Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 43 of 182
Found at i:13607240 original size:9 final size:9
Alignment explanation
Indices: 13607226--13607256 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13607216 GTTAAATGAA
13607226 TCGAGTTAT
1 TCGAGTTAT
*
13607235 TCGAGTTAA
1 TCGAGTTAT
13607244 TCGAGTTAT
1 TCGAGTTAT
13607253 TCGA
1 TCGA
13607257 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13615982 original size:15 final size:15
Alignment explanation
Indices: 13615962--13615992 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13615952 TAGAGTTGCC
13615962 GATCTAATCGATGAT
1 GATCTAATCGATGAT
13615977 GATCTAATCGATGAT
1 GATCTAATCGATGAT
13615992 G
1 G
13615993 TCAACAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (15 bp):
GATCTAATCGATGAT
Found at i:13617580 original size:19 final size:18
Alignment explanation
Indices: 13617556--13617598 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13617546 ATTACTACTT
13617556 ATTTTTATAAATTTTATGA
1 ATTTTTATAAATTTTAT-A
* * *
13617575 ATTTTTCTTATTTTTATA
1 ATTTTTATAAATTTTATA
13617593 ATTTTT
1 ATTTTT
13617599 TGAGAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTATAAATTTTATA
Found at i:13617596 original size:9 final size:9
Alignment explanation
Indices: 13617556--13617612 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
13617546 ATTACTACTT
13617556 ATTTTTATA
1 ATTTTTATA
*
13617565 AATTTTATGA
1 ATTTTTAT-A
* *
13617575 ATTTTTCTT
1 ATTTTTATA
13617584 ATTTTTATA
1 ATTTTTATA
*
13617593 ATTTTTTGAGA
1 A-TTTTT-ATA
13617604 ATTTTTATA
1 ATTTTTATA
13617613 TAAACTTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 17 0.46
10 17 0.46
11 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13617608 original size:28 final size:28
Alignment explanation
Indices: 13617553--13617608 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13617543 AAAATTACTA
*
13617553 CTTATTTTTATAAATTTTATGAATTTTT
1 CTTATTTTTATAAATTTTATGAAATTTT
*
13617581 CTTATTTTTAT-AATTTTTTGAGAATTTT
1 CTTATTTTTATAAATTTTATGA-AATTTT
13617609 TATATAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (28 bp):
CTTATTTTTATAAATTTTATGAAATTTT
Found at i:13617658 original size:31 final size:30
Alignment explanation
Indices: 13617621--13617690 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
13617611 TATAAACTTT
13617621 AAAAATCATATAAAC-CCTAATAAAATAATTA
1 AAAAATCATATAAACTCC--ATAAAATAATTA
* **
13617652 AAAAATCAATTTAGTCTCCATAAAATAATTA
1 AAAAATC-ATATAAACTCCATAAAATAATTA
13617683 AAAAATCA
1 AAAAATCA
13617691 ATTAAGCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 26 0.76
32 5 0.15
33 2 0.06
ACGTcount: A:0.59, C:0.13, G:0.01, T:0.27
Consensus pattern (30 bp):
AAAAATCATATAAACTCCATAAAATAATTA
Found at i:13617703 original size:32 final size:31
Alignment explanation
Indices: 13617640--13617704 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
13617630 ATAAACCCTA
* *
13617640 ATAAAATAATTAAAAAATCAATTTAGTCTCC
1 ATAAAATAATTAAAAAATCAATTAAGCCTCC
13617671 ATAAAATAATTAAAAAATCAATTAAGCCCTCC
1 ATAAAATAATTAAAAAATCAATTAAG-CCTCC
13617703 AT
1 AT
13617705 GTTAGATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.29
Consensus pattern (31 bp):
ATAAAATAATTAAAAAATCAATTAAGCCTCC
Found at i:13618441 original size:11 final size:11
Alignment explanation
Indices: 13618427--13618455 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13618417 TTCAAAAATT
13618427 CTCTTAAGTTC
1 CTCTTAAGTTC
13618438 CTCTTAAGTTC
1 CTCTTAAGTTC
13618449 CTCTTAA
1 CTCTTAA
13618456 CTCCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:13618502 original size:12 final size:12
Alignment explanation
Indices: 13618462--13618506 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
13618452 TTAACTCCCT
13618462 TTTTTTATAAATA
1 TTTTTTA-AAATA
* *
13618475 ATTTTAAAAATA
1 TTTTTTAAAATA
13618487 TTTTTTAAAAT-
1 TTTTTTAAAATA
13618498 TTTTTTAAA
1 TTTTTTAAA
13618507 CCGTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:13619621 original size:7 final size:7
Alignment explanation
Indices: 13619609--13619633 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13619599 AGTCGGTTGA
13619609 TATTTAG
1 TATTTAG
13619616 TATTTAG
1 TATTTAG
13619623 TATTTAG
1 TATTTAG
13619630 TATT
1 TATT
13619634 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:13620772 original size:25 final size:24
Alignment explanation
Indices: 13620744--13620790 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
13620734 TATTTTGATA
13620744 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAAT-AAATAGAAGT
13620769 TTATTTGATGTAATAAATAGAA
1 TTATTTGATGTAATAAATAGAA
13620791 AATTTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
TTATTTGATGTAATAAATAGAAGT
Found at i:13621004 original size:38 final size:38
Alignment explanation
Indices: 13620948--13621070 Score: 158
Period size: 45 Copynumber: 3.1 Consensus size: 38
13620938 CTAACCTAAT
13620948 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCC
*
13620985 TAAACTTAAAAACCATAACCTAATTTAATTAAAAACTTTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATT---AA----AAACCC
*
13621030 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCC
13621068 TAA
1 TAA
13621071 CCTAATTTAA
Statistics
Matches: 75, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
37 4 0.05
38 33 0.44
41 2 0.03
42 2 0.03
45 34 0.45
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (38 bp):
TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCC
Found at i:13621217 original size:30 final size:30
Alignment explanation
Indices: 13621173--13621241 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
13621163 ACTTAAATTA
*
13621173 AAACCCTAATCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
*
13621203 AAATCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
13621233 AAACCCTAA
1 AAACCCTAA
13621242 ACTTAAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.28
Consensus pattern (30 bp):
AAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:13621501 original size:115 final size:115
Alignment explanation
Indices: 13620833--13622101 Score: 1591
Period size: 115 Copynumber: 11.2 Consensus size: 115
13620823 ATTTATACCC
13620833 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAA-C
*
13620898 CCCTTAACTTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTAACCTAA
65 CCCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
*
13620947 TTAAATTAAAAACCCTAACCTAATTTAATT---AA----AAACCCTAAACTTAAAAACCATAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
** *
13621005 TAATTTAA-TTAAAAACTTTAAACCCT-A--AACTTAAAAACCCTAACCTAA
66 --CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
* * *
13621053 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTTAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
** * *
13621118 TAATTTAA-TTAAAAATCTT-AACCCT-A--AACTTAAAAACCCTAACCTAC
66 --CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
* * * *
13621165 TTAAATT-AAAACCCTAATCTAATTTAATTAAAAACCCTAAATCCTAACCTAATTTAATTAAAAA
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAA--C---CCTAA---ACTTAAAAA
* * * *
13621229 CCCTAAACCCTAAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACCCT-A
58 CCCTAACCCCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCT-AA-CCTAA
* * *** *
13621286 --AACTTAAAAACCCTAGCC-CCCTTAACTTAAAAAT-TCT-AA-CCTAATTAAATTAAAAACCC
1 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAATCT-TAAACCCT-A--AACTTAAAAACCC
** * * **
13621345 TAACCTAATTAAATTAAAAACCCT-AACCC-CCTTAACTTAAAAACCCTAACCTAA
61 TAACC-CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
* * *
13621399 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*
13621464 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTGACCTAA
66 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
13621514 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*
13621579 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTGACCTAA
66 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
13621629 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*
13621694 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTGACCTAA
66 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
13621744 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*
13621809 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTGACCTAA
66 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
13621859 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*
13621924 CCTTAACTTAAAAACCCTAAACCCTAATTAACTTAAAAA--C---CCTAA
66 CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
* * *
13621969 TTAACTTAAAAACACTGACC-----TAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
** * * *
13622029 TAATTTAA-TTTAAAACCCTAAACCCT-A--AACTTAAAAACTCTAACCTAA
66 --CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
13622077 TTAAATTAAAAACCCTAACCTAATT
1 TTAAATTAAAAACCCTAACCTAATT
13622102 AATAATTTTA
Statistics
Matches: 1037, Mismatches: 64, Indels: 109
0.86 0.05 0.09
Matches are distributed among these distances:
103 10 0.01
105 42 0.04
106 70 0.07
107 36 0.03
108 29 0.03
109 5 0.00
110 22 0.02
111 35 0.03
112 37 0.04
113 79 0.08
114 84 0.08
115 494 0.48
116 13 0.01
117 9 0.01
118 12 0.01
119 24 0.02
120 31 0.03
121 2 0.00
122 3 0.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (115 bp):
TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
CCTTAACTTAAAAACCTTAAACCCTAATTAACTTAAAAACCCTAACCTAA
Found at i:13621965 original size:18 final size:18
Alignment explanation
Indices: 13621942--13621981 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
13621932 TAAAAACCCT
13621942 AAACCCTAATTAACTTAA
1 AAACCCTAATTAACTTAA
13621960 AAACCCTAATTAACTTAA
1 AAACCCTAATTAACTTAA
13621978 AAAC
1 AAAC
13621982 ACTGACCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (18 bp):
AAACCCTAATTAACTTAA
Found at i:13621990 original size:23 final size:23
Alignment explanation
Indices: 13620833--13621995 Score: 752
Period size: 23 Copynumber: 51.2 Consensus size: 23
13620823 ATTTATACCC
*
13620833 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13620856 TTTAA-TTAAAAATCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
***
13620880 --AACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
