAGAC
15844870 ATTTTCAAAA
Statistics
Matches: 233, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
68 11 0.05
69 5 0.02
70 2 0.01
71 27 0.12
72 145 0.62
73 25 0.11
74 2 0.01
75 4 0.02
76 12 0.05
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (72 bp):
TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAGAATCTTTA
AGACGTT
Found at i:15844687 original size:47 final size:46
Alignment explanation
Indices: 15844585--15844818 Score: 236
Period size: 47 Copynumber: 4.9 Consensus size: 46
15844575 TTAAGACATT
* * * * *
15844585 TCTTAAATGAAAATCTTTAAGATGTTTTCAAATTAGAATCTTTGAG
1 TCTTAAATGAGAATTTTTAAGACGTTTTTAAATAAGAATCTTTGAG
* * * *
15844631 TTTTCAATGAGAATCTTTAAGACGTTTATTGAATAAGAATCTTTGAG
1 TCTTAAATGAGAATTTTTAAGACGTTT-TTAAATAAGAATCTTTGAG
* * *
15844678 TCTTAAATGAAAATTTTTAAAACGTTTCTTAAATGAGAATCTTTAAGACG
1 TCTTAAATGAGAATTTTTAAGACGTTT-TTAAATAAGAATCTTT--GA-G
* * * * *
15844728 TTTTCAAATGAGAATTTTTAAGACATTTTCAAATAAGAATTTTTTAG
1 TCTT-AAATGAGAATTTTTAAGACGTTTTTAAATAAGAATCTTTGAG
15844775 TCTTAAATGAGAATTTTTAAGACGTTTCTTAAATGAA-AATCTTT
1 TCTTAAATGAGAATTTTTAAGACGTTT-TTAAAT-AAGAATCTTT
15844819 AAAATATTTT
Statistics
Matches: 154, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
46 45 0.29
47 67 0.44
48 3 0.02
49 2 0.01
50 17 0.11
51 20 0.13
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTAAATGAGAATTTTTAAGACGTTTTTAAATAAGAATCTTTGAG
Found at i:15844724 original size:119 final size:118
Alignment explanation
Indices: 15844463--15844742 Score: 416
Period size: 119 Copynumber: 2.4 Consensus size: 118
15844453 TAAGAATCTT
*
15844463 CATTTCTTAAATGAGAATCTTTAAGATATTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATC
1 CATTTCTTAAATGAGAATCTTTAAGATGTTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATC
* *
15844528 TTTAAGACATTTTCAAATGAGAATCTTTGAATCTTAAATGAAAATCTTTAAGA
66 TTTAAGACATTTTCAAATAAGAATCTTTGAATCTTAAATGAAAATCTTTAAAA
* * * *
15844581 CATTTCTTAAATGAAAATCTTTAAGATGTTTTCAAATTAGAATCTTTGAGTTTTCAATGAGAATC
1 CATTTCTTAAATGAGAATCTTTAAGATGTTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATC
* ** * *
15844646 TTTAAGACGTTTATTGAATAAGAATCTTTGAGTCTTAAATGAAAATTTTTAAAA
66 TTTAAGACATTT-TCAAATAAGAATCTTTGAATCTTAAATGAAAATCTTTAAAA
* * *
15844700 CGTTTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAAT
1 CATTTCTTAAATGAGAATCTTTAAGATGTTTTCAAATAAGAAT
15844743 TTTTAAGACA
Statistics
Matches: 145, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
118 71 0.49
119 74 0.51
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (118 bp):
CATTTCTTAAATGAGAATCTTTAAGATGTTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATC
TTTAAGACATTTTCAAATAAGAATCTTTGAATCTTAAATGAAAATCTTTAAAA
Found at i:15844777 original size:97 final size:96
Alignment explanation
Indices: 15844513--15844867 Score: 365
Period size: 97 Copynumber: 3.7 Consensus size: 96
15844503 AATCTTTGAG
*
15844513 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTT--GA-ATCTTAAATGAA-AATC
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGACATTTTAAAT-AAGAATC
* *
15844574 TTTAAGACATTTCTTAAATGAAAATCTTTAAGATGTT
65 TTTAAG-----TCTTAAATGAAAATTTTTAAGACGTT
* * * * *
15844611 T-TCAAATTAGAATCTTT--GA-GTTTTC-AATGAGAATCTTTAAGACGTTTATTGAATAAGAAT
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGAC-ATT-TTAAATAAGAAT
* *
15844671 CTTTGAGTCTTAAATGAAAATTTTTAAAACGTT
64 CTTTAAGTCTTAAATGAAAATTTTTAAGACGTT
* * *
15844704 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATTTTTAAGACATTTTCAAATAAGAATT
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGACATTTT-AAATAAGAATC
* *
15844769 TTTTAGTCTTAAATGAGAATTTTTAAGACGTT
65 TTTAAGTCTTAAATGAAAATTTTTAAGACGTT
* * * * *
15844801 TCTTAAATGAAAATCTTTAAAATATTTTCAAATGAGAATCTTTAAG---TCTTAAATGAGAATCT
