Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 41 of 343
Found at i:13506380 original size:44 final size:44
Alignment explanation
Indices: 13505535--13506382 Score: 299
Period size: 44 Copynumber: 19.5 Consensus size: 44
13505525 AAAATCCAGC
* * * *
13505535 CTGTTACCCTACTACTTAGGG-GTTTAAGGTCTATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCTGTCGCTTTCGAT
* * * * * *** * *
13505579 CTCTTTCCCTACTACTTAGGGGGTTAAGATCTGT-AAATTCCAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* ** * *
13505622 CTGTTACCCTACTGTTTAGGG-GTTTAAGGTCCATCACCTTT-TAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCTGTC-GCTTTCGAT
* * * * * * *** * *
13505666 CTATTTCCCTAGTGCTTAGGGGGTTAAGATCTATAAATTT-AAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* ** *
13505709 CTGTTACCCTATTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCTGTCGCTTTCGAT
* * * * *** * *
13505753 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGT-AAATTCCAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
** *
13505796 CTGTTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCTGTCGCTTTCGAT
* * * * * * *** * *
13505840 CTATTTCCCTACTACTTAGGGGGTTAAGATTTGT-AAATTCCAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* **
13505883 CTGTTACCCTACTGCTTAGAGG-TTTAAGGTCCATCGCCTTT-GAT
1 CTGTTACCCTACTGCTTAG-GGAGTTAAGGTCTGTCG-CTTTCGAT
* * *** *
13505927 CTGATT-CCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCCA-
1 CTG-TTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
**
13505969 CATGTTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGTCTTT-GAT
1 C-TGTTACCCTACTGCTTAGGGAG-TTAAGGTCTGTCG-CTTTCGAT
* * * * *** * * *
13506014 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGT-AAATCCAAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* * *
13506057 CTGTTACCCTACTGCTTAGGG-GTTTAAGGT-TCATCGCCTTCAAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCT-GTCGCTTTCGAT
* * * * * *** * *
13506101 ATGTTTCCCTACTGCTTAAGGG-TTTAAGATCTATAAATTTAG-C
1 CTGTTACCCTACTGCTT-AGGGAGTTAAGGTCTGTCGCTTTCGAT
* * *
13506144 CTGTTACCCTACTACTTAGGGAGTTAAGGCCTATCGCTTTCGAT
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* * * *** * *
13506188 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* * *
13506231 CTATTACCCTACTGCTTAGGG-GTTTAAGGT-TCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGAG-TTAAGGTCT-GTCGCTTTCGAT
* * * *** * *
13506275 CTGTTTA-CCTACTGCTTAGGGGGTTAAGATTTGTAAATTTAG-C
1 CTG-TTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
* * * *
13506318 CTGTTACCCTACTACTTAGGGAGTTAAGGCCCGTTGCTTTCGAT
1 CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
*
13506362 CTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
13506383 GGTCAAATCT
Statistics
Matches: 578, Mismatches: 186, Indels: 80
0.68 0.22 0.09
Matches are distributed among these distances:
42 21 0.04
43 262 0.45
44 271 0.47
45 24 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTCGCTTTCGAT
Found at i:13506623 original size:132 final size:132
Alignment explanation
Indices: 13506386--13507440 Score: 1705
Period size: 132 Copynumber: 8.0 Consensus size: 132
13506376 CTTAGGGGGT
* * * *
13506386 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATTCTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
13506451 CTTCACTGTAAGCACAGTAATGTCAGATCTGCTATCTTCGATATGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13506516 GC
131 GC
* *
13506518 CAAATCTGTTATTTTCAACTTGTTCCTTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
13506583 CTTTACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13506648 GC
131 GC
** *
13506650 CAAATCTATTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
13506715 CTTTACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13506780 GC
131 GC
* *
13506782 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
13506847 CTTCACTGTAAGTATAGGAATGTTAGATCTGCTATCTTCGATATGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13506912 GC
131 GC
* *
13506914 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGACCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
13506979 CTTCACTGTAAGCACAGGAATATCAAATCTGTTATCTTCGATCTATTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13507044 GC
131 GC
* * *
13507046 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGTACAAGGATGCCATGCTGAAATCTTCGATCTA
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
13507111 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
*
13507176 AC
131 GC
* *
13507178 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAAGAATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
13507243 CTTCACTGTAAGTACAGGAATGTTAGATCTGCTATCTTCGATATGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13507308 GC
