Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 51 of 74
Found at i:10338596 original size:18 final size:18
Alignment explanation
Indices: 10338547--10338598 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
10338537 TTTTTCTTTC
10338547 TTTTCATTCTTTTATTTCAT
1 TTTTC-TTCTTTT-TTTCAT
*
10338567 TTTT-TATTTTTTTTTCAT
1 TTTTCT-TCTTTTTTTCAT
10338585 TTTTCTTCTTTTTT
1 TTTTCTTCTTTTTT
10338599 ATTTGCATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 18 0.64
19 6 0.21
20 4 0.14
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTCTTTTTTTCAT
Found at i:10338597 original size:20 final size:19
Alignment explanation
Indices: 10338536--10338598 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
10338526 TTCTATCTCA
10338536 TTTTTTCTTTC-TTTTCATTC
1 TTTTTT-TTTCATTTTC-TTC
* *
10338556 -TTTTATTTCATTTT-TTA
1 TTTTTTTTTCATTTTCTTC
10338573 TTTTTTTTTCATTTTTCTTC
1 TTTTTTTTTCA-TTTTCTTC
10338593 TTTTTT
1 TTTTTT
10338599 ATTTGCATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.06
18 13 0.37
19 12 0.34
20 8 0.23
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTTTCATTTTCTTC
Found at i:10341866 original size:38 final size:38
Alignment explanation
Indices: 10341774--10341934 Score: 139
Period size: 38 Copynumber: 4.3 Consensus size: 38
10341764 TGACATTTCC
* * **
10341774 ATTAAAATGTGCATTAGATGGAATACATATACTA-TTT
1 ATTAAAATGTGCATGAGATGAAATACATGCACTATTTT
* * * *
10341811 ATTAAGATTTGCATGAGATGAAATACATGTATTATTTT
1 ATTAAAATGTGCATGAGATGAAATACATGCACTATTTT
* * * *
10341849 ATTAAAATGTGCCTGAGATGGAATGCATGCACTATCTT
1 ATTAAAATGTGCATGAGATGAAATACATGCACTATTTT
* * *
10341887 ATT--AAGGTGCAGATGAGATGAAATGCATGCATTATTTT
1 ATTAAAATGTGC--ATGAGATGAAATACATGCACTATTTT
*
10341925 ATTAAGATGT
1 ATTAAAATGT
10341935 ATCTAAGATG
Statistics
Matches: 98, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
36 6 0.06
37 28 0.29
38 61 0.62
40 3 0.03
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.37
Consensus pattern (38 bp):
ATTAAAATGTGCATGAGATGAAATACATGCACTATTTT
Found at i:10341922 original size:76 final size:74
Alignment explanation
Indices: 10341774--10341953 Score: 209
Period size: 76 Copynumber: 2.4 Consensus size: 74
10341764 TGACATTTCC
* * * ** *
10341774 ATTAAAATGTGCATTAGATGGAATACATATACTATTTATTAAGATTTGCATGAGATGAAATACAT
1 ATTAAAATGTGCCTAAGATGGAATGCATGCACTATTTATTAAGA-GTGCATGAGATGAAATACAT
*
10341839 GTATTATTTT
65 GCATTATTTT
* *
10341849 ATTAAAATGTGCCTGAGATGGAATGCATGCACTATCTTATTAAG-GTGCAGATGAGATGAAATGC
1 ATTAAAATGTGCCTAAGATGGAATGCATGCACTAT-TTATTAAGAGTGC--ATGAGATGAAATAC
10341913 ATGCATTATTTT
63 ATGCATTATTTT
* **
10341925 ATTAAGATGTATCTAAGATGGAATGCATG
1 ATTAAAATGTGCCTAAGATGGAATGCATG
10341954 TTCTGTAATG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
74 3 0.03
75 30 0.33
76 57 0.63
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (74 bp):
ATTAAAATGTGCCTAAGATGGAATGCATGCACTATTTATTAAGAGTGCATGAGATGAAATACATG
CATTATTTT
Found at i:10341944 original size:38 final size:38
Alignment explanation
Indices: 10341808--10341953 Score: 139
Period size: 38 Copynumber: 3.8 Consensus size: 38
10341798 ACATATACTA
* * * * *
10341808 TTTATTAAGATTTGCATGAGATGAAATACATGTATTAT
1 TTTATTAAGATGTACCTGAGATGAAATGCATGCATTAT
* * * *
10341846 TTTATTAAAATGTGCCTGAGATGGAATGCATGCACTAT
1 TTTATTAAGATGTACCTGAGATGAAATGCATGCATTAT
* * * **
10341884 CTTATTAAGGTGCAGATGAGATGAAATGCATGCATTAT
1 TTTATTAAGATGTACCTGAGATGAAATGCATGCATTAT
* * *
10341922 TTTATTAAGATGTATCTAAGATGGAATGCATG
1 TTTATTAAGATGTACCTGAGATGAAATGCATG
10341954 TTCTGTAATG
Statistics
Matches: 85, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (38 bp):
TTTATTAAGATGTACCTGAGATGAAATGCATGCATTAT
Found at i:10341977 original size:76 final size:74
Alignment explanation
Indices: 10341823--10341970 Score: 174
Period size: 76 Copynumber: 2.0 Consensus size: 74
10341813 TAAGATTTGC
* * *
10341823 ATGAGATGAAATACATGTATTATTTTATTAAAATGTGCCTGAGATGGAATGCATGCACTATCTTA
1 ATGAGATGAAATACATGCATTATTTTATTAAAATGTACCTAAGATGGAATGCATG--CTATCTTA
* *
10341888 TTAAGGTGCAG
64 ATAACGTGCAG
* * *
10341899 ATGAGATGAAATGCATGCATTATTTTATTAAGATGTATCTAAGATGGAATGCATG-T-TCTGTAA
1 ATGAGATGAAATACATGCATTATTTTATTAAAATGTACCTAAGATGGAATGCATGCTATCT-TAA
*
10341962 TGACGTGCA
65 TAACGTGCA
10341971 TAAGATGGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
72 3 0.05
73 10 0.16
76 49 0.79
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (74 bp):
ATGAGATGAAATACATGCATTATTTTATTAAAATGTACCTAAGATGGAATGCATGCTATCTTAAT
AACGTGCAG
Found at i:10344153 original size:8 final size:7
Alignment explanation
Indices: 10344137--10344309 Score: 54
Period size: 7 Copynumber: 26.4 Consensus size: 7
10344127 TCAAGTTGGT
10344137 TTTAAGG
1 TTTAAGG
10344144 TTTAAGG
1 TTTAAGG
* *
10344151 GTT--GA
1 TTTAAGG
10344156 TTT-AGG
1 TTTAAGG
*
10344162 ATTTGAGG
1 -TTTAAGG
* *
10344170 TTTTAGA
1 TTTAAGG
*
10344177 TTTTAGG
1 TTTAAGG
10344184 TTT-A-G
1 TTTAAGG
*
10344189 TTTAGGG
1 TTTAAGG
10344196 TTTAAGG
1 TTTAAGG
10344203 TTTAAGG
1 TTTAAGG
*
10344210 TCT-AGG
1 TTTAAGG
10344216 TTT-AGAG
1 TTTAAG-G
10344223 TTT-AGG
1 TTTAAGG
*
10344229 TTTAGGG
1 TTTAAGG
*
10344236 CTT-AGG
1 TTTAAGG
**
10344242 TCTT-TTG
1 T-TTAAGG
10344249 -TT-AGG
1 TTTAAGG
*
10344254 ATTTAGGG
1 -TTTAAGG
*
10344262 TTT-AGA
1 TTTAAGG
10344268 TTTAAGG
1 TTTAAGG
10344275 TTT-AGG
1 TTTAAGG
*
10344281 TTTAGGG
1 TTTAAGG
*
10344288 TTT-GGG
1 TTTAAGG
10344294 TTTAAGG
1 TTTAAGG
10344301 TTT-AGG
1 TTTAAGG
10344307 TTT
1 TTT
10344310 TTGGTTAGGA
Statistics
Matches: 127, Mismatches: 25, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
5 10 0.08
6 37 0.29
7 75 0.59
8 5 0.04
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:10344218 original size:13 final size:13
Alignment explanation
Indices: 10344156--10344368 Score: 125
Period size: 13 Copynumber: 16.2 Consensus size: 13
10344146 TAAGGGTTGA
*
10344156 TTTAGGATTTGAGG
1 TTTAGG-TTTAAGG
* *
10344170 TTTTAGATTTTAGG
1 -TTTAGGTTTAAGG
*
10344184 TTTA-GTTTAGGG
1 TTTAGGTTTAAGG
10344196 TTTAAGGTTTAAGG
1 TTT-AGGTTTAAGG
*
10344210 TCTAGGTTT-AGAG
1 TTTAGGTTTAAG-G
*
10344223 TTTAGGTTTAGGG
1 TTTAGGTTTAAGG
* **
10344236 CTTAGGTCTT-TTG
1 TTTAGGT-TTAAGG
*
10344249 -TTAGGATTTAGGG
1 TTTAGG-TTTAAGG
*
10344262 TTTAGATTTAAGG
1 TTTAGGTTTAAGG
*
10344275 TTTAGGTTTAGGG
1 TTTAGGTTTAAGG
*
10344288 TTTGGGTTTAAGG
1 TTTAGGTTTAAGG
**
10344301 TTTAGGTTTTTGG
1 TTTAGGTTTAAGG
*
10344314 -TTAGGATTTAGGG
1 TTTAGG-TTTAAGG
*
10344327 TTTAAGTTT-AGG
1 TTTAGGTTTAAGG
10344339 ATTTAGGTTT-AGAG
1 -TTTAGGTTTAAG-G
* *
10344353 TTTGGGTTTAGGG
1 TTTAGGTTTAAGG
10344366 TTT
1 TTT
10344369 CATGAGAAAT
Statistics
Matches: 155, Mismatches: 30, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
12 24 0.15
13 98 0.63
14 28 0.18
15 5 0.03
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (13 bp):
TTTAGGTTTAAGG
Found at i:10344368 original size:65 final size:65
Alignment explanation
Indices: 10344189--10344368 Score: 258
Period size: 65 Copynumber: 2.8 Consensus size: 65
10344179 TTAGGTTTAG
* * *
10344189 TTTAGGGTTTAAGGTTTAAGGTCTAGGTTTAGAGTTTAGGTTTAGGGCTTAGGTCTTTTGTTAGG
1 TTTAGGGTTTAA-GTTTAAGGTTTAGGTTTAGAGTTTGGGTTTAGGGTTTAGGTCTTTTGTTAGG
10344254 A
65 A
* *
10344255 TTTAGGGTTT-AGATTTAAGGTTTAGGTTTAGGGTTTGGGTTTAAGGTTTAGGT-TTTTGGTTAG
1 TTTAGGGTTTAAG-TTTAAGGTTTAGGTTTAGAGTTTGGGTTTAGGGTTTAGGTCTTTT-GTTAG
10344318 GA
64 GA
10344320 TTTAGGGTTTAAGTTT-AGGATTTAGGTTTAGAGTTTGGGTTTAGGGTTT
1 TTTAGGGTTTAAGTTTAAGG-TTTAGGTTTAGAGTTTGGGTTTAGGGTTT
10344369 CATGAGAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 9
0.87 0.06 0.08
Matches are distributed among these distances:
64 8 0.08
65 83 0.81
66 12 0.12
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (65 bp):
TTTAGGGTTTAAGTTTAAGGTTTAGGTTTAGAGTTTGGGTTTAGGGTTTAGGTCTTTTGTTAGGA
Found at i:10345000 original size:10 final size:10
Alignment explanation
Indices: 10344982--10345014 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
10344972 CTTCTCCCAA
10344982 TTTTT-TCCT
1 TTTTTCTCCT
10344991 TTTTTCTCCT
1 TTTTTCTCCT
*
10345001 TTTTTCACCT
1 TTTTTCTCCT
10345011 TTTT
1 TTTT
10345015 CCCAGCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCTCCT
Found at i:10346127 original size:15 final size:16
Alignment explanation
Indices: 10346109--10346143 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10346099 TTCATTTTCC
*
10346109 TTAA-TTTTTTTTTTT
1 TTAAGTTTTTTATTTT
10346124 TTAAGTTTTTTATTTT
1 TTAAGTTTTTTATTTT
10346140 TTAA
1 TTAA
10346144 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTAAGTTTTTTATTTT
Found at i:10346422 original size:21 final size:20
Alignment explanation
Indices: 10346398--10346448 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
10346388 CCCGAAATTA
10346398 ATAAAGTATAATATT-TTAAAT
1 ATAAA-TATAAT-TTGTTAAAT
* *
10346419 ATAAAATATTATTTGTTACAT
1 AT-AAATATAATTTGTTAAAT
10346440 ATAAATATA
1 ATAAATATA
10346449 TAATTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.32
21 14 0.56
22 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
ATAAATATAATTTGTTAAAT
Found at i:10347098 original size:18 final size:17
Alignment explanation
Indices: 10347068--10347129 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
10347058 ATCAAAACAA
10347068 TTTATATTCAATTTATAT
1 TTTATATT-AATTTATAT
10347086 TTTATTATTAATTT-TAAT
1 TTTA-TATTAATTTAT-AT
*
10347104 TTTATATT--TATATAT
1 TTTATATTAATTTATAT
*
10347119 ATTATATTAAT
