Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 53 of 138
Found at i:11110934 original size:20 final size:19
Alignment explanation
Indices: 11110909--11110948 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11110899 AAATATATTC
11110909 AAAATAGATTTTTTGAATAG
1 AAAATAGA-TTTTTGAATAG
*
11110929 AAAATATATTTTTGAATAG
1 AAAATAGATTTTTGAATAG
11110948 A
1 A
11110949 TTAATAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
AAAATAGATTTTTGAATAG
Found at i:11111030 original size:31 final size:31
Alignment explanation
Indices: 11110962--11111081 Score: 152
Period size: 32 Copynumber: 3.8 Consensus size: 31
11110952 ATAAACACAT
* *
11110962 TTTTTAAAATAATAT-GAAATTTTTTAGTTAA
1 TTTTTAAAATGATATAG-AATTTTTTATTTAA
* *
11110993 TATTTTAAAATGATATGGAGTTTTTTATTTAA
1 T-TTTTAAAATGATATAGAATTTTTTATTTAA
* *
11111025 TTTTTAAACTGATATAGAAATTTTTATTTAA
1 TTTTTAAAATGATATAGAATTTTTTATTTAA
11111056 TTTTTTAAAATGATATAGAATTTTTT
1 -TTTTTAAAATGATATAGAATTTTTT
11111082 TAAAAGCATT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
31 27 0.35
32 49 0.64
33 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTTTAAAATGATATAGAATTTTTTATTTAA
Found at i:11111032 original size:63 final size:63
Alignment explanation
Indices: 11110962--11111081 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
11110952 ATAAACACAT
* *
11110962 TTTTTAAAATAATAT-GAAATTTTTTAGTTAATATTTTAAAATGATATGGAGTTTTTTATTTAA
1 TTTTTAAAATAATATAGAAA-TTTTTAGTTAATATTTTAAAATGATATAGAATTTTTTATTTAA
* * * *
11111025 TTTTTAAACTGATATAGAAATTTTTATTTAATTTTTTAAAATGATATAGAATTTTTT
1 TTTTTAAAATAATATAGAAATTTTTAGTTAATATTTTAAAATGATATAGAATTTTTT
11111082 TAAAAGCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 46 0.92
64 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (63 bp):
TTTTTAAAATAATATAGAAATTTTTAGTTAATATTTTAAAATGATATAGAATTTTTTATTTAA
Found at i:11111148 original size:19 final size:20
Alignment explanation
Indices: 11111121--11111165 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
11111111 TTTAATTTTT
*
11111121 AAAAT-GTATTTT-CTACTA
1 AAAATAGTATTTTACTAATA
11111139 AAAATAGTATTTTACTAATA
1 AAAATAGTATTTTACTAATA
11111159 AATAATA
1 AA-AATA
11111166 TCATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 7 0.30
20 7 0.30
21 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAATAGTATTTTACTAATA
Found at i:11111259 original size:18 final size:18
Alignment explanation
Indices: 11111236--11111275 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11111226 AAAAAATTAA
*
11111236 TTTTTTCTTTAATTATTT
1 TTTTTTATTTAATTATTT
**
11111254 TTTTTTATTTTTTTATTT
1 TTTTTTATTTAATTATTT
11111272 TTTT
1 TTTT
11111276 ATAAAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTATTTAATTATTT
Found at i:11111266 original size:8 final size:8
Alignment explanation
Indices: 11111253--11111277 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11111243 TTTAATTATT
11111253 TTTTTTTA
1 TTTTTTTA
11111261 TTTTTTTA
1 TTTTTTTA
11111269 TTTTTTTA
1 TTTTTTTA
11111277 T
1 T
11111278 AAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:11111289 original size:14 final size:14
Alignment explanation
Indices: 11111272--11111301 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11111262 TTTTTTATTT
11111272 TTTTATAAAATATA
1 TTTTATAAAATATA
*
11111286 TTTTGTAAAATATA
1 TTTTATAAAATATA
11111300 TT
1 TT
11111302 AGAGAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:11111970 original size:21 final size:21
Alignment explanation
Indices: 11111954--11112001 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
11111944 TGGTAATTTA
11111954 TGATATAATTTTAGTAATAAT
1 TGATATAATTTTAGTAATAAT
* *
11111975 TGATATAATTTTAATAAAAATT
1 TGATATAATTTTAGTAATAA-T
11111997 TGATA
1 TGATA
11112002 ATCTTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (21 bp):
TGATATAATTTTAGTAATAAT
Found at i:11112042 original size:22 final size:22
Alignment explanation
Indices: 11111995--11112049 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
11111985 TTAATAAAAA
* * *
11111995 TTTGATAATCTTTTGATGTAAT
1 TTTGGTAATCTTTTGATATAAC
11112017 TTTGGTAATCTTTATGATAT-AC
1 TTTGGTAATCTTT-TGATATAAC
11112039 TTTGGGTAATC
1 TTT-GGTAATC
11112050 ATTGATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (22 bp):
TTTGGTAATCTTTTGATATAAC
Found at i:11112046 original size:23 final size:22
Alignment explanation
Indices: 11112000--11112061 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 22
11111990 AAAAATTTGA
* *
11112000 TAATCTTTTGATGTAATTTTGG
1 TAATCTTTTGATATAATTTGGG
*
11112022 TAATCTTTATGATATACTTTGGG
1 TAATCTTT-TGATATAATTTGGG
*
11112045 TAATC-ATTGATA-AATTT
1 TAATCTTTTGATATAATTT
11112062 TTTCCTTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
22 9 0.26
23 16 0.47
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (22 bp):
TAATCTTTTGATATAATTTGGG
Found at i:11116399 original size:21 final size:20
Alignment explanation
Indices: 11116373--11116434 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
11116363 GAAACTTCTC
11116373 AAAAGAGAATTTAAATTTTGA
1 AAAAGA-AATTTAAATTTTGA
**
11116394 AAAAGAAAATTTTGA-TTTGA
1 AAAAG-AAATTTAAATTTTGA
*
11116414 AAAAGAAGTTTGAAATTTTGA
1 AAAAGAAATTT-AAATTTTGA
11116435 TAAATGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 16 0.48
22 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (20 bp):
AAAAGAAATTTAAATTTTGA
Found at i:11116431 original size:20 final size:21
Alignment explanation
Indices: 11116348--11116434 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 21
11116338 TAATGATAAA
*
11116348 TTGAAAATGAATTTTGAAACT
1 TTGAAAAAGAATTTTGAAACT
* *
11116369 TCTCAAAAGAGAA-TTT-AAATT
1 T-TGAAAA-AGAATTTTGAAACT
11116390 TTGAAAAAGAAAATTTTG--A-T
1 TTGAAAAAG--AATTTTGAAACT
* *
11116410 TTGAAAAAGAAGTTTGAAATT
1 TTGAAAAAGAATTTTGAAACT
11116431 TTGA
1 TTGA
11116435 TAAATGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
18 6 0.12
19 2 0.04
20 16 0.31
21 14 0.27
22 11 0.21
23 3 0.06
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (21 bp):
TTGAAAAAGAATTTTGAAACT
Found at i:11119348 original size:2 final size:2
Alignment explanation
Indices: 11119343--11119368 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11119333 GTGAGTTTGA
11119343 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
11119369 GCTTAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11122831 original size:22 final size:22
Alignment explanation
Indices: 11122806--11122902 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
11122796 TGAGCTAACA
*
11122806 TACTACTATGTTATCAATGATT
1 TACTACTAAGTTATCAATGATT
** *
11122828 TACTGTTAAGGTATCAATGATT
1 TACTACTAAGTTATCAATGATT
* *
11122850 TACTACTAATTTATGAATGATT
1 TACTACTAAGTTATCAATGATT
* * **
11122872 TACTATTAAATTATTGATGATT
1 TACTACTAAGTTATCAATGATT
11122894 TACTACTAA
1 TACTACTAA
11122903 ATTACTGATG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TACTACTAAGTTATCAATGATT
Found at i:11122902 original size:44 final size:44
Alignment explanation
Indices: 11122806--11122926 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
11122796 TGAGCTAACA
* * *
11122806 TACTACT-ATGTTATCAATGATTTACTGTTAAGGTATCAATGATT
1 TACTACTAAT-TTATGAATGATTTACTATTAAAGTATCAATGATT
* **
11122850 TACTACTAATTTATGAATGATTTACTATTAAATTATTGATGATT
1 TACTACTAATTTATGAATGATTTACTATTAAAGTATCAATGATT
* *
11122894 TACTACTAAATTACTG-ATGATTTATTA-TAAAGT
1 TACTACTAATTTA-TGAATGATTTACTATTAAAGT
11122927 TAAAACTGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
43 5 0.08
44 57 0.86
45 4 0.06
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (44 bp):
TACTACTAATTTATGAATGATTTACTATTAAAGTATCAATGATT
Found at i:11122903 original size:22 final size:21
Alignment explanation
Indices: 11122844--11122917 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 21
11122834 TAAGGTATCA
*
11122844 ATGATTTACTACTAATTTATG
1 ATGATTTACTACTAAATTATG
*
11122865 AATGATTTACTATTAAATTATTG
1 -ATGATTTACTACTAAATTA-TG
11122888 ATGATTTACTACTAAATTACTG
1 ATGATTTACTACTAAATTA-TG
11122910 ATGATTTA
1 ATGATTTA
11122918 TTATAAAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 45 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (21 bp):
ATGATTTACTACTAAATTATG
Found at i:11123034 original size:22 final size:22
Alignment explanation
Indices: 11122987--11123042 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11122977 TAATTAACTA
*
11122987 ATTTACTAA-TAAATTAGCATTT
1 ATTTAC-AACTAAATTAGCATTG
**
11123009 ATTTACAACTAAATTATTATTG
1 ATTTACAACTAAATTAGCATTG
*
11123031 ATTTGCAACTAA
1 ATTTACAACTAA
11123043 GCTATTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTACAACTAAATTAGCATTG
Found at i:11123214 original size:22 final size:22
Alignment explanation
Indices: 11123189--11123271 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
11123179 GAAGACAATA
* *
11123189 ATTTACTATTATTTTATTAATG
1 ATTTACTACTATGTTATTAATG
**
11123211 ATTTACTACTAAATTATTAATG
1 ATTTACTACTATGTTATTAATG
* *
11123233 ATTTATTATTATGTTATT-ATG
1 ATTTACTACTATGTTATTAATG
11123254 CATTTACTACTATGTTAT
1 -ATTTACTACTATGTTAT
11123272 CTTTGATTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 3 0.06
22 48 0.94
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (22 bp):
ATTTACTACTATGTTATTAATG
Found at i:11123280 original size:22 final size:21
Alignment explanation
Indices: 11123189--11123286 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 21
11123179 GAAGACAATA
* *
11123189 ATTTACTATTATTTTATTAATG
1 ATTTACTACTATGTTATT-ATG
**
11123211 ATTTACTACTAAATTATTAATG
1 ATTTACTACTATGTTATT-ATG
* *
11123233 ATTTATTATTATGTTATTATG
1 ATTTACTACTATGTTATTATG
*
11123254 CATTTACTACTATGTTATCTTTG
1 -ATTTACTACTATGTTAT-TATG
*
11123277 ATTTATTACT
1 ATTTACTACT
11123287 TAGTTGTTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 3 0.05
22 57 0.90
23 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTACTACTATGTTATTATG
Found at i:11123345 original size:22 final size:21
Alignment explanation
Indices: 11123208--11123345 Score: 57
Period size: 22 Copynumber: 6.3 Consensus size: 21
11123198 TATTTTATTA
* * *
11123208 ATGATTTACTACTAAATTATTA
1 ATGATTTATTACTTAATTA-TC
* *
11123230 ATGATTTATTA-TTATGTTATT
1 ATGATTTATTACTTA-ATTATC
* *
11123251 ATGCATTTACTAC-TATGTTATC
1 ATG-ATTTATTACTTA-ATTATC
* * * *
11123273 TTTGATTTATTACTTAGTTGTTG
1 -ATGATTTATTACTTAATT-ATC
* *
11123296 ATTATTTATTA-TAAAATTATC
1 ATGATTTATTACT-TAATTATC
11123317 ATAGATTTATTACTTAATTATCC
1 AT-GATTTATTACTTAATTAT-C
11123340 ATGATT
1 ATGATT
11123346 GTTTACCAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
21 10 0.11
22 69 0.78
23 9 0.10
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (21 bp):
ATGATTTATTACTTAATTATC
Found at i:11123913 original size:22 final size:22