13620901 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
13620924 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13620947 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13620970 TTTAA-TTAAAAACCCTAAACTTAA
1 -TTAACTTAAAAACCCT-AACCTAA
* * * **
13620994 -AAAC--CATAA-CCTAATTTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621013 TTAAAAACTT-TAAACCCTAAACTTAA
1 TT---AACTTAAAAACCCT-AACCTAA
* * *
13621039 -AAACCCT---AA-CCTAA-TTAAA
1 TTAA-CTTAAAAACCCTAACCT-AA
13621058 TT-A---A-AAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
13621076 TTTAA-TTAAAAACCCTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
*
13621100 --AACTTTAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621121 TTTAA-TTAAAAATCTTAACCCT-A
1 -TTAACTTAAAAACCCTAA-CCTAA
*
13621144 --AACTTAAAAACCCTAACCTAC
1 TTAACTTAAAAACCCTAACCTAA
* *
13621165 TTAAATT-AAAACCCTAATCTAA
1 TTAACTTAAAAACCCTAACCTAA
13621187 TTTAA-TTAAAAACCCTAAATCCTAACCTAA
1 -TTAACTTAAAAA--C-----CCTAACCTAA
13621217 TTTAA-TTAAAAACCCTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
13621241 --AACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621262 TTAAATTAAAAACCCTAAACCCT-A
1 TTAACTTAAAAACCCT-AA-CCTAA
* ***
13621286 --AACTTAAAAACCCTAGCCCCC
1 TTAACTTAAAAACCCTAACCTAA
**
13621307 TTAACTTAAAAATTCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621330 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* ***
13621353 TTAAATTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
13621376 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
13621399 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
13621422 TTTAA-TTAAAAACCCTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
13621446 --AACTTAAAAACCCTAACC-CC
1 TTAACTTAAAAACCCTAACCTAA
*
13621466 TTAACTTAAAAACCTTAAACCCTAA
1 TTAACTTAAAAACCCT-AA-CCTAA
*
13621491 TTAACTTAAAAACCCTGACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621514 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621537 TTTAA-TTAAAAATCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
13621561 --AACTTAAAAACCCTAACC-CC
1 TTAACTTAAAAACCCTAACCTAA
*
13621581 TTAACTTAAAAACCTTAAACCCTAA
1 TTAACTTAAAAACCCT-AA-CCTAA
*
13621606 TTAACTTAAAAACCCTGACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621629 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621652 TTTAA-TTAAAAATCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
13621676 --AACTTAAAAACCCTAACC-CC
1 TTAACTTAAAAACCCTAACCTAA
*
13621696 TTAACTTAAAAACCTTAAACCCTAA
1 TTAACTTAAAAACCCT-AA-CCTAA
*
13621721 TTAACTTAAAAACCCTGACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621744 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621767 TTTAA-TTAAAAATCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
13621791 --AACTTAAAAACCCTAACC-CC
1 TTAACTTAAAAACCCTAACCTAA
*
13621811 TTAACTTAAAAACCTTAAACCCTAA
1 TTAACTTAAAAACCCT-AA-CCTAA
*
13621836 TTAACTTAAAAACCCTGACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
13621859 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621882 TTTAA-TTAAAAATCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
13621906 --AACTTAAAAACCCTAACC-CC
1 TTAACTTAAAAACCCTAACCTAA
13621926 TTAACTTAAAAACCCTAAACCCTAA
1 TTAACTTAAAAACCCT-AA-CCTAA
13621951 TTAACTTAAAAA--C---CCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
13621969 TTAACTTAAAAACACTGACCTAA
1 TTAACTTAAAAACCCTAACCTAA
13621992 TTAA
1 TTAA
13621996 AAATCTTAAA
Statistics
Matches: 917, Mismatches: 106, Indels: 233
0.73 0.08 0.19
Matches are distributed among these distances:
17 2 0.00
18 26 0.03
19 14 0.02
20 33 0.04
21 51 0.06
22 176 0.19
23 402 0.44
24 82 0.09
25 103 0.11
26 6 0.01
28 1 0.00
30 21 0.02
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:13622045 original size:23 final size:22
Alignment explanation
Indices: 13622014--13622104 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 22
13622004 AACCCTAAAC
13622014 TTAAAAACCCTAACCTAATTTAA
1 TTAAAAACCCTAACCTAA-TTAA
* *
13622037 TTTAAAACCCTAAACCCTAA--AC
1 TTAAAAACCCT-AA-CCTAATTAA
*
13622059 TTAAAAACTCTAACCTAATTAAA
1 TTAAAAACCCTAACCTAATT-AA
13622082 TTAAAAACCCTAACCTAATTAA
1 TTAAAAACCCTAACCTAATTAA
13622104 T
1 T
13622105 AATTTTACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.09
21 2 0.04
22 13 0.23
23 30 0.53
24 2 0.04
25 5 0.09
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (22 bp):
TTAAAAACCCTAACCTAATTAA
Found at i:13622236 original size:116 final size:116
Alignment explanation
Indices: 13622098--13622457 Score: 659
Period size: 116 Copynumber: 3.1 Consensus size: 116
13622088 ACCCTAACCT
* **
13622098 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
* *
13622163 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
13622214 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
13622279 AATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
13622330 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
13622395 AATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
13622446 AATTAATAATTT
1 AATTAATAATTT
13622458 CACAAACTTA
Statistics
Matches: 238, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
115 42 0.18
116 196 0.82
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTATC
Found at i:13622288 original size:61 final size:61
Alignment explanation
Indices: 13622213--13622404 Score: 177
Period size: 61 Copynumber: 3.2 Consensus size: 61
13622203 TACAATTTAT
13622213 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
* * * ** * *** ** * *
13622274 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTACTAACCAT-AAAT-AC-AAT-TTAT
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGA--AA-AATGTTTTGACTGGTACTAA
13622329 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
13622390 CAATTAATAATTTTA
1 CAATTAATAATTTTA
13622405 TATAATTTGA
Statistics
Matches: 93, Mismatches: 26, Indels: 24
0.65 0.18 0.17
Matches are distributed among these distances:
55 18 0.19
56 7 0.08
57 9 0.10
58 10 0.11
59 9 0.10
60 7 0.08
61 33 0.35
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (61 bp):
CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAA
Found at i:13622340 original size:55 final size:55
Alignment explanation
Indices: 13622274--13622457 Score: 149
Period size: 55 Copynumber: 3.2 Consensus size: 55
13622264 CTGGTACTAA
13622274 CAATTAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTAT
* * * ** * *** ** * *
13622329 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGA--AA-AATGTTTTGACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTACTAACCAT-AAAT-AC-AAT-TTAT
13622390 CAATTAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTAT
13622445 CAATTAATAATTT
1 CAATTAATAATTT
13622458 CACAAACTTA
Statistics
Matches: 91, Mismatches: 26, Indels: 24
0.65 0.18 0.17
Matches are distributed among these distances:
55 31 0.34
56 7 0.08
57 9 0.10
58 10 0.11
59 9 0.10
60 7 0.08
61 18 0.20
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (55 bp):
CAATTAATAATTTTATATAATTTGATAATTTTTACTAACCATAAATACAATTTAT
Found at i:13625712 original size:124 final size:124
Alignment explanation
Indices: 13625468--13625839 Score: 550
Period size: 124 Copynumber: 3.0 Consensus size: 124
13625458 CAAACATGCT
* *
13625468 ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTCACAAATTCTTCTCAAATAGCATTCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAAGGTGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
* *
13625533 AGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAA-AATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* * * *
13625592 ACTGTAGCAAAAGCGTGTCCACGAAGGCGCGATTTTACAAATTCTTCTCAAGTAGCATCCTACTA
1 ACTGTAGCAAAAGCGCGTCCACGAAGGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* * *
13625657 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGAGCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* *
13625716 ACTGTAGCAAAAGCGCGTCCAC-AAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGTT
1 ACTGTAGCAAAAGCGCGTCCACGAA-GGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCT
*** *
13625780 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACC
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGACC
13625840 TAAAAACCCT
Statistics
Matches: 222, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
123 67 0.30
124 137 0.62
125 18 0.08
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAAGGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:13672157 original size:40 final size:40
Alignment explanation
Indices: 13672098--13672187 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
13672088 AAAATTATTG
* *
13672098 CCTGAATGCACAAATGTGCCCCTGTTTGTACTTTGGTACC
1 CCTGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACC
*
13672138 CCTGAATGCACAGACGTGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACC
13672178 CCTGAATGCA
1 CCTGAATGCA
13672188 TTTACCTGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (40 bp):
CCTGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACC
Found at i:13672179 original size:20 final size:20
Alignment explanation
Indices: 13672116--13672181 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
13672106 CACAAATGTG
*
13672116 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
** * ** *
13672136 CCCCTGAATGCACAGAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
13672156 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
13672176 CCCCTG
1 CCCCTG
13672182 AATGCATTTA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:13685227 original size:23 final size:23
Alignment explanation
Indices: 13685189--13685239 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
13685179 ACATAAGTTG
*
13685189 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
13685212 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
13685235 AGTAA
1 TGTAA
13685240 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:13688078 original size:50 final size:54
Alignment explanation
Indices: 13687965--13688100 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 54
13687955 TGAGCCAGTA
13687965 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATCAGAGGTCCCAAG
1 TAAGACCATGTCTGGGACATGGCATTGGCATC--TGAGATTATCAGAGGTCCCAAG
* ** *
13688021 TAGGACCATGTCTGGGACATGGTGTTGGCATC-GAGA-T-T-AGAGGTCTCC-CG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATTATCAGAGGTC-CCAAG
*
13688071 TAAGACCATGTCTGGGACATGGCATGGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
13688101 CCAATATGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
50 34 0.48
51 3 0.04
52 1 0.01
53 4 0.06
56 29 0.41
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (54 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATTATCAGAGGTCCCAAG
Found at i:13714368 original size:21 final size:21
Alignment explanation
Indices: 13714289--13714367 Score: 97
Period size: 21 Copynumber: 3.7 Consensus size: 21
13714279 AAATTAAATC
13714289 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTACATAAATC--ATA
*
13714311 TTCTAAGATTGCATAAATCATA
1 -TCTAAGATTACATAAATCATA
* *
13714333 TCTAAGATTGCATATATCATA
1 TCTAAGATTACATAAATCATA
13714354 TCTAAGATTACATA
1 TCTAAGATTACATA
13714368 TCCTTGAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 33 0.63
22 3 0.06
23 11 0.21
24 5 0.10
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (21 bp):
TCTAAGATTACATAAATCATA
Found at i:13714864 original size:44 final size:44
Alignment explanation
Indices: 13714812--13714924 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
13714802 GATCTACTCT
* ** *
13714812 ACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTAATACGCTCC
* * *
13714856 ACTGCAACTTCAGGGAGATAGGATTATTGACTTTAATATGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATACGCTCC
*
13714900 ACTGCAACTTTAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
13714925 CGCCATCTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 58 0.98
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATACGCTCC
Found at i:13715491 original size:88 final size:88
Alignment explanation
Indices: 13715378--13715678 Score: 433
Period size: 88 Copynumber: 3.4 Consensus size: 88
13715368 TGGGGTCATT
* * * * *
13715378 GATCTGCTTCGCTATCGGTGCAGGAAGGTAAGATCTACTATTTTTAACCTGCTCCGCTGCAACCC
1 GATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
13715443 AGGGAGGCAAGGCTGATGTCTTC
66 AGGGAGGCAAGGCTGATGTCTTC
** * *
13715466 GATCTGCTTCGTTGTCAGTGCAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGCAACCT
1 GATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
*
13715531 AGGGAGGCAAGACT-AGTGTCTTC
66 AGGGAGGCAAGGCTGA-TGTCTTC
* * *
13715554 GATCCGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* *
13715619 AGGGAGGCAAGGTTGGTGTCTTC
66 AGGGAGGCAAGGCTGATGTCTTC
* *
13715642 GATCTGCTTCATTGTCAGTGCATGAAGGCAAGATCTG
1 GATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTG
13715679 TTATCTTCAC
Statistics
Matches: 189, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 188 0.99
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
AGGGAGGCAAGGCTGATGTCTTC
Found at i:13715539 original size:44 final size:43
Alignment explanation
Indices: 13715398--13715629 Score: 105
Period size: 44 Copynumber: 5.3 Consensus size: 43
13715388 GCTATCGGTG
* *
13715398 CAGGAAGGTAAGATCT-ACTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGGAGGCAAGATCTGA-TATTTTTAACCTGCTCCGCTGCAA-C
* * * ** * * * **
13715442 CAGGGAGGCAAG-GCTGATGTCTTCGATCTGCTTCGTTGTCAGTG
1 CAGGGAGGCAAGATCTGATATTTTTAACCTGCTCCGCTG-CA-AC
* *
13715486 CAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGCAAC
1 CAGGGAGGCAAGATCTGATATTTTTAACCTGCTCCGCTGCAAC
* ** * * * ***
13715529 CTAGGGAGGCAAGA-CT-AGTGTCTTCGATCC-GCTTCACTGTCGGTG
1 C-AGGGAGGCAAGATCTGA-TAT-TTTTAACCTGCTCCGCTG-C-AAC
* * *
13715574 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGGAGGCAAGATCTGATATTTTTAACCTGCTCCGCTGCAA-C
13715618 CAGGGAGGCAAG
1 CAGGGAGGCAAG
13715630 GTTGGTGTCT
Statistics
Matches: 127, Mismatches: 48, Indels: 26
0.63 0.24 0.13
Matches are distributed among these distances:
43 28 0.22
44 71 0.56
45 28 0.22
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (43 bp):
CAGGGAGGCAAGATCTGATATTTTTAACCTGCTCCGCTGCAAC
Found at i:13716805 original size:42 final size:42
Alignment explanation
Indices: 13716758--13716838 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
13716748 GGTATAGTAA
13716758 GATCACAACATG-CCTCAATCTGATCAAAATTTCAGCTGCTCT
1 GATCACAACATGTCC-CAATCTGATCAAAATTTCAGCTGCTCT
** * *
13716800 GATCACCTCATGTCCCATTCTGATCAAAATTTGAGCTGC
1 GATCACAACATGTCCCAATCTGATCAAAATTTCAGCTGC
13716839 CCTTTTCGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
GATCACAACATGTCCCAATCTGATCAAAATTTCAGCTGCTCT
Found at i:13720724 original size:14 final size:14
Alignment explanation
Indices: 13720707--13720734 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13720697 ATAAACAAAT
13720707 AAATAAATCAATAA
1 AAATAAATCAATAA
13720721 AAATAAATCAATAA
1 AAATAAATCAATAA
13720735 CATGCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATCAATAA
Found at i:13720936 original size:23 final size:26
Alignment explanation
Indices: 13720871--13720921 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
13720861 AAATATAGAT
*
13720871 TATAAA-AAAGATAATTACATATATA
1 TATAAACAAATATAATTACATATATA
13720896 TATAAACAAATAATAATTACATATAT
1 TATAAACAAAT-ATAATTACATATAT
13720922 TAAAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 14 0.61
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (26 bp):
TATAAACAAATATAATTACATATATA
Found at i:13721079 original size:17 final size:17
Alignment explanation
Indices: 13721057--13721091 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13721047 TAGGAAATAA
13721057 AAAATGTATAA-GTATAT
1 AAAATGTA-AATGTATAT
13721074 AAAATGTAAATGTATAT
1 AAAATGTAAATGTATAT
13721091 A
1 A
13721092 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
AAAATGTAAATGTATAT
Found at i:13721282 original size:7 final size:7
Alignment explanation
Indices: 13721266--13721295 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13721256 AAATCAAATT
13721266 TAAT-AA
1 TAATAAA
13721272 TAATAAA
1 TAATAAA
13721279 TAATAAA
1 TAATAAA
13721286 TAATAAA
1 TAATAAA
13721293 TAA
1 TAA
13721296 AAAAAGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:13721615 original size:21 final size:21
Alignment explanation
Indices: 13721566--13721663 Score: 121
Period size: 21 Copynumber: 4.7 Consensus size: 21
13721556 AAATTAAATC
*
13721566 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTGCATAAATC--ATA
13721588 TTCTAAGATTGCATAAATCATA
1 -TCTAAGATTGCATAAATCATA
*
13721610 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
13721631 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
*
13721650 TCTAAGATTACATA
1 TCTAAGATTGCATA
13721664 TCCTTGAAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
19 18 0.26
21 33 0.47
22 3 0.04
23 11 0.16
24 5 0.07
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:13724866 original size:18 final size:17
Alignment explanation
Indices: 13724843--13724887 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
13724833 AAATTCTTAT
13724843 ATATTTTTTAACTTTGAA
1 ATATTTTTTAA-TTTGAA
*
13724861 ATATTTTTATAATTTTAA
1 ATATTTTT-TAATTTGAA
*
13724879 TTATTTTTT
1 ATATTTTTT
13724888 GAAGTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
ATATTTTTTAATTTGAA
Found at i:13727321 original size:32 final size:32
Alignment explanation
Indices: 13727283--13727467 Score: 255
Period size: 32 Copynumber: 5.8 Consensus size: 32
13727273 ATAAGTACAA
* *
13727283 TAATATGATTGGCACAAAGCCATCACTAGTAG
1 TAATATGATCGGCACAAAGCCATCAGTAGTAG
*
13727315 TAATATGATCGGCACACAA-CCATCAGTAATAG
1 TAATATGATCGGCACA-AAGCCATCAGTAGTAG
* * *
13727347 TAGTATGATCGGCACAAAGCCATAAGTAGTAA
1 TAATATGATCGGCACAAAGCCATCAGTAGTAG
* * * *
13727379 TACTATGATCGGTACACAGCCATCAGTAATAG
1 TAATATGATCGGCACAAAGCCATCAGTAGTAG
*
13727411 TAGTATGATCGGCACAAAGCCATCAGTAGTAG
1 TAATATGATCGGCACAAAGCCATCAGTAGTAG
13727443 TAATATGATCGGCACAAAGCCATCA
1 TAATATGATCGGCACAAAGCCATCA
13727468 ATAGCATCGC
Statistics
Matches: 133, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
31 2 0.02
32 129 0.97
33 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAGTAG
Found at i:13727387 original size:64 final size:64
Alignment explanation
Indices: 13727286--13727467 Score: 285
Period size: 64 Copynumber: 2.8 Consensus size: 64
13727276 AGTACAATAA
* *
13727286 TATGATTGGCACAAAGCCATCACTAGTAGTAATATGATCGGCACACAACCATCAGTAATAGTAG
1 TATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAATAGTAG
* * * * *
13727350 TATGATCGGCACAAAGCCATAAGTAGTAATACTATGATCGGTACACAGCCATCAGTAATAGTAG
1 TATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAATAGTAG
13727414 TATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACA-AAGCCATCA
1 TATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAA-CCATCA
13727468 ATAGCATCGC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 1 0.01
64 104 0.99
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (64 bp):
TATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAATAGTAG
Found at i:13727434 original size:96 final size:95
Alignment explanation
Indices: 13727268--13727465 Score: 281
Period size: 96 Copynumber: 2.1 Consensus size: 95
13727258 GAATGGCGAC
* *
13727268 AAGCCATAAGTACAATAATATGATTGGCACAAAGCCATCACTAGTAGTAATATGATCGGCACACA
1 AAGCCATAAGTACAATAATATGATCGGCACAAAGCCATCACTAATAGTAATATGATCGGCACACA
*
13727333 ACCATCAGTAATAGTAGTATGATCGGCACA
66 ACCATCAGTAATAGTAATATGATCGGCACA
* * * * * *
13727363 AAGCCATAAGTAGTAATACTATGATCGGTACACAGCCATCAGTAATAGTAGTATGATCGGCACA-
1 AAGCCATAAGTA-CAATAATATGATCGGCACAAAGCCATCACTAATAGTAATATGATCGGCACAC
*
13727427 AAGCCATCAGTAGTAGTAATATGATCGGCACA
65 AA-CCATCAGTAATAGTAATATGATCGGCACA
13727459 AAGCCAT
1 AAGCCAT
13727466 CAATAGCATC
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
95 14 0.15
96 77 0.85
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (95 bp):
AAGCCATAAGTACAATAATATGATCGGCACAAAGCCATCACTAATAGTAATATGATCGGCACACA
ACCATCAGTAATAGTAATATGATCGGCACA
Found at i:13727502 original size:26 final size:26
Alignment explanation
Indices: 13727473--13727526 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
13727463 CATCAATAGC
13727473 ATCGCAACAAAGCTGCCAGCAACAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
* *
13727499 ATCGCAACAAAGCTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