1 TTTATATTAAT
10347130 AAAGTTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
15 11 0.30
16 1 0.03
17 6 0.16
18 15 0.41
19 4 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATATTAATTTATAT
Found at i:10350704 original size:9 final size:9
Alignment explanation
Indices: 10350690--10350715 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10350680 CATTAGGTTT
10350690 TTTTTTTTC
1 TTTTTTTTC
10350699 TTTTTTTTC
1 TTTTTTTTC
10350708 TTTTTTTT
1 TTTTTTTT
10350716 TCCTGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10350704 original size:10 final size:10
Alignment explanation
Indices: 10350689--10350717 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
10350679 TCATTAGGTT
10350689 TTTTTTTTTC
1 TTTTTTTTTC
10350699 -TTTTTTTTC
1 TTTTTTTTTC
10350708 TTTTTTTTTC
1 TTTTTTTTTC
10350718 CTGTTGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10353989 original size:20 final size:20
Alignment explanation
Indices: 10353964--10354003 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10353954 TTATATTCTC
10353964 CTCTGGTCACTGGGCTATCT
1 CTCTGGTCACTGGGCTATCT
10353984 CTCTGGTCACTGGGCTATCT
1 CTCTGGTCACTGGGCTATCT
10354004 ATTTATGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.30, G:0.25, T:0.35
Consensus pattern (20 bp):
CTCTGGTCACTGGGCTATCT
Found at i:10364255 original size:4 final size:4
Alignment explanation
Indices: 10364246--10364271 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10364236 GTATATACAT
10364246 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
10364272 GTATATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:10364745 original size:23 final size:21
Alignment explanation
Indices: 10364705--10364748 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
10364695 ATGAGTTAAA
*
10364705 AATTTAATAAAAATTATGTAT
1 AATTTAATAAAAAATATGTAT
10364726 AATTTAATAAAAAAAATATGTAT
1 AATTTAAT--AAAAAATATGTAT
10364749 TTCATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTTAATAAAAAATATGTAT
Found at i:10365293 original size:16 final size:17
Alignment explanation
Indices: 10365272--10365304 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10365262 TTTTACTGTT
*
10365272 ACTTATTTATA-ATATA
1 ACTTATATATATATATA
10365288 ACTTATATATATATATA
1 ACTTATATATATATATA
10365305 GAGAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
ACTTATATATATATATA
Found at i:10365684 original size:14 final size:14
Alignment explanation
Indices: 10365661--10365694 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10365651 AATTTGATTT
*
10365661 TTATATATTTAATG
1 TTATAAATTTAATG
*
10365675 TTATAAATTTAATT
1 TTATAAATTTAATG
10365689 TTATAA
1 TTATAA
10365695 TATTGATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTAATG
Found at i:10366237 original size:2 final size:2
Alignment explanation
Indices: 10366230--10366260 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10366220 TTGATTTAAC
10366230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10366261 CCTATAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10372470 original size:16 final size:18
Alignment explanation
Indices: 10372458--10372498 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10372448 TATAATTATT
10372458 TAAAAAA-TAAATT-TAA
1 TAAAAAATTAAATTATAA
10372474 TAAAAAATTAAATTA-AA
1 TAAAAAATTAAATTATAA
10372491 TGAAAAAA
1 T-AAAAAA
10372499 ATTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 9 0.41
18 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAAATTAAATTATAA
Found at i:10372485 original size:17 final size:16
Alignment explanation
Indices: 10372458--10372521 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
10372448 TATAATTATT
*
10372458 TAAAAAATAAATTTAA
1 TAAAAAATAAATTAAA
10372474 TAAAAAATTAAATTAAA
1 TAAAAAA-TAAATTAAA
* *
10372491 TGAAAAA-AATTATAAA
1 TAAAAAATAAAT-TAAA
*
10372507 TAAAATAT-AATTAAA
1 TAAAAAATAAATTAAA
10372522 AATAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
15 7 0.18
16 18 0.46
17 14 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAAAAATAAATTAAA
Found at i:10376342 original size:21 final size:19
Alignment explanation
Indices: 10376318--10376357 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
10376308 ATATAATATT
10376318 AGAAAAAATAAATAAAAAAAA
1 AGAAAAAAT--ATAAAAAAAA
*
10376339 AGAAATAATATAAAAAAAA
1 AGAAAAAATATAAAAAAAA
10376358 TTTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AGAAAAAATATAAAAAAAA
Found at i:10376658 original size:20 final size:20
Alignment explanation
Indices: 10376613--10376660 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
10376603 CTGTTCAAAT
10376613 ATAATTAATTAATTAATACA
1 ATAATTAATTAATTAATACA
* * *
10376633 AAAATTAATTTTATTCAT-CA
1 ATAATTAA-TTAATTAATACA
10376653 ATAATTAA
1 ATAATTAA
10376661 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATTAATTAATTAATACA
Found at i:10379751 original size:31 final size:31
Alignment explanation
Indices: 10379698--10379758 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
10379688 ACACTGTCAA
*
10379698 TGAATCAGATGATAACAACTCATTAATGAAG
1 TGAATCAGATAATAACAACTCATTAATGAAG
* * *
10379729 TGAATCTGATAATAATATCTCATTAATGAA
1 TGAATCAGATAATAACAACTCATTAATGAA
10379759 TAAATTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (31 bp):
TGAATCAGATAATAACAACTCATTAATGAAG
Found at i:10383148 original size:29 final size:29
Alignment explanation
Indices: 10383090--10383149 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
10383080 ATATTTAAAA
* *
10383090 ATAAATTTTATTTGATATATTATTAATAT
1 ATAAATTTTATTTGATATATAATAAATAT
10383119 ATAAATTTTATTT-AT-TATCAATAAATTAT
1 ATAAATTTTATTTGATATAT-AATAAA-TAT
10383148 AT
1 AT
10383150 GATATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 6 0.22
29 18 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATAAATTTTATTTGATATATAATAAATAT
Found at i:10385697 original size:2 final size:2
Alignment explanation
Indices: 10385681--10385725 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
10385671 ATGATATCAT
*
10385681 TA TA T- TA TA TA -A TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10385721 TA TA T
1 TA TA T
10385726 GTATGTGGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10386127 original size:23 final size:21
Alignment explanation
Indices: 10386094--10386148 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
10386084 AAATTTAATT
10386094 AATTTAAAATAAAAAATAAAA
1 AATTTAAAATAAAAAATAAAA
* *
10386115 AATTTAATTAATAAAATATTAAA
1 AATTTAA--AATAAAAAATAAAA
10386138 AA-TTAAAATAA
1 AATTTAAAATAA
10386149 TTATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
22 4 0.13
23 14 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTTAAAATAAAAAATAAAA
Found at i:10386139 original size:30 final size:30
Alignment explanation
Indices: 10386069--10386150 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
10386059 AAATAAAGTA
* *
10386069 AAAAT-AAATATTTAAAAATTTAATTAATTT
1 AAAATAAAAAATTAAAAAATTTAATTAA-TT
10386099 AAAATAAAAAA-TAAAAAATTTAATTAA-T
1 AAAATAAAAAATTAAAAAATTTAATTAATT
10386127 AAAATATTAAAAATTAAAATAATT
1 AAAATA--AAAAATTAAAA-AATT
10386151 ATTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 7 0.16
30 25 0.56
31 9 0.20
32 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATAAAAAATTAAAAAATTTAATTAATT
Found at i:10386687 original size:22 final size:21
Alignment explanation
Indices: 10386662--10386704 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
10386652 TAATTTTTTT
*
10386662 ATAAATATATATTAATATTTAA
1 ATAAAAATATATTAAT-TTTAA
10386684 ATAAAAATATATTAATTTTAA
1 ATAAAAATATATTAATTTTAA
10386705 TTAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAAATATATTAATTTTAA
Found at i:10387034 original size:14 final size:14
Alignment explanation
Indices: 10387015--10387061 Score: 69
Period size: 14 Copynumber: 3.3 Consensus size: 14
10387005 TCTTGCTTGG
10387015 AAAAAGAAAAGGAA
1 AAAAAGAAAAGGAA
10387029 AAAAAGAAAAGGAAA
1 AAAAAGAAAAGG-AA
10387044 AGAAAAGAAAA-GAA
1 A-AAAAGAAAAGGAA
10387058 AAAA
1 AAAA
10387062 TTAAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.10
14 15 0.48
15 4 0.13
16 9 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGGAA
Found at i:10387038 original size:5 final size:5
Alignment explanation
Indices: 10387016--10387059 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
10387006 CTTGCTTGGA
*
10387016 AAAAG AAAAG GAAA- AAAAG AAAAGG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAA
10387060 AATTAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10387067 original size:16 final size:14
Alignment explanation
Indices: 10387015--10387074 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 14
10387005 TCTTGCTTGG
*
10387015 AAAAAGAAAAGGAA
1 AAAAAGAAAAGAAA
10387029 AAAAAGAAAAGGAAA
1 AAAAAGAAAA-GAAA
10387044 AGAAAAGAAAAGAAA
1 A-AAAAGAAAAGAAA
10387059 AAATTAAGAAAA-AAA
1 AAA--AAGAAAAGAAA
10387074 A
1 A
10387075 TGTATGTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 12 0.29
15 13 0.32
16 16 0.39
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:10390794 original size:17 final size:17
Alignment explanation
Indices: 10390774--10390806 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10390764 TTAGAAAATT
10390774 TAAGAAA-ATAGAAATAA
1 TAAGAAAGA-AGAAATAA
10390791 TAAGAAAGAAGAAATA
1 TAAGAAAGAAGAAATA
10390807 TGGCTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