1 TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGACATTTTAAATAAGAATCT
15844863 TTAAG
66 TTAAG
15844868 ACATTTTCAA
Statistics
Matches: 217, Mismatches: 28, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
93 51 0.24
94 22 0.10
95 4 0.02
96 4 0.02
97 104 0.48
98 32 0.15
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (96 bp):
TCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGACATTTTAAATAAGAATCT
TTAAGTCTTAAATGAAAATTTTTAAGACGTT
Found at i:15844936 original size:262 final size:257
Alignment explanation
Indices: 15844471--15845004 Score: 667
Period size: 262 Copynumber: 2.0 Consensus size: 257
15844461 TTCATTTCTT
*
15844471 AAATGAGAATCTTTAAGATATTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
1 AAATGAGAATCTTTAAGACATTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
* *
15844536 ATTTTCAAATGAGAATCTTTGAATCTTAAATGAAAATCTTTAAGACATTTCTTAAATGAAAATCT
66 ATTTTCAAATGAAAATCTTTAAATCTTAAATGAAAATCTTTAAG--A--TCTTAAATGAAAATCT
** ** * * * * *
15844601 TTAAGATGTTTTCAAATTAGAATCTTTGAGTTTTCAATGAGAATCTTTAAGACGTTTATTGAATA
127 TTAAGACATTTTCAAAAAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTA-TAAAAA
* * * * * *
15844666 AGAATCTTTGAGTCTTAAATGAAAATTTTTAAAACGTTTCTTAAATGAGAATCTTTAAGACGTTT
191 AAAATCTTTGAGTCTCAAATGAAAATCTTTAAAACGTTTCTTAAAGGAAAATCTTTAAGACATTT
15844731 TC
256 TC
* * * *
15844733 AAATGAGAATTTTTAAGACATTTTCAAATAAGAATTTTTTAGTCTTAAATGAGAATTTTTAAGAC
1 AAATGAGAATCTTTAAGACATTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
* * * * *
15844798 GTTTCTTAAATGAAAATCTTTAAAATATTTTCAAATGAGAATCTTTAAG-TCTTAAATGAGAATC
66 ATTT-TCAAATGAAAATCTTT--AA-ATCTT-AAATGAAAATCTTTAAGATCTTAAATGAAAATC
*
15844862 TTTAAGACATTTTCAAAAAAGAATCTTTGAGTCTTAAATGAGAATCTTTATGACAATTTCA-AAA
126 TTTAAGACATTTTCAAAAAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC-ATTT-ATAAA
* * *
15844926 AAAAAATCTTTGAGTCTCAAATGAGAATCTTTAAGAGGTTTCTTAAAGGAAAATCTTTAAGACAT
189 AAAAAATCTTTGAGTCTCAAATGAAAATCTTTAAAACGTTTCTTAAAGGAAAATCTTTAAGACAT
15844991 TTTC
254 TTTC
15844995 AAATGAGAAT
1 AAATGAGAAT
15845005 ATTTGAGTTC
Statistics
Matches: 234, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
262 195 0.83
263 17 0.07
264 1 0.00
265 1 0.00
266 4 0.02
267 16 0.07
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (257 bp):
AAATGAGAATCTTTAAGACATTTTCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGAC
ATTTTCAAATGAAAATCTTTAAATCTTAAATGAAAATCTTTAAGATCTTAAATGAAAATCTTTAA
GACATTTTCAAAAAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTATAAAAAAAAAT
CTTTGAGTCTCAAATGAAAATCTTTAAAACGTTTCTTAAAGGAAAATCTTTAAGACATTTTC
Found at i:15845030 original size:72 final size:73
Alignment explanation
Indices: 15844893--15845033 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 73
15844883 AATCTTTGAG
* * * *
15844893 TCTTAAATGAGAATCTTTATGACAATTTCAAAAAAAAAATCTTTGAGTCTCAAATGAGAATCTTT
1 TCTTAAAGGAAAATCTTTAAGACAATTTCAAAAAAAAAATATTTGAGTCTCAAATGAGAATCTTT
15844958 AAGAGGTT
66 AAGAGGTT
* ** *
15844966 TCTTAAAGGAAAATCTTTAAGACATTTTC-AAATGAGAATATTTGAGT-TCTAAATGAGAATCTT
1 TCTTAAAGGAAAATCTTTAAGACAATTTCAAAAAAAAAATATTTGAGTCTC-AAATGAGAATCTT
15845029 TAAGA
65 TAAGA
15845034 TATTTTCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
71 2 0.03
72 32 0.54
73 25 0.42
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (73 bp):
TCTTAAAGGAAAATCTTTAAGACAATTTCAAAAAAAAAATATTTGAGTCTCAAATGAGAATCTTT
AAGAGGTT
Found at i:15845044 original size:46 final size:45
Alignment explanation
Indices: 15844538--15845099 Score: 174
Period size: 46 Copynumber: 12.0 Consensus size: 45
15844528 TTTAAGACAT
* * * *
15844538 TTTCAAATGAGAATCTTT--GAATCTT-AAATGAAAATCTTTAAGACA
1 TTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATATTT--GA-G