Alignment explanation
Indices: 11123869--11124106 Score: 124
Period size: 22 Copynumber: 10.8 Consensus size: 22
11123859 AGTATAAAAA
* * *
11123869 AAGTTATTAATGATTAACAATT
1 AAGTTATCAATGATTTACTATT
*
11123891 AAGTTATCATTGATTTACTATT
1 AAGTTATCAATGATTTACTATT
* * *
11123913 ATGTTACCAATGATTTACTACT
1 AAGTTATCAATGATTTACTATT
** * *
11123935 AAACTACCAATGATTTATTATT
1 AAGTTATCAATGATTTACTATT
* * *
11123957 AAATTATCAATAATTTACTACT
1 AAGTTATCAATGATTTACTATT
*
11123979 AA-TTGATAAATGATTTA-TCATT
1 AAGTT-ATCAATGATTTACT-ATT
* *
11124001 AAGTTATAAATGATTTTATTATT
1 AAGTTATCAATGA-TTTACTATT
* * *** *
11124024 AAATTGTTGGTGATTTA-TCACT
1 AAGTTATCAATGATTTACT-ATT
* * * *
11124046 AATTTATTAATGATTTATTATA
1 AAGTTATCAATGATTTACTATT
* *
11124068 AAGTTAT-AATTGATTCACTAAT
1 AAGTTATCAA-TGATTTACTATT
* *
11124090 AATTTATCAATAATTTA
1 AAGTTATCAATGATTTA
11124107 TTACAAAGTT
Statistics
Matches: 166, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
21 6 0.04
22 139 0.84
23 20 0.12
24 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (22 bp):
AAGTTATCAATGATTTACTATT
Found at i:11124082 original size:44 final size:44
Alignment explanation
Indices: 11123984--11124126 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
11123974 CTACTAATTG
* * *
11123984 ATAAATGATTTATCATTAAGTTATAAATGATTTTATTATTAAA-TT
1 ATAATTGATTTATCAATAATTTATAAATGA-TTTATTA-TAAAGTT
* *** * *
11124029 GTTGGTGATTTATCACTAATTTATTAATGATTTATTATAAAGTT
1 ATAATTGATTTATCAATAATTTATAAATGATTTATTATAAAGTT
* * * *
11124073 ATAATTGATTCA-CTAATAATTTATCAATAATTTATTACAAAGTT
1 ATAATTGATTTATC-AATAATTTATAAATGATTTATTATAAAGTT
11124117 ATAATTGATT
1 ATAATTGATT
11124127 AATTATCTTA
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
43 5 0.06
44 52 0.65
45 23 0.29
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (44 bp):
ATAATTGATTTATCAATAATTTATAAATGATTTATTATAAAGTT
Found at i:11124131 original size:22 final size:21
Alignment explanation
Indices: 11124056--11124131 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
11124046 AATTTATTAA
11124056 TGATTTATTATAAAGTTATAAT
1 TGATTTATTA-AAAGTTATAAT
* * *
11124078 TGATTCACTAATAATTTATCAA-
1 TGATTTATTAA-AAGTTAT-AAT
*
11124100 TAATTTATTACAAAGTTATAAT
1 TGATTTATTA-AAAGTTATAAT
*
11124122 TGATTAATTA
1 TGATTTATTA
11124132 TCTTACTACT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
21 3 0.07
22 35 0.85
23 3 0.07
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
TGATTTATTAAAAGTTATAAT
Found at i:11124164 original size:22 final size:22
Alignment explanation
Indices: 11124124--11124750 Score: 97
Period size: 22 Copynumber: 28.8 Consensus size: 22
11124114 GTTATAATTG
* * *
11124124 ATTAATTATCTTACTACTAAATT
1 ATTAATGAT-TTACAACTAAGTT
*
11124147 ATTATTGATTTACAACTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * * * *
11124169 ATTAGTAATTTACTATTATGTT
1 ATTAATGATTTACAACTAAGTT
*
11124191 ATTAGTGATTTACTAA-TAAGTT
1 ATTAATGATTTAC-AACTAAGTT
* * * *
11124213 ATCAATAATTTATAACTAAATT
1 ATTAATGATTTACAACTAAGTT
* * *
11124235 ATTAATGATTCACTATTATA-TT
1 ATTAATGATTTACAACTA-AGTT
* * * *
11124257 ATT-ACGTATTTACTATTATGTT
1 ATTAATG-ATTTACAACTAAGTT
* * **
11124279 ATCATTGATTTACTATTTAA-TT
1 ATTAATGATTTAC-AACTAAGTT
* ** **
11124301 -TTCAATTATTTACTGC-AAAAT
1 ATT-AATGATTTACAACTAAGTT
* * * *
11124322 ATTACTAATTTACTACTAAATT
1 ATTAATGATTTACAACTAAGTT
* * *
11124344 ATTCATGAATTACTACTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * *
11124366 A-TAATTGATTTA-TATTAAATT
1 ATTAA-TGATTTACAACTAAGTT
* * *
11124387 ATCAAT-ATTTACTATTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * *
11124408 ATCACTGA-TTATCAAGTAAGTT
1 ATTAATGATTTA-CAACTAAGTT
* ** * *
11124430 ATCAACAATTTACTATTAAGTT
1 ATTAATGATTTACAACTAAGTT
***
11124452 A-TACA-GATTTACTTGTAAGTT
1 ATTA-ATGATTTACAACTAAGTT
* * * *
11124473 -TTCAATGATTAATAATTAAATT
1 ATT-AATGATTTACAACTAAGTT
* **
11124495 ATTAATTATTTATTACTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * ** *
11124517 ATCATTGATTTATTACTAAATT
1 ATTAATGATTTACAACTAAGTT
* * * *
11124539 ATT-CTCGAATCACTACTAAGTT
1 ATTAAT-GATTTACAACTAAGTT
* * *
11124561 A-TAACTGATTTA-TATTAAATT
1 ATTAA-TGATTTACAACTAAGTT
* * *
11124582 ATCAAT-ATTTACTATTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * * *
11124603 ATCACTGATTAACAAGTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * * *
11124625 ATCAATAATTTACTATTAAGTT
1 ATTAATGATTTACAACTAAGTT
* ***
11124647 A-TATTGATTTACTTTTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * *
11124668 -TTCAATGATTAACTAC-AAATT
1 ATT-AATGATTTACAACTAAGTT
* *
11124689 ATTAATTATTTACTACTAAGTT
1 ATTAATGATTTACAACTAAGTT
* * * *
11124711 ATCATTGATTTACCACTAAATT
1 ATTAATGATTTACAACTAAGTT
* * *
11124733 ATTTATAATTTACTACTA
1 ATTAATGATTTACAACTA
11124751 TGAATTAATT
Statistics
Matches: 447, Mismatches: 125, Indels: 65
0.70 0.20 0.10
Matches are distributed among these distances:
20 12 0.03
21 115 0.26
22 301 0.67
23 19 0.04
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTAATGATTTACAACTAAGTT
Found at i:11124182 original size:44 final size:44
Alignment explanation
Indices: 11124134--11124750 Score: 202
Period size: 44 Copynumber: 14.2 Consensus size: 44
11124124 ATTAATTATC
* * *
11124134 TTACTACTAAATTATTATTGATTTAC-AACTAAGTTATTAGTAAT
1 TTACTACTAAATTATTAATGATTTACTAA-TAAGTTATCAATAAT
* ** *
11124178 TTACTATTATGTTATTAGTGATTTACTAATAAGTTATCAATAAT
1 TTACTACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
* * * *
11124222 TTA-TAACTAAATTATTAATGATTCACTATTATA-TTATTACGT-AT
1 TTACT-ACTAAATTATTAATGATTTACTAATA-AGTTATCA-ATAAT
* ** * * * * *
11124266 TTACTATTATGTTATCATTGATTTACTATTTAA-TTTTCAATTAT
1 TTACTACTAAATTATTAATGATTTACTA-ATAAGTTATCAATAAT
* * * * * *
11124310 TTACTGC-AAAATATTACTAATTTACTACTAAATTATTC-ATGAA-
1 TTACTACTAAATTATTAATGATTTACTAATAAGTTA-TCAAT-AAT
* * *
11124353 TTACTACTAAGTTA-TAATTGATTTA-TATTAAATTATCAAT-AT
1 TTACTACTAAATTATTAA-TGATTTACTAATAAGTTATCAATAAT
* * * * *
11124395 TTACTATTAAGTTATCACTGA-TTA-TCAAGTAAGTTATCAACAAT
1 TTACTACTAAATTATTAATGATTTACT-AA-TAAGTTATCAATAAT
* * ** * *
11124439 TTACTATTAAGTTA-TACA-GATTTACTTGTAAGTTTTCAATGA-
1 TTACTACTAAATTATTA-ATGATTTACTAATAAGTTATCAATAAT
* * * * * * *
11124481 TTAATAATTAAATTATTAATTATTTATTACTAAGTTATCATTGAT
1 TTACT-ACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
* * * * * *
11124526 TTATTACTAAATTATT-CTCGAATCACTACTAAGTTAT-AACTGAT
1 TTACTACTAAATTATTAAT-GATTTACTAATAAGTTATCAA-TAAT
* * * * *
11124570 TTA-TATTAAATTATCAAT-ATTTACTATTAAGTTATCACTGAT
1 TTACTACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
* * * * * * * * *
11124612 TAACAAGTAAGTTATCAATAATTTACTATTAAGTTAT-ATTGAT
1 TTACTACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
** * * * *
11124655 TTACTTTTAAGTT-TTCAATGATTAACTACA-AA-TTATTAATTAT
1 TTACTACTAAATTATT-AATGATTTACTA-ATAAGTTATCAATAAT
* * * * * * **
11124698 TTACTACTAAGTTATCATTGATTTACCACTAAATTATTTATAAT
1 TTACTACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
11124742 TTACTACTA
1 TTACTACTA
11124751 TGAATTAATT
Statistics
Matches: 436, Mismatches: 100, Indels: 74
0.71 0.16 0.12
Matches are distributed among these distances:
41 5 0.01
42 51 0.12
43 150 0.34
44 217 0.50
45 13 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (44 bp):
TTACTACTAAATTATTAATGATTTACTAATAAGTTATCAATAAT
Found at i:11124230 original size:66 final size:66
Alignment explanation
Indices: 11124154--11124291 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
11124144 ATTATTATTG
* * * *
11124154 ATTTACAACTAAGTTATTAGTAATTTACTATTATGTTATTA-GTGATTTACTAATAAGTTATCAA
1 ATTTACAACTAAATTATTAATAATTCACTATTATATTATTACGT-ATTTACTAATAAGTTATCAA
11124218 TA
65 TA
* * * * *
11124220 ATTTATAACTAAATTATTAATGATTCACTATTATATTATTACGTATTTACTATTATGTTATCATT
1 ATTTACAACTAAATTATTAATAATTCACTATTATATTATTACGTATTTACTAATAAGTTATCAAT
*
11124285 G
66 A
11124286 ATTTAC
1 ATTTAC
11124292 TATTTAATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 58 0.97
67 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (66 bp):
ATTTACAACTAAATTATTAATAATTCACTATTATATTATTACGTATTTACTAATAAGTTATCAAT
A
Found at i:11124536 original size:195 final size:194
Alignment explanation
Indices: 11124329--11124750 Score: 679
Period size: 195 Copynumber: 2.2 Consensus size: 194
11124319 AATATTACTA
*
11124329 ATTTACTACTAAATTATTCATGAATTACTACTAAGTTATAATTGATTTATATTAAATTATCAATA
1 ATTTACTACTAAATTATTCATGAATTACTACTAAGTTATAACTGATTTATATTAAATTATCAATA
*
11124394 TTTACTATTAAGTTATCACTGATTATCAAGTAAGTTATCAACAATTTACTATTAAGTTATACAGA
66 TTTACTATTAAGTTATCACTGATTAACAAGTAAGTTATCAACAATTTACTATTAAGTTATACAGA
* *
11124459 TTTACTTGTAAGTTTTCAATGATTAA-TAATTAAATTATTAATTATTTATTACTAAGTTATCATT
131 TTTACTTGTAAGTTTTCAATGATTAACT-A-CAAATTATTAATTATTTACTACTAAGTTATCATT
11124523 G
194 G
* *
11124524 ATTTATTACTAAATTATTC-TCGAATCACTACTAAGTTATAACTGATTTATATTAAATTATCAAT
1 ATTTACTACTAAATTATTCAT-GAATTACTACTAAGTTATAACTGATTTATATTAAATTATCAAT
* **
11124588 ATTTACTATTAAGTTATCACTGATTAACAAGTAAGTTATCAATAATTTACTATTAAGTTATATTG
65 ATTTACTATTAAGTTATCACTGATTAACAAGTAAGTTATCAACAATTTACTATTAAGTTATACAG
*
11124653 ATTTACTTTTAAGTTTTCAATGATTAACTACAAATTATTAATTATTTACTACTAAGTTATCATTG
130 ATTTACTTGTAAGTTTTCAATGATTAACTACAAATTATTAATTATTTACTACTAAGTTATCATTG
* *
11124718 ATTTACCACTAAATTATTTAT-AATTTACTACTA
1 ATTTACTACTAAATTATTCATGAA-TTACTACTA
11124751 TGAATTAATT
Statistics
Matches: 209, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
193 2 0.01
194 58 0.28
195 148 0.71
196 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (194 bp):
ATTTACTACTAAATTATTCATGAATTACTACTAAGTTATAACTGATTTATATTAAATTATCAATA
TTTACTATTAAGTTATCACTGATTAACAAGTAAGTTATCAACAATTTACTATTAAGTTATACAGA
TTTACTTGTAAGTTTTCAATGATTAACTACAAATTATTAATTATTTACTACTAAGTTATCATTG
Found at i:11124679 original size:65 final size:65
Alignment explanation
Indices: 11124360--11124723 Score: 273
Period size: 65 Copynumber: 5.6 Consensus size: 65
11124350 GAATTACTAC
* * * * * * *
11124360 TAAGTTATAATTGATTTA-TATTAAATTATCAAT-ATTTACTATTAAGTTATCACTGATTATCAA
1 TAAGTTATAA-TAATTTACTATTAAGTTATCATTGATTTACTTTTAAGTTTTCAATGATTAACAA
11124423 G
65 G
* * *
11124424 TAAGTTATCAACAATTTACTATTAAGTTATACA--GATTTACTTGTAAGTTTTCAATGATTAATA
1 TAAGTTAT-AATAATTTACTATTAAGTTAT-CATTGATTTACTTTTAAGTTTTCAATGATTAACA
*
11124487 AT
64 AG
* * * * * * * *
11124489 TAAATTATTAATTATTTATTACTAAGTTATCATTGATTTA-TTACTAAATTATTC--TCGAATCA
1 TAAGTTA-TAATAATTTACTATTAAGTTATCATTGATTTACTT-TTAAGTT-TTCAAT-GATTAA
* *
11124551 CTAC
62 CAAG
* * * * * *
11124555 TAAGTTATAACTGATTTA-TATTAAATTATCAAT-ATTTACTATTAAGTTATCACTGATTAACAA
1 TAAGTTATAA-TAATTTACTATTAAGTTATCATTGATTTACTTTTAAGTTTTCAATGATTAACAA
11124618 G
65 G
*
11124619 TAAGTTATCAATAATTTACTATTAAGTTAT-ATTGATTTACTTTTAAGTTTTCAATGATTAACTA
1 TAAGTTAT-AATAATTTACTATTAAGTTATCATTGATTTACTTTTAAGTTTTCAATGATTAACAA