13727525 AT
1 AT
13727527 ATATGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAACAGT
Found at i:13727716 original size:24 final size:24
Alignment explanation
Indices: 13727642--13727749 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
13727632 CCATACACAG
** *
13727642 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
* * *
13727666 AATCAGTCATTTAAATAACAGAAA
1 AATCAGTCATTTACATCACAGACA
* * *
13727690 AATTAGTCATTTACATCTCGGACA
1 AATCAGTCATTTACATCACAGACA
* * *
13727714 AATCATTCATTTACATCAAAGGCA
1 AATCAGTCATTTACATCACAGACA
* *
13727738 AATTAATCATTT
1 AATCAGTCATTT
13727750 TACCCCGAGG
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:13738639 original size:27 final size:28
Alignment explanation
Indices: 13738555--13738652 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13738545 CATGAGATTG
* * * *
13738555 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13738584 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13738612 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13738639 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13738653 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13738663 original size:27 final size:27
Alignment explanation
Indices: 13738583--13738665 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13738573 TAAATTGTAC
* *
13738583 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13738611 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13738638 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13738665 A
1 A
13738666 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13738666 original size:29 final size:27
Alignment explanation
Indices: 13738555--13738666 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13738545 CATGAGATTG
** * *
13738555 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13738584 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13738612 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13738639 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13738667 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13739913 original size:65 final size:65
Alignment explanation
Indices: 13739809--13739933 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
13739799 AGTCATGATA
*
13739809 TATATGTATAGATTTCCTTTTGAGTCTAGTTTCATTAGAAACCAACAGCATAAGTATTGGCGCTT
1 TATATGTATAGATTTCCTTTTGAGTCTACTTTCATTAGAAACCAACAGCATAAGTATTGGCGCTT
*
13739874 TATATGTATAGA-TTCCTTTTTGAGTCTACTTTCATTAGAAACCAACGGCATAAGTATTGG
1 TATATGTATAGATTTCC-TTTTGAGTCTACTTTCATTAGAAACCAACAGCATAAGTATTGG
13739934 AGCTCTGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
64 4 0.07
65 53 0.93
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (65 bp):
TATATGTATAGATTTCCTTTTGAGTCTACTTTCATTAGAAACCAACAGCATAAGTATTGGCGCTT
Found at i:13753384 original size:20 final size:20
Alignment explanation
Indices: 13753359--13753396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13753349 AAAGGTTAAC
13753359 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
13753379 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
13753397 AATAAAACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:13754331 original size:41 final size:40
Alignment explanation
Indices: 13754253--13754331 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
13754243 CTATATGATT
* * * *
13754253 AGCACTAAGTGTGCGAATTAAATGATGAGGTTGAATAATG
1 AGCACTAAGTGTACGAACTAAATAATGAGGTTAAATAATG
* *
13754293 AGCATTAAGTGTACGAAACTAAATAATGATGTTAAATAA
1 AGCACTAAGTGTACG-AACTAAATAATGAGGTTAAATAA
13754332 CAGGCACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 13 0.41
41 19 0.59
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.28
Consensus pattern (40 bp):
AGCACTAAGTGTACGAACTAAATAATGAGGTTAAATAATG
Found at i:13761955 original size:17 final size:18
Alignment explanation
Indices: 13761928--13761961 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13761918 ATATTTGGTT
*
13761928 GCTTGTTTAAAGCATAAG
1 GCTTGTTTAAAGAATAAG
13761946 GCTT-TTTAAAGAATAA
1 GCTTGTTTAAAGAATAA
13761962 CTAAAGCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
GCTTGTTTAAAGAATAAG
Found at i:13767773 original size:9 final size:10
Alignment explanation
Indices: 13767755--13767782 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13767745 TATTATGATA
13767755 ATCTTTTTTT
1 ATCTTTTTTT
13767765 ATCTTTTTTT
1 ATCTTTTTTT
13767775 ATCTTTTT
1 ATCTTTTT
13767783 ATAATTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (10 bp):
ATCTTTTTTT
Found at i:13772605 original size:46 final size:44
Alignment explanation
Indices: 13772536--13772625 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
13772526 AACAGATACA
* *
13772536 CGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAATGATATC
1 CGGTGGATTCAGCACACAACAACCA-CC-TTATAATCAATGATATC
*
13772582 CGGTGGGA-TCAGCACACAACAACCACCTTATAATTAATGATATC
1 CGGT-GGATTCAGCACACAACAACCACCTTATAATCAATGATATC
13772626 GGTTCACTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 15 0.38
45 2 0.05
46 20 0.50
47 3 0.08
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (44 bp):
CGGTGGATTCAGCACACAACAACCACCTTATAATCAATGATATC
Found at i:13772710 original size:51 final size:51
Alignment explanation
Indices: 13772625--13772824 Score: 228
Period size: 51 Copynumber: 3.9 Consensus size: 51
13772615 TTAATGATAT
* * *
13772625 CGGTTCACTTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
** * * * * *
13772676 CAATACACGTAGTAGCTTTCACATAGTACTACACACGAGATCGA--AGCTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATC
* *
13772727 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATC
*
13772777 TGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
13772825 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 44 0.36
51 71 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
Found at i:13772854 original size:101 final size:102
Alignment explanation
Indices: 13772625--13772813 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 102
13772615 TTAATGATAT
* *
13772625 CGGTTCACTTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCAATACACGTAGTA
1 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCAATACACATAGTA
* * *
13772690 GCTTTCACATAGTACTACACACGAGATCGAAGCTATC
66 GCCTGCACATAGTACTACACACGAGATCCAAGCTATC
* * ***
13772727 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T-TCTGGTACACATAGT
1 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCAATACACATAGT
13772790 AGCCTGCACATAGTACTACACACG
65 AGCCTGCACATAGTACTACACACG
13772814 TGACCATCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 33 0.43
102 40 0.52
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCAATACACATAGTA
GCCTGCACATAGTACTACACACGAGATCCAAGCTATC
Found at i:13778392 original size:23 final size:23
Alignment explanation
Indices: 13778362--13778434 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
13778352 TTTGACATTA
13778362 TTAGTTCCAACATCAGATACGGG
1 TTAGTTCCAACATCAGATACGGG
*
13778385 TTAGTTCCGACATCAGATACGGG
1 TTAGTTCCAACATCAGATACGGG
* *
13778408 TTAGTTCCAGCATCGGATACGGG
1 TTAGTTCCAACATCAGATACGGG
13778431 TTAG
1 TTAG
13778435 GGTGTTACAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (23 bp):
TTAGTTCCAACATCAGATACGGG
Found at i:13785613 original size:24 final size:24
Alignment explanation
Indices: 13785586--13785651 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 24
13785576 ACTGTTAACC
*
13785586 ATATAAATGCGAACTGATGTATAA
1 ATATAAATGCGAACTGATATATAA
* *
13785610 ATATACATATGCGAACTGCTATATAT
1 ATATA-A-ATGCGAACTGATATATAA
*
13785636 ATATATATGCGAACTG
1 ATATAAATGCGAACTG
13785652 CTATTATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.42
25 1 0.03
26 20 0.56
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (24 bp):
ATATAAATGCGAACTGATATATAA
Found at i:13785652 original size:24 final size:24
Alignment explanation
Indices: 13785568--13785655 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
13785558 TAAAGTACAA
**
13785568 ATATGCGAACTG-T-TAACCATAT
1 ATATGCGAACTGCTATAAATATAT
* * *
13785590 AAATGCGAACTGATGTATAAATATAC
1 ATATGCGAACTG--CTATAAATATAT
*
13785616 ATATGCGAACTGCTATATATATAT
1 ATATGCGAACTGCTATAAATATAT
13785640 ATATGCGAACTGCTAT
1 ATATGCGAACTGCTAT
13785656 TATTCATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.20
24 25 0.46
25 1 0.02
26 17 0.31
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (24 bp):
ATATGCGAACTGCTATAAATATAT
Found at i:13788318 original size:19 final size:17
Alignment explanation
Indices: 13788288--13788332 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
13788278 AAATTCTTAT
13788288 ATATTTTTTAATTTTGAA
1 ATATTTTTTAATTTT-AA
13788306 ATATTTTTATAATTTTAA
1 ATATTTTT-TAATTTTAA
*
13788324 TTATTTTTT
1 ATATTTTTT
13788333 GATCTGAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 17 0.68
19 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATATTTTTTAATTTTAA
Found at i:13798039 original size:28 final size:28
Alignment explanation
Indices: 13798008--13798062 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
13797998 CAGAGTTCCT
*
13798008 GATACTATAACACCGATACAAAGTACTA
1 GATACTATAACACCGATAAAAAGTACTA
* *
13798036 GATACTGTAACACCGTTAAAAAGTACT
1 GATACTATAACACCGATAAAAAGTACT
13798063 TGACATGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (28 bp):
GATACTATAACACCGATAAAAAGTACTA
Found at i:13801123 original size:39 final size:39
Alignment explanation
Indices: 13801079--13801219 Score: 149
Period size: 39 Copynumber: 3.6 Consensus size: 39
13801069 AACATGTTTT
* * *
13801079 TGAGTATTCTGATTTATGCTTATATGTTATATGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATATGATTATA
* * *
13801118 TGAGTACTGTGATATATGCTTAAATGTTATGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATATGATTATA
* * * **
13801157 CGAGTATTGTGATATATGCTTGAGTGTTAGGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATATGATTATA
* *
13801196 TGTGTAATAG-GATATATGCTTAAA
1 TGAGT-ATTGTGATATATGCTTAAA
13801220 ATTGAATATG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
39 81 0.96
40 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATATGATTATA
Found at i:13805770 original size:13 final size:13
Alignment explanation
