Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 61 of 93
Found at i:23145051 original size:25 final size:25
Alignment explanation
Indices: 23145023--23145070 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
23145013 GAATAAGTAA
23145023 ATAT-TTTATTAAT-TATATTAATTTT
1 ATATATTT-TTAATATA-ATTAATTTT
23145048 ATATATTTTTAATATAATTAATT
1 ATATATTTTTAATATAATTAATT
23145071 ATGTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATATTTTTAATATAATTAATTTT
Found at i:23161222 original size:32 final size:32
Alignment explanation
Indices: 23161163--23161233 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
23161153 ACAATTTTAC
*
23161163 TTTTTATTAATTTAAAAAATTACTATTATATATA
1 TTTTTATTAATTT-AAAAATTAATATTAT-TATA
*
23161197 TTTTTATTAATTT-AAAATTAATATTATTATT
1 TTTTTATTAATTTAAAAATTAATATTATTATA
23161228 TTTTTA
1 TTTTTA
23161234 AAAAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 9 0.26
32 13 0.37
34 13 0.37
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTTATTAATTTAAAAATTAATATTATTATA
Found at i:23200996 original size:19 final size:18
Alignment explanation
Indices: 23200962--23200997 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23200952 GTTAATTTCC
23200962 TTTCATTTTCTTTCCTTG
1 TTTCATTTTCTTTCCTTG
*
23200980 TTTCCTTTTCATTTCCTT
1 TTTCATTTTC-TTTCCTT
23200998 TCTCTTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCATTTTCTTTCCTTG
Found at i:23212229 original size:2 final size:2
Alignment explanation
Indices: 23212187--23212221 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23212177 TGTTGGTATG
23212187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23212222 GAATATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23212375 original size:49 final size:49
Alignment explanation
Indices: 23212265--23212375 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 49
23212255 GTGATAATAT
* *
23212265 TGACTCGGCTATGTGAGAGTAGGGAGTGCGCATAAGCCGATGATGGTGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAAGCCGATGATGATGA
* * *
23212314 TGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCTGATGATGATGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAAGCCGATGATGATGA
*
23212363 TGACCTGGCTATG
1 TGACCCGGCTATG
23212376 ATGATGAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.23
Consensus pattern (49 bp):
TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAAGCCGATGATGATGA
Found at i:23218783 original size:54 final size:54
Alignment explanation
Indices: 23218732--23218930 Score: 344
Period size: 54 Copynumber: 3.7 Consensus size: 54
23218722 CAACTATGCA
*
23218732 CACGATGTGGTGGGATGCACATTAGCTGGGTGAGATGGGATGTCTGGCTATGTG
1 CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTGGCTATGTG
*
23218786 CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGAATGTCTGGCTATGTG
1 CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTGGCTATGTG
* *
23218840 CACAATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTG
1 CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTGGCTATGTG
* *
23218894 CACGATGTGGTAGGATGCACATGAGCTAGGTGAGATG
1 CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
23218931 CGCATAATGA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 137 1.00
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.25
Consensus pattern (54 bp):
CACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATGTCTGGCTATGTG
Found at i:23225688 original size:54 final size:54
Alignment explanation
Indices: 23225630--23225741 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
23225620 GAGGGAGATG
23225630 GATGGGATGTT-TGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGA
1 GATGGGAT-TTCTGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGA
23225684 GATGGGATTTCTGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGA
1 GATGGGATTTCTGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGA
23225738 GATG
1 GATG
23225742 CACATAATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.29
Consensus pattern (54 bp):
GATGGGATTTCTGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGA
Found at i:23230718 original size:22 final size:21
Alignment explanation
Indices: 23230693--23230748 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 21
23230683 AATGTTTTAT
*
23230693 ATAAAATATTACTATTTAATTA
1 ATAAAATATTACTAGTTAA-TA
* * *
23230715 ATAACATTTTAATAGTTAATA
1 ATAAAATATTACTAGTTAATA
*
23230736 AT-AAACATTACTA
1 ATAAAATATTACTA
23230749 CTTACTATGG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 7 0.27
21 4 0.15
22 15 0.58
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAAAATATTACTAGTTAATA
Found at i:23236618 original size:2 final size:2
Alignment explanation
Indices: 23236611--23236640 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23236601 GATGTTAGAA
23236611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23236641 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23240218 original size:22 final size:22
Alignment explanation
Indices: 23240176--23240216 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23240166 TACCTTTTGT
*
23240176 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
23240198 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
23240217 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:23241985 original size:25 final size:25
Alignment explanation
Indices: 23241947--23242036 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
23241937 ATTGGCATTG
23241947 ATTTCCAA-AGGAAAATCCGTTGCAA
1 ATTTCCAATA-GAAAATCCGTTGCAA
* *
23241972 ATTTCCAATAGAAAATCTGTTGGTAA
1 ATTTCCAATAGAAAATCCGTT-GCAA
* **
23241998 ATTT-TAATAGAAAATTCCGTTGGTA
1 ATTTCCAATAGAAAA-TCCGTTGCAA
*
23242023 ATTTTCAAT-GAAAA
1 ATTTCCAATAGAAAA
23242037 ATTTCGTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 38 0.70
26 16 0.30
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (25 bp):
ATTTCCAATAGAAAATCCGTTGCAA
Found at i:23242019 original size:26 final size:25
Alignment explanation
Indices: 23241957--23242036 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
23241947 ATTTCCAAAG
* *
23241957 GAAAATCCGTT-GCAAATTTCCAATA
1 GAAAATCCGTTGGTAAATTT-TAATA
*
23241982 GAAAATCTGTTGGTAAATTTTAATA
1 GAAAATCCGTTGGTAAATTTTAATA
23242007 GAAAATTCCGTTGGT-AATTTTCAAT-
1 GAAAA-TCCGTTGGTAAATTTT-AATA
23242032 GAAAA
1 GAAAA
23242037 ATTTCGTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 30 0.62
26 18 0.38
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (25 bp):
GAAAATCCGTTGGTAAATTTTAATA
Found at i:23242037 original size:26 final size:26
Alignment explanation
Indices: 23241957--23242045 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
23241947 ATTTCCAAAG
* *
23241957 GAAAA-TCCGTT-GCAAATTTCCAATA
1 GAAAATTCCGTTGGTAAATTT-TAATA
*
23241982 GAAAA-TCTGTTGGTAAATTTTAATA
1 GAAAATTCCGTTGGTAAATTTTAATA
23242007 GAAAATTCCGTTGGT-AATTTTCAAT-
1 GAAAATTCCGTTGGTAAATTTT-AATA
*
23242032 GAAAAATTTCGTTG
1 G-AAAATTCCGTTG
23242046 AAAATCTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
25 26 0.47
26 29 0.53
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (26 bp):
GAAAATTCCGTTGGTAAATTTTAATA
Found at i:23243722 original size:12 final size:12
Alignment explanation
Indices: 23243705--23243744 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
23243695 ATTTTTATTG
*
23243705 AACATGGCGTGT
1 AACATGGTGTGT
*
23243717 AACATGTTGTG-
1 AACATGGTGTGT
23243728 AACATGGTGTGT
1 AACATGGTGTGT
23243740 AACAT
1 AACAT
23243745 TTTTTGAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (12 bp):
AACATGGTGTGT
Found at i:23243733 original size:23 final size:23
Alignment explanation
Indices: 23243703--23243766 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
23243693 ACATTTTTAT
23243703 TGAACATGGCGTGTAACATGTTG
1 TGAACATGGCGTGTAACATGTTG
* * *
23243726 TGAACATGGTGTGTAACATTTTT
1 TGAACATGGCGTGTAACATGTTG
*
23243749 TGAACATGGCATGTAACA
1 TGAACATGGCGTGTAACA
23243767 ACATGACTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (23 bp):
TGAACATGGCGTGTAACATGTTG
Found at i:23244451 original size:21 final size:21
Alignment explanation
Indices: 23244425--23244472 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
23244415 TTCAAATGAG
*
23244425 ACTGCAACACTTGAGGACAAC
1 ACTGCAACACTGGAGGACAAC
* *
23244446 ACTGCAACACTGGAGGATAAT
1 ACTGCAACACTGGAGGACAAC
23244467 ACTGCA
1 ACTGCA
23244473 TTTGATGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
ACTGCAACACTGGAGGACAAC
Found at i:23245539 original size:7 final size:7
Alignment explanation
Indices: 23245523--23245558 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
23245513 AGGCTAAAGA
23245523 TTTAGGG
1 TTTAGGG
*
23245530 TTTAGAG
1 TTTAGGG
23245537 TTTAGGG
1 TTTAGGG
23245544 TTTAGGG
1 TTTAGGG
23245551 TTTAGGG
1 TTTAGGG
23245558 T
1 T
23245559 CATTACCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:23253488 original size:31 final size:31
Alignment explanation
Indices: 23253453--23253591 Score: 181
Period size: 31 Copynumber: 4.5 Consensus size: 31
23253443 AAAAAAGAAA