11124683 -
65 G
* * * *
11124683 CAAATTATTAATTATTTACTACTAAGTTATCATTGATTTAC
1 TAAGTTA-TAATAATTTACTATTAAGTTATCATTGATTTAC
11124724 CACTAAATTA
Statistics
Matches: 235, Mismatches: 46, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
63 2 0.01
64 71 0.30
65 128 0.54
66 31 0.13
67 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (65 bp):
TAAGTTATAATAATTTACTATTAAGTTATCATTGATTTACTTTTAAGTTTTCAATGATTAACAAG
Found at i:11124815 original size:22 final size:22
Alignment explanation
Indices: 11124268--11125001 Score: 246
Period size: 22 Copynumber: 33.7 Consensus size: 22
11124258 TTACGTATTT
** *
11124268 ACTATTATGTTATCATTGATTT
1 ACTATTAAATTATCAATGATTT
* * *
11124290 ACTATTTAATTTTCAATTATTT
1 ACTATTAAATTATCAATGATTT
** * * * *
11124312 ACT-GCAAAATATTACTAATTT
1 ACTATTAAATTATCAATGATTT
* *
11124333 ACTACTAAATTATTC-ATGAATT
1 ACTATTAAATTA-TCAATGATTT
* *
11124355 ACTACTAAGTTAT-AATTGATTT
1 ACTATTAAATTATCAA-TGATTT
11124377 A-TATTAAATTATCAAT-ATTT
1 ACTATTAAATTATCAATGATTT
* *
11124397 ACTATTAAGTTATCACTGA-TT
1 ACTATTAAATTATCAATGATTT
* * * **
11124418 ATCAAGTAAGTTATCAACAATTT
1 A-CTATTAAATTATCAATGATTT
*
11124441 ACTATTAAGTTAT-ACA-GATTT
1 ACTATTAAATTATCA-ATGATTT
* *
11124462 ACT-TGTAAGTTTTCAATGA-TT
1 ACTAT-TAAATTATCAATGATTT
* * *
11124483 AATAATTAAATTATTAATTATTT
1 ACT-ATTAAATTATCAATGATTT
* * * *
11124506 ATTACTAAGTTATCATTGATTT
1 ACTATTAAATTATCAATGATTT
* * * *
11124528 ATTACTAAATTATTC--TCGAATC
1 ACTATTAAATTA-TCAAT-GATTT
* *
11124550 ACTACTAAGTTAT-AACTGATTT
1 ACTATTAAATTATCAA-TGATTT
11124572 A-TATTAAATTATCAAT-ATTT
1 ACTATTAAATTATCAATGATTT
* * *
11124592 ACTATTAAGTTATCACTGATTA
1 ACTATTAAATTATCAATGATTT
* * * *
11124614 ACAAGTAAGTTATCAATAATTT
1 ACTATTAAATTATCAATGATTT
* *
11124636 ACTATTAAGTTAT-ATTGATTT
1 ACTATTAAATTATCAATGATTT
* * * *
11124657 ACTTTTAAGTTTTCAATGATTA
1 ACTATTAAATTATCAATGATTT
* * *
11124679 ACTA-CAAATTATTAATTATTT
1 ACTATTAAATTATCAATGATTT
* * *
11124700 ACTACTAAGTTATCATTGATTT
1 ACTATTAAATTATCAATGATTT
* * ** *
11124722 ACCACTAAATTATTTATAATTT
1 ACTATTAAATTATCAATGATTT
* * * *
11124744 AC---T--ACTATGAATTAATT
1 ACTATTAAATTATCAATGATTT
*
11124761 ACTATTAAACTGA--AACTGATTT
1 ACTATTAAA-TTATCAA-TGATTT
* *
11124783 ACTATTAAATTATAAATAATTT
1 ACTATTAAATTATCAATGATTT
*
11124805 ACTATTAAATTATCAATTATTT
1 ACTATTAAATTATCAATGATTT
* * * *
11124827 ATTACTAAGTTATCAATGATTA
1 ACTATTAAATTATCAATGATTT
* * *
11124849 ATTA-CAAAGTTATCACT--TTT
1 ACTATTAAA-TTATCAATGATTT
** * *
11124869 TTTATTATATTATCAATAATTT
1 ACTATTAAATTATCAATGATTT
* * *
11124891 ATGCAATTATATTGT-AATTGATTT
1 A--CTATTAAATTATCAA-TGATTT
* * *
11124915 ACTATTAAATTATTAATTATTA
1 ACTATTAAATTATCAATGATTT
* *
11124937 ACTACTAAATTATCAATTATCAATT
1 ACTATTAAATTATCAATGAT---TT
* *
11124962 ATTGATTTAAAATTATCAATTATTT
1 ACT-A-TT-AAATTATCAATGATTT
*
11124987 ACTAGTAAATTATCA
1 ACTATTAAATTATCA
11125002 TTCTTTATTA
Statistics
Matches: 530, Mismatches: 133, Indels: 98
0.70 0.17 0.13
Matches are distributed among these distances:
17 11 0.02
19 1 0.00
20 24 0.05
21 126 0.24
22 309 0.58
23 20 0.04
24 16 0.03
25 7 0.01
26 1 0.00
27 1 0.00
28 14 0.03
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.46
Consensus pattern (22 bp):
ACTATTAAATTATCAATGATTT
Found at i:11125054 original size:44 final size:43
Alignment explanation
Indices: 11124983--11125066 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
11124973 ATTATCAATT
*
11124983 ATTTACTAGTAAATTATCATTCTTTATTATTAAGG-TATTACTA
1 ATTTAATAGTAAATTATCATTCTTTATTATT-AGGTTATTACTA
* *
11125026 ATTTAATAGTAAGTTATTCATTGTTTATTATTAGGTTATTA
1 ATTTAATAGTAAATTA-TCATTCTTTATTATTAGGTTATTA
11125067 ATGATTAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (43 bp):
ATTTAATAGTAAATTATCATTCTTTATTATTAGGTTATTACTA
Found at i:11126116 original size:12 final size:12
Alignment explanation
Indices: 11126096--11126148 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
11126086 AATGCAAATT
*
11126096 ATTTTCATTTCC
1 ATTTCCATTTCC
11126108 ATTTCCATTTCC
1 ATTTCCATTTCC
*
11126120 -TTTTCATTTCTC
1 ATTTCCATTTC-C
*
11126132 -TTTCCATTTTC
1 ATTTCCATTTCC
11126143 ATTTCC
1 ATTTCC
11126149 TTTTTCCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTCCATTTCC
Found at i:11126127 original size:23 final size:23
Alignment explanation
Indices: 11126097--11126140 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
11126087 ATGCAAATTA
11126097 TTTTCATTTC-CATTTCCATTTCC
1 TTTTCATTTCTC-TTTCCATTTCC
11126120 TTTTCATTTCTCTTTCCATTT
1 TTTTCATTTCTCTTTCCATTT
11126141 TCATTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTCATTTCTCTTTCCATTTCC
Found at i:11126147 original size:23 final size:23
Alignment explanation
Indices: 11126098--11126147 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11126088 TGCAAATTAT
*
11126098 TTTCATTTCCATTTCCATTTCCT
1 TTTCATTTCCATTTCCATTTCCA
*
11126121 TTTCATTTCTC-TTTCCATTTTCA
1 TTTCATTTC-CATTTCCATTTCCA
11126144 TTTC
1 TTTC
11126148 CTTTTTCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTCATTTCCATTTCCATTTCCA
Found at i:11126350 original size:13 final size:14
Alignment explanation
Indices: 11126328--11126363 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
11126318 TACCTGCTTG
*
11126328 TTTTTCATTTTTTA
1 TTTTTAATTTTTTA
11126342 TTTTT-ATTTTTTA
1 TTTTTAATTTTTTA
11126355 TTTTTAATT
1 TTTTTAATT
11126364 AAATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTAATTTTTTA
Found at i:11127649 original size:23 final size:21
Alignment explanation
Indices: 11127614--11127656 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11127604 CGAAACATTC
11127614 AATTGTTAGCTTTTTATTTTATA
1 AATTGTTAGC--TTTATTTTATA
11127637 AATTGTTTA-CTTTATTTTAT
1 AATTG-TTAGCTTTATTTTAT
11127657 TTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.53
23 6 0.32
24 3 0.16
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
AATTGTTAGCTTTATTTTATA
Found at i:11127661 original size:4 final size:4
Alignment explanation
Indices: 11127642--11127677 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
11127632 TTATAAATTG
11127642 TTTA CTTTA TTTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TT
11127678 ATTATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:11127691 original size:16 final size:14
Alignment explanation
Indices: 11127642--11127683 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
11127632 TTATAAATTG
11127642 TTTACTTTATT-TTA
1 TTTA-TTTATTATTA
11127656 TTTATTTA-T-TTA
1 TTTATTTATTATTA
11127668 TTTATTTATTATTA
1 TTTATTTATTATTA
11127682 TT
1 TT
11127684 ATTATTTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
13 5 0.19
14 9 0.35
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:11127812 original size:24 final size:24
Alignment explanation
Indices: 11127778--11127823 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11127768 TTCGGGTAGT
* *
11127778 ATTGGTAGTGGTGGTTTTTTGGTG
1 ATTGGTAGTGGTAGTGTTTTGGTG
*
11127802 ATTGGTGGTGGTAGTGTTTTGG
1 ATTGGTAGTGGTAGTGTTTTGG
11127824 GTGGTTCAAG
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:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (24 bp):
ATTGGTAGTGGTAGTGTTTTGGTG
Found at i:11130682 original size:17 final size:17
Alignment explanation
Indices: 11130662--11130703 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
11130652 CTTTTATTTG
11130662 AAAATTTTTATTATACA
1 AAAATTTTTATTATACA
*
11130679 AAAATTTTTATTATATA
1 AAAATTTTTATTATACA
11130696 AAAATTTT
1 AAAATTTT
11130704 AAAATACGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATTTTTATTATACA
Found at i:11131975 original size:15 final size:16
Alignment explanation
Indices: 11131955--11131984 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11131945 TTAGTCATTC
11131955 ACTTTTAATA-TTTTT
1 ACTTTTAATACTTTTT
11131970 ACTTTTAATACTTTT
1 ACTTTTAATACTTTT
11131985 GGAATTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
ACTTTTAATACTTTTT
Found at i:11137165 original size:21 final size:22
Alignment explanation
Indices: 11137141--11137192 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11137131 TTTATTTTTA
*
11137141 AATT-TTATTTTGAATA-AACAT
1 AATTATTATTTT-AATATAAAAT
*
11137162 AATTAATATTTTAATATAAAAT
1 AATTATTATTTTAATATAAAAT
11137184 AATTATTAT
1 AATTATTAT
11137193 CAATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTATTATTTTAATATAAAAT
Found at i:11137914 original size:9 final size:9
Alignment explanation
Indices: 11137900--11137946 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
11137890 AATGAAATTT
11137900 TTTTAAAAA
1 TTTTAAAAA
11137909 TTTTAAAAA
1 TTTTAAAAA
* *
11137918 TTCTAAAAC
1 TTTTAAAAA
*
11137927 TTCTAAAAA
1 TTTTAAAAA
11137936 TTTTAAAAA
1 TTTTAAAAA
11137945 TT
1 TT
11137947 AAAAATATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:11137975 original size:9 final size:9
Alignment explanation
Indices: 11137961--11138019 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
11137951 ATATACTATT
11137961 AAAAATTAC
1 AAAAATTAC
*
11137970 AAAAATTAA
1 AAAAATTAC
* *
11137979 AAAAAATATG
1 AAAAATTA-C
*
11137989 AAAACTTA-
1 AAAAATTAC
11137997 AAAAATTCAC
1 AAAAATT-AC
11138007 AAAAATT-C
1 AAAAATTAC
11138015 AAAAA
1 AAAAA
11138020 AGATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 12 0.29
9 16 0.39
10 13 0.32
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAATTAC
Found at i:11137985 original size:19 final size:19
Alignment explanation
Indices: 11137961--11138039 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
11137951 ATATACTATT
11137961 AAAAATTACAAAAATTAAA
1 AAAAATTACAAAAATTAAA
* *
11137980 AAAAA-TATGAAAACTT--A
1 AAAAATTA-CAAAAATTAAA
11137997 AAAAATTCACAAAAATTCAAA
1 AAAAATT-ACAAAAATT-AAA
* **
11138018 AAAGATT-TTAAAATTAAA
1 AAAAATTACAAAAATTAAA
11138036 AAAA
1 AAAA
11138040 TGAACATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
17 6 0.13
18 15 0.33
19 18 0.39
21 7 0.15
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAATTACAAAAATTAAA
Found at i:11138009 original size:37 final size:36
Alignment explanation
Indices: 11137961--11138038 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
11137951 ATATACTATT
11137961 AAAAATTACAAAAATT-AAAAAAAATATGAAAACTTA
1 AAAAATTACAAAAATTCAAAAAAAATATGAAAA-TTA
* * *
11137997 AAAAATTCACAAAAATTCAAAAAAGATTTTAAAATTA
1 AAAAATT-ACAAAAATTCAAAAAAAATATGAAAATTA
11138034 AAAAA
1 AAAAA
11138039 ATGAACATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 7 0.19
37 17 0.46
38 13 0.35
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (36 bp):
AAAAATTACAAAAATTCAAAAAAAATATGAAAATTA
Found at i:11138190 original size:23 final size:20
Alignment explanation
Indices: 11138164--11138207 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 20