* * * *
15844583 TTTCTTAAATGAAAATCTTTAAGATGTTTTCAAATTAGAATCTTTGAG
1 TTTC--AAATGAGAATCTTTAAGA-ATTTTCAAATGAGAATATTTGAG
* ** * *
15844631 TTTTC-AATGAGAATCTTTAAGACGTTTATTGAATAAGAATCTTTGAG
1 -TTTCAAATGAGAATCTTTAAGA-ATTT-TCAAATGAGAATATTTGAG
* * * *
15844678 TCTT-AAATGAAAATTTTTAA-AACGTTTCTTAAATGAGAATCTTTAAGACG
1 T-TTCAAATGAGAATCTTTAAGAA--TTT-TCAAATGAGAATATTT--GA-G
* * * *
15844728 TTTTCAAATGAGAATTTTTAAGACATTTTCAAATAAGAATTTTTTAG
1 -TTTCAAATGAGAATCTTTAAGA-ATTTTCAAATGAGAATATTTGAG
* * * * * * *
15844775 TCTT-AAATGAGAATTTTTAAGACGTTTCTTAAATGAAAATCTTTAAAATAT
1 T-TTCAAATGAGAATCTTTAAGA-ATTT-TCAAATGAGAATATTT----GAG
* * *
15844826 TTTCAAATGAGAATCTTTAAG--TCTT-AAATGAGAATCTTTAAGACAT
1 TTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATATTT--G--AG
** * * * *
15844872 TTTCAAAAAAGAATCTTT--GAGTCTT-AAATGAGAATCTTTATGACAA
1 TTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAAT-ATT-TG--AG
** * * * *
15844918 TTTCAAAAAAAAAATCTTT--G-AGTCTCAAATGAGAATCTTTAAGAGG
1 TTTC-AAATGAGAATCTTTAAGAATTTTCAAATGAGAATATTT--GA-G
* *
15844964 TTTCTTAAAGGAAAATCTTTAAGACATTTTCAAATGAGAATATTTGAG
1 TTTC--AAATGAGAATCTTTAAGA-ATTTTCAAATGAGAATATTTGAG
* *
15845012 -TTCTAAATGAGAATCTTTAAGATATTTTCAAATGAGAATTTTTTAG
1 TTTC-AAATGAGAATCTTTAAGA-ATTTTCAAATGAGAATATTTGAG
*
15845058 TTTCAAATGAGAATCTTT--GAA-TTTCAAATGAGAATCTTTGAG
1 TTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATATTTGAG
15845100 GTATGAAACC
Statistics
Matches: 418, Mismatches: 56, Indels: 89
0.74 0.10 0.16
Matches are distributed among these distances:
42 19 0.05
43 1 0.00
44 5 0.01
45 6 0.01
46 157 0.38
47 122 0.29
48 5 0.01
49 13 0.03
50 21 0.05
51 67 0.16
52 1 0.00
53 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (45 bp):
TTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATATTTGAG
Found at i:15845374 original size:114 final size:114
Alignment explanation
Indices: 15845224--15845477 Score: 418
Period size: 114 Copynumber: 2.2 Consensus size: 114
15845214 TGAACTAATG
* * *
15845224 AAAAGTCAAACGAAAAGCTTAGAACTCAACTTTTGGATGTGAATCTCTAAATTTTTAAGTGAGAA
1 AAAATTCAAACGAAAAACTTTGAACTCAACTTTTGGATGTGAATCTCTAAATTTTTAAGTGAGAA
* * * *
15845289 CCTTTGAACTTAGATGTGAAACTTTAAGATTTTTTGGATGTGAATCTTC
66 CCTTTGAACTTAGATGTGAAACTCTAAGATTTATTGAATGTGAATCTCC
* *
15845338 AAAATTCAAACGAAAAACTTTGAACTCAACTTTTGGATGTGAATCTCTAATTTTTTTAGTGAGAA
1 AAAATTCAAACGAAAAACTTTGAACTCAACTTTTGGATGTGAATCTCTAAATTTTTAAGTGAGAA
15845403 CCTTTGAACTTAGATGTGAAACTCTAAGATTTATTGAATGTGAATCTCC
66 CCTTTGAACTTAGATGTGAAACTCTAAGATTTATTGAATGTGAATCTCC
*
15845452 AAAATTTAAACGAAAAACTTTGAACT
1 AAAATTCAAACGAAAAACTTTGAACT
15845478 TTTGGGATGT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 130 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (114 bp):
AAAATTCAAACGAAAAACTTTGAACTCAACTTTTGGATGTGAATCTCTAAATTTTTAAGTGAGAA
CCTTTGAACTTAGATGTGAAACTCTAAGATTTATTGAATGTGAATCTCC
Found at i:15845825 original size:43 final size:44
Alignment explanation
Indices: 15845743--15845888 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 44
15845733 GATTGTCAAT
* * *
15845743 GAGCTTTGTTCATTTTTCAAAAGTTGTTGAACCTCTGATTAGAG
1 GAGCTTTGTTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAG
* * * *
15845787 GAGCTTTATTTATTTTTC-AAAGTTGTTGTGCCTTTGATTAAAT
1 GAGCTTTGTTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAG
* * *
15845830 GAGCTTTGTTTA-TTTTCAAAAGTCGTTCAGCCTTTGTTTAGAG
1 GAGCTTTGTTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAG
*
15845873 GAACTTTG-TTATTTTT
1 GAGCTTTGTTTATTTTT
15845889 TTTTATTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 8 0.09
43 61 0.72
44 16 0.19
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (44 bp):
GAGCTTTGTTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGAG
Found at i:15846394 original size:30 final size:30
Alignment explanation
Indices: 15846349--15846411 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
15846339 TTCGGTGAAA
15846349 TTTTTGACATCGATTGAATTTTTCGAC-GG
1 TTTTTGACATCGATTGAATTTTTCGACAGG
*
15846378 TTTTCTGACGTCGATTGAATTTTTCGACAGG
1 TTTT-TGACATCGATTGAATTTTTCGACAGG
15846409 TTT
1 TTT
15846412 CCAGAATCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 22 0.71
31 5 0.16
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (30 bp):
TTTTTGACATCGATTGAATTTTTCGACAGG
Found at i:15846872 original size:12 final size:11
Alignment explanation
Indices: 15846841--15846898 Score: 71
Period size: 12 Copynumber: 4.9 Consensus size: 11
15846831 TTTTTCTTTG
15846841 GTATTTTATTTA
1 GTATTTT-TTTA
*
15846853 TTTATTTTATTTA
1 -GTATTTT-TTTA
15846866 GTATTTTTCTTA
1 GTATTTTT-TTA
15846878 GTATTTTTTTA
1 GTATTTTTTTA
15846889 GTATTTTTTT
1 GTATTTTTTT
15846899 CTTTTATGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 14 0.33
12 17 0.40
13 11 0.26
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (11 bp):
GTATTTTTTTA
Found at i:15846873 original size:13 final size:12
Alignment explanation
Indices: 15846831--15846898 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
15846821 GCCGTTTTTT
*
15846831 TTTTTCTTTGGTA
1 TTTTT-TTTAGTA
* *
15846844 TTTTATTTATTTA
1 TTTTTTTTA-GTA
*
15846857 TTTTATTTAGTA
1 TTTTTTTTAGTA
*
15846869 TTTTTCTTAGTA
1 TTTTTTTTAGTA
15846881 -TTTTTTTAGTA
1 TTTTTTTTAGTA
15846892 TTTTTTT
1 TTTTTTT
15846899 CTTTTATGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
11 10 0.22
12 21 0.46
13 15 0.33
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTTTTAGTA
Found at i:15849303 original size:3 final size:3
Alignment explanation
Indices: 15849295--15849330 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15849285 GCTTCAAATG
15849295 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15849331 AAGAAGCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15853154 original size:2 final size:2
Alignment explanation
Indices: 15853147--15853178 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15853137 TTAAAGAACT
15853147 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
15853179 CATGTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15854605 original size:2 final size:2
Alignment explanation
Indices: 15854596--15854637 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
15854586 TTTCAACAAA
15854596 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15854637 A
1 A
15854638 CAGATACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15855715 original size:62 final size:62
Alignment explanation
Indices: 15855588--15855827 Score: 321
Period size: 62 Copynumber: 3.9 Consensus size: 62
15855578 TTGCGTAGGA
*
15855588 AAAATTGATACTTTCAACTTTTTCCCGAAAATA--TTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
*
15855648 AAAATTGATACTTTCAAC-TTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
*** * * * *
15855710 AAAATTGATACTTTCAAC-TTTTCCTCAAAAA-CCCTTTTTTTGGAAATTTAT-TTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTTGAAAATTT-TGATTTTCAAGG
*
15855771 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGGAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGAAAATTTTGATTTT
15855828 TATTTAAAGA
Statistics
Matches: 158, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
59 6 0.04
60 24 0.15
61 46 0.29
62 81 0.51
63 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (62 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
Found at i:15855803 original size:123 final size:122
Alignment explanation
Indices: 15855588--15855827 Score: 342
Period size: 123 Copynumber: 2.0 Consensus size: 122