*
23253453 TAAATGTTGTTACACACTATGTATACCAAGT
1 TAAATGTTGTTACACACTATGCATACCAAGT
*
23253484 TAAATGTTGTTACACGCTATGCATACCAAGT
1 TAAATGTTGTTACACACTATGCATACCAAGT
**
23253515 TAAATGTTGTTACACGTTATGCATACCAAG-
1 TAAATGTTGTTACACACTATGCATACCAAGT
* * *
23253545 TAAAGTGTAGTTACACATTAAGCATACCAAGT
1 TAAA-TGTTGTTACACACTATGCATACCAAGT
* *
23253577 CAAATGTTATTACAC
1 TAAATGTTGTTACAC
23253592 GCTTGTTGGC
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 4 0.04
31 90 0.93
32 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (31 bp):
TAAATGTTGTTACACACTATGCATACCAAGT
Found at i:23264362 original size:23 final size:23
Alignment explanation
Indices: 23264336--23264605 Score: 123
Period size: 23 Copynumber: 11.7 Consensus size: 23
23264326 TATTTCGAGT
* *
23264336 CATGGCATGTCATAAATTCTCAC
1 CATGCCATGTCACAAATTCTCAC
* *
23264359 CATGCCGTGTCACAGATTCTCAC
1 CATGCCATGTCACAAATTCTCAC
** * * *
23264382 CATGCTGTCTCACACGATT-TCAA
1 CATGCCATGTCACA-AATTCTCAC
* * *
23264405 CATGTCGTGTCACAAAGTCTCAC
1 CATGCCATGTCACAAATTCTCAC
* ** * *
23264428 GATGCTGTGTCACACATTCCCAC
1 CATGCCATGTCACAAATTCTCAC
* * * * *
23264451 CATGGCGTGTCATAAACTCTAAAC
1 CATGCCATGTCACAAATTCT-CAC
* ****
23264475 CCTATTGTGTCACAAATTCTCAC
1 CATGCCATGTCACAAATTCTCAC
* * * *
23264498 CATGTCATCTCACACGATT-TCAA
1 CATGCCATGTCACA-AATTCTCAC
* *
23264521 CATGTCGTGTCACAAATTCTCAC
1 CATGCCATGTCACAAATTCTCAC
***
23264544 CATGTTGTGTCACAAATTCTCAC
1 CATGCCATGTCACAAATTCTCAC
* * *
23264567 CATGCCATGTTACACAA-TCCCAT
1 CATGCCATGTCACA-AATTCTCAC
*
23264590 CATGGCATGTCACAAA
1 CATGCCATGTCACAAA
23264606 CTCTAAACCC
Statistics
Matches: 187, Mismatches: 54, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
22 7 0.04
23 155 0.83
24 25 0.13
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (23 bp):
CATGCCATGTCACAAATTCTCAC
Found at i:23264577 original size:28 final size:23
Alignment explanation
Indices: 23264343--23264570 Score: 172
Period size: 23 Copynumber: 9.9 Consensus size: 23
23264333 AGTCATGGCA
* **
23264343 TGTCATAAATTCTCACCATGCCG
1 TGTCACAAATTCTCACCATGTTG
* *
23264366 TGTCACAGATTCTCACCATGCTG
1 TGTCACAAATTCTCACCATGTTG
* * * *
23264389 TCTCACACGATT-TCAACATGTCG
1 TGTCACA-AATTCTCACCATGTTG
* * *
23264412 TGTCACAAAGTCTCACGATGCTG
1 TGTCACAAATTCTCACCATGTTG
* * **
23264435 TGTCACACATTCCCACCATGGCG
1 TGTCACAAATTCTCACCATGTTG
* * * * *
23264458 TGTCATAAACTCTAAACCCTATTG
1 TGTCACAAATTCT-CACCATGTTG
**
23264482 TGTCACAAATTCTCACCATGTCA
1 TGTCACAAATTCTCACCATGTTG
* * * *
23264505 TCTCACACGATT-TCAACATGTCG
1 TGTCACA-AATTCTCACCATGTTG
23264528 TGTCACAAATTCTCACCATGTTG
1 TGTCACAAATTCTCACCATGTTG
23264551 TGTCACAAATTCTCACCATG
1 TGTCACAAATTCTCACCATG
23264571 CCATGTTACA
Statistics
Matches: 156, Mismatches: 44, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
22 5 0.03
23 128 0.82
24 23 0.15
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (23 bp):
TGTCACAAATTCTCACCATGTTG
Found at i:23264594 original size:139 final size:139
Alignment explanation
Indices: 23264343--23264628 Score: 344
Period size: 139 Copynumber: 2.1 Consensus size: 139
23264333 AGTCATGGCA
* * * * *
23264343 TGTCATAAATTCTCACCATGCCGTGTCACAGATTCTCACCATGCTGTCTCACACGATTTCAACAT
1 TGTCACAAATTCTCACCATGCCATCTCACAGATTCTCAACATGCTGTCTCACACAATTTCAACAT
* ** * * *
23264408 GTCGTGTCACAAAGTCTCACGATGCTGTGTCACACATTCCCACCATGGCGTGTCATAAACTCTAA
66 GTCGTGTCACAAAGTCTCACCATGCCATGTCACACAATCCCACCATGGCATGTCACAAACTCTAA
*
23264473 ACCCTATTG
131 ACCCTATAG
* * *
23264482 TGTCACAAATTCTCACCATGTCATCTCACACGATT-TCAACATG-TCGTGTCACA-AATTCTCAC
1 TGTCACAAATTCTCACCATGCCATCTCACA-GATTCTCAACATGCT-GTCTCACACAATT-TCAA
* * * *
23264544 CATGTTGTGTCACAAATTCTCACCATGCCATGTTACACAATCCCATCATGGCATGTCACAAACTC
63 CATGTCGTGTCACAAAGTCTCACCATGCCATGTCACACAATCCCACCATGGCATGTCACAAACTC
*
23264609 TAAACCCTGTAG
128 TAAACCCTATAG
23264621 TGTCACAA
1 TGTCACAA
23264629 CCGTGTCACA
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
138 4 0.03
139 116 0.94
140 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (139 bp):
TGTCACAAATTCTCACCATGCCATCTCACAGATTCTCAACATGCTGTCTCACACAATTTCAACAT
GTCGTGTCACAAAGTCTCACCATGCCATGTCACACAATCCCACCATGGCATGTCACAAACTCTAA
ACCCTATAG
Found at i:23264627 original size:116 final size:114
Alignment explanation
Indices: 23264389--23264611 Score: 263
Period size: 116 Copynumber: 1.9 Consensus size: 114
23264379 CACCATGCTG
* *
23264389 TCTCACACGATTTCAACATGTCGTGTCACAAAGTCTCACGATGCTGTGTCACACATTCCCACCAT
1 TCTCACACGATTTCAACATGTCGTGTCACAAAGTCTCACCATGCTGTGTCACAAATTCCCACCAT
* * * * * *
23264454 GGCGTGTCATAAACTCTAAACCCTATTGTGTCACAAATTCTCACCATGTCA
66 GCCATGT-AT-AACACTAAACCCTATGGTGTCACAAACTCTAACCATGTCA
* * *
23264505 TCTCACACGATTTCAACATGTCGTGTCACAAATTCTCACCATGTTGTGTCACAAATTCTCACCAT
1 TCTCACACGATTTCAACATGTCGTGTCACAAAGTCTCACCATGCTGTGTCACAAATTCCCACCAT
*
23264570 GCCATGT-T-ACAC-AATCCCATCATGGCATGTCACAAACTCTAA
66 GCCATGTATAACACTAAACCC-T-ATGG--TGTCACAAACTCTAA
23264612 ACCCTGTAGT
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
111 5 0.05
112 4 0.04
113 3 0.03
114 1 0.01
115 13 0.14
116 65 0.71
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.29
Consensus pattern (114 bp):
TCTCACACGATTTCAACATGTCGTGTCACAAAGTCTCACCATGCTGTGTCACAAATTCCCACCAT
GCCATGTATAACACTAAACCCTATGGTGTCACAAACTCTAACCATGTCA
Found at i:23264669 original size:23 final size:23
Alignment explanation
Indices: 23264643--23264761 Score: 86
Period size: 23 Copynumber: 5.3 Consensus size: 23
23264633 GTCACATGTG
*
23264643 CTCACCATGTTGTGTCACACATT
1 CTCACCATGTCGTGTCACACATT
* *
23264666 CTCACCATGGCATGT--CACATT
1 CTCACCATGTCGTGTCACACATT
23264687 CTCA-CACTAG-CGTGTCACACATT
1 CTCACCA-T-GTCGTGTCACACATT
* *
23264710 CTCACCATGTAC-TCTCACATATT
1 CTCACCATGT-CGTGTCACACATT
* * * * *
23264733 CCCTCTATATCGTGTCACATATT
1 CTCACCATGTCGTGTCACACATT
23264756 CTCACC
1 CTCACC
23264762 CTGCTATGTT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
20 2 0.03
21 15 0.20
22 3 0.04
23 51 0.69
24 3 0.04
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (23 bp):
CTCACCATGTCGTGTCACACATT
Found at i:23264686 original size:21 final size:22
Alignment explanation
Indices: 23264659--23264718 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
23264649 ATGTTGTGTC
23264659 ACACATTCTCACCATGGCATGT
1 ACACATTCTCACCATGGCATGT
* *
23264681 -CACATTCTCA-CACTAGCGTGT
1 ACACATTCTCACCA-TGGCATGT
23264702 CACACATTCTCACCATG
1 -ACACATTCTCACCATG
23264719 TACTCTCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
23 11 0.35
24 2 0.06
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.27
Consensus pattern (22 bp):
ACACATTCTCACCATGGCATGT
Found at i:23264860 original size:23 final size:23
Alignment explanation
Indices: 23264826--23264878 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
23264816 GTCTCAATTG
* * *
23264826 TGTCACATATTCTCACCATGTCA
1 TGTCACACATTCCCACCATGGCA
23264849 TGTCACACATTCCCACCATGGCA
1 TGTCACACATTCCCACCATGGCA
*
23264872 TTTCACA
1 TGTCACA
23264879 AACTCTAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.30
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGGCA
Found at i:23264898 original size:81 final size:81
Alignment explanation
Indices: 23264744--23264899 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
23264734 CCTCTATATC
* * * ** *
23264744 GTGTCACATATTCTCACCCTGCTATGTTACATATTCCTTCCATGGCATGTCACAAACTTTAAACC
1 GTGTCACATATTCTCACCATGCTATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAACC
* **
23264809 TTGTCGTGTCTCAATT
66 CTACCGTGTCTCAATT
*
23264825 GTGTCACATATTCTCACCATG-TCATGTCACACATTCCCACCATGGCATTTCACAAACTCTAAAC
1 GTGTCACATATTCTCACCATGCT-ATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAAC
23264889 CCTACCGTGTC
65 CCTACCGTGTC
23264900 ATAGCCGTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 63 0.98
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.33
Consensus pattern (81 bp):
GTGTCACATATTCTCACCATGCTATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAACC
CTACCGTGTCTCAATT
Found at i:23264910 original size:81 final size:81
Alignment explanation
Indices: 23264743--23264916 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 81
23264733 CCCTCTATAT
* * * ** *
23264743 CGTGTCACATATTCTCACCCTGCTATGTTACATATTCCTTCCATGGCATGTCACAAACTTTAAAC
1 CGTGTCACATATTCTCACCATGCTATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAAC
* ** *
23264808 CTTGTCGTGTCTCAAT
66 CCTACCGTGTCTCAAC
* *
23264824 TGTGTCACATATTCTCACCATG-TCATGTCACACATTCCCACCATGGCATTTCACAAACTCTAAA
1 CGTGTCACATATTCTCACCATGCT-ATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAA
*
23264888 CCCTACCGTGTCAT-AGC
65 CCCTACCGTGTC-TCAAC
23264905 CGTGTCACATAT
1 CGTGTCACATAT
23264917 GGTCTATTGT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 75 0.97
82 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (81 bp):
CGTGTCACATATTCTCACCATGCTATGTCACACATTCCCACCATGGCATGTCACAAACTCTAAAC
CCTACCGTGTCTCAAC
Found at i:23272151 original size:17 final size:17
Alignment explanation
Indices: 23272124--23272169 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