TAAGAAAGAAGAAATAA
Found at i:10391941 original size:20 final size:20
Alignment explanation
Indices: 10391916--10391956 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10391906 TAAGGTTTTA
*
10391916 TCTTCTATTGTGTTTATATT
1 TCTTCTATTATGTTTATATT
*
10391936 TCTTCTTTTATGTTTATATT
1 TCTTCTATTATGTTTATATT
10391956 T
1 T
10391957 TTATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (20 bp):
TCTTCTATTATGTTTATATT
Found at i:10391975 original size:18 final size:17
Alignment explanation
Indices: 10391948--10391981 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10391938 TTCTTTTATG
10391948 TTTATATTTTTATAATT
1 TTTATATTTTTATAATT
*
10391965 TTTATTATTTTTTTAAT
1 TTTA-TATTTTTATAAT
10391982 CATGATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATATTTTTATAATT
Found at i:10392983 original size:2 final size:2
Alignment explanation
Indices: 10392976--10393001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10392966 AAGGTTAAAG
10392976 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
10393002 TACTTCCTTA
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:10398844 original size:9 final size:9
Alignment explanation
Indices: 10398832--10398928 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
10398822 AAATGGGTGA
10398832 AAAAGAAAG
1 AAAAGAAAG
10398841 AAAAG-AAG
1 AAAAGAAAG
*
10398849 CAAAAGAAAA
1 -AAAAGAAAG
*
10398859 AAAAGAATG
1 AAAAGAAAG
*
10398868 AAAGAGAAAAAA
1 AAA-AG--AAAG
*
10398880 AAAAGAATG
1 AAAAGAAAG
*
10398889 AAAAAGATGAG
1 -AAAAGA-AAG
10398900 AAAAGAAAG
1 AAAAGAAAG
10398909 AAAA-AAA-
1 AAAAGAAAG
*
10398916 AAAAGAGAG
1 AAAAGAAAG
10398925 AAAA
1 AAAA
10398929 AATGAAAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.06
8 8 0.12
9 32 0.47
10 16 0.24
11 3 0.04
12 5 0.07
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:10398893 original size:31 final size:31
Alignment explanation
Indices: 10398850--10398919 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
10398840 GAAAAGAAGC
*
10398850 AAAAGAAAAAAAAGAATGA-AAGAGAAA-AAA
1 AAAAGAAAAAAAAG-ATGAGAAAAGAAAGAAA
*
10398880 AAAAGAATGAAAAAGATGAGAAAAGAAAGAAA
1 AAAAGAA-AAAAAAGATGAGAAAAGAAAGAAA
10398912 AAAA-AAAA
1 AAAAGAAAA
10398920 GAGAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 12 0.35
31 15 0.44
32 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (31 bp):
AAAAGAAAAAAAAGATGAGAAAAGAAAGAAA
Found at i:10398903 original size:21 final size:21
Alignment explanation
Indices: 10398855--10398895 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10398845 GAAGCAAAAG
*
10398855 AAAAAAAAGAATGAAAGAGAA
1 AAAAAAAAGAATGAAAAAGAA
10398876 AAAAAAAAGAATGAAAAAGA
1 AAAAAAAAGAATGAAAAAGA
10398896 TGAGAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAATGAAAAAGAA
Found at i:10398917 original size:25 final size:25
Alignment explanation
Indices: 10398850--10398960 Score: 93
Period size: 26 Copynumber: 4.2 Consensus size: 25
10398840 GAAAAGAAGC
* *
10398850 AAAAGAAAAAAAAGAATGAAAGAGAAA
1 AAAAGAAAAAAAA-AAAG-ATGAGAAA
*
10398877 AAAA-AAAGAATGAAAAAGATGAGAAA
1 AAAAGAAA-AA-AAAAAAGATGAGAAA
10398903 AGAAAGAAAAAAAAAAAGA-GAGAAA
1 A-AAAGAAAAAAAAAAAGATGAGAAA
*
10398928 AAATGAAAAAATAAAAATGA-GAGAAA
1 AAAAGAAAAAA-AAAAA-GATGAGAAA
10398954 ATAAAGA
1 A-AAAGA
10398961 CTCAAATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
24 9 0.13
25 12 0.17
26 27 0.38
27 18 0.25
28 5 0.07
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (25 bp):
AAAAGAAAAAAAAAAAGATGAGAAA
Found at i:10398921 original size:36 final size:36
Alignment explanation
Indices: 10398867--10398938 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
10398857 AAAAAAGAAT
*
10398867 GAAAGAGAAAAAAAAAAGA-ATGAAAAAGATGAGAAAA
1 GAAAGAGAAAAAAAAAAGAGA-GAAAAA-ATGAAAAAA
10398904 GAAAGA-AAAAAAAAAAGAGAGAAAAAATGAAAAAA
1 GAAAGAGAAAAAAAAAAGAGAGAAAAAATGAAAAAA
10398939 TAAAAATGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 8 0.24
36 18 0.55
37 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (36 bp):
GAAAGAGAAAAAAAAAAGAGAGAAAAAATGAAAAAA
Found at i:10398943 original size:14 final size:16
Alignment explanation
Indices: 10398926--10398958 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
10398916 AAAAGAGAGA
10398926 AAAAATGA-A-AAAAT
1 AAAAATGAGAGAAAAT
10398940 AAAAATGAGAGAAAAT
1 AAAAATGAGAGAAAAT
10398956 AAA
1 AAA
10398959 GACTCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAATGAGAGAAAAT
Found at i:10398944 original size:51 final size:53
Alignment explanation
Indices: 10398851--10398960 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 53
10398841 AAAAGAAGCA
10398851 AAAGAAAAAAAAGAATGAAAGAGAAAAAAAAAAGAATGAAAAA-GATGAGAAAAG
1 AAAGAAAAAAAAGAA-GAAAGAGAAAAAAAAAAGAATGAAAAATGA-GAGAAAAG
* *
10398905 AAAGAAAAAAAA-AA-AGAGAGAAAAAATGAAAA-AAT-AAAAATGAGAGAAAAT
1 AAAGAAAAAAAAGAAGAAAGAGAAAAAA--AAAAGAATGAAAAATGAGAGAAAAG
10398956 AAAGA
1 AAAGA
10398961 CTCAAATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
51 28 0.55
52 5 0.10
53 6 0.12
54 12 0.24
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.06
Consensus pattern (53 bp):
AAAGAAAAAAAAGAAGAAAGAGAAAAAAAAAAGAATGAAAAATGAGAGAAAAG
Found at i:10398955 original size:24 final size:23
Alignment explanation
Indices: 10398889--10398955 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
10398879 AAAAAGAATG
* * *
10398889 AAAAAGATGAGAAAAGAAAGAAAA
1 AAAAAAATGAGAGAA-AATGAAAA
10398913 AAAAAAA-GAGAGAAAAAATGAAAA
1 AAAAAAATGAGAG--AAAATGAAAA
10398937 AATAAAAATGAGAGAAAAT
1 AA-AAAAATGAGAGAAAAT
10398956 AAAGACTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.11
24 20 0.56
25 7 0.19
26 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAAAAATGAGAGAAAATGAAAA
Found at i:10399176 original size:15 final size:16
Alignment explanation
Indices: 10399156--10399189 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
10399146 AATACTTAGA
10399156 ATTGTTTGAATAT-TC
1 ATTGTTTGAATATCTC
10399171 ATTGTTTGAATATCTC
1 ATTGTTTGAATATCTC
10399187 ATT
1 ATT
10399190 CAGCTCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTGTTTGAATATCTC
Found at i:10400235 original size:46 final size:45
Alignment explanation
Indices: 10400156--10400292 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 45
10400146 AATCCTAATT
* *
10400156 TCTTAAATAAGAATCTTTAAAAAGTCCTTAAATGAGAATATTT-AGG
1 TCTTAAATAAGAATCTTTAAGAAGT-TTTAAATGAGAATATTTGA-G
* * * *
10400202 TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTGAT
1 TCTTAAATAAGAATCTTTAAGAAGTTTT-AAATGAGAATATTTGAG
* * *
10400248 TCTTAAATAAGAATCTTTAAGATGTTTTTAAATAAGAATCTTTGA
1 TCTTAAATAAGAATCTTTAAGAAG-TTTTAAATGAGAATATTTGA
10400293 AGTGTGAAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.03
46 72 0.91
47 5 0.06
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (45 bp):
TCTTAAATAAGAATCTTTAAGAAGTTTTAAATGAGAATATTTGAG
Found at i:10400260 original size:21 final size:22
Alignment explanation
Indices: 10400155--10400292 Score: 93
Period size: 25 Copynumber: 6.0 Consensus size: 22
10400145 AAATCCTAAT
*
10400155 TTCTTAAATAAGAATCTTTAAAAAG
1 TTCTTAAATAAGAATCTTT---GAG
* * *
10400180 TCCTTAAATGAGAATATTT-AG
1 TTCTTAAATAAGAATCTTTGAG
* *
10400201 GTCTTAAATGAGAATCTTTAAGACG
1 TTCTTAAATAAGAATCTTT--GA-G
*
10400226 TT-TTCAAATGAGAATCTTTGA-
1 TTCTT-AAATAAGAATCTTTGAG
10400247 TTCTTAAATAAGAATCTTTAAGATG
1 TTCTTAAATAAGAATCTTT--GA-G
*
10400272 TTTTTAAATAAGAATCTTTGA
1 TTCTTAAATAAGAATCTTTGA
10400293 AGTGTGAAAC
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
21 33 0.35
22 2 0.02
23 6 0.06
24 3 0.03
25 50 0.53
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (22 bp):
TTCTTAAATAAGAATCTTTGAG
Found at i:10400867 original size:42 final size:41
Alignment explanation
Indices: 10400810--10401093 Score: 257
Period size: 42 Copynumber: 6.7 Consensus size: 41
10400800 GGTCTTTCTA
*
10400810 TTTAGAGGAGCAATTTACTTTCAAAAGTCGTGGTTGCCTCTG
1 TTTAGAGGAGTAATTTACTTTCAAAAGTCGTGG-TGCCTCTG
* * *
10400852 TTTAGAGGAGTAATTTATTTTTTC-AAAGTTGTGGTGCGTCTG
1 TTTAGAGGAGTAATTTA--CTTTCAAAAGTCGTGGTGCCTCTG
* *
10400894 TTTAGATGAGTAA-TTAATTTCAAAAGTCGTGGTTGCCTCTG
1 TTTAGAGGAGTAATTTACTTTCAAAAGTCGTGG-TGCCTCTG
* * * *
10400935 TTTAGAGGAGTAATTTATTTTTTCAAAAGTTGTAGTACCTCTG
1 TTTAGAGGAGTAATTTA--CTTTCAAAAGTCGTGGTGCCTCTG
* * * * *
10400978 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTTTG
1 TTTAGAGGAGTAATTTAC-TTTCAAAAGTCGTGGTGCCTCTG
* * * * *
10401020 TTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGAGCCTCTG
1 TTTAGAGGAG--TAATTTA-CTTTCAAAAGTCGTGGTGCCTCTG
* *
10401064 TTTAGAGGAGCAGTTTACTTTCCAAAAGTC
1 TTTAGAGGAGTAATTTACTTT-CAAAAGTC
10401094 ATTGAGCCTC
Statistics
Matches: 201, Mismatches: 29, Indels: 24
0.79 0.11 0.09
Matches are distributed among these distances:
39 4 0.02
40 9 0.04
41 25 0.12
42 77 0.38
43 32 0.16
44 54 0.27
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (41 bp):
TTTAGAGGAGTAATTTACTTTCAAAAGTCGTGGTGCCTCTG
Found at i:10400915 original size:83 final size:83
Alignment explanation
Indices: 10400810--10401073 Score: 291
Period size: 83 Copynumber: 3.1 Consensus size: 83
10400800 GGTCTTTCTA
* *
10400810 TTTAGAGGAGCAATTTACTTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTT
1 TTTAGAGGAGTAA-TTAATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTT
* * *
10400875 CAAAGTTGTGGTGCGTCTG
65 CAAAGTTGTAGTACCTCTG
*
10400894 TTTAGATGAGTAATTAATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTTC
1 TTTAGAGGAGTAATTAATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTTC
10400959 AAAAGTTGTAGTACCTCTG
66 -AAAGTTGTAGTACCTCTG
* * * * * * *
10400978 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTG-AGCCTTTGTTTAGAGGAGCCTTATTTA-TT
1 TTTAGAGGAGTA-ATTA-ATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAG--TAATTTATTT
** *
10401041 TTTCAAAAGTCATTG-AGCCTCTG
62 TTTC-AAAGTTGTAGTA-CCTCTG
10401064 TTTAGAGGAG
1 TTTAGAGGAG
10401074 CAGTTTACTT
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
83 51 0.32
84 37 0.24
85 20 0.13
86 43 0.27
87 6 0.04
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (83 bp):
TTTAGAGGAGTAATTAATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTTC
AAAGTTGTAGTACCTCTG
Found at i:10401050 original size:86 final size:86
Alignment explanation
Indices: 10400810--10401293 Score: 423
Period size: 86 Copynumber: 5.6 Consensus size: 86
10400800 GGTCTTTCTA
* * * * * *
10400810 TTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAG--TAATTTATTT
1 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTG-AGCCTCTGTTTAGAGGAGCCTTATTTA-TT
* * * *
10400872 TTTC-AAAGTTGTGGTGCGTCTG
64 TTTCAAAAGTTATTGAGCCTCTG
* * * * * * *
10400894 TTTAGATGAGTA-ATTA-ATTTCAAAAGTCGTGGTTGCCTCTGTTTAGAGGAG--TAATTTATTT
1 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTG-AGCCTCTGTTTAGAGGAGCCTTATTTA-TT
* *
10400955 TTTCAAAAGTTGTAGTA-CCTCTG
64 TTTCAAAAGTTATTG-AGCCTCTG
*
10400978 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCCTTATTTATTTT
1 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTT
*
10401043 TCAAAAGTCATTGAGCCTCTG
66 TCAAAAGTTATTGAGCCTCTG
* * ** * * *
10401064 TTTAGAGGAGCAGTTTACTTTCCAAAAGTCATTGAGCCTCTACTTAAAAGAGCCTTGTTTATTTT
1 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTT
*
10401129 TCAAAAGTCATTGAGCCTCTG
66 TCAAAAGTTATTGAGCCTCTG
* * * * * *
10401150 TTTAGAGGAGCCTTGTTAATTTTTCAAAAGTTATTGAGCCTCTGTTTAGAGGAGCCATGTTTATC
1 TTTAGAGGAG--TAGTTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTAT-
10401215 TTTTC-AAAGTTATTGAGCCTCTG
63 TTTTCAAAAGTTATTGAGCCTCTG
* * * * *
10401238 CTTAGAGGAGCCTTA-TTTATTTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGC
1 TTTAGAGGAG---TAGTTTA-CTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGC
10401294 TTTGACCAAG
Statistics
Matches: 342, Mismatches: 45, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
83 51 0.15
84 35 0.10
85 20 0.06
86 121 0.35
87 6 0.02
88 70 0.20
89 39 0.11
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (86 bp):
TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTT
TCAAAAGTTATTGAGCCTCTG
Found at i:10401059 original size:44 final size:44
Alignment explanation
Indices: 10400928--10401293 Score: 401
Period size: 44 Copynumber: 8.4 Consensus size: 44
10400918 AGTCGTGGTT
* ** *
10400928 GCCTCTGTTTAGAGGAG--TAATTTATTTTTTCAAAAGTTGTAGTA
1 GCCTCTGTTTAGAGGAGCCTTATTTA-TTTTTCAAAAGTCATTG-A
*
10400972 -CCTCTGTTTAGAGGAG---TAGTTTACTTTTCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCCTTA-TTTATTTTTCAAAAGTCATTGA
*
10401013 GCCTTTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGA
* *
10401057 GCCTCTGTTTAGAGGAG-C--AGTTTACTTTCCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCCTTA-TTTATTTTTCAAAAGTCATTGA
** * * *
10401099 GCCTCTACTTAAAAGAGCCTTGTTTATTTTTCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGA
* * *
10401143 GCCTCTGTTTAGAGGAGCCTTGTTAATTTTTCAAAAGTTATTGA
1 GCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGA
* * *
10401187 GCCTCTGTTTAGAGGAGCCATGTTTATCTTTTC-AAAGTTATTGA
1 GCCTCTGTTTAGAGGAGCCTTATTTAT-TTTTCAAAAGTCATTGA
* * *
10401231 GCCTCTGCTTAGAGGAGCCTTATTTATTTTTTTAAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCCTTATTTA-TTTTTCAAAAGTCATTGA
*
10401276 GCCTCTGATTAGAGGAGC
1 GCCTCTGTTTAGAGGAGC
10401294 TTTGACCAAG
Statistics
Matches: 278, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.01
42 62 0.22
43 22 0.08
44 158 0.57
45 34 0.12
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATTGA
Found at i:10401103 original size:42 final size:42
Alignment explanation
Indices: 10400810--10401293 Score: 363
Period size: 44 Copynumber: 11.3 Consensus size: 42
10400800 GGTCTTTCTA
* * * * *
10400810 TTTAGAGGAGCAATTTA-CTTTCAAAAGTCGTGGTTGCCTCTG
1 TTTAGAGGAGCAGTTTATTTTTCAAAAGTCATTG-AGCCTCTG
* * ** * * *
10400852 TTTAGAGGAGTAATTTATTTTTTC-AAAGTTGTGGTGCGTCTG
1 TTTAGAGGAGCAGTTTA-TTTTTCAAAAGTCATTGAGCCTCTG
* * * * * * *
10400894 TTTAGATGAGTA-ATTA-ATTTCAAAAGTCGTGGTTGCCTCTG
1 TTTAGAGGAGCAGTTTATTTTTCAAAAGTCATTG-AGCCTCTG
* * ** *
10400935 TTTAGAGGAGTAATTTATTTTTTCAAAAGTTGTAGTA-CCTCTG
1 TTTAGAGGAGCAGTTTA-TTTTTCAAAAGTCATTG-AGCCTCTG
* * *
10400978 TTTAGAGGAGTAGTTTACTTTTCAAAAGTCATTGAGCCTTTG
1 TTTAGAGGAGCAGTTTATTTTTCAAAAGTCATTGAGCCTCTG
10401020 TTTAGAGGAGCCTTA-TTTATTTTTCAAAAGTCATTGAGCCTCTG
1 TTTAGAGGAG-C--AGTTTATTTTTCAAAAGTCATTGAGCCTCTG
* * *
10401064 TTTAGAGGAGCAGTTTACTTTCCAAAAGTCATTGAGCCTCTA
1 TTTAGAGGAGCAGTTTATTTTTCAAAAGTCATTGAGCCTCTG
* * * *
10401106 CTTAAAAGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTG
1 TTTAGAGGAG-C-AGTTTATTTTTCAAAAGTCATTGAGCCTCTG
* * *
10401150 TTTAGAGGAGCCTTGTTAATTTTTCAAAAGTTATTGAGCCTCTG
1 TTTAGAGGAG-C-AGTTTATTTTTCAAAAGTCATTGAGCCTCTG
*
10401194 TTTAGAGGAGCCATGTTTATCTTTTC-AAAGTTATTGAGCCTCTG
1 TTTAGAGGAG-CA-GTTTAT-TTTTCAAAAGTCATTGAGCCTCTG
* * *
10401238 CTTAGAGGAGCCTTA-TTTATTTTTTTAAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAG-C--AGTTTA-TTTTTCAAAAGTCATTGAGCCTCTG
*
10401283 ATTAGAGGAGC
1 TTTAGAGGAGC
10401294 TTTGACCAAG
Statistics
Matches: 376, Mismatches: 46, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.01
40 9 0.02
41 23 0.06
42 98 0.26
43 33 0.09
44 176 0.47
45 32 0.09
46 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (42 bp):
TTTAGAGGAGCAGTTTATTTTTCAAAAGTCATTGAGCCTCTG
Found at i:10401130 original size:130 final size:132
Alignment explanation
Indices: 10400990--10401293 Score: 443
Period size: 130 Copynumber: 2.3 Consensus size: 132
10400980 TAGAGGAGTA
* * *
10400990 GTTTACTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCCTTATTTATTTTTCAAAAGTCATT
1 GTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTAATTTTTCAAAAGTCATT
10401055 GAGCCTCTGTTTAGAGGAG-CA-GTTTA-CTTTCCAAAAGTCATTGAGCCTCTACTTAAAAGAGC
66 GAGCCTCTGTTTAGAGGAGCCATGTTTATCTTTCC-AAAGTCATTGAGCCTCTACTTAAAAGAGC
10401117 CTT
130 CTT
* *
10401120 GTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTGTTAATTTTTCAAAAGTTATT
1 GTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTAATTTTTCAAAAGTCATT
* * * * *
10401185 GAGCCTCTGTTTAGAGGAGCCATGTTTATCTTTTCAAAGTTATTGAGCCTCTGCTTAGAGGAGCC
66 GAGCCTCTGTTTAGAGGAGCCATGTTTATCTTTCCAAAGTCATTGAGCCTCTACTTAAAAGAGCC
10401250 TT
131 TT
* * * *
10401252 ATTTATTTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGC
1 GTTTA-TTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGC
10401294 TTTGACCAAG
Statistics
Matches: 156, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
130 79 0.51
131 2 0.01
132 37 0.24
133 38 0.24
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (132 bp):
GTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTAATTTTTCAAAAGTCATT
GAGCCTCTGTTTAGAGGAGCCATGTTTATCTTTCCAAAGTCATTGAGCCTCTACTTAAAAGAGCC
TT
Found at i:10401498 original size:6 final size:6
Alignment explanation
Indices: 10401483--10401565 Score: 51
Period size: 6 Copynumber: 12.8 Consensus size: 6
10401473 TTTAAATTTG
*
10401483 TTTTTA -TTTTA TTTTTA TTTGTTTA TTATTTA TTTTTA TTATTTA CTATTATA
1 TTTTTA TTTTTA TTTTTA -TT-TTTA TT-TTTA TTTTTA TT-TTTA -T-TTTTA
* * * *
10401536 TATTATA TTATTA TTATTA TTATTA TTTTT
1 T-TTTTA TTTTTA TTTTTA TTTTTA TTTTT
10401566 GATTGATTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 5 0.08
6 30 0.45
7 22 0.33
8 8 0.12
9 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (6 bp):
TTTTTA
Found at i:10401504 original size:21 final size:21
Alignment explanation
Indices: 10401478--10401522 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
10401468 CATTTTTTAA
10401478 ATTTGTTT-TTATTTTATTTTT
1 ATTTGTTTATTA-TTTATTTTT
10401499 ATTTGTTTATTATTTATTTTT
1 ATTTGTTTATTATTTATTTTT
10401520 ATT
1 ATT
10401523 ATTTACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
ATTTGTTTATTATTTATTTTT
Found at i:10401524 original size:3 final size:3
Alignment explanation
Indices: 10401505--10401562 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
10401495 TTTTATTTGT
* *
10401505 TTA TTA TTTA TTT TTA TTA TTTA CTA TTA TATA TTA -TA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA
10401552 TTA TTA TTA TT
1 TTA TTA TTA TT
10401563 TTTGATTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 9 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10402536 original size:73 final size:72
Alignment explanation
Indices: 10402436--10402576 Score: 167
Period size: 73 Copynumber: 1.9 Consensus size: 72
10402426 AATGATTTTC
** *
10402436 CTAAAATAAAAATTCCAAAAAAAATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 CTAAAATAAAAATTCCAAAAAAAATTTTAGAAGGAAAAGTTAAAAGTATCAATTTT-CTTAAAAA
10402501 TAAAGTTT
65 TAAAGTTT
* * ** * * *
10402509 CTAAAATAAAAATTTTC-AAAAACATTTTAGGGGGGAAAGTTAAAAGTATTAATTTTCTTGAAAA
1 CTAAAATAAAAA-TTCCAAAAAAAATTTTAGAAGGAAAAGTTAAAAGTATCAATTTTCTTAAAAA
10402573 TAAA
65 TAAA
10402577 AAATTTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
72 11 0.19