131 GC
* *
13507310 CAAATTTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
13507375 CTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTATTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
13507440 G
131 G
13507441 TCATGCTGAA
Statistics
Matches: 855, Mismatches: 68, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 855 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
GC
Found at i:13507525 original size:87 final size:88
Alignment explanation
Indices: 13506538--13507552 Score: 662
Period size: 88 Copynumber: 11.5 Consensus size: 88
13506528 ATTTTCAACT
* *
13506538 TGTTCCTTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAA
1 TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAA
*
13506603 TGTCAGATCTGTTATCTTCGATC
66 TGTCAGATCTGCTATCTTCGATC
* * * * *
13506626 TGTTCCCTATAAGCACAGGGATGCCAAAT-CT-ATTATTTTC-AACTTG-TTCCCTATAAGCACA
1 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGA-AATCTTCGATC-TGCTTCACTGTAAGCACA
* * ** *
13506687 GGGATG-C-CATGCTGAAATCTTTGATC
62 GGAATGTCAGAT-CTGCTATCTTCGATC
** * * * ** * *
13506713 TGCTTTACTGTAAGCACAGGAATGTCA-GATCTGTTATCTTCGATCTG-TTCCCTATAAGCACAG
1 TG-TTCCCTATAAGCACAGGGATGCCATG--CTGAAATCTTCGATCTGCTTCACTGTAAGCACAG
* * * * *
13506776 GGATGCCAAATCTGCTATTTTC-AAC
63 GAATGTCAGATCTGCTATCTTCGATC
* * * *
13506801 TTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGTATAGGA
1 -TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
* *
13506866 ATGTTAGATCTGCTATCTTCGATA
65 ATGTCAGATCTGCTATCTTCGATC
* ** * * * *
13506890 TGTTCCCTATAAACACAGGGATGCCAAAT-CTGTTATTTTC-AACTTG-TTCCCTATAAGCACAG
1 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAG
* * ** *
13506952 GGATG-C-CATGCTGAAATCTTCGACC
63 GAATGTCAGAT-CTGCTATCTTCGATC
* * * * * ** * * *
13506977 TGCTTCACTGTAAGCACAGGAATATCAAAT-CTGTTATCTTCGATCT-ATTCCCTATAAGCACAG
1 TG-TTCCCTATAAGCACAGGGAT-GC-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAG
* * * * *
13507040 GGATGCCAAATCTGCTATTTTC-AAC
63 GAATGTCAGATCTGCTATCTTCGATC
* * *
13507065 TTGTTCCCTATAAGTACAAGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGA
1 -TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
*
13507130 ATGTCAGATCTGCTATCTTTGATC
65 ATGTCAGATCTGCTATCTTCGATC
* ** * * * * *
13507154 TGTTCCCTATAAGCACAGGGATACCAAAT-CTGCTATTTTC-AACTTG-TTCCCTATAAGCACAA
1 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAG
* **
13507216 GAATG-C-CATGCTGAAATCTTCGATC
63 GAATGTCAGAT-CTGCTATCTTCGATC
* * * * ** ** * * * *
13507241 TGCTTCACTGTAAGTACAGGAATGTTA-GATCTGCTATCTTCGATATG-TTCCCTATAAACACAG
1 TG-TTCCCTATAAGCACAGGGATGCCATG--CTGAAATCTTCGATCTGCTTCACTGTAAGCACAG
* * * * * * *
13507304 GGATGCCAAATTTGTTATTTTC-AAC
63 GAATGTCAGATCTGCTATCTTCGATC
*
13507329 TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
1 -TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGA
*
13507394 ATGTCAGATCTGTTATCTTCGATC
65 ATGTCAGATCTGCTATCTTCGATC
* * *
13507418 TATTCCCTATAAGCACAGGGATGTCATGCTGAAATCTTCGATCTGCTTCACTG-AAGCACGGGAA
1 TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAA
*
13507482 TGTCAGATCTGCTATCTTTGATC
66 TGTCAGATCTGCTATCTTCGATC
** * *
13507505 TGTTCCCTATAAATATAGGGATGCCAAAT-CTGCAATCTTCGATCTGCT
1 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTCGATCTGCT
13507553 CTCCGCCGCT
Statistics
Matches: 721, Mismatches: 157, Indels: 98
0.74 0.16 0.10
Matches are distributed among these distances:
86 10 0.01
87 137 0.19
88 489 0.68
89 73 0.10
90 12 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (88 bp):
TGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAA
TGTCAGATCTGCTATCTTCGATC
Found at i:13507619 original size:41 final size:41
Alignment explanation
Indices: 13507571--13507708 Score: 111
Period size: 41 Copynumber: 3.2 Consensus size: 41
13507561 CTACAGAGAC
*
13507571 GCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
* ** * * *
13507612 GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCTGATACA-GAG-AT
1 GCCAAAT---C-A--TCTTGGATCTGCTTCAACG--T-AAACACGTGAAA
13507659 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
13507700 GCCAAATCA
1 GCCAAATCA
13507709 GCTATGTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 24
0.66 0.12 0.22
Matches are distributed among these distances:
39 4 0.06
40 3 0.04
41 28 0.39
42 4 0.06
43 1 0.01
44 2 0.03
45 1 0.01
46 4 0.06
47 18 0.25
48 3 0.04
49 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
Found at i:13507673 original size:88 final size:88
Alignment explanation
Indices: 13507540--13507774 Score: 409
Period size: 88 Copynumber: 2.7 Consensus size: 88
13507530 AAATCTGCAA
* * * *
13507540 TCTTCGATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