11138154 TTAAAAATCT
*
11138164 AAATTGAAAACTTTTATTTAAAA
1 AAATT-AAAA-TTTT-TTGAAAA
11138187 AAATTAAAATTTTTTGAAAA
1 AAATTAAAATTTTTTGAAAA
11138207 A
1 A
11138208 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 4 0.20
23 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATTAAAATTTTTTGAAAA
Found at i:11138506 original size:10 final size:10
Alignment explanation
Indices: 11138488--11138542 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
11138478 TTTTTTATAA
*
11138488 TTTGTATTTT
1 TTTGAATTTT
11138498 TTTGAA-TTT
1 TTTGAATTTT
*
11138507 TTTCAATTTT
1 TTTGAATTTT
11138517 TTTGAATTTT
1 TTTGAATTTT
* *
11138527 TTAGGATTTT
1 TTTGAATTTT
*
11138537 TATGAA
1 TTTGAA
11138543 AATTTTATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 8 0.22
10 28 0.78
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (10 bp):
TTTGAATTTT
Found at i:11138535 original size:20 final size:19
Alignment explanation
Indices: 11138493--11138556 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
11138483 TATAATTTGT
11138493 ATTTTTTTGAATTTTTTCA-
1 ATTTTTTTGAATTTTTT-AG
11138512 ATTTTTTTGAATTTTTTAGG
1 ATTTTTTTGAATTTTTTA-G
* **
11138532 ATTTTTATGAAAATTTTATG
1 ATTTTTTTGAATTTTTTA-G
11138552 ATTTT
1 ATTTT
11138557 AAAAAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 1 0.03
19 17 0.44
20 21 0.54
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (19 bp):
ATTTTTTTGAATTTTTTAG
Found at i:11138536 original size:19 final size:18
Alignment explanation
Indices: 11138495--11138556 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
11138485 TAATTTGTAT
11138495 TTTTTTGAATTTTTTCA-A
1 TTTTTTGAATTTTTT-AGA
11138513 TTTTTTTGAATTTTTTAGGA
1 -TTTTTTGAATTTTTTA-GA
**
11138533 TTTTTATGAAAATTTTATGA
1 TTTTT-TGAATTTTTTA-GA
11138553 TTTT
1 TTTT
11138557 AAAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTTTGAATTTTTTAGA
Found at i:11139697 original size:12 final size:12
Alignment explanation
Indices: 11139680--11139713 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11139670 CTAATATATA
*
11139680 TATGTGTGTGTG
1 TATGTGTGTATG
11139692 TATGTGTGTATG
1 TATGTGTGTATG
*
11139704 TATGTATGTA
1 TATGTGTGTA
11139714 CTTAGAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (12 bp):
TATGTGTGTATG
Found at i:11141259 original size:10 final size:10
Alignment explanation
Indices: 11141244--11141270 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11141234 CCACAAATTC
11141244 AATTCAATAA
1 AATTCAATAA
11141254 AATTCAATAA
1 AATTCAATAA
11141264 AATTCAA
1 AATTCAA
11141271 ACTCTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (10 bp):
AATTCAATAA
Found at i:11147031 original size:17 final size:17
Alignment explanation
Indices: 11147009--11147045 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
11146999 TATCCAAGTG
11147009 ACCTTAACTGTGTATCC
1 ACCTTAACTGTGTATCC
11147026 ACCTTAACTGTGTATCC
1 ACCTTAACTGTGTATCC
11147043 ACC
1 ACC
11147046 ATATTATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.32
Consensus pattern (17 bp):
ACCTTAACTGTGTATCC
Found at i:11157114 original size:116 final size:116
Alignment explanation
Indices: 11156908--11157130 Score: 333
Period size: 116 Copynumber: 1.9 Consensus size: 116
11156898 AATAAAACCA
*
11156908 TGAGGCCTAGCAGGGTCAAAGTGGATAATTCTTCACAAGTTAGTGTGGACCGTAACACTACACTT
1 TGAGGCCTAGCAGGGTCAAAGTGGATAATTCTTCACAAGTTAGTGTGGACCGTAACACTACACCT
11156973 ATGTACATGCATGCACGAGGCACCTTTATCATGAAAAGCATTTCCTTCTTG
66 ATGTACATGCATGCACGAGGCACCTTTATCATGAAAAGCATTTCCTTCTTG
* * * * *
11157024 TGAGGCCTAG-TGGAGTCAAAGTGGATAATAT-TTGACAAGTTGGTGTGGACTGTGACACTACAC
1 TGAGGCCTAGCAGG-GTCAAAGTGGATAAT-TCTTCACAAGTTAGTGTGGACCGTAACACTACAC
** *
11157087 CTATGTACATGCATGCTTGAGGTACCTTTATCATGAAAAGCATT
64 CTATGTACATGCATGCACGAGGCACCTTTATCATGAAAAGCATT
11157131 ACCAAAGCAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
115 2 0.02
116 93 0.97
117 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (116 bp):
TGAGGCCTAGCAGGGTCAAAGTGGATAATTCTTCACAAGTTAGTGTGGACCGTAACACTACACCT
ATGTACATGCATGCACGAGGCACCTTTATCATGAAAAGCATTTCCTTCTTG
Found at i:11158052 original size:23 final size:21
Alignment explanation
Indices: 11158018--11158060 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
11158008 CTGGGTTCTT
11158018 ATGTTTACTCTTATTTCTTTTAC
1 ATGTTTACTCTT-TTT-TTTTAC
11158041 ATGTTCTA-TCTTTTTTTTTA
1 ATGTT-TACTCTTTTTTTTTA
11158061 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 9 0.47
24 2 0.11
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (21 bp):
ATGTTTACTCTTTTTTTTTAC
Found at i:11159340 original size:21 final size:21
Alignment explanation
Indices: 11159314--11159356 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11159304 ATGTGAGGTC
11159314 TATCAAAATTTTATGTGGAAT
1 TATCAAAATTTTATGTGGAAT
11159335 TATCAAAATTTTATGTGGAAT
1 TATCAAAATTTTATGTGGAAT
11159356 T
1 T
11159357 TACAAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (21 bp):
TATCAAAATTTTATGTGGAAT
Found at i:11162527 original size:16 final size:16
Alignment explanation
Indices: 11162506--11162539 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11162496 CATACAAGTT
*
11162506 ATACCAATTGTTAAAG
1 ATACCAATTATTAAAG
11162522 ATACCAATTATTAAAG
1 ATACCAATTATTAAAG
11162538 AT
1 AT
11162540 GTCATCAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (16 bp):
ATACCAATTATTAAAG
Found at i:11164602 original size:2 final size:2
Alignment explanation
Indices: 11164595--11164620 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11164585 CAAAGAATTA
11164595 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
11164621 CATTTAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11170028 original size:23 final size:23
Alignment explanation
Indices: 11169998--11170047 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
11169988 ATAAAATCGA
11169998 ATAACCAACACATACAATGAAAC
1 ATAACCAACACATACAATGAAAC
11170021 ATAACCAACACATACAATGAAAC
1 ATAACCAACACATACAATGAAAC
11170044 ATAA
1 ATAA
11170048 ATCTAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.58, C:0.24, G:0.04, T:0.14
Consensus pattern (23 bp):
ATAACCAACACATACAATGAAAC
Found at i:11170966 original size:13 final size:13
Alignment explanation
Indices: 11170948--11170973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11170938 CTTTGCAAGA
11170948 AGCGTTAAAATAT
1 AGCGTTAAAATAT
11170961 AGCGTTAAAATAT
1 AGCGTTAAAATAT
11170974 CATCATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AGCGTTAAAATAT
Found at i:11171834 original size:6 final size:6
Alignment explanation
Indices: 11171823--11171864 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
11171813 AAGGCTCAAG
* *
11171823 AATTTT AATTTT GA-TTT GATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT A
11171865 TTGTTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:11171846 original size:17 final size:17
Alignment explanation
Indices: 11171824--11171856 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11171814 AGGCTCAAGA
*
11171824 ATTTTAATTTTGATTTG
1 ATTTTAATTTTAATTTG
11171841 ATTTTAATTTTAATTT
1 ATTTTAATTTTAATTT
11171857 TAATTTTATT
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:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTTAATTTG
Found at i:11173570 original size:44 final size:44
Alignment explanation
Indices: 11173516--11173600 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
11173506 CATGATTATT
*
11173516 AATATATTTATTTGTGTGATTTGTTAATATATTTGCATGATTGA
1 AATATATTTATTTGTGTGATTTATTAATATATTTGCATGATTGA
* *
11173560 AATATGTTTATTTGTGTTATTTATTAATATATTTGCATGAT
1 AATATATTTATTTGTGTGATTTATTAATATATTTGCATGAT
11173601 ATGCTGATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.54
Consensus pattern (44 bp):
AATATATTTATTTGTGTGATTTATTAATATATTTGCATGATTGA
Found at i:11173663 original size:19 final size:19
Alignment explanation
Indices: 11173588--11173709 Score: 70
Period size: 19 Copynumber: 5.9 Consensus size: 19
11173578 ATTTATTAAT
**
11173588 ATATTTGCATGATATGCTG
1 ATATTTGCATGATATTTTG
11173607 ATATTTGCATGATATTTTTGCATG
1 ATATTTGCATGATA--TTT---TG
11173631 ATTGATTTTAGCATGATATTTTG
1 A-T-A-TTT-GCATGATATTTTG
*
11173654 ATATTTGCATGAT-TGTGTG
1 ATATTTGCATGATAT-TTTG
*
11173673 ATATATTGTCATAATATTTATG
1 ATAT-TTG-CATGATATTT-TG
11173695 ATATTT--ATGATATTT
1 ATATTTGCATGATATTT
11173710 GCATGATTGC
Statistics
Matches: 83, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
18 9 0.11
19 28 0.34
20 6 0.07
21 10 0.12
22 8 0.10
23 3 0.04
24 3 0.04
25 1 0.01
26 4 0.05
27 3 0.04
28 8 0.10
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (19 bp):
ATATTTGCATGATATTTTG
Found at i:11176274 original size:31 final size:31
Alignment explanation
Indices: 11176233--11176294 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
11176223 AGGGATGAGC
* * *
11176233 ATGAATTTTTTGGTGGAGTATGAATTTTTTG
1 ATGAACTTTTTGGTGGAATATGAACTTTTTG
11176264 ATGAACTTTTTGGTGGAATATGAACTTTTTG
1 ATGAACTTTTTGGTGGAATATGAACTTTTTG
11176295 GTGGGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (31 bp):
ATGAACTTTTTGGTGGAATATGAACTTTTTG
Found at i:11176620 original size:39 final size:39
Alignment explanation
Indices: 11176556--11176631 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
11176546 TTTTATTCTT
*
11176556 ATTTTATTTTTTGATTTTCATTTATT-TTCATATTTTAAG
1 ATTTTATTTTTAGATTTTCATTTATTATTC-TATTTTAAG
11176595 ATTTTATTTTTAG-TTTT-ATAATTATTATTCTATTTTA
1 ATTTTATTTTTAGATTTTCAT--TTATTATTCTATTTTA
11176632 CTGGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.06
38 4 0.12
39 24 0.73
40 3 0.09
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (39 bp):
ATTTTATTTTTAGATTTTCATTTATTATTCTATTTTAAG
Found at i:11181942 original size:120 final size:119
Alignment explanation
Indices: 11181399--11182037 Score: 353
Period size: 119 Copynumber: 5.4 Consensus size: 119
11181389 GCATCGTCCC
* * * * * * * * ***
11181399 AGTCATCTAATCTTGGCTCAAG-CCAGATCATTTCCTAACTTGCAATTTCATCTTGATCATTTAT
1 AGTCATTTGATCTTGGCTC-AGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGATCAACCAT
* ** * *
11181463 CTTTGACCTTGACTC-GATTTTGGTCACTTTATCTTTAGACTCATAGTTTTATCTT
65 CTTTGACCTCGACTCAG-TCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTT
* * * * * * * ** * * * *
11181518 GGTTATTCGACCTCGGCTTAGTCCAGATCATTTTCTAACTCATGGTTCTATCTC-AGTTAGCCAT
1 AGTCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGA-TCAACCAT
* * * * **
11181582 CTTCGACCTCGACTCAGTCATTGCCACTTTATCTTTAGACTTGCA-A-TTTCATTCC
65 CTTTGACCTCGACTCAGTCCTGGTCACTTTATCTTTAGAC-T-CATAGTTTCATTTT
* ** * * * * * * * *** * * *
11181637 GGTCATTCAATCTTGGATTAGTCCATATCATTTTCTAACTTGTGGTTTTGTCCCGATTAGCCATC
1 AGTCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGATCAACCATC
** ** * * * * ** * * *
11181702 TTCAACCTTAACTC-GATCCTGGTTATTTTATCCTTGGACTTGTAATTTTATCTT
66 TTTGACCTCGACTCAG-TCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTT
* * * * * *
11181756 GGTCATTCGATCTTGGCTCAGCCCAGATCATTCT-TGACTCACGATTCCATCTCGATCAATCATC
1 AGTCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGATCAACCATC
* * ** * *
11181820 TTTGACCTTGGCTC-GATCCTGGTTGCTTTATCTTTTAGACTCGTAGTTTCGTTTT
66 TTTGACCTCGACTCAG-TCCTGGTCACTTTATC-TTTAGACTCATAGTTTCATTTT
* *
11181875 -GATCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATTTTGATCAACCAT
1 AG-TCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGATCAACCAT
* *
11181939 CTTTGACCTCGACTCAGTTCTGGTCACTTTATCTTTAGACTCATGGTTTCATTTT
65 CTTTGACCTCGACTCAGTCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTT
* * * * *
11181994 AGTCATTTGTTCTAGACTCAGTTCTA-ATCATTTCCTGACTCGCG
1 AGTCATTTGATCTTGGCTCAG-TCCAGATCATTTTCTGACTCGCG
11182038 GCTTCGTTTT
Statistics
Matches: 396, Mismatches: 109, Indels: 30
0.74 0.20 0.06
Matches are distributed among these distances:
118 51 0.13
119 283 0.71
120 59 0.15
121 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (119 bp):
AGTCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATCTCGATCAACCATC
TTTGACCTCGACTCAGTCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTT
Found at i:11182048 original size:119 final size:119
Alignment explanation
Indices: 11181758--11182093 Score: 322
Period size: 119 Copynumber: 2.8 Consensus size: 119
11181748 TTTATCTTGG
* * * * * * * *
11181758 TCATTCGATCTTGGCTCAGCCCAGATCA-TTCTTGACTCACGATTCCATCTCGATCAATCATCTT
1 TCATTTGATCTAGACTCAGTCCAGATCATTTCCTGACTCGCGATTCCATTTTGATCAATCATCTT
* ** * *
11181822 TGACCTTGGCTC-GATCCTGGTTGCTTTATCTTTTAGACTCGTAGTTTCGTTTTGA
66 TGACCTTGACTCAG-TCCTGGTCACTTTATC-TTTAGACTCATAGTTTCATTTTGA
* * * *
11181877 TCATTTGATCTTGGCTCAGTCCAGATCATTTTCTGACTCGCGATTCCATTTTGATCAACCATCTT
1 TCATTTGATCTAGACTCAGTCCAGATCATTTCCTGACTCGCGATTCCATTTTGATCAATCATCTT
* * *
11181942 TGACCTCGACTCAGTTCTGGTCACTTTATCTTTAGACTCATGGTTTCATTTT-A
66 TGACCTTGACTCAGTCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTTGA
* * * * * *
11181995 GTCATTTGTTCTAGACTCAGTTCTA-ATCATTTCCTGACTCGCGGCTT-CGTTTTGGTCAGTCAT
1 -TCATTTGATCTAGACTCAG-TCCAGATCATTTCCTGACTCGC-GATTCCATTTTGATCAATCAT
** * *
11182058 CTTCAATCTTGACTTAGTCCTGGTCACTTTATCTTT
63 CTTTGACCTTGACTCAGTCCTGGTCACTTTATCTTT
11182094 CCAAACTTGC
Statistics
Matches: 180, Mismatches: 32, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
118 1 0.01
119 119 0.66
120 59 0.33
121 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (119 bp):
TCATTTGATCTAGACTCAGTCCAGATCATTTCCTGACTCGCGATTCCATTTTGATCAATCATCTT
TGACCTTGACTCAGTCCTGGTCACTTTATCTTTAGACTCATAGTTTCATTTTGA
Found at i:11182150 original size:61 final size:61
Alignment explanation
Indices: 11182063--11182199 Score: 202
Period size: 61 Copynumber: 2.2 Consensus size: 61
11182053 GTCATCTTCA
* * *
11182063 ATCTTGACTTAGTCCTGGTCACTTTATCTTTCCAAACTTGCGGCTTCATCTCAGTCATTCG
1 ATCTTGACTTAGTCCTGGTCACTTTATCTTTCCAAAATTACGGCATCATCTCAGTCATTCG
* * * *
11182124 ATCTTGACTTGGTCTTGGTCATTTTATCTTTTCAAAATTACGGCATCATCTCAGTCATTCG
1 ATCTTGACTTAGTCCTGGTCACTTTATCTTTCCAAAATTACGGCATCATCTCAGTCATTCG
*
11182185 ATCTCGACTTAGTCC
1 ATCTTGACTTAGTCC
11182200 AAATCATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (61 bp):
ATCTTGACTTAGTCCTGGTCACTTTATCTTTCCAAAATTACGGCATCATCTCAGTCATTCG
Found at i:11182255 original size:37 final size:37
Alignment explanation
Indices: 11182184--11182257 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
11182174 TCAGTCATTC
* * * **
11182184 GATCTCGACTTAGTCCAAATCATTTTTTTTACTTTTT
1 GATCTCGACTCAGTCCAAATCATCTTCTCGACTTTTT
11182221 GATCTCGACTCAGTCCAAATCATCTTCTCGACTTTTT
1 GATCTCGACTCAGTCCAAATCATCTTCTCGACTTTTT
11182258 AATTTCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (37 bp):
GATCTCGACTCAGTCCAAATCATCTTCTCGACTTTTT
Found at i:11183312 original size:13 final size:12
Alignment explanation
Indices: 11183296--11183356 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 12
11183286 TGCTTTTTCA
11183296 TTTTTATTTTAT
1 TTTTTATTTTAT
11183308 TTTTTATTTTCAT
1 TTTTTATTTT-AT
* *
11183321 ATTTTATTTTTAG
1 TTTTTA-TTTTAT
11183334 TTTTT-TTTTAT
1 TTTTTATTTTAT
*
11183345 TATTCTATTTTA
1 T-TTTTATTTTA
11183357 CTGGTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
11 6 0.15
12 13 0.32
13 17 0.43
14 4 0.10
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:11183325 original size:25 final size:24
Alignment explanation
Indices: 11183289--11183356 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
11183279 TAAGGCTTGC
*
11183289 TTTTTCAT-TTTTATTTTATTTTT
1 TTTTTCATATTTTATTTTAGTTTT
11183312 TATTTTCATATTTTATTTTTAGTTTT
1 T-TTTTCATATTTTA-TTTTAGTTTT
*
11183338 TTTTT-ATTATTCTATTTTA
1 TTTTTCA-TATTTTATTTTA
11183357 CTGGTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.03
24 13 0.33
25 15 0.38
26 10 0.26
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTTTCATATTTTATTTTAGTTTT
Found at i:11183343 original size:30 final size:31
Alignment explanation
Indices: 11183290--11183356 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
11183280 AAGGCTTGCT
*
11183290 TTTTCATTTTTATTTTATTTTTTATT-TTCATA
1 TTTT-ATTTTTAGTTTATTTTTTATTATTC-TA
11183322 TTTTATTTTTAGTTT-TTTTTTATTATTCTA
1 TTTTATTTTTAGTTTATTTTTTATTATTCTA
11183352 TTTTA
1 TTTTA
11183357 CTGGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 16 0.48
31 13 0.39
32 4 0.12
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (31 bp):
TTTTATTTTTAGTTTATTTTTTATTATTCTA
Found at i:11183662 original size:4 final size:4
Alignment explanation
Indices: 11183653--11183677 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11183643 ATAAAATATT
11183653 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
11183678 TTTTTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:11185490 original size:63 final size:62
Alignment explanation
Indices: 11185386--11185505 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 62
11185376 TATTTAGAAA
*
11185386 TTTTTTTATTATTATTTTTATTTATAAAATTTTCACAATTTGGGTCAATTTAGAAAATTATC
1 TTTTTTTATTATTATTTTTATTTATAAAATTTTCACAATTTGGGTCAATTTAAAAAATTATC
* * *
11185448 TTTTTATTTTTATT-TTTTTAATTTCTAAATTTTTCACAATTTGGGTCAATTTAAAAAA
1 TTTTT-TTATTATTATTTTT-ATTTATAAAATTTTCACAATTTGGGTCAATTTAAAAAA
11185506 ATTTTTAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
62 10 0.19
63 42 0.81
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.56
Consensus pattern (62 bp):
TTTTTTTATTATTATTTTTATTTATAAAATTTTCACAATTTGGGTCAATTTAAAAAATTATC
Found at i:11186032 original size:24 final size:26
Alignment explanation
Indices: 11185978--11186033 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
11185968 AAATTTAGAG
*
11185978 AAATTTCTCATTTAGAGATTTCTTAA
1 AAATTTCTCATTTAGAAATTTCTTAA
11186004 AAATTTAC-CATTTA-AAATTT-TTAA
1 AAATTT-CTCATTTAGAAATTTCTTAA
11186028 AAATTT
1 AAATTT
11186034 TATCATTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 10 0.36
25 5 0.18
26 12 0.43
27 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (26 bp):
AAATTTCTCATTTAGAAATTTCTTAA
Found at i:11187100 original size:4 final size:4
Alignment explanation
Indices: 11187091--11187151 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
11187081 ATAAACCCAA
* * * * *
11187091 AAAT AAAT AAGT AAAT AGAT AAAT AAA- GAGT AAAT AGAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
11187138 -AAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAA
11187152 ATGTAGAATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 4 0.09
4 41 0.91
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11187124 original size:19 final size:19
Alignment explanation
Indices: 11187100--11187151 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
11187090 AAAATAAATA
11187100 AGTAAATAGATAAATAAAG
1 AGTAAATAGATAAATAAAG
*
11187119 AGTAAATAGATAAATAAAT
1 AGTAAATAGATAAATAAAG
* *
11187138 AATAAATAAATAAA
1 AGTAAATAGATAAA
11187152 ATGTAGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (19 bp):
AGTAAATAGATAAATAAAG
Found at i:11187542 original size:81 final size:81
Alignment explanation
Indices: 11187445--11187834 Score: 331
Period size: 81 Copynumber: 4.7 Consensus size: 81
11187435 TTCAACGACT
* ** * *
11187445 TTTGAAAAATAAAGGCTTCTCTAAGCAGAGGCTCAACAACTTTTGGAAAATAAAGGCTATTCTAA
1 TTTGAAAAAAAAAGGCTTCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAAGGCTCTTCTAA
*
11187510 ATAGAAGCTCAATAAC
66 ACAGAAGCTCAATAAC
* * ** *
11187526 TTTGAAAAAGAAAGGCTTATCTAATTAGAGGCTCAATGACTTTTGAAAAATAAAGGCTCCTCTAA
1 TTTGAAAAAAAAAGGCTTCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAAGGCTCTTCTAA
11187591 ACA-AAGGCTC-ATCAAC
66 ACAGAA-GCTCAAT-AAC
* * * ***
11187607 TTTGAAAAATAAACGC-TCTTCTAATTAGAGGCTCAACAACTTTAGAAAAATAAATAATCCTTCT
1 TTTGAAAAAAAAAGGCTTC-TCTAATTAGAGGCTCAACAACTTTTGAAAAATAAAGGCT-C-T-T
* * *
11187671 CTAATCAGAGGCTTAATAAC
62 CTAAACAGAAGCTCAATAAC
* * *
11187691 TTTTGGAAAATAAATAAGGCTCCTCTAAATAGAGACTCAACAAC-TTTGAAAAATAAATAAGGCT
1 -TTT-GAAAA-AAA-AAGGCTTCTCTAATTAGAGGCTCAACAACTTTTGAAAAAT--A-AAGGCT
* * *
11187755 CTTCCAAACAGAGGCTCAACAAC
59 CTTCTAAACAGAAGCTCAATAAC
* * *
11187778 TTTGAAAAATAAATAAAGCTTCTCTAATCAGA-GCTCAACTACTTTTGAAAAAATAAA
1 TTTG-AAAA-AAA-AAGGCTTCTCTAATTAGAGGCTCAACAACTTTTG-AAAAATAAA
11187835 TAAGACTACT
Statistics
Matches: 248, Mismatches: 42, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
80 5 0.02
81 112 0.45
82 1 0.00
84 15 0.06
85 16 0.06
86 35 0.14
87 34 0.14
88 24 0.10
89 3 0.01
90 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (81 bp):
TTTGAAAAAAAAAGGCTTCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAAGGCTCTTCTAA
ACAGAAGCTCAATAAC
Found at i:11187560 original size:40 final size:40
Alignment explanation
Indices: 11187445--11187790 Score: 270
Period size: 41 Copynumber: 8.3 Consensus size: 40
11187435 TTCAACGACT
** *
11187445 TTTGAAAAATAAAGGCTTCTCTAAGCAGAGGCTCAACAAC
1 TTTGAAAAATAAAGGCTTCTCTAAATAGAGGCTCAATAAC
* *
11187485 TTTTGGAAAATAAAGGCTAT-TCTAAATAGAAGCTCAATAAC
1 -TTTGAAAAATAAAGGCT-TCTCTAAATAGAGGCTCAATAAC
* * * *
11187526 TTTGAAAAAGAAAGGCTTATCTAATTAGAGGCTCAATGAC
1 TTTGAAAAATAAAGGCTTCTCTAAATAGAGGCTCAATAAC
* * *
11187566 TTTTGAAAAATAAAGGCTCCTCTAAACAAAGGCTC-ATCAAC
1 -TTTGAAAAATAAAGGCTTCTCTAAATAGAGGCTCAAT-AAC
* * *
11187607 TTTGAAAAATAAACGC-TCTTCTAATTAGAGGCTCAACAAC
1 TTTGAAAAATAAAGGCTTC-TCTAAATAGAGGCTCAATAAC
** *
11187647 TTTAGAAAAATAAATAATCCTTCTCT-AATCAGAGGCTTAATAAC
1 TTT-GAAAAAT--A-AAGGCTTCTCTAAAT-AGAGGCTCAATAAC
* * * *
11187691 TTTTGGAAAATAAATAAGGCTCCTCTAAATAGAGACTCAACAAC
1 -TTT-GAAAA-ATA-AAGGCTTCTCTAAATAGAGGCTCAATAAC
* * *
11187735 TTTGAAAAATAAATAAGGC-TCTTCCAAACAGAGGCTCAACAAC