73 43 0.75
74 3 0.05
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (72 bp):
CTAAAATAAAAATTCCAAAAAAAATTTTAGAAGGAAAAGTTAAAAGTATCAATTTTCTTAAAAAT
AAAGTTT
Found at i:10402721 original size:13 final size:12
Alignment explanation
Indices: 10402689--10402722 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10402679 AAAGTGAATC
10402689 ATTATTTTTTTT
1 ATTATTTTTTTT
10402701 ATTATTTTATTTT
1 ATTATTTT-TTTT
10402714 ATT-TTTTTT
1 ATTATTTTTT
10402723 AATAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 12 0.57
13 7 0.33
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
ATTATTTTTTTT
Found at i:10402735 original size:22 final size:22
Alignment explanation
Indices: 10402690--10402736 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
10402680 AAGTGAATCA
* *
10402690 TTATTTTTTTTATTATTTTATT
1 TTATTTTTTTTATAAATTTATT
10402712 TTATTTTTTTTAATAAATTT-TT
1 TTATTTTTTTT-ATAAATTTATT
10402734 TTA
1 TTA
10402737 ATGTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTATTTTTTTTATAAATTTATT
Found at i:10407699 original size:17 final size:18
Alignment explanation
Indices: 10407679--10407715 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10407669 CAAAAATTTC
10407679 ATAAAAT-TTAATATAAT
1 ATAAAATATTAATATAAT
*
10407696 AT-AAATATTAATTTAAT
1 ATAAAATATTAATATAAT
10407713 ATA
1 ATA
10407716 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAAATATTAATATAAT
Found at i:10407713 original size:11 final size:11
Alignment explanation
Indices: 10407683--10407893 Score: 51
Period size: 11 Copynumber: 17.8 Consensus size: 11
10407673 AATTTCATAA
10407683 AATTTAATA-T
1 AATTTAATATT
*
10407693 AATATAAATATT
1 AAT-TTAATATT
10407705 AATTTAATATATT
1 AATTT-A-ATATT
10407718 AAATTTTAAT-TT
1 -AA-TTTAATATT
10407730 AA--TAATATT
1 AATTTAATATT
10407739 GAATATTGAATTATT
1 -AAT-TT-AA-TATT
10407754 AATTTTAAATATT
1 AA-TTT-AATATT
*
10407767 GATTTAATAATTCT
1 AATTTAAT-A-T-T
10407781 AAATATTAATATGAT
1 -AAT-TTAATAT--T
*
10407796 AATATTAAGT-CT
1 AAT-TTAA-TATT
*
10407808 AAGTTTAATAAT
1 AA-TTTAATATT
*
10407820 ATTTTAATATT
1 AATTTAATATT
*
10407831 -ATGTTAATAAT
1 AAT-TTAATATT
10407842 -ATTTAATATT
1 AATTTAATATT
* *
10407852 AAGTTAATAAT
1 AATTTAATATT
10407863 -ATTTAAATATT
1 AATTT-AATATT
* * *
10407874 ATTTTGATAAT
1 AATTTAATATT
*
10407885 ATTTTAATA
1 AATTTAATA
10407894 AGACTTTATA
Statistics
Matches: 153, Mismatches: 21, Indels: 53
0.67 0.09 0.23
Matches are distributed among these distances:
8 4 0.03
9 2 0.01
10 16 0.10
11 54 0.35
12 23 0.15
13 15 0.10
14 21 0.14
15 13 0.08
16 5 0.03
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (11 bp):
AATTTAATATT
Found at i:10407726 original size:20 final size:20
Alignment explanation
Indices: 10407683--10407874 Score: 115
Period size: 21 Copynumber: 9.1 Consensus size: 20
10407673 AATTTCATAA
10407683 AATTTAATATAATATAAATATT
1 AATTTAATAT-AT-TAAATATT
*
10407705 AATTTAATATATTAAATTTT
1 AATTTAATATATTAAATATT
*
10407725 AATTTAATAATATTGAATATT
1 AATTTAAT-ATATTAAATATT
10407746 GAATTATTAAT-T-TTAAATATT
1 -AA-T-TTAATATATTAAATATT
*
10407767 GATTTAATA-ATTCTAAATATT
1 AATTTAATATA-T-TAAATATT
* * * *
10407788 AATATGATAATATTAAGT-CT
1 AATTTAAT-ATATTAAATATT
*
10407808 AAGTTTAATAATATTTTAATATT
1 AA-TTTAAT-ATA-TTAAATATT
*
10407831 -ATGTTAATAATATTTAATATT
1 AAT-TTAAT-ATATTAAATATT
*
10407852 AAGTTAATAATATTTAAATATT
1 AATTTAAT-ATA-TTAAATATT
10407874 A
1 A
10407875 TTTTGATAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.04
19 1 0.01
20 20 0.15
21 64 0.47
22 39 0.28
23 3 0.02
24 5 0.04
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (20 bp):
AATTTAATATATTAAATATT
Found at i:10407744 original size:28 final size:28
Alignment explanation
Indices: 10407713--10407768 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10407703 TTAATTTAAT
10407713 ATATTAAATT-TTAATTTAATAATATTGA
1 ATATTAAATTATTAATTTAA-AATATTGA
* *
10407741 ATATTGAATTATTAATTTTAAATATTGA
1 ATATTAAATTATTAATTTAAAATATTGA
10407769 TTTAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (28 bp):
ATATTAAATTATTAATTTAAAATATTGA
Found at i:10407840 original size:22 final size:22
Alignment explanation
Indices: 10407812--10407893 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
10407802 AAGTCTAAGT
10407812 TTAATAATATTTTAATATTATG
1 TTAATAATATTTTAATATTATG
*
10407834 TTAATAATA-TTTAATATTAAG
1 TTAATAATATTTTAATATTATG
* *
10407855 TTAATAATATTTAAATATTATT
1 TTAATAATATTTTAATATTATG
*
10407877 TTGATAATATTTTAATA
1 TTAATAATATTTTAATA
10407894 AGACTTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.38
22 33 0.62
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTAATAATATTTTAATATTATG
Found at i:10407841 original size:43 final size:42
Alignment explanation
Indices: 10407794--10407887 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 42
10407784 TATTAATATG
*
10407794 ATAATATTAAGT-CTAAGTTTAATAATATTTTAATATTATGTTA
1 ATAATATTAA-TACTAAG-TTAATAATATTTAAATATTATGTTA
* * *
10407837 ATAATATTTAATATTAAGTTAATAATATTTAAATATTATTTTG
1 ATAATA-TTAATACTAAGTTAATAATATTTAAATATTATGTTA
10407880 ATAATATT
1 ATAATATT
10407888 TTAATAAGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
42 2 0.04
43 35 0.78
44 8 0.18
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (42 bp):
ATAATATTAATACTAAGTTAATAATATTTAAATATTATGTTA
Found at i:10407888 original size:43 final size:43
Alignment explanation
Indices: 10407697--10407893 Score: 158
Period size: 42 Copynumber: 4.6 Consensus size: 43
10407687 TAATATAATA
* * *
10407697 TAAATATTAATTTAAT-ATATTAAATTTTAATTTAATAATA-T
1 TAAATATTAATTTAATAATATTTAATATTAAGTTAATAATATT
* * * * *
10407738 TGAATATTGAA-TTATTAAT-TTTAAATATTGATTTAATAAT-TC
1 TAAATATT-AATTTAATAATATTT-AATATTAAGTTAATAATATT
* * *
10407780 TAAATATTAATATGATAATA-TTAAGT-CTAAGTTTAATAATATT
1 TAAATATTAATTTAATAATATTTAA-TATTAAG-TTAATAATATT
*
10407823 TTAATATT-ATGTTAATAATATTTAATATTAAGTTAATAATATT
1 TAAATATTAAT-TTAATAATATTTAATATTAAGTTAATAATATT
* *
10407866 TAAATATTATTTTGATAATATTTTAATA
1 TAAATATTAATTTAATAATA-TTTAATA
10407894 AGACTTTATA
Statistics
Matches: 121, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
41 19 0.16
42 44 0.36
43 42 0.35
44 16 0.13
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.50
Consensus pattern (43 bp):
TAAATATTAATTTAATAATATTTAATATTAAGTTAATAATATT
Found at i:10407894 original size:11 final size:11
Alignment explanation
Indices: 10407811--10407923 Score: 106
Period size: 11 Copynumber: 10.5 Consensus size: 11
10407801 TAAGTCTAAG
10407811 TTTAATAATAT
1 TTTAATAATAT
*
10407822 TTTAATATTAT
1 TTTAATAATAT
*
10407833 GTTAATAATA-
1 TTTAATAATAT
* *
10407843 TTTAATATTAA
1 TTTAATAATAT
*
10407854 GTTAATAATAT
1 TTTAATAATAT
* *
10407865 TTAAATATTAT
1 TTTAATAATAT
*
10407876 TTTGATAATAT
1 TTTAATAATAT
* *
10407887 TTTAATAAGAC
1 TTTAATAATAT
10407898 TTT-AT-ATGAT
1 TTTAATAAT-AT
10407908 TTTAATAATAT
1 TTTAATAATAT
10407919 TTTAA
1 TTTAA
10407924 CTTTTTTATA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
9 1 0.01
10 14 0.18
11 62 0.78
12 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:10407894 original size:54 final size:54
Alignment explanation
Indices: 10407814--10407920 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
10407804 GTCTAAGTTT
* * *
10407814 AATAATATTTTAATATTATGTTAATAATA-TTTAATATTAAGTTAATAATATTTA
1 AATAATATTTTAATAATATGTTAATAAGACTTT-ATATGAAGTTAATAATATTTA
* * * **
10407868 AATATTATTTTGATAATATTTTAATAAGACTTTATATGATTTTAATAATATTT
1 AATAATATTTTAATAATATGTTAATAAGACTTTATATGAAGTTAATAATATTT
10407921 TAACTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 41 0.93
55 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATATTTTAATAATATGTTAATAAGACTTTATATGAAGTTAATAATATTTA
Found at i:10407922 original size:21 final size:21
Alignment explanation
Indices: 10407815--10407922 Score: 85
Period size: 21 Copynumber: 5.0 Consensus size: 21
10407805 TCTAAGTTTA
* *
10407815 ATAATATTTTAATATTATGTTA
1 ATAATATTTTAATAATAT-TTT
* * *
10407837 ATAATA-TTTAATATTAAGTTA
1 ATAATATTTTAATAAT-ATTTT
* *
10407858 ATAATATTTAAATATTATTTT
1 ATAATATTTTAATAATATTTT
* *
10407879 GATAATATTTTAATAAGACTTT
1 -ATAATATTTTAATAATATTTT
10407901 AT-ATGATTTTAATAATATTTT
1 ATAAT-ATTTTAATAATATTTT
10407922 A
1 A
10407923 ACTTTTTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.03
21 38 0.53
22 32 0.44
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (21 bp):
ATAATATTTTAATAATATTTT
Found at i:10408066 original size:11 final size:11
Alignment explanation
Indices: 10408050--10408131 Score: 50
Period size: 11 Copynumber: 7.8 Consensus size: 11
10408040 GCATAACATG
*
10408050 TTAATATTGTT
1 TTAATATTATT
* *
10408061 TTAATAGCT-TG
1 TTAATA-TTATT
10408072 TTAATATTATT
1 TTAATATTATT
10408083 TTAATGA-TATT
1 TTAAT-ATTATT
10408094 TT-A-A-TA-T
1 TTAATATTATT
*
10408101 TTCATATTATT
1 TTAATATTATT
*
10408112 TTAATATTACT
1 TTAATATTATT
*
10408123 TGAATATTA
1 TTAATATTA
10408132 AATATTAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
9 1 0.02
10 4 0.07
11 43 0.75
12 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (11 bp):
TTAATATTATT
Found at i:10408097 original size:22 final size:22
Alignment explanation
Indices: 10408048--10408101 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10408038 TTGCATAACA
* *
10408048 TGTTAATATTGTTTTAATAGCT
1 TGTTAATATTATTTTAATAGAT
10408070 TGTTAATATTATTTTAAT-GAT
1 TGTTAATATTATTTTAATAGAT
*
10408091 ATTTTAATATT
1 -TGTTAATATT