15855578 TTGCGTAGGA
* * *
15855588 AAAATTGATACTTTCAACTTTTTCCCGAAAATATTTTTTTGAAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAACATTTTTTTGAAAATTTTGATTTTCAAGAAAAAT
15855653 TGATACTTTCAACTTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
66 TGATACTTTCAACTTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
* * * *
15855710 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTGGAAATTTAT-TTTTTTAAGAAA
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAA-CATTTTTTTGAAAATTT-TGATTTTCAAGAAA
* *
15855773 AATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTTGGAAATTTTGATTTT
63 AATTGATACTTTCAAC-TTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTT
15855828 TATTTAAAGA
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
121 6 0.06
122 23 0.22
123 69 0.66
124 7 0.07
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (122 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAACATTTTTTTGAAAATTTTGATTTTCAAGAAAAAT
TGATACTTTCAACTTCTCCCTAAAAATATTTTTTTTTGAAAATTTTGATTTTCAAGG
Found at i:15855851 original size:4 final size:4
Alignment explanation
Indices: 15855838--15855881 Score: 70
Period size: 4 Copynumber: 10.8 Consensus size: 4
15855828 TATTTAAAGA
*
15855838 AAAT AGAAT AAAT AAAA AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15855882 AGTAAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:15855861 original size:12 final size:12
Alignment explanation
Indices: 15855844--15855909 Score: 73
Period size: 12 Copynumber: 5.5 Consensus size: 12
15855834 AAGAAAATAG
15855844 AATAAATAAAAA
1 AATAAATAAAAA
*
15855856 AATAAATAAATA
1 AATAAATAAAAA
15855868 AATAAATAAATAA
1 AATAAATAAA-AA
*
15855881 AAGTAAA-ACAAA
1 AA-TAAATAAAAA
*
15855893 AATAAA-AATAA
1 AATAAATAAAAA
15855904 AATAAA
1 AATAAA
15855910 GATAAAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
11 13 0.28
12 25 0.53
13 5 0.11
14 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:15855863 original size:16 final size:16
Alignment explanation
Indices: 15855832--15855909 Score: 79
Period size: 16 Copynumber: 4.8 Consensus size: 16
15855822 GATTTTTATT
15855832 TAAAGAAAATAGAATAAA
1 TAAA-AAAATA-AATAAA
15855850 TAAAAAAATAAATAAA
1 TAAAAAAATAAATAAA
*
15855866 TAAATAAATAAATAAAA
1 TAAAAAAATAAAT-AAA
*
15855883 GTAAAACAA-AAATAAA
1 -TAAAAAAATAAATAAA
*
15855899 -AATAAAATAAA
1 TAAAAAAATAAA
15855910 GATAAAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 21 0.40
17 13 0.25
18 10 0.19
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (16 bp):
TAAAAAAATAAATAAA
Found at i:15855897 original size:17 final size:17
Alignment explanation
Indices: 15855853--15855917 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
15855843 GAATAAATAA
15855853 AAAAATAAATAAATAAATA-
1 AAAAAT-AA-AAATAAA-AC
*
15855872 AATAAATAAAAGTAAAAC
1 AA-AAATAAAAATAAAAC
*
15855890 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAC
*
15855907 AAAGATAAAAA
1 AAAAATAAAAA
15855918 GAATATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 24 0.60
18 8 0.20
19 4 0.10
20 4 0.10
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAATAAAAC
Found at i:15855914 original size:11 final size:11
Alignment explanation
Indices: 15855837--15855916 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 11
15855827 TTATTTAAAG
*
15855837 AAAATAGAATA
1 AAAATAAAATA
*
15855848 AATAAAAAAATA
1 AA-AATAAAATA
15855860 AATAA-ATAAATAA
1 AA-AATA-AAAT-A
15855873 ATAAATAAAAGTA
1 A-AAATAAAA-TA
15855886 AAACA-AAAATA
1 AAA-ATAAAATA
15855897 AAAATAAAATA
1 AAAATAAAATA
*
15855908 AAGATAAAA
1 AAAATAAAA
15855917 AGAATATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 22 0.38
12 22 0.38
13 10 0.17
14 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15860891 original size:10 final size:10