23272114 TATACCATGT
23272124 ATATCTAGATTTGGATGTA
1 ATAT-TAGATTTGGATG-A
23272143 AT-TTAGA-TTGGATGA
1 ATATTAGATTTGGATGA
23272158 ATATTAAGATTT
1 ATATT-AGATTT
23272170 AATCTATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 3 0.12
16 9 0.38
17 7 0.29
18 3 0.12
19 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (17 bp):
ATATTAGATTTGGATGA
Found at i:23277159 original size:13 final size:14
Alignment explanation
Indices: 23277141--23277170 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
23277131 ATGAAGTATC
23277141 TTTCATT-ATAATT
1 TTTCATTGATAATT
23277154 TTTCATTGATAATT
1 TTTCATTGATAATT
23277168 TTT
1 TTT
23277171 ACTAATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTCATTGATAATT
Found at i:23277282 original size:15 final size:15
Alignment explanation
Indices: 23277262--23277305 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
23277252 CTTGTTGGAC
23277262 TTTGAAAAATATTTT
1 TTTGAAAAATATTTT
23277277 TTTGAAAAATATTTT
1 TTTGAAAAATATTTT
**
23277292 TTAAAAAAATATTT
1 TTTGAAAAATATTT
23277306 AATATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTTGAAAAATATTTT
Found at i:23277517 original size:26 final size:26
Alignment explanation
Indices: 23277481--23277536 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
23277471 ATAACCTAAC
23277481 GTATAAGGGTATAGCCTTTAAATTCA
1 GTATAAGGGTATAGCCTTTAAATTCA
23277507 GTATAAGGGTATAGCCTTTAAATTCA
1 GTATAAGGGTATAGCCTTTAAATTCA
23277533 GTAT
1 GTAT
23277537 CATTTATTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (26 bp):
GTATAAGGGTATAGCCTTTAAATTCA
Found at i:23280834 original size:72 final size:72
Alignment explanation
Indices: 23280695--23280852 Score: 183
Period size: 72 Copynumber: 2.2 Consensus size: 72
23280685 AGCTACAAAG
* * * * * *
23280695 GAAGCATAGTTGACCTTAACAAGTCAAAAGGCAAGAAAAGTCAAGATTACACAGCCATAGTTAAC
1 GAAGCATAGTCGACCTTAACAAGTCAAAAGCCAAGAAAAGTCAAGATAACACAACCATAATCAAC
*
23280760 TATAGAA
66 TATACAA
* * * * * *
23280767 GAGGTATAGTCGACCTTGACAAGTTAAAAGCCATA-AAAAGTCAAGATAACACAACTATAATCGA
1 GAAGCATAGTCGACCTTAACAAGTCAAAAGCCA-AGAAAAGTCAAGATAACACAACCATAATCAA
23280831 CTATACAA
65 CTATACAA
23280839 GAAGCATAGTCGAC
1 GAAGCATAGTCGAC
23280853 TATAGAAGGC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
72 69 0.99
73 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (72 bp):
GAAGCATAGTCGACCTTAACAAGTCAAAAGCCAAGAAAAGTCAAGATAACACAACCATAATCAAC
TATACAA
Found at i:23284502 original size:50 final size:50
Alignment explanation
Indices: 23284407--23284538 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 50
23284397 CCGCTTGATT
* * *
23284407 CCATTAAAAAGCAAGAAT-TCATTATGGATTGTGTAAGGGTTATCGCTTC
1 CCATTAAAAAGCAAGAATCCCATTATGGATTGTGTAAGGATTATCGCATC
* * * *
23284456 TCATTAAAAAGCAAGAATCCCTTTTTGGATTGTGTGAGGATTATCGCATC
1 CCATTAAAAAGCAAGAATCCCATTATGGATTGTGTAAGGATTATCGCATC
*
23284506 CCATT-AAAAGCAAGAATCCTTATTCATGGATTG
1 CCATTAAAAAGCAAGAATCC-CATT-ATGGATTG
23284539 AAATTCCTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 31 0.45
50 31 0.45
51 7 0.10
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (50 bp):
CCATTAAAAAGCAAGAATCCCATTATGGATTGTGTAAGGATTATCGCATC
Found at i:23287458 original size:22 final size:22
Alignment explanation
Indices: 23287430--23287477 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
23287420 CCGTCACTCC
23287430 CTTCACCACCATGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
23287452 CTTCACCACCGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
23287474 CTTC
1 CTTC
23287478 CTTTCCTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.46, G:0.10, T:0.33
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:23287661 original size:34 final size:35
Alignment explanation
Indices: 23287618--23287688 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 35
23287608 GCTGTCCAAA
* *
23287618 TTTCTTGCACAAACTACCAGTAAACAGCTCCAATT
1 TTTCTTGCACAAACTACCAGCAAACAGCTCAAATT
* **
23287653 TTTC-TGCACAAATTGGCAGCAAACAGCTCAAATT
1 TTTCTTGCACAAACTACCAGCAAACAGCTCAAATT
23287687 TT
1 TT
23287689 CAGCAACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (35 bp):
TTTCTTGCACAAACTACCAGCAAACAGCTCAAATT
Found at i:23291112 original size:19 final size:19
Alignment explanation
Indices: 23291088--23291124 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23291078 GAGACATTTA
* *
23291088 TAAAGCTTGATGCTAATTG
1 TAAAGCTAGATACTAATTG
23291107 TAAAGCTAGATACTAATT
1 TAAAGCTAGATACTAATT
23291125 AAGAGAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
TAAAGCTAGATACTAATTG
Found at i:23294680 original size:43 final size:43
Alignment explanation
Indices: 23294612--23294820 Score: 262
Period size: 43 Copynumber: 4.9 Consensus size: 43
23294602 CCACACTCAA
*
23294612 CTCATGTGCACTCCCTA-TTCGCACATAGCTGGGTCATCATCAG
1 CTCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCATCAG
* * *
23294655 CTCATGTGCACTCCCACACCTCACATAGTTGGGTCATCATCAG
1 CTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATCAG
* * *
23294698 CTCATGTGCACTCCCTA-TTCGCACATAGCCGGGTCATCATCAA
1 CTCATGTGCACTCCC-ACATCGCACATAGCTGGGTCATCATCAG
* * *
23294741 CTCATGTGTACTCCCACATCGCACACAGCCGGGTCATCATCAG
1 CTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATCAG
* *
23294784 CCCATATGCACTCCCACA-CTGCACATAGCTGGGTCAT
1 CTCATGTGCACTCCCACATC-GCACATAGCTGGGTCAT
23294821 TATTATCACA
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 3 0.02
43 139 0.97
44 1 0.01
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.24
Consensus pattern (43 bp):
CTCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATCAG
Found at i:23294757 original size:86 final size:86
Alignment explanation
Indices: 23294612--23294820 Score: 294
Period size: 86 Copynumber: 2.4 Consensus size: 86
23294602 CCACACTCAA
* *
23294612 CTCATGTGCACTCCCTATTCGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACCTC
1 CTCATGTGCACTCCCTATTCGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACACCGC
* **
23294677 ACATAGTTGGGTCATCATCAG
66 ACACAGCCGGGTCATCATCAG
* * *
23294698 CTCATGTGCACTCCCTATTCGCACATAGCCGGGTCATCATCAACTCATGTGTACTCCCACATCGC
1 CTCATGTGCACTCCCTATTCGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACACCGC
23294763 ACACAGCCGGGTCATCATCAG
66 ACACAGCCGGGTCATCATCAG
* * **
23294784 CCCATATGCACTCCC-ACACTGCACATAGCTGGGTCAT
1 CTCATGTGCACTCCCTATTC-GCACATAGCTGGGTCAT
23294821 TATTATCACA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 2 0.02
86 107 0.98
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.24
Consensus pattern (86 bp):
CTCATGTGCACTCCCTATTCGCACATAGCTGGGTCATCATCAACTCATGTGCACTCCCACACCGC
ACACAGCCGGGTCATCATCAG
Found at i:23304705 original size:43 final size:43
Alignment explanation
Indices: 23304658--23304888 Score: 331
Period size: 43 Copynumber: 5.4 Consensus size: 43
23304648 TCTTTACTCA
* *
23304658 CACATAGCCGGGTCATCATCAACTCATGTGCACTCCCACACCG
1 CACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACCG
* * *
23304701 CACATAGTTGGGTCATCATCAGCTCATGTGCACTTCCTAC-TCG
1 CACATAGCTGGGTCATCATCAGCTCATGTGCAC-TCCCACACCG
* * *
23304744 TATATAGAC-GGGTCATCATCAGCTCATGTGCACTCCCACACCA
1 CACATAG-CTGGGTCATCATCAGCTCATGTGCACTCCCACACCG
*
23304787 CACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCACACCG
1 CACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACCG
* *
23304830 CACATAACTAGGTCATCATCAGCTCATGTGCACTCCCACACCG
1 CACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACCG
23304873 CACATAGCTGGGTCAT
1 CACATAGCTGGGTCAT
23304889 TATTATCACA
Statistics
Matches: 166, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
42 6 0.04
43 155 0.93
44 5 0.03
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.23
Consensus pattern (43 bp):
CACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCACACCG
Found at i:23309618 original size:16 final size:16
Alignment explanation
Indices: 23309597--23309632 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23309587 ATTTTTTATA
23309597 TTATTTTATTCGTTTC
1 TTATTTTATTCGTTTC
23309613 TTATTTTATTCGTTTC
1 TTATTTTATTCGTTTC
23309629 TTAT
1 TTAT
23309633 AGGTAGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (16 bp):
TTATTTTATTCGTTTC
Found at i:23318934 original size:19 final size:20
Alignment explanation
Indices: 23318897--23318939 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
23318887 CTTACATTTT
*
23318897 TTTTCACTTGTTTCCTTGAA
1 TTTTCACTTGTTCCCTTGAA
23318917 TTTTCACTT-TTCCCTTGAA
1 TTTTCACTTGTTCCCTTGAA
23318936 TTTT
1 TTTT
23318940 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTCACTTGTTCCCTTGAA
Found at i:23318940 original size:20 final size:21
Alignment explanation
Indices: 23318896--23318941 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
23318886 TCTTACATTT
*
23318896 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTTGTTCCCTTGAA
23318917 -TTTTCACTT-TTCCCTTGAA
1 TTTTTCACTTGTTCCCTTGAA
23318936 TTTTTC
1 TTTTTC
23318942 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTTTCACTTGTTCCCTTGAA
Found at i:23328294 original size:14 final size:16
Alignment explanation
Indices: 23328270--23328303 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
23328260 CTTCATGTTC
23328270 CTTTTTCTTTTTC-TT
1 CTTTTTCTTTTTCTTT
23328285 CTTTTT-TTTTTCTTT
1 CTTTTTCTTTTTCTTT
23328300 CTTT
1 CTTT
23328304 CCTATTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTTCTTTTTCTTT
Found at i:23328433 original size:58 final size:58
Alignment explanation
Indices: 23328366--23328477 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
23328356 GTCCATCAGT
* * * * *
23328366 AGCAAAACACCCAACACAGGCAAAATAATAGCAATCCCCTAATGAAAACTCCATAGGC
1 AGCAAAACACCAAACACAGGCAAAACAACAACAATCCCCTAATCAAAACTCCATAGGC
* * *
23328424 AGCATAACACCAAACACATGCAAAACAACAACAATCCCCTAATCAGAACTCCAT
1 AGCAAAACACCAAACACAGGCAAAACAACAACAATCCCCTAATCAAAACTCCAT
23328478 CAACAACAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.47, C:0.31, G:0.09, T:0.12
Consensus pattern (58 bp):
AGCAAAACACCAAACACAGGCAAAACAACAACAATCCCCTAATCAAAACTCCATAGGC
Found at i:23330334 original size:18 final size:18
Alignment explanation
Indices: 23330311--23330348 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23330301 TTAACTGAAA
*
23330311 AATTTGACT-AATTAAGTT
1 AATTTGAATAAATT-AGTT
23330329 AATTTGAATAAATTAGTT
1 AATTTGAATAAATTAGTT
23330347 AA
1 AA
23330349 AAAATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (18 bp):
AATTTGAATAAATTAGTT
Found at i:23330782 original size:16 final size:16
Alignment explanation
Indices: 23330763--23330793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23330753 ATATAACTTA
23330763 TTATATTAACTTATTT
1 TTATATTAACTTATTT
*
23330779 TTATATTAAGTTATT
1 TTATATTAACTTATT
23330794 AATATAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATATTAACTTATTT
Found at i:23331117 original size:18 final size:18
Alignment explanation
Indices: 23331103--23331138 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23331093 TATTAATAAT
*
23331103 TAACTATATTATAATATC
1 TAACAATATTATAATATC
23331121 TAACAATATTATATATAT
1 TAACAATATTATA-ATAT
23331139 ATATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
TAACAATATTATAATATC
Found at i:23331736 original size:13 final size:13
Alignment explanation
Indices: 23331720--23331782 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
23331710 ATTAACTTCT
23331720 TTAATATAATATA
1 TTAATATAATATA
*
23331733 TTAATGTAATATA
1 TTAATATAATATA
23331746 TTAATAAGTAATATA
1 TTAAT-A-TAATATA
23331761 --AAGTAT-AT-TA
1 TTAA-TATAATATA
23331771 TTAATATAATAT
1 TTAATATAATAT
23331783 GTGTAGACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
10 2 0.05
11 5 0.12
12 5 0.12
13 21 0.51
14 1 0.02
15 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (13 bp):
TTAATATAATATA
Found at i:23337424 original size:16 final size:16
Alignment explanation
Indices: 23337403--23337438 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23337393 TTTTCTAGTA
* *
23337403 AAATTGGTTTATTTTG
1 AAATTGATTTATCTTG
23337419 AAATTGATTTATCTTG
1 AAATTGATTTATCTTG
23337435 AAAT
1 AAAT
23337439 GTCAAATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (16 bp):
AAATTGATTTATCTTG
Found at i:23350852 original size:40 final size:39
Alignment explanation
Indices: 23350760--23350852 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 39
23350750 CGAGATTCAA
* * * *
23350760 TCTCGCTGCAGCGAAATTTCTACCTAGAAATAGAATGTT
1 TCTCGCTGCAGCGAAATTGCAACCTAGAAATAAAAAGTT
**
23350799 TCTCGCTATAGCGAAATTGCAACCTAGAAAATAAAAAGTT
1 TCTCGCTGCAGCGAAATTGCAACCTAG-AAATAAAAAGTT
*
23350839 TTTCGCTGCAGCGA
1 TCTCGCTGCAGCGA
23350853 GTTTTCGGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTGCAACCTAGAAATAAAAAGTT
Found at i:23351174 original size:43 final size:43
Alignment explanation
Indices: 23351124--23351242 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
23351114 TCACCAGCTC
** * *
23351124 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
*
23351167 ATGCGCACTCCCTACTCACACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* * *
23351210 ATGCGCACTCCCTACTTGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
23351243 ATATAATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:23352062 original size:19 final size:20
Alignment explanation
Indices: 23352028--23352065 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23352018 GAAGAAGACC
23352028 AGCTGCTGAAAAATTCAAGA
1 AGCTGCTGAAAAATTCAAGA
*
23352048 AGCTGCT-AGAAATTCAAG
1 AGCTGCTGAAAAATTCAAG
23352066 GTATTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
AGCTGCTGAAAAATTCAAGA
Found at i:23356207 original size:33 final size:32
Alignment explanation
Indices: 23356151--23356216 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
23356141 GACTAGTTCT
*
23356151 ACTTGAGTTGAACTTCTAAGTTGCTGCTTATA
1 ACTTGAGTTAAACTTCTAAGTTGCTGCTTATA
* *
23356183 ACTTGAAGTTAAACTTTTATGTTGCTGCTTATA
1 ACTTG-AGTTAAACTTCTAAGTTGCTGCTTATA
23356216 A
1 A
23356217 ACTCATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (32 bp):
ACTTGAGTTAAACTTCTAAGTTGCTGCTTATA
Found at i:23363479 original size:103 final size:102
Alignment explanation
Indices: 23363345--23363550 Score: 304
Period size: 103 Copynumber: 2.0 Consensus size: 102
23363335 CATTAGGTGC
* **
23363345 CTGAATATTTGTTAAGCATTGCGTGAGTTCTTTATAGGCATTGTGTGACTGAATATATGTTGAGC
1 CTGAATATTTGTTAAGCATTGCGTAAGTTCTTTATAGGCATTACGTGACTGAATATATGTT-AGC
*
23363410 GTTGCATGACAGTTAATACGTGACTGAATATTACCTGA
65 GTTGCATGACAGGTAATACGTGACTGAATATTACCTGA
* *
23363448 CTGAATATTTGTTGAGCATTGCGTAAGTTCTTTATAGGCATTACGTGACTGAATATTTGTTAGCG
1 CTGAATATTTGTTAAGCATTGCGTAAGTTCTTTATAGGCATTACGTGACTGAATATATGTTAGCG
* ** * *
23363513 TTGCGTGACAGGTGTTACGTGACTTAATATTACGTGA
66 TTGCATGACAGGTAATACGTGACTGAATATTACCTGA
23363550 C
1 C
23363551 CTATTTGTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 36 0.39
103 56 0.61
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (102 bp):
CTGAATATTTGTTAAGCATTGCGTAAGTTCTTTATAGGCATTACGTGACTGAATATATGTTAGCG
TTGCATGACAGGTAATACGTGACTGAATATTACCTGA
Found at i:23364142 original size:30 final size:30
Alignment explanation
Indices: 23364101--23364160 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23364091 GGAGGTGCCT
23364101 TTGAATGTGAGGGACCAGTTGCACATATTC
1 TTGAATGTGAGGGACCAGTTGCACATATTC
*
23364131 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAATGTGAGGGACCAGTTGCACATATTC
23364161 CAGTAGGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (30 bp):
TTGAATGTGAGGGACCAGTTGCACATATTC
Found at i:23364992 original size:111 final size:111
Alignment explanation
Indices: 23364787--23365219 Score: 512
Period size: 111 Copynumber: 3.8 Consensus size: 111
23364777 GGTGTGTGAC
* * * *
23364787 TGACTTGTGCAATTCATATGTTACTTT-GAGGCTTTTATTCAATAGTTTTTTAGGCAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTT-GTTTAGAGGCTTTTATTCAGTAGTTTTTTAGGC-TTGCGTGA
* *
23364851 CTAGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGTGTG
64 CTAGTTTTTATATATTACGTTACCTATTGTAGCGAGAGTGGTGGTGCG
* * *
23364899 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAGTAGTTTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTATTCAGTAGTTTTTTAGGCTTGCGTGACT
* *
23364964 AGTTTTTATATATTACGTTACCTATTGTAGCGTGAGTGGTGGTGCA
66 AGTTTTTATATATTACGTTACCTATTGTAGCGAGAGTGGTGGTGCG
* *
23365010 TGACTTGTGCAATTCATGTGTTGTTTAGAGGTTTTTATTCAGT-GTTTTTTAGGGTTGCGTGA-T
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTATTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * * **
23365073 CGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACG
66 AG-TTTTTATATATTACGTTACC---T-AT-TGTA--GCGAGAGTGGTGGTGCG
* * * *
23365127 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTATTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * *
23365192 GGTTTTTATGTATTACGTGACCTGTTGT
66 AGTTTTTATATATTACGTTACCTATTGT
23365220 TATATATTAC
Statistics
Matches: 277, Mismatches: 33, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
109 2 0.01
110 37 0.13
111 93 0.34
112 46 0.17
113 4 0.01
114 2 0.01
115 5 0.02
117 53 0.19
118 33 0.12
119 2 0.01
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTATTCAGTAGTTTTTTAGGCTTGCGTGACT
AGTTTTTATATATTACGTTACCTATTGTAGCGAGAGTGGTGGTGCG
Found at i:23365179 original size:228 final size:222
Alignment explanation
Indices: 23364787--23365219 Score: 568
Period size: 228 Copynumber: 1.9 Consensus size: 222
23364777 GGTGTGTGAC
23364787 TGACTTGTGCAATTCATATGTTACTTTGAGGCTTTTATTCAATAGTTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATATGTTACTTTGAGGCTTTTATTCAATAGTTTTTTAGG-AGTGCGTGAC
* ***
23364852 TAGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGTGTGTGACTTGTGCAATTCATG
65 GAGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGCACGTGACTTGTGCAATTCATG
* * * *
23364917 TGTTGTTTTGAGGCTTTTGTTTAGTAGTTTTTTAGGCTTGCGTGACTAGTTTTTATATATTACGT
130 TGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTGACTAGTTTTTATATATTACGT
*
23364982 TACCTATTGTAGCGTGAGTGGTGGTGCA
195 GACCTATTGTAGCGTGAGTGGTGGTGCA
* * * *
23365010 TGACTTGTGCAATTCATGTGTT-GTTTAGAGGTTTTTATTCAGT-GTTTTTTAGG-GTTGCGTGA