Indices: 13805752--13805776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13805742 ACATGGGTAT
13805752 GTGGACCACATGG
1 GTGGACCACATGG
13805765 GTGGACCACATG
1 GTGGACCACATG
13805777 ACCATGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (13 bp):
GTGGACCACATGG
Found at i:13816536 original size:3 final size:3
Alignment explanation
Indices: 13816488--13816523 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13816478 ATAAAACAGG
13816488 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13816524 GGTACTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13819844 original size:43 final size:43
Alignment explanation
Indices: 13819796--13820001 Score: 358
Period size: 43 Copynumber: 4.8 Consensus size: 43
13819786 GCGTCGCTAA
*
13819796 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
13819839 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
13819882 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
13819925 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
13819968 CTTTAGCGGCGCTTTTACCACAAACGCAGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
13820002 AACATAAAAA
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 154 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:13820220 original size:18 final size:18
Alignment explanation
Indices: 13820197--13820256 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
13820187 TTAAAACAAG
13820197 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
13820215 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
13820232 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
13820250 TTACATT
1 TTACATT
13820257 AAAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:13825295 original size:13 final size:13
Alignment explanation
Indices: 13825277--13825301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13825267 TGTCAATCTA
13825277 TTACATTAATTTG
1 TTACATTAATTTG
13825290 TTACATTAATTT
1 TTACATTAATTT
13825302 ATTTATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TTACATTAATTTG
Found at i:13825798 original size:21 final size:21
Alignment explanation
Indices: 13825764--13825827 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
13825754 TCTCAAATCT
* *
13825764 TTAAACCCTAAATCACTAACTC
1 TTAACCCCT-AATCACTAACCC
*
13825786 TTAACCCCTAATCTCTAACCC
1 TTAACCCCTAATCACTAACCC
*
13825807 CTAACCCCTAA-CTACTAACCC
1 TTAACCCCTAATC-ACTAACCC
13825828 ATAAATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.03
21 27 0.75
22 8 0.22
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (21 bp):
TTAACCCCTAATCACTAACCC
Found at i:13825919 original size:7 final size:7
Alignment explanation
Indices: 13825909--13825938 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13825899 TAACGCAAAT
13825909 CCCTAAC
1 CCCTAAC
13825916 CCCTAAC
1 CCCTAAC
13825923 CCCTAAC
1 CCCTAAC
13825930 CCCTAAC
1 CCCTAAC
13825937 CC
1 CC
13825939 TTACACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.60, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:13826355 original size:7 final size:7
Alignment explanation
Indices: 13826347--13826376 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
13826337 TAATAAATAG
*
13826347 TTAGGAG
1 TTAGGAA
13826354 TTAGGAA
1 TTAGGAA
13826361 TTAGGAA
1 TTAGGAA
13826368 TTAGGAA
1 TTAGGAA
13826375 TT
1 TT
13826377 CTCTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (7 bp):
TTAGGAA
Found at i:13826624 original size:41 final size:41
Alignment explanation
Indices: 13826560--13827008 Score: 657
Period size: 41 Copynumber: 11.0 Consensus size: 41
13826550 TCAAAAACGG
* * * *
13826560 GCATTAGCGGTGCTTTTTAAAAAACGCTGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
13826601 GCACTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
13826642 GCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
13826683 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
13826724 GCATTAGCGGTGCTTCTTCAAAAATGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
13826765 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
13826806 GCATTAGCGGTGCTTCTTCAAAAATGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
13826847 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
13826888 GCATTAGCGGCG-TTTTTTAAAAAGCACCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTCTTCAAAAA-CGCCGCTAAAGGCCCGA
13826929 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
**
13826970 GCATTAGCGGCGCTTCTTCAAAAACGTAGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
13827009 CAAAAACTCA
Statistics
Matches: 366, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
40 9 0.02
41 348 0.95
42 9 0.02
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:13828412 original size:12 final size:12
Alignment explanation
Indices: 13828395--13828419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13828385 AAATTCTTGC
13828395 ACTAGTCCCTAT
1 ACTAGTCCCTAT
13828407 ACTAGTCCCTAT
1 ACTAGTCCCTAT
13828419 A
1 A
13828420 TTTAGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTAGTCCCTAT
Found at i:13830619 original size:23 final size:23
Alignment explanation
Indices: 13830551--13830624 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
13830541 AAAACCCTAA
* **
13830551 CCTAATCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAACCAAAAAC
* **
13830574 TCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAACCAAAAAC
**
13830597 CCTAACCTAATTGAACCCTAAAC
1 CCTAACCTAATTGAACCAAAAAC
13830620 CCTAA
1 CCTAA
13830625 ACCCTAAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (23 bp):
CCTAACCTAATTGAACCAAAAAC
Found at i:13830622 original size:7 final size:7
Alignment explanation
Indices: 13830610--13830639 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
13830600 AACCTAATTG
13830610 AACCCTA
1 AACCCTA
13830617 AACCCTA
1 AACCCTA
13830624 AACCCTA
1 AACCCTA
13830631 AACCCTA
1 AACCCTA
13830638 AA
1 AA
13830640 ACCATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:13831095 original size:23 final size:23
Alignment explanation
Indices: 13831015--13831141 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 23
13831005 AAAAACTTAA
* *
13831015 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAACTTAATTTAAAAC
* *
13831038 CCTAACCTAACCTAATTTAATTAAA
1 CCTAACCTAACTTAATTTAA--AAC
**
13831063 ATTAAAAACCTAACTTAATTTAAAAC
1 CCT---AACCTAACTTAATTTAAAAC
**
13831089 CCTAACCTAACTTAACCCT-AAAC
1 CCTAACCTAACTTAA-TTTAAAAC
** *
13831112 TGTAACCTAACTTAATGTAAAAC
1 CCTAACCTAACTTAATTTAAAAC
13831135 CCTAACC
1 CCTAACC
13831142 CTAAGCTAAT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.01
23 55 0.70
24 1 0.01
25 3 0.04
26 3 0.04
28 16 0.20
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (23 bp):
CCTAACCTAACTTAATTTAAAAC
Found at i:13831103 original size:18 final size:18
Alignment explanation
Indices: 13831064--13831103 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13831054 TTAATTAAAA
* *
13831064 TTAAAAACCTAACTTAAT
1 TTAAAAACCTAACCTAAC
*
13831082 TTAAAACCCTAACCTAAC
1 TTAAAAACCTAACCTAAC
13831100 TTAA
1 TTAA
13831104 CCCTAAACTG
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:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAAAACCTAACCTAAC
Found at i:13831104 original size:28 final size:28
Alignment explanation
Indices: 13829595--13831103 Score: 2011
Period size: 28 Copynumber: 53.0 Consensus size: 28
13829585 GTTTGACATT
* *
13829595 ATTTGATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829623 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829651 ATTGAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13829682 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13829709 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
* *
13829740 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829768 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829796 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13829824 ATTTAATTATAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13829852 ATTTAATTAAAAAGCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
**
13829880 ATTTAATTAAAAACCCTAACCTAACCCA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829908 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829936 ATTTAATTATAAACCCTAACCTCCTAACTTA
1 ATTTAATTAAAAACCCTAA---CCTAACTTA
13829967 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13829994 ATTGAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13830025 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830052 ATTGAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13830083 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830110 ATTGAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13830141 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830168 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830196 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830224 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830252 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830280 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830308 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830336 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830364 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830392 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830420 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830448 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830476 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830504 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830532 ATTTAATTAAAAACCCTAACCTAA-TCTA
1 ATTTAATTAAAAACCCTAACCTAACT-TA
* *
13830560 ATTGAATTAAAAA--CT---CTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830583 ATTGAATTAAAAACCCTAACCTAA-TTGA
1 ATTTAATTAAAAACCCTAACCTAACTT-A
* * ****
13830611 ACCCTAAACCCTAAACCCTAAACCCTAAAACCATAACTTA
1 A--TTTAATTAAAAACCCT---------AACC-TAACTTA
13830651 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13830682 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
* ** *
13830713 ATTTAATTTAAATTCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830741 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830769 ATTTAATTAAAAA--CT---CTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830792 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830820 ATTTAATTAAAAACCCTACCCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830848 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
13830879 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13830907 ATTTAATTAAAAACCCTAAAACCCTAACCTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
*
13830938 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13830966 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
* * *
13830997 ATTGAATTAAAAA-CTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13831024 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
13831052 ATTTAATT-AAAA--TTAA--AAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13831075 ACTTAATTTAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13831103 A
1 A
13831104 CCCTAAACTG
Statistics
Matches: 1348, Mismatches: 68, Indels: 130
0.87 0.04 0.08
Matches are distributed among these distances:
23 52 0.04
24 4 0.00
25 7 0.01
26 7 0.01
27 76 0.06
28 870 0.65
29 8 0.01
30 99 0.07
31 202 0.15
32 2 0.00
38 10 0.01
39 4 0.00
40 5 0.00
41 2 0.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.30
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:13831359 original size:27 final size:27
Alignment explanation
Indices: 13831321--13831379 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
13831311 TATCAATTAT
13831321 TAATTGAATAAAAGGTAGCTTTTTCTA
1 TAATTGAATAAAAGGTAGCTTTTTCTA
13831348 TAATTGAATAAAAGGTAGCTTTTTCTA
1 TAATTGAATAAAAGGTAGCTTTTTCTA
13831375 TAATT
1 TAATT
13831380 ACATTCAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (27 bp):
TAATTGAATAAAAGGTAGCTTTTTCTA
Found at i:13834596 original size:125 final size:124
Alignment explanation
Indices: 13834374--13834615 Score: 337
Period size: 125 Copynumber: 1.9 Consensus size: 124
13834364 CCACGATGGC
*
13834374 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTGCCAACATGACCAACTGTAGCG
* * *
13834439 AAATCGCGTCCACGAGGGCGCGATTTAACAATTT-TTGCCCAATATAGCATCCTTTTATCA
66 AAATCGCATCCACGAGGCCACGATTTAACAATTTCTT-CCCAA-ATAGCATCCTTTTATCA
* * **
13834499 GCGATTTTATACTATTTGCTCAGAAAACGT-AAAAAATAATTATTGCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAA-AATTATTGCCAACATGACCAACTGTAG
* *
13834562 CGAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCT
64 CGAAATCGCATCCACGAGGCCACGATTTAACAATTTCTTCCCAAATAGCATCCT
13834616 AGTAGAAGCG
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
124 10 0.10
125 70 0.67
126 24 0.23
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTGCCAACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTAACAATTTCTTCCCAAATAGCATCCTTTTATCA
Found at i:13834990 original size:28 final size:28
Alignment explanation
Indices: 13834931--13834991 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
13834921 CGATTTCGCG
*
13834931 AAAAATGGCCCATTCCGGTAAATAATTT
1 AAAAATGGCCCATTCCGGTAAATAATTA
*
13834959 AAAAATCGGCCCATGTCC-GT-AATTATTA
1 AAAAAT-GGCCCAT-TCCGGTAAATAATTA
13834987 AAAAA
1 AAAAA
13834992 AGGGGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 17 0.59
29 9 0.31
30 3 0.10
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAAATGGCCCATTCCGGTAAATAATTA
Found at i:13837773 original size:357 final size:358
Alignment explanation
Indices: 13837116--13837824 Score: 1271
Period size: 357 Copynumber: 2.0 Consensus size: 358
13837106 TAGACCCGAT
*
13837116 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGTCTTGAAAACAAATAATTTTCATTTTAAAA
1 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
*
13837181 CATGTTTTATGCTAGTGAATTTCTCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGT
66 CATGTTTTATGCTAGTGAA-TTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGT
* *
13837246 AGAGTTTAAAGAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAGTCAACCTATTTTTATCA
130 AGAGTTTAAACAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAATCAACCTATTTTTATCA
13837311 CATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTT
195 CATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTT
13837376 TTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGT
260 TTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGT
13837441 TCTTAATAAAATACAACGGAAACAACATTAGCCA
325 TCTTAATAAAATACAACGGAAACAACATTAGCCA
* * *
13837475 TCGGGAAGATCACATTAGCCATCGAGGTTGTTCGGCCTTGAATACAAATAATTTTCATTTTAAAA
1 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
*
13837540 CCTGTTTTATGCTAGTGAA-TATC-TCTTTTTTTTTCAATTTAATATATCATCATTA-AGCAGTA
66 CATGTTTTATGCTAGTGAATTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGTA
13837602 GAGTTTAAACAATAATTTGTAAATCTCTTTTTTAAAAAATAAAATAAAATCAACCTATTTTTATC
131 GAGTTTAAACAATAATTTGTAAATCTC-TTTTT-AAAAATAAAATAAAATCAACCTATTTTTATC
* *
13837667 ACATAATAATAAGTAGCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTTAAATATGCCT
194 ACATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCT
*
13837732 TTTTCATTATGAGTAATGTCATGCAACCTAAATGTTTGAATTAGAAATCTTATCCAATACCACGG
259 TTTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGG
13837797 TTCTTAATAAAATACAACGGAAACAACA
324 TTCTTAATAAAATACAACGGAAACAACA
13837825 ACAATAATAA
Statistics
Matches: 337, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
355 33 0.10
356 37 0.11
357 188 0.56
359 79 0.23
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (358 bp):
TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
CATGTTTTATGCTAGTGAATTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGTA
GAGTTTAAACAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAATCAACCTATTTTTATCAC
ATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTTT
TTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGTT
CTTAATAAAATACAACGGAAACAACATTAGCCA
Found at i:13849421 original size:87 final size:90
Alignment explanation
Indices: 13849325--13849494 Score: 283
Period size: 87 Copynumber: 1.9 Consensus size: 90
13849315 GGCATTTTTA
* *
13849325 TTTTTTACATTTTGGTTTCTTAGGTTGGAAATTCTCTA-CCCT-T-TTTTTTTTTAATTTTCAAT
1 TTTTTTACATTGTGGTTGCTTAGGTTGGAAATTCTCTACCCCTGTGTTTTTTTTTAATTTTCAAT
* *
13849387 AAAATTTCTTTTTTTATTGGGATTT
66 AAAATTTATTTTCTTATTGGGATTT
13849412 TTTTTTACATTGTGGTTGCTTAGGTTGGAAATTCTCTACCCCTGTGTTTTTTTTTAATTTTCAAT
1 TTTTTTACATTGTGGTTGCTTAGGTTGGAAATTCTCTACCCCTGTGTTTTTTTTTAATTTTCAAT
13849477 AAAATTTATTTTCTTATT
66 AAAATTTATTTTCTTATT
13849495 TTTATTGCTA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
87 36 0.47
88 4 0.05
89 1 0.01
90 35 0.46
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (90 bp):
TTTTTTACATTGTGGTTGCTTAGGTTGGAAATTCTCTACCCCTGTGTTTTTTTTTAATTTTCAAT
AAAATTTATTTTCTTATTGGGATTT
Found at i:13859250 original size:43 final size:43
Alignment explanation
Indices: 13859165--13859253 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
13859155 GTTTTTATCC
* * *
13859165 TTGAGAAAAGAATTTAAAAAGAGGAGAAGATAATCCTGGGTTG
1 TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
* * *
13859208 TTGAAAAAATAATTTAAAAAGAGGAAAAGATAATATTTGGTTG
1 TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
13859251 TTG
1 TTG
13859254 GATTTACCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (43 bp):
TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
Found at i:13859415 original size:44 final size:44
Alignment explanation
Indices: 13859358--13859480 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 44
13859348 AGATATTTTG
13859358 GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
* * * * *
13859402 GAGGTGAATTAAATTTTGGCAATATTATTAATATTTATGGAGTTATATTA
1 GAGGTGAATTAAATTTTGG--ATA--AGT-A-ATTCACGAAGTCATATTA
13859452 GAGGTGAATTAAATTTTGGATAAGTAATT
1 GAGGTGAATTAAATTTTGGATAAGTAATT
13859481 TTCATGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
44 22 0.33
45 1 0.01
46 5 0.07
48 5 0.07
49 1 0.01
50 33 0.49
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (44 bp):
GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
Found at i:13859501 original size:50 final size:49
Alignment explanation
Indices: 13859358--13859505 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 49
13859348 AGATATTTTG
* *
13859358 GAGGTGAATTAAATTTTGGATAAGTAA--TTCACGAAG-T-CA--TATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATG-AGTTAGAGTTATTA
*
13859402 GAGGTGAATTAAATTTTGGCAATATTATTAATATTT-ATGGAGTT--A--TATTA
1 GAGGTGAATTAAATTTTGG--ATA--AGTAAT-TTTCAT-GAGTTAGAGTTATTA
13859452 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTTAAGAGTTATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTT-AGAGTTATTA
13859502 -AGGT
1 GAGGT
13859506 ACTGGGACTA
Statistics
Matches: 86, Mismatches: 3, Indels: 25
0.75 0.03 0.22
Matches are distributed among these distances:
44 19 0.22
45 8 0.09
46 10 0.12
48 8 0.09
49 4 0.05
50 33 0.38
51 4 0.05
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (49 bp):
GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTTAGAGTTATTA
Found at i:13859665 original size:10 final size:10
Alignment explanation
Indices: 13859646--13859693 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
13859636 AGTTTTATGT
*
13859646 ATTATGTCAA
1 ATTATATCAA
13859656 ATTATATCAA
1 ATTATATCAA
*
13859666 ATTATAATAAA
1 ATTAT-ATCAA
13859677 TATTATATCAA
1 -ATTATATCAA
13859688 ATTATA
1 ATTATA
13859694 ATGAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 20 0.61
11 8 0.24
12 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (10 bp):
ATTATATCAA
Found at i:13859684 original size:22 final size:23
Alignment explanation
Indices: 13859656--13859702 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
13859646 ATTATGTCAA
13859656 ATTATATCAAATTATAAT-AAAT
1 ATTATATCAAATTATAATGAAAT
13859678 ATTATATCAAATTATAATGAAAT
1 ATTATATCAAATTATAATGAAAT
13859701 AT
1 AT
13859703 AATAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTATATCAAATTATAATGAAAT
Found at i:13859688 original size:32 final size:32
Alignment explanation
Indices: 13859645--13859710 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
13859635 AAGTTTTATG
*
13859645 TATTATGTCAAATTAT-ATCAAATTATAATAAA
1 TATTATATCAAATTATAATCAAA-TATAATAAA
*
13859677 TATTATATCAAATTATAATGAAATATAATAAA
1 TATTATATCAAATTATAATCAAATATAATAAA
13859709 TA
1 TA