Alignment explanation
Indices: 15860876--15860903 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15860866 ACCAATAATA
15860876 ATGATGATTT
1 ATGATGATTT
15860886 ATGATGATTT
1 ATGATGATTT
15860896 ATGATGAT
1 ATGATGAT
15860904 GATGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (10 bp):
ATGATGATTT
Found at i:15860918 original size:10 final size:10
Alignment explanation
Indices: 15860905--15860930 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15860895 TATGATGATG
15860905 ATGATTTTTA
1 ATGATTTTTA
15860915 ATGATTTTTA
1 ATGATTTTTA
15860925 ATGATT
1 ATGATT
15860931 GATCCATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (10 bp):
ATGATTTTTA
Found at i:15860918 original size:16 final size:16
Alignment explanation
Indices: 15860886--15860919 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15860876 ATGATGATTT
*
15860886 ATGATGATTTATGATG
1 ATGATGATTTATAATG
*
15860902 ATGATGATTTTTAATG
1 ATGATGATTTATAATG
15860918 AT
1 AT
15860920 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGATGATTTATAATG
Found at i:15860928 original size:26 final size:26
Alignment explanation
Indices: 15860870--15860929 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15860860 CAATAAACCA
* *
15860870 ATAATAATGATGATTTATGATGATTT
1 ATAATGATGATGATTTATAATGATTT
* *
15860896 ATGATGATGATGATTTTTAATGATTT
1 ATAATGATGATGATTTATAATGATTT
*
15860922 TTAATGAT
1 ATAATGAT
15860930 TGATCCATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (26 bp):
ATAATGATGATGATTTATAATGATTT
Found at i:15861879 original size:37 final size:36
Alignment explanation
Indices: 15861816--15861888 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
15861806 TAGACGTTGA
* * *
15861816 GATTCTAGAGGTGACTCCCTATCATGTAGCACGTTAG
1 GATTCTAGAAGTGACTCCCTACCATGTAACAC-TTAG
*
15861853 GATTTTAGAAGTGACTTCCC-ACCATGTAACACTTAG
1 GATTCTAGAAGTGAC-TCCCTACCATGTAACACTTAG
15861889 TGACTCCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 4 0.13
37 23 0.74
38 4 0.13
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (36 bp):
GATTCTAGAAGTGACTCCCTACCATGTAACACTTAG
Found at i:15864187 original size:35 final size:36
Alignment explanation
Indices: 15864141--15864213 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
15864131 AATCTTGTAG
*
15864141 CACTTAGTTTTCATCGACTAGTGAC-CCTCTGATAT
1 CACTTAGTTTTCATCAACTAGTGACACCTCTGATAT
* *
15864176 CACTTAGTTTTCATTAACTAGTGACATCTCTGATAT
1 CACTTAGTTTTCATCAACTAGTGACACCTCTGATAT
15864212 CA
1 CA
15864214 TGTGTATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 23 0.68
36 11 0.32
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTAGTTTTCATCAACTAGTGACACCTCTGATAT
Found at i:15864750 original size:32 final size:32
Alignment explanation
Indices: 15864688--15864750 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
15864678 CTCCACTATA
* *
15864688 TAGCACATAATGACTCCCATAACCTTACCGTG
1 TAGCACATAATGACTACCATAACCTCACCGTG
*
15864720 TAGCACATAATGACTATCACT-ACCTCACCGT
1 TAGCACATAATGACTACCA-TAACCTCACCGT
15864751 ATAGTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (32 bp):
TAGCACATAATGACTACCATAACCTCACCGTG
Found at i:15865283 original size:28 final size:28
Alignment explanation
Indices: 15865250--15865322 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
15865240 GACTCTTCAC
15865250 CATGTAATACTTAGTGACTCCGCTCTAT
1 CATGTAATACTTAGTGACTCCGCTCTAT
* *
15865278 CATGTAGTACTTAATGACTCCGCTCTAT
1 CATGTAATACTTAGTGACTCCGCTCTAT
*
15865306 CATGTAACACTTAGTGA
1 CATGTAATACTTAGTGA
15865323 TTCTCACCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (28 bp):
CATGTAATACTTAGTGACTCCGCTCTAT
Found at i:15874192 original size:28 final size:29
Alignment explanation