1 TTTGAAAAAT--A-AAGGCTTC-TCTAAATAGAGGCTCAATAAC
11187778 TTTGAAAAATAAA
1 TTTGAAAAATAAA
11187791 TAAAGCTTCT
Statistics
Matches: 246, Mismatches: 41, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
39 2 0.01
40 70 0.28
41 73 0.30
42 7 0.03
43 41 0.17
44 39 0.16
45 13 0.05
46 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (40 bp):
TTTGAAAAATAAAGGCTTCTCTAAATAGAGGCTCAATAAC
Found at i:11187744 original size:43 final size:43
Alignment explanation
Indices: 11187382--11188020 Score: 460
Period size: 43 Copynumber: 15.0 Consensus size: 43
11187372 AAAAGTCTCT
* * * *
11187382 TAAATAGAAGCTC-ACAACTTTTGGAAAATAAATAAAGCTTAC-C
1 TAAATAGAGGCTCAACAAC-TTTGAAAAATAAATAAGGC-TCCTC
* * * *
11187425 T-AATCAGAAGTTCAACGACTTTTGAAAAAT--A-AAGGCTTCTC
1 TAAAT-AGAGGCTCAACAAC-TTTGAAAAATAAATAAGGCTCCTC
** * **
11187466 TAAGCAGAGGCTCAACAACTTTTGGAAAAT--A-AAGGCTATTC
1 TAAATAGAGGCTCAACAAC-TTTGAAAAATAAATAAGGCTCCTC
* * * **
11187507 TAAATAGAAGCTCAATAACTTTG-AAAA-AGA-AAGGCTTATC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
* **
11187547 TAATTAGAGGCTCAATGACTTTTGAAAAAT--A-AAGGCTCCTC
1 TAAATAGAGGCTCAACAAC-TTTGAAAAATAAATAAGGCTCCTC
* * * * *
11187588 TAAACAAAGGCTCATCAACTTTGAAAAAT--A-AACGCTCTTC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
* ** *
11187628 TAATTAGAGGCTCAACAACTTTAGAAAAATAAATAATCCTTCTC
1 TAAATAGAGGCTCAACAACTTT-GAAAAATAAATAAGGCTCCTC
* * *
11187672 T-AATCAGAGGCTTAATAACTTTTGGAAAATAAATAAGGCTCCTC
1 TAAAT-AGAGGCTCAACAAC-TTTGAAAAATAAATAAGGCTCCTC
* *
11187716 TAAATAGAGACTCAACAACTTTGAAAAATAAATAAGGCTCTTC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
* * * *
11187759 CAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTTCTC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
* * *
11187802 T-AATCAGA-GCTCAACTACTTTTGAAAAAATAAATAAGACTACTC
1 TAAAT-AGAGGCTCAACAAC-TTTG-AAAAATAAATAAGGCTCCTC
* * *
11187846 T-AATCAAAGGCTCAACGACTTTTGGAAAAGTAAATAAGGCTCCTC
1 TAAAT-AGAGGCTCAACAAC-TTT-GAAAAATAAATAAGGCTCCTC
* * * *
11187891 CAAACAGAGGCTCAACGACTTTGAAAAATAAATAAGGCTCTTC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
* * ** *
11187934 T-AATCAGAGGCTCAACGACTTGGAAAAATAAATAAAACTCCTT
1 TAAAT-AGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
** *
11187977 TAAGCAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTCCTC
1 TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
11188020 T
1 T
11188021 GCAATCATAT
Statistics
Matches: 485, Mismatches: 87, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
39 4 0.01
40 68 0.14
41 84 0.17
42 22 0.05
43 165 0.34
44 90 0.19
45 49 0.10
46 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (43 bp):
TAAATAGAGGCTCAACAACTTTGAAAAATAAATAAGGCTCCTC
Found at i:11187918 original size:175 final size:174
Alignment explanation
Indices: 11187451--11188011 Score: 591
Period size: 175 Copynumber: 3.3 Consensus size: 174
11187441 GACTTTTGAA
* * * *
11187451 AAATAAAGGCTTCTCTAAGCAGAGGCTCAACAACTTTTGGAAAAT--A-AAGGCTATTCTAAAT-
1 AAATAAA-GCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGACTACTCT-AATC
* * ** * ** *
11187512 AGAA-GCTCAATAAC-TTT-GAAAA-AGA-AAGGCTTATCTAATTAGAGGCTCAATGACTTTTGA
64 A-AAGGCTCAACAACTTTTGGAAAATAAATAAGGCTCCTCCAAACAGAGGCTCAACGAC-TTTGA
* * *
11187572 AAAAT--A-AAGGCTCCTCTAAACAAAGGCTCATCAACTTTGAAAAAT
127 AAAATAAATAAGGCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAAT
* * * ** *
11187617 --A-AACGC-TCTTCTAATTAGAGGCTCAACAACTTTAGAAAAATAAATAATCCTTCTCTAATCA
1 AAATAAAGCTTC-TCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGACTACTCTAATCA
* * * * * * *
11187678 GAGGCTTAATAACTTTTGGAAAATAAATAAGGCTCCTCTAAATAGAGACTCAACAACTTTGAAAA
65 AAGGCTCAACAACTTTTGGAAAATAAATAAGGCTCCTCCAAACAGAGGCTCAACGACTTTGAAAA
*
11187743 ATAAATAAGGCTCTTCCAAACAGAGGCTCAACAACTTTGAAAAAT
130 ATAAATAAGGCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAAT
*
11187788 AAATAAAGCTTCTCTAATCAGA-GCTCAACTACTTTTGAAAAAATAAATAAGACTACTCTAATCA
1 AAATAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTG-AAAAATAAATAAGACTACTCTAATCA
*
11187852 AAGGCTCAACGACTTTTGGAAAAGTAAATAAGGCTCCTCCAAACAGAGGCTCAACGACTTTGAAA
65 AAGGCTCAACAACTTTTGGAAAA-TAAATAAGGCTCCTCCAAACAGAGGCTCAACGACTTTGAAA
* * *
11187917 AATAAATAAGGCTCTTCTAATCAGAGGCTCAACGACTTGGAAAAAT
129 AATAAATAAGGCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAAT
* * * *
11187963 AAATAAAACTCCTTTAAGCAGAGGCTCAACAAC-TTTGAAAAATAAATAA
1 AAATAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAA
11188012 AGCTCCTCTG
Statistics
Matches: 329, Mismatches: 46, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
161 2 0.01
162 30 0.09
163 2 0.01
164 6 0.02
165 17 0.05
166 3 0.01
167 5 0.02
168 12 0.04
169 23 0.07
170 1 0.00
171 35 0.11
173 14 0.04
174 67 0.20
175 103 0.31
176 9 0.03
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (174 bp):
AAATAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGACTACTCTAATCAA
AGGCTCAACAACTTTTGGAAAATAAATAAGGCTCCTCCAAACAGAGGCTCAACGACTTTGAAAAA
TAAATAAGGCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAAT
Found at i:11188261 original size:21 final size:21
Alignment explanation
Indices: 11188235--11188274 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11188225 ACATTTAAAA
11188235 ATTTGAATTCTGGAGATTCAC
1 ATTTGAATTCTGGAGATTCAC
*
11188256 ATTTGAATTCTGGTGATTC
1 ATTTGAATTCTGGAGATTC
11188275 TCACCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (21 bp):
ATTTGAATTCTGGAGATTCAC
Found at i:11188637 original size:22 final size:21
Alignment explanation
Indices: 11188588--11188671 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
11188578 GGTTTCACAT
*
11188588 CTCAAAGATTCTCATTTTAAA
1 CTCAAAGATTCTCATTTGAAA
*
11188609 CTCAAAGATTCTTATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
* *
11188630 TCTCAAAGATTGTCATTTGATA
1 -CTCAAAGATTCTCATTTGAAA
*
11188652 CTCAAAGATTCTTATTTGAA
1 CTCAAAGATTCTCATTTGAA
11188672 GCCTTAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
21 36 0.67
22 18 0.33
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:11188637 original size:43 final size:43
Alignment explanation
Indices: 11188586--11188671 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
11188576 AGGGTTTCAC
*
11188586 ATCTCAAAGATTCTCATTTTAAACTCAAAGATTCTTATTTGAA
1 ATCTCAAAGATTCTCATTTGAAACTCAAAGATTCTTATTTGAA
* *
11188629 ATCTCAAAGATTGTCATTTGATACTCAAAGATTCTTATTTGAA
1 ATCTCAAAGATTCTCATTTGAAACTCAAAGATTCTTATTTGAA
11188672 GCCTTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (43 bp):
ATCTCAAAGATTCTCATTTGAAACTCAAAGATTCTTATTTGAA
Found at i:11189840 original size:8 final size:8
Alignment explanation
Indices: 11189829--11189871 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
11189819 TTTTTTCTCT
11189829 TTTTTTAA
1 TTTTTTAA
11189837 TTTTTTAA
1 TTTTTTAA
11189845 TTTTTTAA
1 TTTTTTAA
* *
11189853 TTTGTTCA
1 TTTTTTAA
11189861 TTTTTT-A
1 TTTTTTAA
11189868 TTTT
1 TTTT
11189872 ATTTTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 5 0.16
8 27 0.84
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:11189890 original size:8 final size:8
Alignment explanation
Indices: 11189815--11189892 Score: 51
Period size: 8 Copynumber: 10.2 Consensus size: 8
11189805 AATTTGAGTC
11189815 TTCATTTTT
1 TTCA-TTTT
*
11189824 TCTCTTTTT
1 T-TCATTTT
*
11189833 TTAATTTT
1 TTCATTTT
*
11189841 TTAATTTT
1 TTCATTTT
* *
11189849 TTAATTTG
1 TTCATTTT
11189857 TTCATTTT
1 TTCATTTT
11189865 TT-A--TT
1 TTCATTTT
11189870 TT-A-TTT
1 TTCATTTT
11189876 TTC-TTTT
1 TTCATTTT
11189883 TTCATTTT
1 TTCATTTT
11189891 TT
1 TT
11189893 TCCTTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
5 5 0.09
6 4 0.07
7 7 0.12
8 34 0.59
9 6 0.10
10 2 0.03
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (8 bp):
TTCATTTT
Found at i:11189892 original size:10 final size:10
Alignment explanation
Indices: 11189879--11189917 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
11189869 TTTATTTTTC
11189879 TTTTTTCATT
1 TTTTTTCATT
* *
11189889 TTTTTCCTTT
1 TTTTTTCATT
*
11189899 TTTTTTCTTT
1 TTTTTTCATT
11189909 TTTTTTCAT
1 TTTTTTCAT
11189918 CCATTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:11189892 original size:16 final size:15
Alignment explanation
Indices: 11189818--11189914 Score: 54
Period size: 16 Copynumber: 5.9 Consensus size: 15
11189808 TTGAGTCTTC
11189818 ATTTTTTCTCTTTTTTT
1 ATTTTTT-TC-TTTTTT
**
11189835 AATTTTTTAATTTTTT
1 -ATTTTTTTCTTTTTT
* *
11189851 AATTTGTTCATTTTTT
1 ATTTTTTTC-TTTTTT
11189867 ATTTTATTTTTCTTTTTT
1 A--TT-TTTTTCTTTTTT
11189885 CATTTTTTTCCTTTTTT
1 -ATTTTTTT-CTTTTTT
11189902 -TTTCTTTT-TTTTT
1 ATTT-TTTTCTTTTT
11189915 CATCCATTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.08
15 8 0.12
16 22 0.34
17 9 0.14
18 14 0.22
19 6 0.09
ACGTcount: A:0.11, C:0.08, G:0.01, T:0.79
Consensus pattern (15 bp):
ATTTTTTTCTTTTTT
Found at i:11189893 original size:27 final size:26
Alignment explanation
Indices: 11189815--11189911 Score: 76
Period size: 27 Copynumber: 3.8 Consensus size: 26
11189805 AATTTGAGTC
* *
11189815 TTCA-TTTTTTCTCTTTTTTTAATTTT
1 TTCATTTTTTTTTC-TTTTTTCATTTT
* ** *
11189841 TT-A-ATTTTTTAATTTGTTCATTTT
1 TTCATTTTTTTTTCTTTTTTCATTTT
11189865 TT-ATTTTATTTTTCTTTTTTCATTTTT
1 TTCATTTT-TTTTTCTTTTTTCA-TTTT
*
11189892 TTCCTTTTTTTTTCTTTTTT
1 TTCATTTTTTTTTCTTTTTT
11189912 TTTCATCCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
24 13 0.23
25 8 0.14
26 13 0.23
27 18 0.32
28 4 0.07
ACGTcount: A:0.11, C:0.09, G:0.01, T:0.78
Consensus pattern (26 bp):
TTCATTTTTTTTTCTTTTTTCATTTT
Found at i:11190336 original size:31 final size:32
Alignment explanation
Indices: 11190274--11190336 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
11190264 GGCATTCATT
* *** *
11190274 TTTTTTTCTCTTTCTTTTTTTACTTTGTTTTA
1 TTTTTTTCTCTTTCTATTTTTAAGATCTTTTA
11190306 TTTTTTT-TCTTTCTATTTTTAAGATCTTTTA
1 TTTTTTTCTCTTTCTATTTTTAAGATCTTTTA
11190337 CAATCTTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTTTTTCTCTTTCTATTTTTAAGATCTTTTA
Found at i:11196291 original size:15 final size:15
Alignment explanation
Indices: 11196273--11196308 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11196263 TTCTTTTCAA
**
11196273 ATCTTTTATTTTTAT
1 ATCTTTTATCATTAT
11196288 ATCTTTTATCATTAT
1 ATCTTTTATCATTAT
11196303 ATCTTT
1 ATCTTT
11196309 GATAAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (15 bp):
ATCTTTTATCATTAT
Found at i:11198304 original size:17 final size:16
Alignment explanation
Indices: 11198282--11198320 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11198272 TATTTTCTTG
*
11198282 ATTTTTTGTCTTTTCAA
1 ATTTTTTAT-TTTTCAA
*
11198299 ATTTTTTATTTTTGAA
1 ATTTTTTATTTTTCAA
11198315 ATTTTT
1 ATTTTT