10408102 TCATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (22 bp):
TGTTAATATTATTTTAATAGAT
Found at i:10408136 original size:29 final size:29
Alignment explanation
Indices: 10408074--10408138 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
10408064 ATAGCTTGTT
* * *
10408074 AATATTATTTTAATGATATTTTAATATTT
1 AATATTATTTTAATGATACTTGAATATTA
*
10408103 CATATTATTTTAAT-ATTACTTGAATATTA
1 AATATTATTTTAATGA-TACTTGAATATTA
10408132 AATATTA
1 AATATTA
10408139 ATTTCTTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
AATATTATTTTAATGATACTTGAATATTA
Found at i:10408188 original size:18 final size:20
Alignment explanation
Indices: 10408151--10408201 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
10408141 TTCTTGTTAT
*
10408151 TTTATAATATTTAAATATAA
1 TTTATAATATTTAAAAATAA
10408171 TTTA-AATA-TTAAAAATAA
1 TTTATAATATTTAAAAATAA
*
10408189 TTGAGTAATATTT
1 TTTA-TAATATTT
10408202 TATATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.46
19 4 0.15
20 8 0.31
21 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTATAATATTTAAAAATAA
Found at i:10408220 original size:21 final size:21
Alignment explanation
Indices: 10408194--10408279 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 21
10408184 AATAATTGAG
10408194 TAATATTTTATATTATTTTTA
1 TAATATTTTATATTATTTTTA
**
10408215 TAATATTTTATTATATATTAATA
1 TAATATTTTA-TAT-TATTTTTA
* * *
10408238 TAATAATTT-TATTCTTTTAA
1 TAATATTTTATATTATTTTTA
*
10408258 TAATATTTTAATGTTATTTTTA
1 TAATATTTT-ATATTATTTTTA
10408280 CTATTAAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 12 0.24
21 13 0.26
22 11 0.22
23 14 0.28
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TAATATTTTATATTATTTTTA
Found at i:10408269 original size:11 final size:10
Alignment explanation
Indices: 10408148--10408267 Score: 54
Period size: 11 Copynumber: 11.7 Consensus size: 10
10408138 AATTTCTTGT
10408148 TATTTTATAA
1 TATTTTATAA
10408158 TA-TTTA-AA
1 TATTTTATAA
10408166 TATAATTTA-AA
1 TAT--TTTATAA
* *
10408177 TA-TTAAAAA
1 TATTTTATAA
* *
10408186 TAATTGAGTAA
1 TATTTTA-TAA
*
10408197 TATTTTATAT
1 TATTTTATAA
10408207 TATTTTTATAA
1 TA-TTTTATAA
10408218 TATTTTATTATA
1 TATTTTA-TA-A
*
10408230 TATTAATATAA
1 TATT-TTATAA
10408241 TAATTTTAT--
1 T-ATTTTATAA
*
10408250 TCTTTTAATAA
1 TATTTT-ATAA
10408261 TATTTTA
1 TATTTTA
10408268 ATGTTATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 28
0.69 0.09 0.23
Matches are distributed among these distances:
8 11 0.13
9 11 0.13
10 15 0.18
11 36 0.42
12 10 0.12
13 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (10 bp):
TATTTTATAA
Found at i:10408346 original size:11 final size:11
Alignment explanation
Indices: 10408312--10408346 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10408302 TATTTTAACA
10408312 TTTAATATTAT
1 TTTAATATTAT
* *
10408323 TATAATAATAT
1 TTTAATATTAT
10408334 TTTAATATTAT
1 TTTAATATTAT
10408345 TT
1 TT
10408347 AAACATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:10408369 original size:11 final size:10
Alignment explanation
Indices: 10408311--10408374 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
10408301 ATATTTTAAC
10408311 ATTTAATATT
1 ATTTAATATT
*
10408321 ATTATAATAAT
1 ATT-TAATATT
10408332 ATTTTAATATT
1 A-TTTAATATT
*
10408343 ATTTAA-A-C
1 ATTTAATATT
*
10408351 ATTAAATATT
1 ATTTAATATT
*
10408361 AATTTAATAAT
1 -ATTTAATATT
10408372 ATT
1 ATT
10408375 AATCGTGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 11 0.26
11 22 0.52
12 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAATATT
Found at i:10408554 original size:129 final size:127
Alignment explanation
Indices: 10408411--10408676 Score: 304
Period size: 129 Copynumber: 2.1 Consensus size: 127
10408401 CCCTAGTTAT
* * * *
10408411 ATATGAAATTTTAATATAATATAAAATTAACTATATAATAAATTACTAAAATA-TATT-TACCAT
1 ATATTAAATTTTAATATAACATAAAAATAACTACATAATAAATTACTAAAATACTATTATA--AT
** * * * *
10408474 TGCTTTATAAAAATTTGACACGTGATATTTCGTTTAAAATTTACTATAATACCCCT-ATTAAATT
64 CACTTCATAAAAATTTGACACGTGATATTT--TATAAAAATTACTATAATA-CCCTAATGAAATT
*
10408538 AC
126 AA
* * * * *
10408540 ATATTAAATTTTAATATGACATAAAAATAGCTACATATTAAATTATTAAAATACTCTTATAATCA
1 ATATTAAATTTTAATATAACATAAAAATAACTACATAATAAATTACTAAAATACTATTATAATCA
* *
10408605 CTTCATAAAAATTTGACATGTGATATTTTATAAAAATTACTATGATACCCTAATGAAATTAA
66 CTTCATAAAAATTTGACACGTGATATTTTATAAAAATTACTATAATACCCTAATGAAATTAA
10408667 ATATTAAATT
1 ATATTAAATT
10408677 AATTACATAA
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
126 4 0.03
127 34 0.29
129 73 0.63
130 3 0.03
131 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (127 bp):
ATATTAAATTTTAATATAACATAAAAATAACTACATAATAAATTACTAAAATACTATTATAATCA
CTTCATAAAAATTTGACACGTGATATTTTATAAAAATTACTATAATACCCTAATGAAATTAA
Found at i:10408720 original size:129 final size:127
Alignment explanation
Indices: 10408480--10408707 Score: 304
Period size: 127 Copynumber: 1.8 Consensus size: 127
10408470 CCATTGCTTT
* * * *
10408480 ATAAAAATTTGACACGTGATATTTCGTTTAAAATTTACTATAATACCCCTATTAAATTACATATT
1 ATAAAAATTTGACACGTGATATTTC-TATAAAAATTACTATAATACCCCTATGAAATTAAATATT
**
10408545 AAATTTTAATATGACATAAAAATAGCTACATATTAAATTATTAAAATACTCTTATAATCACTTC
65 AAA-TTTAATATGACATAAAAATAAATACATATTAAATTATTAAAATACTCTTATAATCACTTC
* *
10408609 ATAAAAATTTGACATGTGATATTT-TATAAAAATTACTATGATA-CCCTAATGAAATTAAATATT
1 ATAAAAATTTGACACGTGATATTTCTATAAAAATTACTATAATACCCCT-ATGAAATTAAATATT
*
10408672 AAA-TTAAT-T-ACATAAAACTTAAATACATATTAAATT
65 AAATTTAATATGACATAAAA-ATAAATACATATTAAATT
10408708 TCTATAATAA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
123 8 0.09
124 16 0.18
125 5 0.06
126 4 0.05
127 32 0.36
129 23 0.26
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (127 bp):
ATAAAAATTTGACACGTGATATTTCTATAAAAATTACTATAATACCCCTATGAAATTAAATATTA
AATTTAATATGACATAAAAATAAATACATATTAAATTATTAAAATACTCTTATAATCACTTC
Found at i:10412206 original size:108 final size:110
Alignment explanation
Indices: 10412076--10412352 Score: 335
Period size: 108 Copynumber: 2.5 Consensus size: 110
10412066 AAAGTTTTTG
* *
10412076 TTTTTATTTTTATTTAAAAAAAAAGGCAC-CTTGAAACTTTGTCAATTAATTAATTATATATAC-
1 TTTTTATTTTTATTTAAAAAAAAAGGAACTC-TGAAACTTTGTCAATTAATTAATTAGATATACA
* *
10412139 ATGTCTCAATT-AAACTTTGCACCCACAGTACTAGTGAAGCCTTTA
65 ATGTCTCAATTAAAACTTTGCACCCACAGCACGAGTGAAGCCTTTA
***
10412184 TTTTTATTTTTATTTTTGAAAAAAGGAACTCTGAAACTTTGTCAATTAATTAATTAGATATACAT
1 TTTTTATTTTTATTTAAAAAAAAAGGAACTCTGAAACTTTGTCAATTAATTAATTAGATATACA-
*** *
10412249 ATGTCTCAATTAAAACTTTGCACCCACAGCACGAGTGAAATTTTTTTT
65 ATGTCTCAATTAAAACTTTGCACCCACAGCACGAGTG-AA-GCCTTTA
* * *
10412297 TTTATTATTTTTATTTAAAAAGAAAAAAGAAACTGTGAAACTTTATCAATTAATTA
1 TTT-TTATTTTTATTT--AAA-AAAAAAGGAACTCTGAAACTTTGTCAATTAATTA
10412353 TATATATATA
Statistics
Matches: 142, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
108 56 0.39
109 1 0.01
110 11 0.08
111 23 0.16
112 2 0.01
113 6 0.04
114 12 0.08
117 31 0.22
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (110 bp):
TTTTTATTTTTATTTAAAAAAAAAGGAACTCTGAAACTTTGTCAATTAATTAATTAGATATACAA
TGTCTCAATTAAAACTTTGCACCCACAGCACGAGTGAAGCCTTTA
Found at i:10412356 original size:111 final size:109
Alignment explanation
Indices: 10412070--10412363 Score: 289
Period size: 111 Copynumber: 2.6 Consensus size: 109
10412060 AATTTAAAAG
* * * * *
10412070 TTTTTGTTT-TTATTTTTATTTAAAA-AAAAAGGCACCTTGAAACTTTGTCAATTAATTAATTAT
1 TTTTTTTTTATTATTTTTATTTAAAAGAAAAAAGAAACTTGAAACTTTATCAATTAATTAA-TAT
* * *
10412133 ATATACATGTCTCAATTAAACTTTGCACCCACAGTACTAGTGAAGCC
65 ATAT--ATGTCTCAATTAAACTTTGCACCCACAGCACGAGTGAAACC
* * *
10412180 TTTATTTTTATT-TTTATT-TTT----GAAAAAAGGAACTCTGAAACTTTGTCAATTAATTAATT
1 TTTTTTTTTATTATTT-TTATTTAAAAGAAAAAAGAAACT-TGAAACTTTATCAATTAATTAA-T
**
10412239 AGATATACATATGTCTCAATTAAAACTTTGCACCCACAGCACGAGTGAAATT
63 --ATAT--ATATGTCTCAATT-AAACTTTGCACCCACAGCACGAGTGAAACC
10412291 TTTTTTTTTATTATTTTTATTTAAAAAGAAAAAAGAAACTGTGAAACTTTATCAATTAATTATAT
1 TTTTTTTTTATTATTTTTATTT-AAAAGAAAAAAGAAACT-TGAAACTTTATCAATTAATTA-AT
10412356 ATATATAT
63 ATATATAT
10412364 ATATATATAT
Statistics
Matches: 153, Mismatches: 14, Indels: 31
0.77 0.07 0.16
Matches are distributed among these distances:
107 9 0.06
108 24 0.16
110 28 0.18
111 42 0.27
112 8 0.05
113 4 0.03
115 4 0.03
117 33 0.22
118 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (109 bp):
TTTTTTTTTATTATTTTTATTTAAAAGAAAAAAGAAACTTGAAACTTTATCAATTAATTAATATA
TATATGTCTCAATTAAACTTTGCACCCACAGCACGAGTGAAACC
Found at i:10412630 original size:21 final size:21
Alignment explanation
Indices: 10412604--10412647 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10412594 ATGTCTCAAT
10412604 TAAACTTTGCACCCACAGTAC
1 TAAACTTTGCACCCACAGTAC
* *
10412625 TAAACTTTTCACCCACGGTAC
1 TAAACTTTGCACCCACAGTAC
10412646 TA
1 TA
10412648 GTGAAGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.27
Consensus pattern (21 bp):
TAAACTTTGCACCCACAGTAC
Found at i:10424832 original size:11 final size:11
Alignment explanation
Indices: 10424760--10424872 Score: 50
Period size: 11 Copynumber: 11.1 Consensus size: 11
10424750 TTTGCATAAA
10424760 ATTTTAATATT
1 ATTTTAATATT
* *
10424771 GTTTTAATAGCT
1 ATTTTAATA-TT
*
10424783 -TGTTAATATT
1 ATTTTAATATT
10424793 A-TTTAATGA-T
1 ATTTTAAT-ATT
10424803 ATTTT-A-A-T
1 ATTTTAATATT
*
10424811 A-TTTCATATT
1 ATTTTAATATT
10424821 ATTTTAATATT
1 ATTTTAATATT
* *
10424832 A-CTTGA-A-T
1 ATTTTAATATT
*
10424840 A-TTTCATATT