13859711 AATGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TATTATATCAAATTATAATCAAATATAATAAA
Found at i:13860042 original size:3 final size:3
Alignment explanation
Indices: 13860034--13860064 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13860024 AATGACTAAA
13860034 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13860065 GTACCATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13861908 original size:112 final size:112
Alignment explanation
Indices: 13861768--13861991 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
13861758 TTACTCGTTT
13861768 CAAGAATTTTATTATTTTATTCAATTCTTATAACATTCCCTGTCATTGCCTTGATTTTCCTTCCT
1 CAAGAATTTTATTATTTTATTCAATTCTTATAACATTCCCTGTCATTGCCTTGATTTTCCTTCCT
13861833 TTATCATTATATTTAAATTTCAAAGTAAATCATGAAAATGTTCAATG
66 TTATCATTATATTTAAATTTCAAAGTAAATCATGAAAATGTTCAATG
* *
13861880 CAAGAATTTTATTATTTTATTCAATTCTTATAACATTCCCTGTCATTTCCTTGATTTTCTTTCCT
1 CAAGAATTTTATTATTTTATTCAATTCTTATAACATTCCCTGTCATTGCCTTGATTTTCCTTCCT
13861945 TTATCATTATATTTAAATTTCAAAGTAAATCATGAAAATGTTCAATG
66 TTATCATTATATTTAAATTTCAAAGTAAATCATGAAAATGTTCAATG
13861992 GGTTTAGTAG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (112 bp):
CAAGAATTTTATTATTTTATTCAATTCTTATAACATTCCCTGTCATTGCCTTGATTTTCCTTCCT
TTATCATTATATTTAAATTTCAAAGTAAATCATGAAAATGTTCAATG
Found at i:13862502 original size:135 final size:135
Alignment explanation
Indices: 13862260--13862529 Score: 513
Period size: 135 Copynumber: 2.0 Consensus size: 135
13862250 GAGAGAAAAT
13862260 TGCATGGATAATTCCGGTTAACTTTCCTTTCAATTGTGTAGAAAATGTGTTCTTTACCATGTTGG
1 TGCATGGATAATTCCGGTTAACTTTCCTTTCAATTGTGTAGAAAATGTGTTCTTTACCATGTTGG
*
13862325 TCTATAAATACCATGAATCAGACATCTAACCAAAACTAACCACATTATTCTTGAATAGCAATAAG
66 TCTATAAATACCATGAAGCAGACATCTAACCAAAACTAACCACATTATTCTTGAATAGCAATAAG
13862390 CACAC
131 CACAC
* *
13862395 TGCATGGATAATTCCGGTTAACTTTCCTTTCAATTGTGTAGAAATTGTGTTTTTTACCATGTTGG
1 TGCATGGATAATTCCGGTTAACTTTCCTTTCAATTGTGTAGAAAATGTGTTCTTTACCATGTTGG
13862460 TCTATAAATACCATGAAGCAGACATCTAACCAAAACTAACCACATTATTCTTGAATAGCAATAAG
66 TCTATAAATACCATGAAGCAGACATCTAACCAAAACTAACCACATTATTCTTGAATAGCAATAAG
13862525 CACAC
131 CACAC
13862530 AGAAGATGGG
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (135 bp):
TGCATGGATAATTCCGGTTAACTTTCCTTTCAATTGTGTAGAAAATGTGTTCTTTACCATGTTGG
TCTATAAATACCATGAAGCAGACATCTAACCAAAACTAACCACATTATTCTTGAATAGCAATAAG
CACAC
Found at i:13863642 original size:21 final size:21
Alignment explanation
Indices: 13863618--13863723 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
13863608 CCATGAGGGT
13863618 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * * * *
13863639 TGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGC
* * *
13863660 TAAACAAAAGCTCAAAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * *
13863681 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGC
* *
13863702 TGAACAGAAGCTCGTGAGAGC
1 TGAACAGAAGCTCATAAGAGC
13863723 T
1 T
13863724 AAAAGGAAAG
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:13863649 original size:42 final size:41
Alignment explanation
Indices: 13863576--13863732 Score: 143
Period size: 42 Copynumber: 3.8 Consensus size: 41
13863566 GCCTGAAGGC
* * * **
13863576 TGAACAGAAACACATAAGTGCTAAATAGAAACCCATGAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT-AGGGT
* *
13863618 TGAACAGAAGCTCATAAGAGCTGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCC-ATAGGGT
* * * * * *
13863660 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATA-GGGT
* * *
13863702 TGAACAGAAGCTCGTGAGAGCTAAAAGGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAA
13863733 GTAAACACGA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 2 0.02
42 90 0.97
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.15
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGGT
Found at i:13870602 original size:106 final size:106
Alignment explanation
Indices: 13870466--13870678 Score: 392
Period size: 106 Copynumber: 2.0 Consensus size: 106
13870456 TTAAACAATA
13870466 ATTTGTAAATCTCTTTTTAAAAAAATAAAATAAAATCAACCTATTTTTATCACATAATAATAAGT
1 ATTTGTAAATCTCTTTTTAAAAAAATAAAATAAAATCAACCTATTTTTATCACATAATAATAAGT
13870531 ACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTT
66 ACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTT
*
13870572 ATTTGTAATTCTCTTTTTAAAAATAA-AAAATAAAATCAACCTATTTTTATCACATAATAATAAG
1 ATTTGTAAATCTCTTTTTAAAAA-AATAAAATAAAATCAACCTATTTTTATCACATAATAATAAG
*
13870636 TACCTTTTTACATCCTTAACTGTATCGAATAAATATCTACTT
65 TACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTT
13870678 A
1 A
13870679 AATGCCCTTT
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
106 102 0.98
107 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (106 bp):
ATTTGTAAATCTCTTTTTAAAAAAATAAAATAAAATCAACCTATTTTTATCACATAATAATAAGT
ACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTT
Found at i:13875863 original size:3 final size:3
Alignment explanation
Indices: 13875818--13875850 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13875808 ATAAAATGGG
13875818 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13875851 GGTACTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13879008 original size:3 final size:3
Alignment explanation
Indices: 13878994--13879028 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13878984 ATAAAACGAA
*
13878994 AAC AAA AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13879029 TAATGGTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13882696 original size:16 final size:17
Alignment explanation
Indices: 13882675--13882706 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13882665 AAATATGCAA
13882675 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
13882691 TCACATAACTTCATAT
1 TCACATAACTTCATAT
13882707 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:13882965 original size:41 final size:42
Alignment explanation
Indices: 13882867--13882983 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 42
13882857 GACTCGTACA
* * * *
13882867 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGAC-AGGTCTTACACGTAATCAAATATCG
* *
13882910 ATGCCACTATCCCAGACAGGATCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGG-TCTTACACGTAATCAAATATCG
13882951 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACA-GGTCTTACACGTAA
13882984 ACACAAGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 27 0.43
42 14 0.22
43 22 0.35
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGTCTTACACGTAATCAAATATCG
Found at i:13889902 original size:16 final size:17
Alignment explanation
Indices: 13889881--13889912 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13889871 AAATATGCAA
13889881 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
13889897 TCACATAACTTCATAT
1 TCACATAACTTCATAT
13889913 CATCAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:13890171 original size:41 final size:42
Alignment explanation
Indices: 13890073--13890189 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 42
13890063 GACTCGTACA
* * * *
13890073 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGAC-AGGTCTTACACGTAATCAAATATCG
* *
13890116 ATGCCACTATCCCAGACAGGATCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGG-TCTTACACGTAATCAAATATCG
13890157 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACA-GGTCTTACACGTAA
13890190 ACACAAGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 27 0.43
42 14 0.22
43 22 0.35
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGTCTTACACGTAATCAAATATCG
Found at i:13912251 original size:21 final size:21
Alignment explanation
Indices: 13912227--13912332 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
13912217 CCATGAGGAT
13912227 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * * * *
13912248 TGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGC
* * *
13912269 TAAACAAAAGCTCAAAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * *
13912290 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGC
* *
13912311 TGAACAGAAGCTCGTGAGAGC
1 TGAACAGAAGCTCATAAGAGC
13912332 T
1 T
13912333 AAAAGGAAAG
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:13912258 original size:42 final size:41
Alignment explanation
Indices: 13912185--13912341 Score: 134
Period size: 42 Copynumber: 3.8 Consensus size: 41
13912175 GCCTGAAGGC
* * * **
13912185 TGAACAGAAACACATAAGTGCTAAATAGAAACCCATGAGGAT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT-AGGAT
* * *
13912227 TGAACAGAAGCTCATAAGAGCTGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCC-ATAGGAT
* * * * * *
13912269 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGA-T
* * *
13912311 TGAACAGAAGCTCGTGAGAGCTAAAAGGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAA
13912342 GTAAACACGA
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 3 0.03
42 87 0.96
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGAT
Found at i:13913341 original size:3 final size:3
Alignment explanation
Indices: 13913324--13913358 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13913314 ATAAAACGGA
* *
13913324 AAC AAC AGC AGC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13913359 TGGTACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.31, G:0.06, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13917923 original size:49 final size:49
Alignment explanation
Indices: 13917851--13917947 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
13917841 TAATTTCACT
*
13917851 ATCTAAATATAAAACATTGCATTTCATAACTTCTGTATATGTACATAAC
1 ATCTAAATATAAAACATTGCATTTCATAACTTCTGTATATCTACATAAC
*
13917900 ATCTAAATATCAAACATTGCATTTCATAACTTCTGTATATCTACATAA
1 ATCTAAATATAAAACATTGCATTTCATAACTTCTGTATATCTACATAA
13917948 TGAAACCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (49 bp):
ATCTAAATATAAAACATTGCATTTCATAACTTCTGTATATCTACATAAC
Found at i:13919163 original size:59 final size:59
Alignment explanation
Indices: 13919071--13919188 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
13919061 AGTCGATAGT
13919071 GTGATAGACTTCTCTGACGATTCCCGTGCTCTTAACCAACTTCCAAATCCATAAAATTG
1 GTGATAGACTTCTCTGACGATTCCCGTGCTCTTAACCAACTTCCAAATCCATAAAATTG
*
13919130 GTGATAGACTTCTCTGACGATTCCCGTGCTCTTAACCAACTTCCAAATCTATAAAATTG