1 TGACTTGTGCAATTCATATGTTACTTT-GAGGCTTTTATTCAATAGTTTTTTAGGAG-TGCGTGA
* *
23365072 TCGA-TTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACGTGACTTGTG
64 -CGAGTTTTTATATATTGCGTTACC---T-AT-TGTA--GCGAGAGTGGTGGCACGTGACTTGTG
* *
23365136 CAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTTACTGGTTTTTAT
121 CAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTGACTAGTTTTTAT
* *
23365201 GTATTACGTGACCTGTTGT
186 ATATTACGTGACCTATTGT
23365220 TATATATTAC
Statistics
Matches: 181, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
220 1 0.01
221 27 0.15
222 15 0.08
223 35 0.19
224 1 0.01
225 1 0.01
226 4 0.02
228 97 0.54
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (222 bp):
TGACTTGTGCAATTCATATGTTACTTTGAGGCTTTTATTCAATAGTTTTTTAGGAGTGCGTGACG
AGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGCACGTGACTTGTGCAATTCATGT
GTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTGACTAGTTTTTATATATTACGTG
ACCTATTGTAGCGTGAGTGGTGGTGCA
Found at i:23365285 original size:118 final size:118
Alignment explanation
Indices: 23365001--23365260 Score: 337
Period size: 118 Copynumber: 2.2 Consensus size: 118
23364991 TAGCGTGAGT
* * * * *
23365001 GGTGGTGCATGACTTGTGCAATTCATGTGTTGTTTAGAGGTTTTTATTCAGT-GTTTTTTAGGGT
1 GGTGGTGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGAT
* * * * *
23365065 TGCGTGATCGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGT
66 TGCGTGATCGATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGC
* **
23365118 GGTTGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGAT
1 GGTGGTGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGAT
* * *
23365183 TGCGTTA-CTGGTTTTTATGTATTACGTGACCTGTTGTTATATATTACGA-AGGC
66 TGCGTGATC-GATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGA-GC
23365236 GGTGGTGCGTGACTTGTGCAATTCA
1 GGTGGTGCGTGACTTGTGCAATTCA
23365261 CCTCTTATTT
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
117 48 0.40
118 73 0.60
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.43
Consensus pattern (118 bp):
GGTGGTGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGAT
TGCGTGATCGATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGC
Found at i:23365303 original size:118 final size:118
Alignment explanation
Indices: 23365076--23365303 Score: 271
Period size: 118 Copynumber: 1.9 Consensus size: 118
23365066 GCGTGATCGA
* * * * * *
23365076 TTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACGTGACTTGTGCAATT
1 TTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGCGGTGGCACGTGACTTGTGCAATT
** * * * * *
23365141 CATGTGTTGTTTAGAGGCTTTTGTTCAGTAGGTTTTTAGGATTGCGTTACTGG
66 CACCTCTTATTTAGAGGCGTTTGTTCACTAGGTTATTAGGATTGCGTTACTGG
* **
23365194 TTTTTATGTATTACGTGACCTGTTGTTATATATTACGA-AGGCGGTGGTGCGTGACTTGTGCAAT
1 TTTTTATATATTACGTGACCTGTTGTTATATATTACGAGA-GCGGTGGCACGTGACTTGTGCAAT
*
23365258 TCACCTCTTATTTAGGGGCGTTTGTTCACTA-GTTATTAGGCATTGC
65 TCACCTCTTATTTAGAGGCGTTTGTTCACTAGGTTATTAGG-ATTGC
23365304 ATTAATGTGT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
117 9 0.10
118 82 0.90
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.43
Consensus pattern (118 bp):
TTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGCGGTGGCACGTGACTTGTGCAATT
CACCTCTTATTTAGAGGCGTTTGTTCACTAGGTTATTAGGATTGCGTTACTGG
Found at i:23368954 original size:47 final size:46
Alignment explanation
Indices: 23368881--23368974 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 46
23368871 AATTCATTGT
23368881 ACTCCTTAATAATTTGTATTTCATTGTAAACCATTGAATAAAGCAC
1 ACTCCTTAATAATTTGTATTTCATTGTAAACCATTGAATAAAGCAC
*
23368927 ANCTCCTTAATAATTTGTATTTTATTGTAAACCATTGAATAAAGCAC
1 A-CTCCTTAATAATTTGTATTTCATTGTAAACCATTGAATAAAGCAC
23368974 A
1 A
23368975 AAATATTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.02
47 45 0.98
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (46 bp):
ACTCCTTAATAATTTGTATTTCATTGTAAACCATTGAATAAAGCAC
Found at i:23370452 original size:27 final size:27
Alignment explanation
Indices: 23370414--23370470 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
23370404 TTACATAGTT
23370414 TATAAAATGCAGCTCTGTCCATTCTAA
1 TATAAAATGCAGCTCTGTCCATTCTAA
23370441 TATAAAATGCAGCTCTGTCCATTCTAA
1 TATAAAATGCAGCTCTGTCCATTCTAA
23370468 TAT
1 TAT
23370471 TTTCAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (27 bp):
TATAAAATGCAGCTCTGTCCATTCTAA
Found at i:23375444 original size:23 final size:23
Alignment explanation
Indices: 23375412--23375477 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
23375402 GTATCACATG
*
23375412 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
23375436 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
*
23375462 GATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
23375478 GTTAGTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 8 0.22
23 4 0.11
24 4 0.11
26 21 0.57
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:23375450 original size:26 final size:26
Alignment explanation
Indices: 23375419--23375470 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
23375409 ATGAATGAAT
*
23375419 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
*
23375445 ACAAAGAATAATATGGAGATGATACA
1 ACAAAGAATAATATGGAAATGATACA
23375471 GAATAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:23386823 original size:38 final size:38
Alignment explanation
Indices: 23386734--23386873 Score: 199
Period size: 38 Copynumber: 3.6 Consensus size: 38
23386724 CATATCCAGC
* * * * *
23386734 TCATGTGCATCCCCCCACATCGTGTACATAGCCGGAGTCA
1 TCATGTACATCCCCCCACATCGTGTACA-A-TCAGTGCCA
*
23386774 TCATGTGCATCCCCCCACATCGTGTACAATCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGTACAATCAGTGCCA
*
23386812 TCATGTACATCCCCCCACATCGTGCACAATCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGTACAATCAGTGCCA
23386850 TCATGTACATCCCCCCACATCGTG
1 TCATGTACATCCCCCCACATCGTG
23386874 CACATGGGCA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 65 0.69
39 1 0.01
40 28 0.30
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.23
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATCGTGTACAATCAGTGCCA
Found at i:23386870 original size:19 final size:19
Alignment explanation
Indices: 23386734--23386870 Score: 62
Period size: 19 Copynumber: 7.1 Consensus size: 19
23386724 CATATCCAGC
*
23386734 TCATGTGCATCCCCCCACA
1 TCATGTACATCCCCCCACA
* ** **
23386753 TCGTGTACATAGCCGGAGTCA
1 TCATGTACATCCCCCCA--CA
*
23386774 TCATGTGCATCCCCCCACA
1 TCATGTACATCCCCCCACA
* ****
23386793 TCGTGTACAATCAGTGC-CA
1 TCATGTAC-ATCCCCCCACA
23386812 TCATGTACATCCCCCCACA
1 TCATGTACATCCCCCCACA
* * ****
23386831 TCGTGCACAATCAGTGC-CA
1 TCATGTAC-ATCCCCCCACA
23386850 TCATGTACATCCCCCCACA
1 TCATGTACATCCCCCCACA
23386869 TC
1 TC
23386871 GTGCACATGG
Statistics
Matches: 77, Mismatches: 35, Indels: 12
0.62 0.28 0.10
Matches are distributed among these distances:
18 8 0.10
19 48 0.62
20 8 0.10
21 13 0.17
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.23
Consensus pattern (19 bp):
TCATGTACATCCCCCCACA
Found at i:23386878 original size:19 final size:19
Alignment explanation
Indices: 23386818--23386878 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
23386808 GCCATCATGT
23386818 ACATCCCCCCACATCGTGC
1 ACATCCCCCCACATCGTGC
**** * *
23386837 ACAATCAGTGC-CATCATGT
1 AC-ATCCCCCCACATCGTGC
23386856 ACATCCCCCCACATCGTGC
1 ACATCCCCCCACATCGTGC
23386875 ACAT
1 ACAT
23386879 GGGCACTATC
Statistics
Matches: 28, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 4 0.14
19 20 0.71
20 4 0.14
ACGTcount: A:0.26, C:0.43, G:0.11, T:0.20
Consensus pattern (19 bp):
ACATCCCCCCACATCGTGC
Found at i:23388537 original size:2 final size:2
Alignment explanation
Indices: 23388532--23388568 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23388522 TTGTGTTATC
23388532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23388569 GGTTTGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23396259 original size:5 final size:5
Alignment explanation
Indices: 23396249--23396288 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
23396239 CTATTCTACC
*
23396249 TAACT TGACT TAACT TAAC- TAACT TAACT TAACT TAACT T
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT T
23396289 GGGCCACGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:23396272 original size:19 final size:19
Alignment explanation
Indices: 23396248--23396287 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
23396238 TCTATTCTAC
*
23396248 CTAACTTGACTTAACTTAA
1 CTAACTTAACTTAACTTAA
23396267 CTAACTTAACTTAACTTAA
1 CTAACTTAACTTAACTTAA
23396286 CT
1 CT
23396288 TGGGCCACGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (19 bp):
CTAACTTAACTTAACTTAA
Found at i:23396275 original size:14 final size:15
Alignment explanation
Indices: 23396249--23396288 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
23396239 CTATTCTACC
*
23396249 TAACTTGACTTAACT
1 TAACTTAACTTAACT
23396264 TAAC-TAACTTAACT
1 TAACTTAACTTAACT
23396278 TAACTTAACTT