Indices: 15874161--15874227 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
15874151 AAATTTTTTA
*
15874161 AATTAAAATAAAATATATTAT-ATTTA-AT
1 AATTAAAATAAAATA-ATTATAAATTATAT
15874189 AATTAAAAT-AAATAATTATAAATTATAT
1 AATTAAAATAAAATAATTATAAATTATAT
*
15874217 ATTTAAAATAA
1 AATTAAAATAA
15874228 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 9 0.26
28 19 0.56
29 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AATTAAAATAAAATAATTATAAATTATAT
Found at i:15874236 original size:37 final size:35
Alignment explanation
Indices: 15874179--15874248 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
15874169 TAAAATATAT
*
15874179 TATATTTAATAATTAAAATAAATAATTATAAATTA
1 TATATTTAATAATTAAAATAAATAATCATAAATTA
**
15874214 TATATTTAAAATAATTTTAATAAATAATCATAAAT
1 TATATTT--AATAATTAAAATAAATAATCATAAAT
15874249 AAAATTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 7 0.23
37 23 0.77
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
TATATTTAATAATTAAAATAAATAATCATAAATTA
Found at i:15874688 original size:17 final size:17
Alignment explanation
Indices: 15874666--15874703 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15874656 TTAAAAAAAA
*
15874666 TTAAA-TTTAGATTAGAT
1 TTAAATTTTAG-TTAAAT
15874683 TTAAATTTTAGTTAAAT
1 TTAAATTTTAGTTAAAT
15874700 TTAA
1 TTAA
15874704 CTTGATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
TTAAATTTTAGTTAAAT
Found at i:15874804 original size:18 final size:20
Alignment explanation
Indices: 15874763--15874801 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15874753 TAATTATATT
15874763 TTAAAAAATAATATTTTATA
1 TTAAAAAATAATATTTTATA
15874783 TTAAAAAATAATATTTTAT
1 TTAAAAAATAATATTTTAT
15874802 TAATTTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAAATAATATTTTATA
Found at i:15875109 original size:24 final size:24
Alignment explanation
Indices: 15875073--15875119 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15875063 CCGATCCGAT
15875073 TTTATATAAAAATTTATT-TATTTA
1 TTTATATAAAAATTT-TTATATTTA
**
15875097 TTTATATTTAAATTTTTATATTT
1 TTTATATAAAAATTTTTATATTT
15875120 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATATAAAAATTTTTATATTTA
Found at i:15875135 original size:22 final size:22
Alignment explanation
Indices: 15875110--15875159 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
15875100 ATATTTAAAT
15875110 TTTTATATTTTAAAAAATAATA
1 TTTTATATTTTAAAAAATAATA
*
15875132 TTTTATATTTTTAAAAATAATA
1 TTTTATATTTTAAAAAATAATA
15875154 TTTTAT
1 TTTTAT
15875160 TAATTTCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATATTTTAAAAAATAATA
Found at i:15883245 original size:2 final size:2
Alignment explanation
Indices: 15883238--15883268 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15883228 GTAGACAGTT
15883238 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15883269 AGTGAACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15884532 original size:29 final size:28
Alignment explanation
Indices: 15884500--15884561 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
15884490 AATTAATAAA
*
15884500 TTTATAATTTAAATATTATAATAAAAAAT
1 TTTATAATTTAAATATCAT-ATAAAAAAT
* * *
15884529 TTTAAAATTTAAATATCATATTAAATAT
1 TTTATAATTTAAATATCATATAAAAAAT
15884557 TTTAT
1 TTTAT
15884562 TATAGTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTATAATTTAAATATCATATAAAAAAT
Found at i:15884702 original size:33 final size:33
Alignment explanation
Indices: 15884665--15884730 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15884655 TTAATGTGTC
*
15884665 TTTTAATCTTACTATCAACATGACTCTCCATTT
1 TTTTAATCTTACCATCAACATGACTCTCCATTT
*
15884698 TTTTAATCTTACCATCAACATGACTCTCTATTT
1 TTTTAATCTTACCATCAACATGACTCTCCATTT
15884731 AAAGTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.45