1 ATTTTAATATT
10424850 ATTTTAATATT
1 ATTTTAATATT
* *
10424861 ACTTGAATATT
1 ATTTTAATATT
10424872 A
1 A
10424873 AATATTAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
7 3 0.04
8 9 0.12
9 3 0.04
10 16 0.21
11 46 0.59
12 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (11 bp):
ATTTTAATATT
Found at i:10424840 original size:29 final size:29
Alignment explanation
Indices: 10424808--10424890 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
10424798 ATGATATTTT
10424808 AATATTTCATATTATTTTAATATTACTTG
1 AATATTTCATATTATTTTAATATTACTTG
10424837 AATATTTCATATTATTTTAATATTACTTG
1 AATATTTCATATTATTTTAATATTACTTG
** *
10424866 AATATTAAATATTAATTTAATATTA
1 AATATTTCATATTATTTTAATATTA
10424891 ATTTCTTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (29 bp):
AATATTTCATATTATTTTAATATTACTTG
Found at i:10424876 original size:18 final size:18
Alignment explanation
Indices: 10424855--10424891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10424845 ATATTATTTT
*
10424855 AATATTACTTGAATATTA
1 AATATTAATTGAATATTA
*
10424873 AATATTAATTTAATATTA
1 AATATTAATTGAATATTA
10424891 A
1 A
10424892 TTTCTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATATTAATTGAATATTA
Found at i:10424975 original size:11 final size:11
Alignment explanation
Indices: 10424956--10424998 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
10424946 AGTAATTGAG
10424956 TAATATTTTAA
1 TAATATTTTAA
* *
10424967 TATTATTTTTA
1 TAATATTTTAA
*
10424978 TAAGATTTTAA
1 TAATATTTTAA
*
10424989 TAGTATTTTA
1 TAATATTTTA
10424999 TTGAATATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:10425121 original size:11 final size:11
Alignment explanation
Indices: 10425087--10425121 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10425077 TATTTTAACA
10425087 TTTAATATTAT
1 TTTAATATTAT
* *
10425098 TATAATAGTAT
1 TTTAATATTAT
10425109 TTTAATATTAT
1 TTTAATATTAT
10425120 TT
1 TT
10425122 AAACATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:10425144 original size:11 final size:10
Alignment explanation
Indices: 10425086--10425149 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
10425076 ATATTTTAAC
10425086 ATTTAATATT
1 ATTTAATATT
*
10425096 ATTATAATAGT
1 ATT-TAATATT
10425107 ATTTTAATATT
1 A-TTTAATATT
*
10425118 ATTTAA-A-C
1 ATTTAATATT
*
10425126 ATTAAATATT
1 ATTTAATATT
*
10425136 AATTTAATAAT
1 -ATTTAATATT
10425147 ATT
1 ATT
10425150 AATCGTTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 11 0.26
11 22 0.52
12 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (10 bp):
ATTTAATATT
Found at i:10425445 original size:127 final size:129
Alignment explanation
Indices: 10425185--10425448 Score: 290
Period size: 127 Copynumber: 2.1 Consensus size: 129
10425175 CCCTAGTTAT
* * * * * * *
10425185 ATATGAAATTTTAATATAATATAAAATTAATTACATATTAAATTACTAAAATATATTTATCATTG
1 ATATTAAATTTTAATATAATATAAAAATAACTACATATTAAATCACTAAAACATACTTATCATGG
* * * * * * * *
10425250 CTTCATAAAAATTTGATATGTGATATTTTGTTTGAAATTTACTGTAATACCTCCATTAAATTAC
66 CTTCATAAAAATTTAACATGTGATATTTTGTATAAAAATTACTATAATACCTCAATGAAATTAC
* *
10425314 --ATTAAATTTTAATATGATATAAAAATAGCTACATATTAAATCACTAAAACACT-CTTA-CAAT
1 ATATTAAATTTTAATATAATATAAAAATAACTACATATTAAATCACTAAAACA-TACTTATC-AT
*
10425375 GGCTTCATAAAAATTTAACATGTGGTA-TTT-TATAAAAATTACTATAATACC-CTAATGAAATT
64 GGCTTCATAAAAATTTAACATGTGATATTTTGTATAAAAATTACTATAATACCTC-AATGAAATT
10425437 AC
128 AC
10425439 ATATTAAATT
1 ATATTAAATT
10425449 AATTACATAA
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
124 1 0.01
125 26 0.23
126 4 0.04
127 80 0.71
128 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (129 bp):
ATATTAAATTTTAATATAATATAAAAATAACTACATATTAAATCACTAAAACATACTTATCATGG
CTTCATAAAAATTTAACATGTGATATTTTGTATAAAAATTACTATAATACCTCAATGAAATTAC
Found at i:10425454 original size:16 final size:15
Alignment explanation
Indices: 10425433--10425479 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
10425423 ACCCTAATGA
10425433 AATTACATATTAAATT
1 AATTACATA-TAAATT
10425449 AATTACATA-AAACTT
1 AATTACATATAAA-TT
*
10425464 AAATACATAATAAATT
1 AATTACAT-ATAAATT
10425480 TCTATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 12 0.44
17 3 0.11
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTACATATAAATT
Found at i:10425725 original size:20 final size:20
Alignment explanation
Indices: 10425702--10425740 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10425692 ATATATTGAT
10425702 TTTAATTATTTTATAATATA
1 TTTAATTATTTTATAATATA
* *
10425722 TTTATTTATTTTATTATAT
1 TTTAATTATTTTATAATAT
10425741 GTTATTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTATTTTATAATATA
Found at i:10425754 original size:18 final size:18
Alignment explanation
Indices: 10425718--10425755 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10425708 TATTTTATAA
*
10425718 TATATTTATTTATTTTAT
1 TATATTTATTTATTGTAT
10425736 TATATGTTATTT-TTGTAT
1 TATAT-TTATTTATTGTAT
10425754 TA
1 TA
10425756 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TATATTTATTTATTGTAT
Found at i:10425781 original size:21 final size:20
Alignment explanation
Indices: 10425751--10425790 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10425741 GTTATTTTTG
*
10425751 TATTAAAATAATTATAAATA
1 TATTAAAATAATTACAAATA
10425771 TATTCAAAATAATTACAAAT
1 TATT-AAAATAATTACAAAT
10425791 TGATAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TATTAAAATAATTACAAATA
Found at i:10425894 original size:17 final size:17
Alignment explanation
Indices: 10425872--10425908 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10425862 CAAGTTGAAG
*
10425872 AAAGGTTAAAATAACAT
1 AAAGGTTAAAAAAACAT
10425889 AAAGGTTAAAAAAACAT
1 AAAGGTTAAAAAAACAT
10425906 AAA
1 AAA
10425909 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAGGTTAAAAAAACAT
Found at i:10435841 original size:24 final size:25
Alignment explanation
Indices: 10435797--10435847 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
10435787 CCTTAAACGA
* *
10435797 GTTCATTCCATATGACCCTTTT-TT
1 GTTCATTCCACATAACCCTTTTCTT
*
10435821 GTTCATTCCACATAACTCTTTTCTT
1 GTTCATTCCACATAACCCTTTTCTT
10435846 GT
1 GT
10435848 AATAACTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.18, C:0.25, G:0.08, T:0.49
Consensus pattern (25 bp):
GTTCATTCCACATAACCCTTTTCTT
Found at i:10437474 original size:31 final size:31
Alignment explanation
Indices: 10437436--10437517 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
10437426 CTAATGAAGT
* *
10437436 TTTAAGCCCAATTTAGCTAGCATCAATGAGA
1 TTTAAGCCCAATTTAGCTAGCATCAATCAAA
* * * *
10437467 TTTAAGCCAAATTGAGCTGGTATCAATCAAA
1 TTTAAGCCCAATTTAGCTAGCATCAATCAAA
*
10437498 TTTAAGCCCAATGTAGCTAG
1 TTTAAGCCCAATTTAGCTAG
10437518 TACGCAAGCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (31 bp):
TTTAAGCCCAATTTAGCTAGCATCAATCAAA
Found at i:10437586 original size:116 final size:116
Alignment explanation
Indices: 10437372--10437586 Score: 259
Period size: 116 Copynumber: 1.9 Consensus size: 116
10437362 TTTAGTTGGC
* * * * * *
10437372 ATCAATGAGATTTAAGCCCAATGTAGTTAACACACAAGCCCAAATTATCTGACACTAATGAAGTT
1 ATCAATCAAATTTAAGCCCAATGTAGCTAACACACAAGCCCAAATTATCTGACACCAATAAAGTC
* * *
10437437 TTAAGCCCAATTTAGCTAGCATCAATGAGATTTAAGCCAAATTGAGCTGGT
66 TTAAGCCCAATTTAACTAGCATCAATAAAATTTAAGCCAAATTGAGCTGGT
** * * * * * *
10437488 ATCAATCAAATTTAAGCCCAATGTAGCTAGTACGCAAGCTCAGATTATTTGGCACCCATAAAGTC
1 ATCAATCAAATTTAAGCCCAATGTAGCTAACACACAAGCCCAAATTATCTGACACCAATAAAGTC
* *
10437553 TTAAGCCCAGTTTAACTAGCATTAATAAAATTTA
66 TTAAGCCCAATTTAACTAGCATCAATAAAATTTA
10437587 CGCCTATTGT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
116 80 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (116 bp):
ATCAATCAAATTTAAGCCCAATGTAGCTAACACACAAGCCCAAATTATCTGACACCAATAAAGTC
TTAAGCCCAATTTAACTAGCATCAATAAAATTTAAGCCAAATTGAGCTGGT
Found at i:10437682 original size:84 final size:84
Alignment explanation
Indices: 10437467--10437723 Score: 221
Period size: 84 Copynumber: 3.0 Consensus size: 84
10437457 ATCAATGAGA
* * * * * * * *
10437467 TTTAAGCCAAATTGAGCTGGTATCAATCAAATTTAAGCCCAATGTAGCTAGTACGCAAGCTCAGA
1 TTTAAGCCCAGTTTAGCTGGCATCAATAAAATTTAAG-CCAATGTAACTGGAACGCAAGCTCAGA
* * * * *
10437532 TTATTTGGCACCCATAAAGT
65 TTATCTGACAACAATAAAAT
* * * * * * * *
10437552 CTTAAGCCCAGTTTAACTAGCATTAATAAAATTTACGCCTATTGTAACTGGAATGTAAGC-CAGA
1 TTTAAGCCCAGTTTAGCTGGCATCAATAAAATTTAAGCC-AATGTAACTGGAACGCAAGCTCAGA
10437616 TTATCTGACAACAATAAAAT
65 TTATCTGACAACAATAAAAT
* * * *
10437636 TTTAAGCCCAGTTTAGCTGGCATCAATAAAATTTAAGCTCAATGTAACTGGCATGCAAGTTTAGA
1 TTTAAGCCCAGTTTAGCTGGCATCAATAAAATTTAAGC-CAATGTAACTGGAACGCAAGCTCAGA
* *
10437701 TTATCT-AGCACCAATAAAGT
65 TTATCTGA-CAACAATAAAAT
10437721 TTT
1 TTT
10437724 TAAATACAAT
Statistics
Matches: 135, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
84 71 0.53
85 64 0.47
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (84 bp):
TTTAAGCCCAGTTTAGCTGGCATCAATAAAATTTAAGCCAATGTAACTGGAACGCAAGCTCAGAT
TATCTGACAACAATAAAAT
Found at i:10437687 original size:31 final size:32
Alignment explanation
Indices: 10437627--10437689 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
10437617 TATCTGACAA
* * *
10437627 CAATAAAATTTTAAGCCCAGTTTAGCTGGCAT
1 CAATAAAATTTTAAGCCCAATGTAACTGGCAT
*
10437659 CAATAAAA-TTTAAGCTCAATGTAACTGGCAT
1 CAATAAAATTTTAAGCCCAATGTAACTGGCAT
10437690 GCAAGTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (32 bp):