1 TAACTTAACTT
23396289 GGGCCACGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TAACTTAACTTAACT
Found at i:23404218 original size:21 final size:19
Alignment explanation
Indices: 23404194--23404233 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
23404184 AATTTAAAAC
23404194 AAATAACATAAAATTTAACTA
1 AAATAAC-TAAAA-TTAACTA
*
23404215 AAATAACTTAAATTAACTA
1 AAATAACTAAAATTAACTA
23404234 CTCAGCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAACTAAAATTAACTA
Found at i:23405070 original size:58 final size:58
Alignment explanation
Indices: 23405008--23405121 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
23404998 AAGTCCATCA
* *
23405008 GCAGCAAAACACCCAACACA-AGCAAAACAACAGCAATCCCCTAATCAAAACTCCATAG
1 GCAGCAAAACACCCAACACATA-CAAAACAACAACAATCCCCCAATCAAAACTCCATAG
* *
23405066 GCAGCATAACACCCAACACATACAAAACAACAACAATCCCCCAATCAGAACTCCAT
1 GCAGCAAAACACCCAACACATACAAAACAACAACAATCCCCCAATCAAAACTCCAT
23405122 CAGCAACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 50 0.98
59 1 0.02
ACGTcount: A:0.47, C:0.36, G:0.07, T:0.10
Consensus pattern (58 bp):
GCAGCAAAACACCCAACACATACAAAACAACAACAATCCCCCAATCAAAACTCCATAG
Found at i:23412498 original size:14 final size:15
Alignment explanation
Indices: 23412481--23412509 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23412471 GATTAATATA
23412481 AATTTA-AATCAATT
1 AATTTATAATCAATT
23412495 AATTTATAATCAATT
1 AATTTATAATCAATT
23412510 CTACGGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTATAATCAATT
Found at i:23434859 original size:11 final size:10
Alignment explanation
Indices: 23434833--23434864 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
23434823 GTGAAAAGAG
23434833 AGAAAAACCA
1 AGAAAAACCA
23434843 AGAAAAACCA
1 AGAAAAACCA
*
23434853 AGCAAAACCA
1 AGAAAAACCA
23434863 AG
1 AG
23434865 TATTCTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.66, C:0.22, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAACCA
Found at i:23437680 original size:27 final size:29
Alignment explanation
Indices: 23437645--23437698 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
23437635 CAGAGTATAG
* *
23437645 GGGCAAAATC-GTAATTTTTTCACCCCGA
1 GGGCAAAATCGGTAAATTGTTCACCCCGA
23437673 GGGC-AAATCGGTAAATTGTTCACCCC
1 GGGCAAAATCGGTAAATTGTTCACCCC
23437699 AGCACTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (29 bp):
GGGCAAAATCGGTAAATTGTTCACCCCGA
Found at i:23450701 original size:2 final size:2
Alignment explanation
Indices: 23450694--23450724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23450684 TGGAAATTTT
23450694 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23450725 AAGGGATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23462335 original size:43 final size:43
Alignment explanation
Indices: 23462274--23462385 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
23462264 TATTGACTCG
* *
23462274 GTTATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCA
1 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGAGAATGACCCA
*
23462317 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGATAATGACCCA
1 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGAGAATGACCCA
*** *
23462360 ACCATGTGCGAGTAGAGAGTGCGCAT
1 GTTATGTGCGAGTAGGGAGTGCGCAT
23462386 GAGCTGGTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.20
Consensus pattern (43 bp):
GTTATGTGCGAGTAGGGAGTGCGCATAACCCGAGAATGACCCA
Found at i:23476268 original size:9 final size:9
Alignment explanation
Indices: 23476254--23476280 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23476244 ATAAATATAG
23476254 TTACTACTA
1 TTACTACTA
23476263 TTACTACTA
1 TTACTACTA
23476272 TTACTACTA
1 TTACTACTA
23476281 CTACGACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
TTACTACTA
Found at i:23479332 original size:13 final size:13
Alignment explanation
Indices: 23479316--23479373 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
23479306 TTCCTATCTC
23479316 TTTTTTATTTA-T
1 TTTTTTATTTATT
23479328 TTTTTTATTATATT
1 TTTTTTATT-TATT
* * *
23479342 ATTTATATTTAAT
1 TTTTTTATTTATT
*
23479355 TTTTTTACTTCATT
1 TTTTTTA-TTTATT
23479369 TTTTT
1 TTTTT
23479374 CTCTTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 9 0.25
13 10 0.28
14 17 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:23479381 original size:11 final size:10
Alignment explanation
Indices: 23479367--23479400 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
23479357 TTTTACTTCA
23479367 TTTTTTTCTCT
1 TTTTTTTC-CT
23479378 TTTTTTTCCT
1 TTTTTTTCCT
23479388 TTTTTTTCCT
1 TTTTTTTCCT
23479398 TTT
1 TTT
23479401 CCACTGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCCT
Found at i:23479465 original size:21 final size:21
Alignment explanation
Indices: 23479441--23479483 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23479431 AAATTTTTCC
*
23479441 TCTCCCTTTTTTCTCTTTTTT
1 TCTCCCTCTTTTCTCTTTTTT
* *
23479462 TCTCTCTCTTTTCTTTTTTTT
1 TCTCCCTCTTTTCTCTTTTTT
23479483 T
1 T
23479484 TATTAATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTCCCTCTTTTCTCTTTTTT
Found at i:23483244 original size:17 final size:17
Alignment explanation
Indices: 23483222--23483254 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23483212 AGTTTTCAAG
23483222 TTCTATCCAATTAGAAC
1 TTCTATCCAATTAGAAC
23483239 TTCTATCCAATTAGAA
1 TTCTATCCAATTAGAA
23483255 ATGCTGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (17 bp):
TTCTATCCAATTAGAAC
Found at i:23483415 original size:32 final size:32
Alignment explanation
Indices: 23483369--23483435 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
23483359 TATGTTGTGT
23483369 AACAATAATATTTTTTCAACATGGCGTGTAAC
1 AACAATAATATTTTTTCAACATGGCGTGTAAC
* * * *
23483401 AACAATATTTTTTTTTCAACATTGTGTGTAAC
1 AACAATAATATTTTTTCAACATGGCGTGTAAC
23483433 AAC
1 AAC
23483436 CTTTTTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (32 bp):
AACAATAATATTTTTTCAACATGGCGTGTAAC
Found at i:23483433 original size:29 final size:29
Alignment explanation
Indices: 23483338--23483434 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
23483328 TAGCATTAAC
* * * *
23483338 GTGTAACAA-AAT-GTTTTTGAATATGTT
1 GTGTAACAATAATATTTTTTCAACATGGT
*
23483365 GTGTAACAATAATATTTTTTCAACATGGC
1 GTGTAACAATAATATTTTTTCAACATGGT
* *
23483394 GTGTAACAACAATATTTTTTTTTCAACATTGT
1 GTGTAACAATAATA---TTTTTTCAACATGGT
23483426 GTGTAACAA
1 GTGTAACAA
23483435 CCTTTTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.16
28 3 0.05
29 23 0.40
32 22 0.39
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
GTGTAACAATAATATTTTTTCAACATGGT
Found at i:23483440 original size:29 final size:30
Alignment explanation
Indices: 23483365--23483516 Score: 85
Period size: 32 Copynumber: 5.3 Consensus size: 30
23483355 TGAATATGTT
* *
23483365 GTGTAACAATAA-TATTTTTTCAACATGGC
1 GTGTAACAACAATTTTTTTTTCAACATGGC
* *
23483394 GTGTAACAACAATATTTTTTTTTCAACATTGT
1 GTGTAACAAC-A-ATTTTTTTTTCAACATGGC
* *
23483426 GTGTAACAAC----CTTTTTT-AACTATGGA
1 GTGTAACAACAATTTTTTTTTCAAC-ATGGC
* * * *
23483452 GTGT---AAC-ATGTTTTTAT--GCATGCC
1 GTGTAACAACAATTTTTTTTTCAACATGGC
*
23483476 GTGTAGCAACAATATTTTTTTTCAACATGGC
1 GTGTAACAACAAT-TTTTTTTTCAACATGGC
23483507 GTGTAACAAC
1 GTGTAACAAC
23483517 CTAACCATGA
Statistics
Matches: 92, Mismatches: 17, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
23 3 0.03
24 7 0.08
25 4 0.04
26 18 0.20
27 3 0.03
28 2 0.02
29 15 0.16
30 1 0.01
31 15 0.16
32 24 0.26
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (30 bp):
GTGTAACAACAATTTTTTTTTCAACATGGC
Found at i:23483556 original size:24 final size:24
Alignment explanation
Indices: 23483529--23483782 Score: 297
Period size: 24 Copynumber: 10.8 Consensus size: 24
23483519 AACCATGACT
* *
23483529 TGTCACATGTTTTTGTATATGACG
1 TGTCACATGTTTTTGTACATGGCG
* *
23483553 TGTCACATGTTTCTGTATATGGCG
1 TGTCACATGTTTTTGTACATGGCG
*
23483577 TGTCACATGTTCCTT-TACATGGCG
1 TGTCACATGTT-TTTGTACATGGCG
* *
23483601 TGTCACATATTTTTATACATGGCG
1 TGTCACATGTTTTTGTACATGGCG
* *
23483625 TGTCACATGTTTTTTTACATAGCG
1 TGTCACATGTTTTTGTACATGGCG
*
23483649 TGTCACATG--TTT-T---TGGCT
1 TGTCACATGTTTTTGTACATGGCG
23483667 TGTCACATGTTTTTGTACATGGCG
1 TGTCACATGTTTTTGTACATGGCG
* *
23483691 TGTCACATGTTTCTGTACATGGCA
1 TGTCACATGTTTTTGTACATGGCG
*
23483715 TGTCACATGTTCTTGTACATGGCG
1 TGTCACATGTTTTTGTACATGGCG
* * *
23483739 TGTCACATATTTCTGTATATGGCG
1 TGTCACATGTTTTTGTACATGGCG
*
23483763 TGTCACATGTTTCTGTACAT
1 TGTCACATGTTTTTGTACAT
23483783 AGTGAAAACA
Statistics
Matches: 198, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.06
20 3 0.02
21 2 0.01
22 3 0.02
23 2 0.01
24 175 0.88
25 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (24 bp):
TGTCACATGTTTTTGTACATGGCG
Found at i:23483675 original size:138 final size:138
Alignment explanation
Indices: 23483527--23483784 Score: 419
Period size: 138 Copynumber: 1.9 Consensus size: 138
23483517 CTAACCATGA
* * *
23483527 CTTGTCACATGTTTTTGTATATGACGTGTCACATGTTTCTGTATATGGCGTGTCACATGTTCCTT
1 CTTGTCACATGTTTTTGTACATGACGTGTCACATGTTTCTGTACATGGCATGTCACATGTT-CTT