Consensus pattern (33 bp):
TTTTAATCTTACCATCAACATGACTCTCCATTT
Found at i:15887759 original size:12 final size:12
Alignment explanation
Indices: 15887719--15887780 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
15887709 AATTTTATAA
*
15887719 TTATTTATTTAAT
1 TTATATATTT-AT
*
15887732 TT-TATAATTAT
1 TTATATATTTAT
15887743 TTATATATTTAT
1 TTATATATTTAT
15887755 TTATATATATATAAT
1 TTATATAT-T-T-AT
15887770 TT-TATATTTAT
1 TTATATATTTAT
15887781 ATTAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 6 0.14
12 22 0.52
13 4 0.10
14 6 0.14
15 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATTTAT
Found at i:15887773 original size:16 final size:16
Alignment explanation
Indices: 15887698--15887782 Score: 51
Period size: 14 Copynumber: 5.7 Consensus size: 16
15887688 TCCGATCCGA
*
15887698 TATATATAAATAATTT
1 TATATATATATAATTT
*
15887714 TATA-AT-TAT-TTATT
1 TATATATATATAAT-TT
*
15887728 TA-AT-TTTATAATTAT
1 TATATATATATAATT-T
*
15887743 T-TATATAT-TTA-TT
1 TATATATATATAATTT
15887756 TATATATATATAATTT
1 TATATATATATAATTT
*
15887772 TATATTTATAT
1 TATATATATAT
15887783 TAAAAATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 20
0.66 0.09 0.25
Matches are distributed among these distances:
13 5 0.10
14 18 0.35
15 11 0.21
16 18 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATATATAATTT
Found at i:15887781 original size:20 final size:20
Alignment explanation
Indices: 15887700--15887782 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
15887690 CGATCCGATA
*
15887700 TATATAAATAATTTTATAAT
1 TATATATATAATTTTATAAT
* *
15887720 TATTTATTTAATTTTATAAT
1 TATATATATAATTTTATAAT
* *
15887740 TATTTATAT-A-TTTAT-TT
1 TATATATATAATTTTATAAT
*
15887757 ATATATATATAATTTTATATT
1 -TATATATATAATTTTATAAT
15887778 TATAT
1 TATAT
15887783 TAAAAATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.02
18 13 0.25
19 2 0.04
20 35 0.66
21 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATATATAATTTTATAAT
Found at i:15888540 original size:42 final size:43
Alignment explanation
Indices: 15888494--15888583 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 43
15888484 AATATTTTAT
* *
15888494 ATTATTTATTTAA-ATTTAAATTTTATATATTATA-TTAATAAA
1 ATTATTTATTTAATATTTAAATTTAAGATATTA-ACTTAATAAA
*
15888536 ATTA-TTATTTAATATTTTAATTTAAGATATTAACTTAATAAA
1 ATTATTTATTTAATATTTAAATTTAAGATATTAACTTAATAAA
*
15888578 AATATT
1 ATTATT
15888584 ATATCTATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 9 0.22
42 31 0.76
43 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (43 bp):
ATTATTTATTTAATATTTAAATTTAAGATATTAACTTAATAAA
Found at i:15888555 original size:24 final size:23
Alignment explanation
Indices: 15888511--15888556 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
15888501 ATTTAAATTT
*
15888511 AAATTTTATATATTATATTAATA
1 AAATTTTATATAATATATTAATA
* *
15888534 AAATTATTATTTAATATTTTAAT
1 AAATT-TTATATAATATATTAAT
15888557 TTAAGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATTTTATATAATATATTAATA
Found at i:15901005 original size:2 final size:2
Alignment explanation
Indices: 15900992--15901022 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15900982 AAAGTTGTTT
*
15900992 TA TA TC 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 T
15901023 TGTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15906887 original size:18 final size:18
Alignment explanation
Indices: 15906860--15906896 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15906850 AAAGTGATAT
*
15906860 TATTTTATATTTAATAAA
1 TATTTAATATTTAATAAA
*
15906878 TATTTAATATTTTATAAA
1 TATTTAATATTTAATAAA
15906896 T
1 T
15906897 TTATGTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTAATATTTAATAAA
Done.