11198321 GTGATTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (16 bp):
ATTTTTTATTTTTCAA
Found at i:11200614 original size:57 final size:56
Alignment explanation
Indices: 11200471--11200732 Score: 289
Period size: 57 Copynumber: 4.5 Consensus size: 56
11200461 TTGTGTAGAA
* * *
11200471 AAAATTGATACTTTCAAC-TTTTCCCTAGAATATTTTTTTT-AGAAACTTTAATTTGAAGG
1 AAAATTGATACTTTCAACTTTTTCTC-A-AA-ATTTTTTTTGA-AAAC-TTATTTTTAAGG
11200530 AAAATTGATACTTTCAA-TTTTTCCTCAAAATTTATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTT-CTCAAAATTT-TTTTTGAAAACTTATTTTTAAGG
* *** *
11200587 AAAATTGATACTTTTAACTTTTTCTCAAGAACCCTTTTTGAAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAA-AATTTTTTTTGAAAACTTATTTTTAAGG
* * *
11200644 AAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTAGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTTCT-C-AAAAT-TTTTTTT-GAAAACTTATTTTTAAGG
11200703 AAAATTGATACTTTCAACTTTTTCTCAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAA
11200733 ATATCTTGTT
Statistics
Matches: 176, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
56 6 0.03
57 77 0.44
58 29 0.16
59 56 0.32
60 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAATTTTTTTTGAAAACTTATTTTTAAGG
Found at i:11200732 original size:59 final size:57
Alignment explanation
Indices: 11200471--11200766 Score: 282
Period size: 59 Copynumber: 5.1 Consensus size: 57
11200461 TTGTGTAGAA
* * * * * *
11200471 AAAATTGATACTTTCAAC-TTTTCCCTAGAATATTTTTTTTAGAAACTTTAATTTGAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGA-AAAC-TT-ATTTTAAAG
*
11200530 AAAATTGATACTTTCAA-TTTTTCCTC-AAAAT-TTATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTT-CTCAAAAATATT-TTTTTGAAAACTTA-TTTTAAAG
* * *** *
11200587 AAAATTGATACTTTTAACTTTTTCTCAAGAA-CCCTTTTTGAAAACTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTATTTTAAAG
*
11200643 AAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTAGAAAGCTTATTTTCAAAG
1 -AAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTT-GAAAACTTATTTT-AAAG
**
11200703 AAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTGTTTGTGAAATTTTA-TTTAAAG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TT-TTT-TGAAAACTTATTTTAAAG
11200762 AAAAT
1 AAAAT
11200767 AAAAAAAATA
Statistics
Matches: 202, Mismatches: 19, Indels: 32
0.80 0.08 0.13
Matches are distributed among these distances:
56 13 0.06
57 64 0.32
58 19 0.09
59 79 0.39
60 16 0.08
61 10 0.05
62 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTATTTTAAAG
Found at i:11200770 original size:5 final size:5
Alignment explanation
Indices: 11200762--11200825 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
11200752 TTATTTAAAG
*
11200762 AAAAT AAAA- AAAAT AAAAAAT AAAAT AAAAAT GGAAAT -AAA- AAAAT
1 AAAAT AAAAT AAAAT --AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT
11200808 AAAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
11200826 AGTATTAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
4 14 0.28
5 22 0.44
6 9 0.18
7 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:11200788 original size:12 final size:13
Alignment explanation
Indices: 11200767--11200825 Score: 63
Period size: 14 Copynumber: 4.7 Consensus size: 13
11200757 TAAAGAAAAT
11200767 AAAA-AAAAT-AA
1 AAAATAAAATAAA
11200778 AAAATAAAAT--A
1 AAAATAAAATAAA
*
11200789 AAAATGGAAATAAA
1 AAAAT-AAAATAAA
11200803 AAAATAAAATAAA
1 AAAATAAAATAAA
11200816 TAAAATAAAA
1 -AAAATAAAA
11200826 AGTATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.24
12 9 0.22
13 7 0.17
14 15 0.37
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:11200817 original size:34 final size:33
Alignment explanation
Indices: 11200763--11200826 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
11200753 TATTTAAAGA
11200763 AAATAAAAAAAATAAAAAATAAAATAAAAATGG
1 AAATAAAAAAAATAAAAAATAAAATAAAAATGG
11200796 AAAT-AAAAAAATAAAATAAATAAAATAAAAA
1 AAATAAAAAAAAT-AAA-AAATAAAATAAAAA
11200827 GTATTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 8 0.28
33 7 0.24
34 14 0.48
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (33 bp):
AAATAAAAAAAATAAAAAATAAAATAAAAATGG
Found at i:11200838 original size:22 final size:22
Alignment explanation
Indices: 11200762--11200826 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 22
11200752 TTATTTAAAG
*
11200762 AAAATAAAAAAAAT-AAAAAAT
1 AAAATAAATAAAATAAAAAAAT
*
11200783 AAAATAAAAATGGAAATAAAAAAAT
1 AAAAT--AAAT-AAAATAAAAAAAT
11200808 AAAATAAATAAAATAAAAA
1 AAAATAAATAAAATAAAAA
11200827 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.14
22 9 0.24
23 7 0.19
24 4 0.11
25 12 0.32
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAATAAATAAAATAAAAAAAT
Found at i:11200872 original size:18 final size:19
Alignment explanation
Indices: 11200846--11200886 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11200836 AATTCTAATC
11200846 TAATCAATAAATATAAT-AA
1 TAATCAATAAATA-AATAAA
11200865 TAAT-AATAAATAAATAAA
1 TAATCAATAAATAAATAAA
11200883 TAAT
1 TAAT
11200887 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.67
19 4 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATCAATAAATAAATAAA
Found at i:11201713 original size:18 final size:17
Alignment explanation
Indices: 11201663--11201728 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
11201653 AAGAAGGAAA
*
11201663 ATAAATCAATAAATAAAG
1 ATAAA-CAATAATTAAAG
* *
11201681 ATAATATATTAATTAATAG
1 ATAA-ACAATAATTAA-AG
11201700 ATAAACAATAATTAACAG
1 ATAAACAATAATTAA-AG
*
11201718 ATAAATAATAA
1 ATAAACAATAA
11201729 CATATAATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 32 0.82
19 7 0.18
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
ATAAACAATAATTAAAG
Found at i:11201769 original size:24 final size:23
Alignment explanation
Indices: 11201706--11201770 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
11201696 ATAGATAAAC
11201706 AATA-ATTAACAGATAAATAATA
1 AATATATTAACAGATAAATAATA
*
11201728 ACATATAATAGACA-ATAAATATATA
1 A-ATATATTA-ACAGATAAATA-ATA
11201753 AATATATTAACAGATAAA
1 AATATATTAACAGATAAA
11201771 ACATACATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 1 0.03
23 6 0.17
24 22 0.61
25 7 0.19
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.28
Consensus pattern (23 bp):
AATATATTAACAGATAAATAATA
Found at i:11201842 original size:7 final size:7
Alignment explanation
Indices: 11201832--11201863 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11201822 AGATAAAGAA
11201832 AAAATAT
1 AAAATAT
11201839 AAAATAT
1 AAAATAT
11201846 -AAA-AT
1 AAAATAT
11201851 AAAATAT
1 AAAATAT
11201858 AAAATA
1 AAAATA
11201864 CAGAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.09
6 6 0.26
7 15 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:11201852 original size:12 final size:12
Alignment explanation
Indices: 11201837--11201863 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11201827 AAGAAAAAAT
11201837 ATAAAATATAAA
1 ATAAAATATAAA
11201849 ATAAAATATAAA
1 ATAAAATATAAA
11201861 ATA
1 ATA
11201864 CAGAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:11201856 original size:19 final size:19
Alignment explanation
Indices: 11201817--11201873 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
11201807 TAATAAATAC
* *
11201817 ATAAAAGATAAAGAAAAAAT
1 ATAAAATATAAA-ATAAAAT
11201837 ATAAAATATAAAATAAAAT
1 ATAAAATATAAAATAAAAT
* *
11201856 ATAAAATACAGAATAAAA
1 ATAAAATATAAAATAAAA
11201874 AAAAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
ATAAAATATAAAATAAAAT
Found at i:11202374 original size:42 final size:42
Alignment explanation
Indices: 11202069--11202467 Score: 425
Period size: 42 Copynumber: 9.4 Consensus size: 42
11202059 TTTGATCAAG
* * * * * * *
11202069 GCTCCTCTAAGCAGAAGCTCAACGATTTTGAAAAACATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG--GAA-ATGAATAAA
* ** *
11202114 GCTCCTTTAATCAG-GTTTCAACGACTTTGAAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
* *
11202155 ACTCCTCTAATCAGAGGCTCAATGACTTT-GAAA--AATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
* *
11202194 TGGCTCTTCTAATCAGAGGCTCAACGATTTTGGAAATGAATAAA
1 --GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
11202238 GCTCCTCTAATCAGAGG--CAACGACTTTGGAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
* *
11202278 GC-CCAATCAGACCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
1 GCTCC--T-----CTAATCAGAGGCTCAACGACTTTG-GAAATGAATAAA
* * *
11202327 GCTCCTCTAATCAGAGGCTCAACAATTTTGGAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
*
11202369 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
*
11202411 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
*
11202453 GCTCCTCTAAACAGA
1 GCTCCTCTAATCAGA
11202468 AGCACCTCAA
Statistics
Matches: 304, Mismatches: 33, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
39 8 0.03
40 24 0.08
41 47 0.15
42 137 0.45
43 22 0.07
44 17 0.06
45 12 0.04
46 11 0.04
48 12 0.04
49 12 0.04
50 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAATGAATAAA
Found at i:11202406 original size:173 final size:171
Alignment explanation
Indices: 11202131--11202454 Score: 499
Period size: 173 Copynumber: 1.9 Consensus size: 171
11202121 TAATCAGGTT
* **
11202131 TCAACGACTTTGAAAATGAATAAAACTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATG
1 TCAACGACTTTGAAAATAAATAAAACTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAA-G
* * *
11202196 GCTCTTCTAATCAGAGGCTCAACGATTTTGGAAATGAATAAAGCTCCTCTAATCAGAGG-CAACG
65 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCCAACG
*
11202260 ACTTTGGAAATGAATAAAGCCCAATCAGACCTAATCAGAGGC
130 ACTTTAGAAATGAATAAAGCCCAATCAGACCTAATCAGAGGC
* *
11202302 TCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACAATTTTGGAAATAAATA
1 TCAACGACTTTG-AAAATAAATAAAACTCCTCTAATCAGAGGCTCAACAACTTT-G-AA-AAATA
11202367 AA-GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTC
62 AAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGC-C
11202431 AACGACTTTAGAAATGAATAAAGC
126 AACGACTTTAGAAATGAATAAAGC
11202455 TCCTCTAAAC
Statistics
Matches: 138, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
171 12 0.09
172 36 0.26
173 57 0.41
174 2 0.01
175 31 0.22
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (171 bp):
TCAACGACTTTGAAAATAAATAAAACTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAGG
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCCAACGA
CTTTAGAAATGAATAAAGCCCAATCAGACCTAATCAGAGGC
Found at i:11202456 original size:215 final size:214
Alignment explanation
Indices: 11202075--11202467 Score: 558
Period size: 215 Copynumber: 1.8 Consensus size: 214
11202065 CAAGGCTCCT
* * * ** *
11202075 CTAAGCAGAAGCTCAACGATTTTGAAAAACATAAACAATGCTCCTTTAATCAGGTTTCAACGACT