* * *
23483592 -TACATGGCGTGTCACATATTTTTATACATGGCGTGTCACATGTTTTTTTACATAGCGTGTCACA
65 GTACATGGCGTGTCACATATTTCTATACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACA
23483656 TGTTTTTGG
130 TGTTTTTGG
*
23483665 CTTGTCACATGTTTTTGTACATGGCGTGTCACATGTTTCTGTACATGGCATGTCACATGTTCTTG
1 CTTGTCACATGTTTTTGTACATGACGTGTCACATGTTTCTGTACATGGCATGTCACATGTTCTTG
* *
23483730 TACATGGCGTGTCACATATTTCTGTATATGGCGTGTCACATGTTTCTGTACATAG
66 TACATGGCGTGTCACATATTTCTATACATGGCGTGTCACATGTTTCTGTACATAG
23483785 TGAAAACATC
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
137 3 0.03
138 107 0.97
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (138 bp):
CTTGTCACATGTTTTTGTACATGACGTGTCACATGTTTCTGTACATGGCATGTCACATGTTCTTG
TACATGGCGTGTCACATATTTCTATACATGGCGTGTCACATGTTTCTGTACATAGCGTGTCACAT
GTTTTTGG
Found at i:23483695 original size:114 final size:114
Alignment explanation
Indices: 23483553--23483774 Score: 327
Period size: 114 Copynumber: 1.9 Consensus size: 114
23483543 GTATATGACG
* * * *
23483553 TGTCACATGTTTCTGTATATGGCGTGTCACATGTTCCTTTACATGGCGTGTCACATATTTTTATA
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTCCTGTACATGGCATGTCACATATTCTTATA
* * *
23483618 CATGGCGTGTCACATGTTTTTTTACATAGCGTGTCACATGTTTTTGGCT
66 CATGGCGTGTCACATATTTCTGTACATAGCGTGTCACATGTTTTTGGCT
* * * *
23483667 TGTCACATGTTTTTGTACATGGCGTGTCACATGTTTCTGTACATGGCATGTCACATGTTCTTGTA
1 TGTCACATGTTTCTGTACATGGCGTGTCACATGTTCCTGTACATGGCATGTCACATATTCTTATA
* *
23483732 CATGGCGTGTCACATATTTCTGTATATGGCGTGTCACATGTTT
66 CATGGCGTGTCACATATTTCTGTACATAGCGTGTCACATGTTT
23483775 CTGTACATAG
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (114 bp):
TGTCACATGTTTCTGTACATGGCGTGTCACATGTTCCTGTACATGGCATGTCACATATTCTTATA
CATGGCGTGTCACATATTTCTGTACATAGCGTGTCACATGTTTTTGGCT
Found at i:23483698 original size:90 final size:90
Alignment explanation
Indices: 23483572--23483746 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 90
23483562 TTTCTGTATA
* * *
23483572 TGGCGTGTCACATGTTCCTTTACATGGCGTGTCACATATTTTTATACATGGCGTGTCACATGTTT
1 TGGCGTGTCACATGTTCCTTTACATGGCGTGTCACATATTTCTATACATGGCATGTCACATGTTC
*
23483637 TTTTACATAGCGTGTCACATGTTTT
66 TTGTACATAGCGTGTCACATGTTTT
* * * *
23483662 TGGCTTGTCACATGTT-TTTGTACATGGCGTGTCACATGTTTCTGTACATGGCATGTCACATGTT
1 TGGCGTGTCACATGTTCCTT-TACATGGCGTGTCACATATTTCTATACATGGCATGTCACATGTT
*
23483726 CTTGTACATGGCGTGTCACAT
65 CTTGTACATAGCGTGTCACAT
23483747 ATTTCTGTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (90 bp):
TGGCGTGTCACATGTTCCTTTACATGGCGTGTCACATATTTCTATACATGGCATGTCACATGTTC
TTGTACATAGCGTGTCACATGTTTT
Found at i:23485807 original size:19 final size:19
Alignment explanation
Indices: 23485783--23485820 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23485773 CCATTTGACT
23485783 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
23485802 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
23485821 GTTTATAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:23490542 original size:15 final size:15
Alignment explanation
Indices: 23490522--23490565 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
23490512 TTATCTTCCC
*
23490522 TGCAATCACATTGCT
1 TGCAATCACATTACT
23490537 TGCAATCACATTACT
1 TGCAATCACATTACT
**
23490552 TATAATCACATTAC
1 TGCAATCACATTAC
23490566 ATTGTAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:23497183 original size:38 final size:39
Alignment explanation
Indices: 23497141--23497243 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
23497131 ATAGTGCCCG
*
23497141 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* * * * *
23497179 TGTGCACGATGTTGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
23497219 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
23497244 TGAGCCGGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.48
39 3 0.06
40 25 0.46
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:23526757 original size:2 final size:2
Alignment explanation
Indices: 23526750--23526785 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23526740 AGCTCATTAA
23526750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23526786 GAAATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23526847 original size:2 final size:2
Alignment explanation
Indices: 23526840--23526875 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23526830 TGTGNATTAA
23526840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23526876 GAAATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23526852 original size:90 final size:89
Alignment explanation
Indices: 23526745--23526924 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 89
23526735 TTCAGAGCTC
23526745 ATTAAATATATATATATATATATATATATATATATAATATAGAAATTTTTAAAATTTTTGGGATG
1 ATTAAATATATATATATATATATATATATATATATAATATAGAAATTTTTAAAATTTTTGGGATG
23526810 CTCCGCCCCTGGTCCTTTGGTGTG
66 CTCCGCCCCTGGTCCTTTGGTGTG
23526834 NATTAAATATATATATATATATATATATATATATATAATATAGAAATTTTTAAAATTTTTGGGAT
1 -ATTAAATATATATATATATATATATATATATATATAATATAGAAATTTTTAAAATTTTTGGGAT
23526899 GCTCCGCCCCTGGTCCTTTGGTGTG
65 GCTCCGCCCCTGGTCCTTTGGTGTG
23526924 A
1 A
23526925 AACAAGTCAC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 1 0.01
90 89 0.99
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (89 bp):
ATTAAATATATATATATATATATATATATATATATAATATAGAAATTTTTAAAATTTTTGGGATG
CTCCGCCCCTGGTCCTTTGGTGTG
Found at i:23530636 original size:28 final size:29
Alignment explanation
Indices: 23530605--23530663 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
23530595 ATAATATTTG
*
23530605 TTATTGATAATATA-CAAAATATTATTAT
1 TTATTGATAAAATATCAAAATATTATTAT
* * *
23530633 TTATTGTTAAAATATTAAAATATTTTTAT
1 TTATTGATAAAATATCAAAATATTATTAT
23530662 TT
1 TT
23530664 TAATATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (29 bp):
TTATTGATAAAATATCAAAATATTATTAT
Found at i:23530683 original size:23 final size:25
Alignment explanation
Indices: 23530631--23530684 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
23530621 AAATATTATT
*
23530631 ATTTATTGTTAAAATATTAAAATAT
1 ATTTATTGTTAAAATATTAAAATAC
* *
23530656 TTTTATT-TTAATAT-TTAAAATAC
1 ATTTATTGTTAAAATATTAAAATAC
23530679 ATTTAT
1 ATTTAT
23530685 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.52
24 6 0.24
25 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTATTGTTAAAATATTAAAATAC
Found at i:23531134 original size:18 final size:19
Alignment explanation
Indices: 23531100--23531135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23531090 GAAAATATAT
*
23531100 ATTTAGTGATTTAAAACAA
1 ATTTAGTGATCTAAAACAA
23531119 ATTTAGT-ATCTAAAACA
1 ATTTAGTGATCTAAAACA
23531136 TTCATTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (19 bp):
ATTTAGTGATCTAAAACAA
Found at i:23533424 original size:19 final size:19
Alignment explanation
Indices: 23533400--23533437 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23533390 ACTTATAAAC
*
23533400 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
23533419 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23533438 AGTCAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23535150 original size:13 final size:13
Alignment explanation
Indices: 23535132--23535156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23535122 TTCCAGAAAA
23535132 TTTATAAAATCAT
1 TTTATAAAATCAT
23535145 TTTATAAAATCA
1 TTTATAAAATCA
23535157 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23544574 original size:19 final size:19
Alignment explanation
Indices: 23544550--23544587 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23544540 ACTTATAAAC
*
23544550 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
23544569 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23544588 AGTCAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23555412 original size:19 final size:19
Alignment explanation
Indices: 23555388--23555425 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23555378 ACTTCTAAAC
23555388 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23555407 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23555426 AGTCAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23558354 original size:16 final size:16
Alignment explanation
Indices: 23558332--23558376 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23558322 CCGACAAGTG
23558332 AAAGAAAAAGAGAGAA
1 AAAGAAAAAGAGAGAA
*
23558348 GAAGAAAGAA-AGAGAA
1 AAAGAAA-AAGAGAGAA
*
23558364 AAAGAAAGAGAGA
1 AAAGAAAAAGAGA
23558377 AAGGGAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 21 0.88
17 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAGAGAA
Found at i:23558369 original size:12 final size:12
Alignment explanation
Indices: 23558334--23558379 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
23558324 GACAAGTGAA
*
23558334 AGAAAAAGAGAG
1 AGAAAAAGAAAG
23558346 AAGAAGAAAGAAAG
1 -AGAA-AAAGAAAG
23558360 AGAAAAAGAAAG
1 AGAAAAAGAAAG
*
23558372 AGAGAAAG
1 AGAAAAAG
23558380 GGAGAGAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 15 0.50