1 GTGATAGACTTCTCTGACGATTCCCGTGCTCTTAACCAACTTCCAAATCCATAAAATTG
13919189 AAAGCGATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (59 bp):
GTGATAGACTTCTCTGACGATTCCCGTGCTCTTAACCAACTTCCAAATCCATAAAATTG
Found at i:13919482 original size:16 final size:17
Alignment explanation
Indices: 13919461--13919492 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13919451 AAATATGCAA
13919461 TCACATAA-TTCATATT
1 TCACATAATTTCATATT
13919477 TCACATAATTTCATAT
1 TCACATAATTTCATAT
13919493 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TCACATAATTTCATATT
Found at i:13919794 original size:84 final size:84
Alignment explanation
Indices: 13919653--13919808 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 84
13919643 GACTCGTACA
* * *
13919653 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTGG
13919717 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
*
13919737 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCGAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTG
13919800 GTCTTACAC
64 GTCTTACAC
13919809 GATAACATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.94
85 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:13919808 original size:43 final size:42
Alignment explanation
Indices: 13919653--13919809 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 42
13919643 GACTCGTACA
* *
13919653 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
13919696 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
13919737 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
*
13919780 ATGCCGACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
13919810 ATAACATATA
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
40 2 0.02
41 29 0.30
42 7 0.07
43 57 0.59
44 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:13937915 original size:18 final size:17
Alignment explanation
Indices: 13937883--13937916 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13937873 AGAAAAAAAC
*
13937883 TTCTAAAATATTAATTA
1 TTCTAAAAAATTAATTA
13937900 TTCTAAAAAATATAATT
1 TTCTAAAAAAT-TAATT
13937917 TACTTTACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCTAAAAAATTAATTA
Found at i:13938667 original size:14 final size:13
Alignment explanation
Indices: 13938632--13938673 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
13938622 CAATTTGATT
*
13938632 AAATAAATTAATA
1 AAATAAATTTATA
13938645 AAA-AAATTTATA
1 AAATAAATTTATA
13938657 AGAATAAATTTA-A
1 A-AATAAATTTATA
13938670 AAAT
1 AAAT
13938674 TCGATTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.46
13 7 0.27
14 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
AAATAAATTTATA
Found at i:13944322 original size:187 final size:191
Alignment explanation
Indices: 13943935--13944334 Score: 483
Period size: 188 Copynumber: 2.1 Consensus size: 191
13943925 TTTTCTATCA
* * * **
13943935 AAATAGCGACTGTTTTTAATCCTTCTTGTATGTATATATATATCGATATAGTATCACTTGTTATT
1 AAATAGCGACTGTTTTTAATCCTGCTTGCATG-ATATATATATCGATATAGTATCACTTCTTACC
* *
13944000 GAGTTTTTTTGCTTTCGAATTTGGTGTTGTGGCTACGGAATTTATTTGCGTTTTGAACTCTTTTG
65 GAG---TGTT-CTTTCGAATTTGGTGTTGTGGCTACGGAATTTATCTGCGTTTTGAACTCTTTTG
* * ** *
13944065 ATCGGTATTTGGTTGATTTTATTTTCTATTTACTTGCTGGATTCGAGAAAGTGGAAAGAAAATAT
126 ATCGGTATTTGGATGATTTTATTTTC-ATCTACTCACTGGATTCGAGAAAGTGGAAAGAAAAGAT
13944130 CG
190 CG
*
13944132 AAATAGCGACTGTTTTTAATCCTGCTTGCATG-TATATATATCTATATAGTATCACTTCTTACCG
1 AAATAGCGACTGTTTTTAATCCTGCTTGCATGATATATATATCGATATAGTATCACTTCTTACCG
* * * *
13944196 AG-GTT-TTT-GAATTTTGTGTTGTGGCTATGGATTTTATCTGTGTTTTGAACT-TTTTAGATCG
66 AGTGTTCTTTCGAATTTGGTGTTGTGGCTACGGAATTTATCTGCGTTTTGAACTCTTTT-GATCG
*
13944257 GTATTTAGTTGATGATTTTATTTTC-TCT-C-CACTGGATTTGAGAAAGTGGAAAGAAAAGATCG
130 GTATTT-G--GATGATTTTATTTTCATCTACTCACTGGATTCGAGAAAGTGGAAAGAAAAGATCG
*
13944319 AAATAGTGACTGTTTT
1 AAATAGCGACTGTTTT
13944335 CATAGTTTCT
Statistics
Matches: 180, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
187 48 0.27
188 50 0.28
189 6 0.03
191 16 0.09
195 30 0.17
197 30 0.17
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (191 bp):
AAATAGCGACTGTTTTTAATCCTGCTTGCATGATATATATATCGATATAGTATCACTTCTTACCG
AGTGTTCTTTCGAATTTGGTGTTGTGGCTACGGAATTTATCTGCGTTTTGAACTCTTTTGATCGG
TATTTGGATGATTTTATTTTCATCTACTCACTGGATTCGAGAAAGTGGAAAGAAAAGATCG
Found at i:13955593 original size:29 final size:28
Alignment explanation
Indices: 13955541--13955596 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
13955531 CAAAGAAAAC
*
13955541 TTTTTTTTTTTAAATTGGGAAAATAAGG
1 TTTTTTTTTTTAAATTAGGAAAATAAGG
13955569 TTTTATTTTTTTAAATTAAGG-AAATAAG
1 TTTT-TTTTTTTAAATT-AGGAAAATAAG
13955597 TTAAAATGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 19 0.76
30 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (28 bp):
TTTTTTTTTTTAAATTAGGAAAATAAGG
Found at i:13961126 original size:12 final size:12
Alignment explanation
Indices: 13961105--13961134 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13961095 GATTTCATTG
13961105 TGTATATATGTA
1 TGTATATATGTA
*
13961117 TGTATGTATGTA
1 TGTATATATGTA
13961129 TGTATA
1 TGTATA
13961135 GGTATTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (12 bp):
TGTATATATGTA
Found at i:13963803 original size:46 final size:46
Alignment explanation
Indices: 13963747--13963842 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
13963737 CTAAATTAAC
*
13963747 ATAGCGTAAAAAAGTTAAAAAGTTAAAA-TTGTTATTATAGAAGCTA
1 ATAGCATAAAAAAGTT-AAAAGTTAAAAGTTGTTATTATAGAAGCTA
* *
13963793 ATAGCATAAAAATGTTAAAAGTTAAAAGTTGTTATTATGGAAGCTA
1 ATAGCATAAAAAAGTTAAAAGTTAAAAGTTGTTATTATAGAAGCTA
13963839 ATAG
1 ATAG
13963843 GTACGTGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 11 0.24
46 35 0.76
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (46 bp):
ATAGCATAAAAAAGTTAAAAGTTAAAAGTTGTTATTATAGAAGCTA
Found at i:13974252 original size:28 final size:28
Alignment explanation
Indices: 13974212--13974266 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
13974202 CCACTTAAGT
13974212 TGAGCTTGATTTCTCAAGGGAGCCAAGC
1 TGAGCTTGATTTCTCAAGGGAGCCAAGC
13974240 TGAGCTTGATTTCTCAAGGGAGCCAAG
1 TGAGCTTGATTTCTCAAGGGAGCCAAG
13974267 TTTGAGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (28 bp):
TGAGCTTGATTTCTCAAGGGAGCCAAGC
Found at i:13981586 original size:16 final size:17
Alignment explanation
Indices: 13981567--13981598 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13981557 AAATATAACA
13981567 TAAATATATTT-TTATT
1 TAAATATATTTATTATT
13981583 TAAATATATTTATTAT
1 TAAATATATTTATTAT
13981599 AAAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATATATTTATTATT
Found at i:13981603 original size:16 final size:16
Alignment explanation
Indices: 13981568--13981605 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13981558 AATATAACAT
*
13981568 AAATATATTTTTATTT
1 AAATATATTTTTATTA
13981584 AAATATATTTATTA-TA
1 AAATATATTT-TTATTA
13981600 AAATAT
1 AAATAT
13981606 TATAGTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATATTTTTATTA
Found at i:13982587 original size:24 final size:25
Alignment explanation
Indices: 13982535--13982587 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
13982525 AATAAATATT
**
13982535 TATTATTAAAATATTAATATTGAAA
1 TATTATTTTAATATTAATATTGAAA
13982560 TATT-TTTTAATATT-ATA-TGAAA
1 TATTATTTTAATATTAATATTGAAA
13982582 -ATTATT
1 TATTATT
13982588 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 7 0.28
23 3 0.12
24 8 0.32
25 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
TATTATTTTAATATTAATATTGAAA
Found at i:13983964 original size:13 final size:13
Alignment explanation
Indices: 13983938--13983994 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
13983928 ATAGAAGATA
*
13983938 TTATTTTGTTTTAT
1 TTATTTT-TATTAT
*
13983952 TTAGTTTTATTATT
1 TTATTTTTATTA-T
13983966 ATTATTTTTTATTA-
1 -TTA-TTTTTATTAT
13983980 TTATTTTTATTAT
1 TTATTTTTATTAT
13983993 TT
1 TT
13983995 TAGAATAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 9 0.25
13 9 0.25
14 7 0.19
15 3 0.08
16 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:13990369 original size:8 final size:8
Alignment explanation
Indices: 13990336--13990368 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13990326 ATCGGCTCAC
*
13990336 TTCTTTTT
1 TTCTTCTT
13990344 TTCTTCTT
1 TTCTTCTT
13990352 TTCTTCTT
1 TTCTTCTT
13990360 TTCTT-TT
1 TTCTTCTT
13990367 TT
1 TT
13990369 TACATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTCTTCTT
Found at i:13990554 original size:30 final size:29
Alignment explanation
Indices: 13990483--13990554 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
13990473 TAAGGACTAT
* * * *
13990483 ATCAAATTAGTCCCTCTATTATTAAATGG
1 ATCAAATTAGTCCCTATACTATTAAAAGA
*
13990512 ATCAATTTAGTCCCTATACTATTAAAAAGA
1 ATCAAATTAGTCCCTATACTATT-AAAAGA
*
13990542 ATCAAATAAGTCC
1 ATCAAATTAGTCC
13990555 AAATTGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (29 bp):
ATCAAATTAGTCCCTATACTATTAAAAGA
Found at i:13993199 original size:19 final size:20
Alignment explanation
Indices: 13993166--13993204 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13993156 TTTTAATTTT
13993166 TAATTTTTTAGA-TTTAAAA
1 TAATTTTTTAGATTTTAAAA
13993185 TAATTTTTT-GAATTTTAAAA
1 TAATTTTTTAG-ATTTTAAAA
13993205 AAGTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 10 0.56
20 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TAATTTTTTAGATTTTAAAA
Found at i:13994645 original size:32 final size:32
Alignment explanation
Indices: 13994609--13994670 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
13994599 TCAACTTTCA
13994609 ATAAAATAAAAATAAAAATATATTTTAAATTT
1 ATAAAATAAAAATAAAAATATATTTTAAATTT
** *
13994641 ATAAAATAAAAATATTAATTTATTTTAAAT
1 ATAAAATAAAAATAAAAATATATTTTAAAT
13994671 ATGAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
ATAAAATAAAAATAAAAATATATTTTAAATTT
Found at i:13996159 original size:23 final size:25
Alignment explanation
Indices: 13996133--13996179 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13996123 TATCATTCAT
*
13996133 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
13996156 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
13996180 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Done.