1 CTAAGCAGAAGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGGGCTCAACAACT
* * *
11202140 TTGAAAATGAATAAAACTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATGGCTCTTCTA
66 TTGAAAATAAATAAAACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA-GGCTCCTCTA
* * *
11202205 ATCAGAGGCTCAACGATTTTGGAAATGAATAAAGCTCCTCTAATCAGAGGCAACGACTTTGGAAA
130 ATCAGAGGCTCAACGACTTTAGAAATGAATAAAGCTCCTCTAAACAGAGGCAACGACTTTGGAAA
11202270 TGAATAAAGCCCAATCAGAC
195 TGAATAAAGCCCAATCAGAC
* * * *
11202290 CTAATCAGAGGCTCAACGACTTTG-AAAA-ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAAT
1 CTAAGCAGAAGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAG-GGCTCAACAAC
* *
11202353 TTTGGAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA-GCTCCT
65 TTTGAAAATAAATAAAACTCCTCTAATCAGAGGCTCAACGACTTTG-AAA--AATAAAGGCTCCT
11202417 CTAATCAGAGGCTCAACGACTTTAGAAATGAATAAAGCTCCTCTAAACAGA
127 CTAATCAGAGGCTCAACGACTTTAGAAATGAATAAAGCTCCTCTAAACAGA
11202468 AGCACCTCAA
Statistics
Matches: 156, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
213 20 0.13
214 53 0.34
215 77 0.49
217 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (214 bp):
CTAAGCAGAAGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGGGCTCAACAACT
TTGAAAATAAATAAAACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAGGCTCCTCTAA
TCAGAGGCTCAACGACTTTAGAAATGAATAAAGCTCCTCTAAACAGAGGCAACGACTTTGGAAAT
GAATAAAGCCCAATCAGAC
Found at i:11202504 original size:42 final size:41
Alignment explanation
Indices: 11202453--11202582 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 41
11202443 AATGAATAAA
* * *
11202453 GCTCCTCTAAACAGAAGCACCTCAACTTTTGGAAAGTAAATT
1 GCTCCTCTAAATAGAAGCAACTAAAC-TTTGGAAAGTAAATT
** * *
11202495 GCTTTTCTAAATAG-AGGAAATGAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAATAGAAGCAACT-AAACTTTGGAAAGTAAATT
* * *
11202536 GCTCCTCTAAATAGAGGCAACGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAATAGAAGCAACTAAACTTTGGAAAGTAAATT
11202577 GCTCCT
1 GCTCCT
11202583 TGAACAATCA
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
41 55 0.76
42 17 0.24
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (41 bp):
GCTCCTCTAAATAGAAGCAACTAAACTTTGGAAAGTAAATT
Found at i:11202524 original size:126 final size:125
Alignment explanation
Indices: 11202069--11202493 Score: 405
Period size: 127 Copynumber: 3.3 Consensus size: 125
11202059 TTTGATCAAG
* * * * * * **
11202069 GCTCCTCTAAGCAGAAGCTCAACGATTTTGAAAAACATAAACAATGCTCCTTTAATCAG-GTTTC
1 GCTCCTCTAAACAGAAGCACAACAATTTTG--GAA-ATAAATAA-GCTCCTCTAATCAGAGGATC
* * *
11202133 AACGACTTTGAAAATGAATAAAACTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAT--G
62 AAC-ACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
* * * * * *
11202196 GCTCTTCTAATCAGAGGCTCAACGATTTTGGAAATGAATAAAGCTCCTCTAATCAGAGG--CAAC
1 GCTCCTCTAAACAGAAGCACAACAATTTTGGAAATAAAT-AAGCTCCTCTAATCAGAGGATCAAC
*
11202259 GACTTTGGAAATGAATAAAGC-CCAATCAGACCTAATCAGAGGCTCAACGACTTTGAAAAATAAA
65 -ACTTTGAAAATGAATAAAGCTCC--T-----CTAATCAGAGGCTCAACGACTTTGAAAAATAAA
11202323 TAAA
122 TAAA
* * * *
11202327 GCTCCTCTAATCAGAGGCTCAACAATTTTGGAAATAAATAAAGCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAAACAGAAGCACAACAATTTTGGAAATAAAT-AAGCTCCTCTAATCAGAGGATCAAC
* *
11202392 GACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-AGAAATGAATAAA
65 -ACTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
**
11202453 GCTCCTCTAAACAGAAGCACCTCAACTTTTGGAAAGTAAAT
1 GCTCCTCTAAACAGAAGCACAACAA-TTTTGGAAA-TAAAT
11202494 TGCTTTTCTA
Statistics
Matches: 259, Mismatches: 23, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
122 2 0.01
123 23 0.09
124 18 0.07
125 5 0.02
126 31 0.12
127 59 0.23
128 5 0.02
129 33 0.13
131 56 0.22
132 1 0.00
133 24 0.09
134 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (125 bp):
GCTCCTCTAAACAGAAGCACAACAATTTTGGAAATAAATAAGCTCCTCTAATCAGAGGATCAACA
CTTTGAAAATGAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
Found at i:11202532 original size:41 final size:41
Alignment explanation
Indices: 11202480--11202582 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
11202470 CACCTCAACT
** *
11202480 TTTGGAAAGTAAATTGCTTTTCTAAATAGAGGAAATGAAAC
1 TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGAAACGAAAC
*
11202521 TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAAAC
1 TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGAAACGAAAC
*
11202562 TTTGAAAAGTAAATTGCTCCT
1 TTTGGAAAGTAAATTGCTCCT
11202583 TGAACAATCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGAAACGAAAC
Found at i:11204488 original size:13 final size:13
Alignment explanation
Indices: 11204465--11204522 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
11204455 TTTCTCATTA
11204465 TTTTC-TTCTTTT
1 TTTTCTTTCTTTT
11204477 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
*
11204490 TTTTC--T-ATTT
1 TTTTCTTTCTTTT
11204500 TTTTCTTTCATCTTT
1 TTTTCTTTC-T-TTT
11204515 TTTTCTTT
1 TTTTCTTT
11204523 TTTCTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 8 0.21
11 1 0.03
12 6 0.16
13 12 0.32
15 11 0.29
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:11204491 original size:23 final size:24
Alignment explanation
Indices: 11204465--11204525 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
11204455 TTTCTCATTA
*
11204465 TTTTCTTCTTTTTTTTCTTTC-T-
1 TTTTTTTCTTTTTTTTCTTTCATC
11204487 TTTTTTTCTATTTTTTTCTTTCATC
1 TTTTTTTCT-TTTTTTTCTTTCATC
11204512 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
11204526 CTTATTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 8 0.23
23 12 0.34
24 6 0.17
25 9 0.26
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTTTTTTTTCTTTCATC
Found at i:11204493 original size:15 final size:15
Alignment explanation
Indices: 11204475--11204535 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
11204465 TTTTCTTCTT
11204475 TTTTTTCTTTCTTTT-
1 TTTTTTCTTT-TTTTC
* *
11204490 TTTTCTATTTTTTTC
1 TTTTTTCTTTTTTTC
**
11204505 TTTCATCTTTTTTTC
1 TTTTTTCTTTTTTTC
11204520 TTTTTTCTTATTTTTC
1 TTTTTTCTT-TTTTTC
11204536 ATCCATTGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
14 4 0.11
15 27 0.73
16 6 0.16
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:11204506 original size:32 final size:32
Alignment explanation
Indices: 11204446--11204534 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
11204436 TTGAATCTCT
* * *
11204446 TTTTTTTATTTTCTCATTATTTTCTTCTTT-T-
1 TTTTTTTCTTTTTTC-TTATTTTTTTCTTTATC
*
11204477 TTTTCTTTCTTTTTTTTCTATTTTTTTCTTTCATC
1 TTTT-TTTCTTTTTTCT-TATTTTTTTCTTT-ATC
11204512 TTTTTTTCTTTTTTCTTATTTTT
1 TTTTTTTCTTTTTTCTTATTTTT
11204535 CATCCATTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
31 5 0.10
32 20 0.42
33 7 0.15
34 12 0.25
35 4 0.08
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTTTCTTTTTTCTTATTTTTTTCTTTATC
Found at i:11208545 original size:27 final size:27
Alignment explanation
Indices: 11208514--11208603 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
11208504 AATTTCAAGG
11208514 AAAATTGATACTTTCAACTTTTTCTCA
1 AAAATTGATACTTTCAACTTTTTCTCA
* * * * *
11208541 AAAATTCAT-TTTTGAAAACTTATTTTTAA
1 AAAATTGATACTTT--CAACTT-TTTCTCA
*
11208570 GGAAAATTGATACTTTCAACTTTTCCTCA
1 --AAAATTGATACTTTCAACTTTTTCTCA
11208599 AAAAT
1 AAAAT
11208604 ATTTTTTTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
26 3 0.07
27 13 0.28
28 5 0.11
29 9 0.20
30 5 0.11
31 8 0.17
32 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCTCA
Found at i:11208611 original size:58 final size:60
Alignment explanation
Indices: 11208455--11208611 Score: 214
Period size: 58 Copynumber: 2.7 Consensus size: 60
11208445 TTGTGTAGGA
* * *
11208455 AAAATTGATACTTTCAACTTTTCC-CTAGAATATTTTTTTTAGAAACTTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAGAAACTTTAATTTCAAGG
* * * *
11208514 AAAATTGATACTTTCAACTTTTTCTCAAAAAT-TCATTTTTGA-AAAC-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAGAAACTTTAATTTCAAGG
11208572 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
11208612 TTTGAAATTT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 46 0.53
59 29 0.34
60 11 0.13
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAGAAACTTTAATTTCAAGG
Found at i:11208634 original size:58 final size:58
Alignment explanation
Indices: 11208453--11208634 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 58
11208443 TTTTGTGTAG
* * *
11208453 GAAAAATTGATACTTTCAACTTTTCC-CTAGAATATTTTTTTTAGAAACTTTAATTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTTTGAAACTTTTATTT-AA
* * **
11208512 GGAAAATTGATACTTTCAACTTTTTCTCAAAA-ATTCATTTTTGAAAACTTATT-TTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTG-AAACTT-TTATTTAA
*
11208570 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAA-TTTTATTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTTTTGAAACTTTTATTTAA
11208629 -AAAAAT
1 GAAAAAT
11208635 AAAAAAATAA
Statistics
Matches: 105, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
58 44 0.42
59 47 0.45
60 6 0.06
61 8 0.08
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAACTTTTATTTAA
Found at i:11208638 original size:5 final size:5
Alignment explanation
Indices: 11208630--11208697 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
11208620 TTTATTTAAA
* *
11208630 AAAAT -AAA- AAAAT AAAAT AAAAAT GGAAAT AAAA- ATAA- AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT
11208679 AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
11208698 AGTATTAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 12 0.23
5 27 0.51
6 14 0.26
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:11208646 original size:6 final size:6
Alignment explanation
Indices: 11208629--11208698 Score: 74
Period size: 6 Copynumber: 11.8 Consensus size: 6
11208619 TTTTATTTAA
* **
11208629 AAAAAT AAAAAA ATAAAAT AAAAAT GGAAAT AAAAAT AAAAAAT AAAAAT
1 AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
11208679 -AAAAT -AAAAT -AAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
11208699 GTATTAAACA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 15 0.27
6 29 0.53
7 11 0.20
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:11208648 original size:13 final size:13
Alignment explanation
Indices: 11208630--11208698 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 13
11208620 TTTATTTAAA
11208630 AAAATAAAAAAAT
1 AAAATAAAAAAAT
11208643 AAAATAAAAATGGAAAT
1 AAAAT-AAAA---AAAT
11208660 AAAA-ATAAAAAAT
1 AAAATA-AAAAAAT
11208673 AAAAATAAAATAAAAT
1 -AAAAT-AAA-AAAAT
11208689 AAAATAAAAA
1 AAAATAAAAA
11208699 GTATTAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
13 11 0.23
14 11 0.23
15 8 0.17
16 9 0.19
17 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAAAT
Done.