13 8 0.27
14 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAG
Found at i:23558372 original size:20 final size:20
Alignment explanation
Indices: 23558331--23558384 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
23558321 GCCGACAAGT
* *
23558331 GAAAGAAAAAGAGAGAAGAA
1 GAAAGAAAGAGAGAAAAGAA
23558351 GAAAGAAAGAGA-AAAAGAAA
1 GAAAGAAAGAGAGAAAAG-AA
* *
23558371 GAGAGAAAGGGAGA
1 GAAAGAAAGAGAGA
23558385 GAGCGGCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAGAGAAAAGAA
Found at i:23558377 original size:24 final size:24
Alignment explanation
Indices: 23558331--23558379 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
23558321 GCCGACAAGT
23558331 GAAAGAAAAAGAGAGAAGAAGAAA
1 GAAAGAAAAAGAGAGAAGAAGAAA
23558355 GAAAGAGAAAA-AGA-AAGAGAGAAA
1 GAAAGA-AAAAGAGAGAAGA-AGAAA
23558379 G
1 G
23558380 GGAGAGAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
GAAAGAAAAAGAGAGAAGAAGAAA
Found at i:23558443 original size:25 final size:24
Alignment explanation
Indices: 23558399--23558461 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
23558389 GGCATGCTAG
23558399 AGAAGAAGAA-AGAGAGAAGAAAA
1 AGAAGAAGAAGAGAGAGAAGAAAA
*
23558422 TGAAGAAGAAAGAGAGAGAAGAAAA
1 AGAAGAAG-AAGAGAGAGAAGAAAA
*
23558447 AGAGGAAGGAAGAGA
1 AGAAGAA-GAAGAGA
23558462 AAGGGAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.21
24 2 0.06
25 24 0.71
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (24 bp):
AGAAGAAGAAGAGAGAGAAGAAAA
Found at i:23558791 original size:35 final size:35
Alignment explanation
Indices: 23558747--23558820 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 35
23558737 AAAAGTCTAT
*
23558747 TGTAGAGAGAGAAAATGGGT-GGAAAAAAATATAATA
1 TGTAGAGAGAG-AAATAGGTAGGAAAAAAA-ATAATA
*
23558783 TNGTAGAGAGAGAAATAGGTAAGGAAAAATAATAATA
1 T-GTAGAGAGAGAAATAGGT-AGGAAAAAAAATAATA
23558820 T
1 T
23558821 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 8 0.24
37 17 0.52
38 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.20
Consensus pattern (35 bp):
TGTAGAGAGAGAAATAGGTAGGAAAAAAAATAATA
Found at i:23558824 original size:2 final size:2
Alignment explanation
Indices: 23558817--23558846 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23558807 AAAAATAATA
23558817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23558847 TAAGGGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23559605 original size:60 final size:60
Alignment explanation
Indices: 23559510--23559649 Score: 235
Period size: 60 Copynumber: 2.3 Consensus size: 60
23559500 TTGATTGTAA
* * *
23559510 AAAGGGGAACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGTAGTTCCCACAAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATAATAGGTGGCGTGGGTAGTTCCCACAAGTAGGT
23559570 AAAGGGGGACTTGAAGCCCCGATTTATAATAGGTGGCGTGGGTAGTTCCCACAAGTAGGT
1 AAAGGGGGACTTGAAGCCCCGATTTATAATAGGTGGCGTGGGTAGTTCCCACAAGTAGGT
* *
23559630 AAAGAGGGACCTGAAGCCCC
1 AAAGGGGGACTTGAAGCCCC
23559650 AATTCAAGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (60 bp):
AAAGGGGGACTTGAAGCCCCGATTTATAATAGGTGGCGTGGGTAGTTCCCACAAGTAGGT
Found at i:23561740 original size:18 final size:18
Alignment explanation
Indices: 23561717--23561760 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23561707 AAATAAATAT
* *
23561717 AAAATATATTTAGTTATA
1 AAAATATATTTAGGTAAA
*
23561735 AAAATAGATTTAGGTAAA
1 AAAATATATTTAGGTAAA
23561753 AAAATATA
1 AAAATATA
23561761 GTAATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
AAAATATATTTAGGTAAA
Found at i:23561774 original size:52 final size:53
Alignment explanation
Indices: 23561665--23561775 Score: 126
Period size: 52 Copynumber: 2.2 Consensus size: 53
23561655 AAGAATTAAG
*
23561665 ATAAA-ATATTTAGCAATAAAAAGTAGATTTAGGTAGATACAAAAATAAATAT
1 ATAAATATATTTAGCAATAAAAAGTAGATTTAGGTAGATACAAAAATAAATAA
**
23561717 A-AAATATATTTAGTTATAAAAA-TAGATTTAGGTA-A-A-AAAATATAGTAATAA
1 ATAAATATATTTAGCAATAAAAAGTAGATTTAGGTAGATACAAAA-ATA--AATAA
23561768 ATAAATAT
1 ATAAATAT
23561776 TTGATTACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
48 4 0.08
49 4 0.08
50 1 0.02
51 20 0.39
52 22 0.43
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.32
Consensus pattern (53 bp):
ATAAATATATTTAGCAATAAAAAGTAGATTTAGGTAGATACAAAAATAAATAA
Found at i:23561792 original size:52 final size:50
Alignment explanation
Indices: 23561682--23561850 Score: 130
Period size: 51 Copynumber: 3.3 Consensus size: 50
23561672 ATTTAGCAAT
* * * * * *
23561682 AAAAAGTAGATTTAGGTAGATACAAAAATA-AATATAAAATATATTTAGTTA-
1 AAAAAATAGATTTAGGTATAGAAAAAAATAGAA-A-AAAA-ATAATTAATTAC
* * * *
23561733 TAAAAATAGATTTAGGTA-A-AAAAATATAGTAATAAATAAATATTTGATTAC
1 AAAAAATAGATTTAGGTATAGAAAAAAATAG-AA-AAA-AAATAATTAATTAC
**
23561784 AAGAAAATAGATACAGGTATATGAAAAAAATAGAAAAAAAATAATTAATTAC
1 AA-AAAATAGATTTAGGTATA-GAAAAAAATAGAAAAAAAATAATTAATTAC
23561836 AAAAAATAGATTTAG
1 AAAAAATAGATTTAG
23561851 TTGGGTAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
49 7 0.07
50 12 0.12
51 34 0.35
52 28 0.29
53 4 0.04
54 2 0.02
55 9 0.09
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAAATAGATTTAGGTATAGAAAAAAATAGAAAAAAAATAATTAATTAC
Found at i:23563613 original size:23 final size:23
Alignment explanation
Indices: 23563587--23563637 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
23563577 CAACAAGTTA
23563587 GGTGCTGCAACCACGAAAAAGTG
1 GGTGCTGCAACCACGAAAAAGTG
* *
23563610 GGTGCTGCAGCCACGAAAGAGTG
1 GGTGCTGCAACCACGAAAAAGTG
*
23563633 AGTGC
1 GGTGC
23563638 CATGACACCA
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:0.29, C:0.22, G:0.35, T:0.14
Consensus pattern (23 bp):
GGTGCTGCAACCACGAAAAAGTG
Found at i:23580009 original size:27 final size:28
Alignment explanation
Indices: 23579952--23580009 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
23579942 GGAAAAATGT
*
23579952 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
*
23579980 CCTGG-GGTGGCAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACAATTTTGAC
23580007 CCT
1 CCT
23580010 TTTACTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:23580080 original size:20 final size:20
Alignment explanation
Indices: 23580063--23580100 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23580053 CCTCAAATCT
23580063 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
23580083 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
23580101 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:23589289 original size:39 final size:37
Alignment explanation
Indices: 23589199--23589375 Score: 166
Period size: 39 Copynumber: 4.6 Consensus size: 37
23589189 CTCCCCTAGC
*
23589199 TCATGTGCACTCCCACACCGCACATTACA-ATATCATCA
1 TCATGTGCACTCCCACA-CGCACA-CACATATATCATCA
*
23589237 TCAGGTGCACTCCCACACTGCACACAGCATATATCATCA
1 TCATGTGCACTCCCACAC-GCACACA-CATATATCATCA
* *
23589276 TCATGTGCTCTCCCACAC-CACACATGGCATATATCATTA
1 TCATGTGCACTCCCACACGCACACA---CATATATCATCA
* * *
23589315 GCATGTGCTCTCCCACAC-CACACAC-TATCGA-CATCG
1 TCATGTGCACTCCCACACGCACACACATAT--ATCATCA
23589351 TCATGTGCACTCCCACACCGCACAC
1 TCATGTGCACTCCCACA-CGCACAC
23589376 GTACAGTTAT
Statistics
Matches: 120, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
35 3 0.03
36 19 0.16
37 10 0.08
38 28 0.23
39 60 0.50
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.22
Consensus pattern (37 bp):
TCATGTGCACTCCCACACGCACACACATATATCATCA
Found at i:23589367 original size:75 final size:76
Alignment explanation
Indices: 23589199--23589374 Score: 207
Period size: 75 Copynumber: 2.3 Consensus size: 76
23589189 CTCCCCTAGC
* *
23589199 TCATGTGCACTCCCACACCGCACATTACAATATCATCATCAGGTGCACTCCCACACTGCACACAG
1 TCATGTGCACTCCCACACCGCACATGACAATATCATCAGCAGGTGCACTCCCACAC-GCACACAG
23589264 CATATATCATCA
65 CATATATCATCA
* * * * * *
23589276 TCATGTGCTCTCCCACACCACACATGGCATATATCATTAGCATGTGCTCTCCCACAC-CACACA-
1 TCATGTGCACTCCCACACCGCACATGACA-ATATCATCAGCAGGTGCACTCCCACACGCACACAG
*
23589339 C-TATCGA-CATCG
65 CATAT--ATCATCA
23589351 TCATGTGCACTCCCACACCGCACA
1 TCATGTGCACTCCCACACCGCACA
23589375 CGTACAGTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
74 3 0.04
75 27 0.32
76 7 0.08
77 25 0.29
78 23 0.27
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.22
Consensus pattern (76 bp):
TCATGTGCACTCCCACACCGCACATGACAATATCATCAGCAGGTGCACTCCCACACGCACACAGC
ATATATCATCA
Found at i:23601796 original size:21 final size:21
Alignment explanation
Indices: 23601754--23601796 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23601744 CTTGTACCGG
*
23601754 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGAAAC
* * *
23601775 TGGTGGTACTATAGGTGAAAC
1 TGGTGGAACTAAAGGAGAAAC
23601796 T
1 T
23601797 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGAAAC
Found at i:23612631 original size:2 final size:2
Alignment explanation
Indices: 23612624--23612649 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23612614 AATCAAGTAA
23612624 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23612650 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.