CAATAAAATTTTAAGCCCAATGTAACTGGCAT
Found at i:10437897 original size:22 final size:22
Alignment explanation
Indices: 10437839--10437910 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
10437829 ACAATGAAAT
* *
10437839 ATAAGCCCAGTTTAACTGGCAC
1 ATAAGCCCAGATTAGCTGGCAC
*
10437861 ATAAACCCAGATTAGCTGGCAC
1 ATAAGCCCAGATTAGCTGGCAC
* * *
10437883 ATAAGCTCAGATTAGTTGGCAT
1 ATAAGCCCAGATTAGCTGGCAC
10437905 ATAAGC
1 ATAAGC
10437911 TTAAATTAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (22 bp):
ATAAGCCCAGATTAGCTGGCAC
Found at i:10437911 original size:22 final size:22
Alignment explanation
Indices: 10437839--10437922 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
10437829 ACAATGAAAT
* * *
10437839 ATAAGCCCAGTTTAACTGGCAC
1 ATAAGCTCAGATTAGCTGGCAC
* *
10437861 ATAAACCCAGATTAGCTGGCAC
1 ATAAGCTCAGATTAGCTGGCAC
* *
10437883 ATAAGCTCAGATTAGTTGGCAT
1 ATAAGCTCAGATTAGCTGGCAC
* *
10437905 ATAAGCTTAAATTAGCTG
1 ATAAGCTCAGATTAGCTG
10437923 ATAAAGTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (22 bp):
ATAAGCTCAGATTAGCTGGCAC
Found at i:10438501 original size:36 final size:36
Alignment explanation
Indices: 10438431--10438514 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
10438421 TAATTACTTA
* * *
10438431 ACTTATGGTGTTGTCTCGATCGTTTTTTATTTTTTG
1 ACTTGTGGTGTTGTCTAGATCGTTATTTATTTTTTG
10438467 ACTTGTGGTGTTGTCTTAG-TCGATTATTTATTTTTTG
1 ACTTGTGGTGTTGTC-TAGATCG-TTATTTATTTTTTG
*
10438504 ATTTGTGGTGT
1 ACTTGTGGTGT
10438515 CATCTTGATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 17 0.40
37 25 0.60
ACGTcount: A:0.12, C:0.08, G:0.23, T:0.57
Consensus pattern (36 bp):
ACTTGTGGTGTTGTCTAGATCGTTATTTATTTTTTG
Found at i:10439752 original size:18 final size:19
Alignment explanation
Indices: 10439720--10439764 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
10439710 TTGATTCAGG
*
10439720 TATTTTTTATTTTTTAA-T
1 TATTTTTTATATTTTAAGT
10439738 T-TTTTTTACTATTTTAAGT
1 TATTTTTTA-TATTTTAAGT
10439757 TATTTTTT
1 TATTTTTT
10439765 TAGTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 2 0.09
20 6 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTTATATTTTAAGT
Found at i:10440072 original size:20 final size:20
Alignment explanation
Indices: 10440047--10440122 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 20
10440037 TTAATAACCA
10440047 AAAAATAAATAATAGAAAAT
1 AAAAATAAATAATAGAAAAT
*
10440067 AAAAATACATATATATGTAAAAT
1 AAAAATAAATA-ATA-G-AAAAT
* * *
10440090 GATAATGAA-AATAGAATAAT
1 AAAAATAAATAATAGAA-AAT
*
10440110 AATAAT-AATAATA
1 AAAAATAAATAATA
10440123 ATAATAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.09
20 23 0.51
21 6 0.13
22 2 0.04
23 10 0.22
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAATAAATAATAGAAAAT
Found at i:10440112 original size:3 final size:3
Alignment explanation
Indices: 10440104--10440132 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10440094 ATGAAAATAG
10440104 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10440133 GATTTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10440451 original size:21 final size:22
Alignment explanation
Indices: 10440395--10440455 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
10440385 TAACTTTCCA
* * *
10440395 AACCCTTAAAACCCTAAAATTAT
1 AACCC-TAAAACTCTAAAATCAG
10440418 AACCCTAAAACTCTAAAATCAG
1 AACCCTAAAACTCTAAAATCAG
10440440 AACCCT-AAACTCTAAA
1 AACCCTAAAACTCTAAA
10440456 CTCTTGAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 10 0.29
22 20 0.57
23 5 0.14
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (22 bp):
AACCCTAAAACTCTAAAATCAG
Found at i:10441713 original size:44 final size:46
Alignment explanation
Indices: 10441665--10441757 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
10441655 TCATTCTTAA
*
10441665 TTTGCTATTATTTA-CATTT-T-TTTCCAAA-ATAGACAAATTATGTG
1 TTTGCTATTATTTATC-TTTGTATTCCCAAAGA-AGACAAATTATGTG
*
10441709 TTTGCTATTATTTATCTTTGTATTCCCAAAGAAGACAAATTTTGTG
1 TTTGCTATTATTTATCTTTGTATTCCCAAAGAAGACAAATTATGTG
10441755 TTT
1 TTT
10441758 AGATATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 17 0.40
45 2 0.05
46 23 0.53
47 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (46 bp):
TTTGCTATTATTTATCTTTGTATTCCCAAAGAAGACAAATTATGTG
Found at i:10442728 original size:17 final size:19
Alignment explanation
Indices: 10442698--10442738 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10442688 GAAATTTATA
*
10442698 TTTTAATATTTATAATCT-
1 TTTTAATATCTATAATCTC
10442716 TTTTAA-ATCTATAATCTC
1 TTTTAATATCTATAATCTC
10442734 TTTTA
1 TTTTA
10442739 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATATCTATAATCTC
Found at i:10453564 original size:20 final size:20
Alignment explanation
Indices: 10453539--10453583 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10453529 ATGAAACAAA
*
10453539 TTATATAT-TTTTATTAGTTT
1 TTATATATATTTT-TTAATTT
10453559 TTATATATATTTTTTAATTT
1 TTATATATATTTTTTAATTT
10453579 TTATA
1 TTATA
10453584 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATATATATTTTTTAATTT
Found at i:10453641 original size:21 final size:24
Alignment explanation
Indices: 10453602--10453656 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 24
10453592 ATAATTATTT
*
10453602 TATATATAAATTTATTT-AAAT-A
1 TATATAAAAATTTATTTAAAATAA
10453624 TAT-TAAAAATTT-TCTTAAAATAA
1 TATATAAAAATTTAT-TTAAAATAA
10453647 TATATAAAAA
1 TATATAAAAA
10453657 ATTAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 10 0.36
22 7 0.25
23 4 0.14
24 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATAAAAATTTATTTAAAATAA
Found at i:10453692 original size:18 final size:20
Alignment explanation
Indices: 10453669--10453711 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10453659 TAAATTTTAA
10453669 AAATAGAT-AAA-TCAAATC
1 AAATAGATAAAATTCAAATC
*
10453687 AAATAGATAAAATTCAATTC
1 AAATAGATAAAATTCAAATC
10453707 AAATA
1 AAATA
10453712 AAAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATAGATAAAATTCAAATC
Found at i:10453752 original size:26 final size:26
Alignment explanation
Indices: 10453695--10453752 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10453685 TCAAATAGAT
*
10453695 AAAATTCAATTCAAATAAAAATTTTA
1 AAAATTCAATTCAAATAAAAATTTAA
** *
10453721 TTAATTCGAATTCAAAT-TAAATTTAA
1 AAAATTC-AATTCAAATAAAAATTTAA
10453747 AAAATT
1 AAAATT
10453753 TATAATATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATTCAATTCAAATAAAAATTTAA
Found at i:10455996 original size:15 final size:14
Alignment explanation
Indices: 10455976--10456026 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
10455966 TTAATTTATT
10455976 TAAATATGATACGAA
1 TAAATATGATA-GAA
10455991 TAAATATGAATA-ATA
1 TAAATATG-ATAGA-A
10456006 TAAATAT-ATATGAA
1 TAAATATGATA-GAA
10456020 TAAATAT
1 TAAATAT
10456027 AACTATATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.09
14 9 0.28
15 17 0.53
16 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (14 bp):
TAAATATGATAGAA
Found at i:10456035 original size:18 final size:19
Alignment explanation
Indices: 10455989--10456046 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
10455979 ATATGATACG
*
10455989 AATAAATATGAAT-AATAT
1 AATATATATGAATAAATAT
10456007 AAATATATATGAATAAATAT
1 -AATATATATGAATAAATAT
* *
10456027 AA-CTATATGAATATATAT
1 AATATATATGAATAAATAT
10456045 AA
1 AA
10456047 GCACATGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.46
19 14 0.40
20 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (19 bp):
AATATATATGAATAAATAT
Found at i:10456613 original size:23 final size:22
Alignment explanation
Indices: 10456587--10456658 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
10456577 TATTAAAATT
10456587 TATATTAATATAAATATATATAA
1 TATATTAATA-AAATATATATAA
**
10456610 TATATTTTTAAAAATATATATAA
1 TATATTAAT-AAAATATATATAA
*
10456633 TATTTTTTAA-AAAATATATATAA
1 TA--TATTAATAAAATATATATAA
10456656 TAT
1 TAT
10456659 TTTTTATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
23 36 0.88
24 1 0.02
25 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTAATAAAATATATATAA
Found at i:10456677 original size:23 final size:23
Alignment explanation
Indices: 10456598--10456664 Score: 118
Period size: 23 Copynumber: 2.9 Consensus size: 23
10456588 ATATTAATAT
10456598 AAATATATATAATATATTTTT-AA
1 AAATATATATAATAT-TTTTTAAA
10456621 AAATATATATAATATTTTTTAAA
1 AAATATATATAATATTTTTTAAA
10456644 AAATATATATAATATTTTTTA
1 AAATATATATAATATTTTTTA
10456665 TATTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.12
23 38 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATATATAATATTTTTTAAA
Found at i:10460587 original size:22 final size:22
Alignment explanation
Indices: 10460562--10460603 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10460552 AATTTTTTTC
10460562 CTTAATTCTA-AGGATACAAAAA
1 CTTAATTCTAGA-GATACAAAAA
10460584 CTTAATTCTAGAGATACAAA
1 CTTAATTCTAGAGATACAAA
10460604 TATAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAAAA
Found at i:10464458 original size:26 final size:26
Alignment explanation
Indices: 10464402--10464451 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
10464392 CTCTTATACC
10464402 ATGTGGAAAAACTAAGAAATAAAACT
1 ATGTGGAAAAACTAAGAAATAAAACT
*
10464428 ATGTGG-AAAACTAAG-AGTAAAACT
1 ATGTGGAAAAACTAAGAAATAAAACT
10464452 GAATGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (26 bp):
ATGTGGAAAAACTAAGAAATAAAACT
Done.