13507604 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
13507627 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
13507692 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* *
13507715 TTTTCGATCTGCTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCTGCTTCAACG
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACG
13507775 AACGTCAGAT
Statistics
Matches: 141, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 19 0.13
88 122 0.87
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:13507751 original size:47 final size:46
Alignment explanation
Indices: 13507612--13507755 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 46
13507602 ACACGTGAAA
13507612 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGT-TTCGATCTGCTCCCCGCCTGATACAGAGAT
* ** * * *
13507659 GCCAAATCATCT-TG----GATCTGCTTCAACG--T-AAACACGTGAAA
1 GCCAAATCAGCTATGTTTCGATCTGC-TCCCCGCCTGATACA-GAG-AT
*
13507700 GCCAAATCAGCTATGTTTTCGATCTGCTCCCCGCCTGATACAAAGAT
1 GCCAAATCAGCTATG-TTTCGATCTGCTCCCCGCCTGATACAGAGAT
13507747 GCCAAATCA
1 GCCAAATCA
13507756 TCTTGGATCT
Statistics
Matches: 72, Mismatches: 13, Indels: 24
0.66 0.12 0.22
Matches are distributed among these distances:
39 4 0.06
40 3 0.04
41 19 0.26
42 6 0.08
46 6 0.08
47 28 0.39
48 2 0.03
49 4 0.06
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (46 bp):
GCCAAATCAGCTATGTTTCGATCTGCTCCCCGCCTGATACAGAGAT
Found at i:13509652 original size:8 final size:8
Alignment explanation
Indices: 13509641--13509710 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
13509631 CTTTTTGGCA
13509641 TTTTTTGT
1 TTTTTTGT
13509649 TTTTTTGTT
1 TTTTTTG-T
13509658 TTTTTTGT
1 TTTTTTGT
*
13509666 TGTTTTGT
1 TTTTTTGT
13509674 TTTCTTCT-T
1 TTT-TT-TGT
13509683 CTTTTTTGT
1 -TTTTTTGT
*
13509692 GTTTTT-T
1 TTTTTTGT
*
13509699 TTTATT-T
1 TTTTTTGT
13509706 TTTTT
1 TTTTT
13509711 ATTTTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 10 0.20
8 23 0.45
9 14 0.27
10 4 0.08
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.84
Consensus pattern (8 bp):
TTTTTTGT
Found at i:13509653 original size:9 final size:9
Alignment explanation
Indices: 13509641--13509718 Score: 70
Period size: 9 Copynumber: 8.6 Consensus size: 9
13509631 CTTTTTGGCA
13509641 TTTTTTG-T
1 TTTTTTGTT
13509649 TTTTTTGTT
1 TTTTTTGTT
13509658 TTTTTTG-T
1 TTTTTTGTT
*
13509666 TGTTTTGTT
1 TTTTTTGTT
*
13509675 TTCTTCTTCTT
1 TT-TT-TTGTT
*
13509686 TTTTGTGTTT
1 TTTTTTG-TT
*
13509696 TTTTTTATT
1 TTTTTTGTT
*
13509705 TTTTTTATT
1 TTTTTTGTT
13509714 TTTTT
1 TTTTT
13509719 AAATTTTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
8 14 0.24
9 27 0.47
10 11 0.19
11 6 0.10
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:13509671 original size:25 final size:23
Alignment explanation
Indices: 13509643--13509710 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 23
13509633 TTTTGGCATT
13509643 TTTTGTTTTTTTGTTTTTTTTGTTG
1 TTTTGTTTTTTT-TTTTTTTTG-TG
*
13509668 TTTTGTTTTCTTCTTCTTTTTTGTG
1 TTTTGTTTT-TT-TTTTTTTTTGTG
*
13509693 TTTT-TTTTTATTTTTTTT
1 TTTTGTTTTTTTTTTTTTT
13509711 ATTTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.18
23 1 0.03
24 4 0.11
25 15 0.39
26 10 0.26
27 1 0.03
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.84
Consensus pattern (23 bp):
TTTTGTTTTTTTTTTTTTTTGTG
Found at i:13514424 original size:16 final size:17
Alignment explanation
Indices: 13514396--13514437 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
13514386 AGTAATAAAA
*
13514396 AAATA-ATACTATATAT
1 AAATATATACTATACAT
13514412 AAATATATA-TATACAT
1 AAATATATACTATACAT
*
13514428 AAAAATATAC
1 AAATATATAC
13514438 ACTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATACTATACAT
Found at i:13514435 original size:18 final size:18
Alignment explanation
Indices: 13514390--13514436 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
13514380 AATTAAAGTA
* *
13514390 ATAAAAAAATAATACTAT
1 ATAAAAATATAATACTAC
*
13514408 ATATAAATATATATA-TAC
1 ATAAAAATATA-ATACTAC
13514426 ATAAAAATATA
1 ATAAAAATATA
13514437 CACTAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAATATAATACTAC
Found at i:13514544 original size:3 final size:3
Alignment explanation
Indices: 13514538--13514583 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
13514528 AATAGGGGTG
13514538 ATA ATA ATA ATA ATA ATA CA-A ATA ATA ATA CAT- ATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA ATA ATA
13514584 GTAGTCAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 3 0.08
3 29 0.76
4 6 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13514671 original size:3 final size:3
Alignment explanation
Indices: 13514658--13514743 Score: 72
Period size: 3 Copynumber: 28.3 Consensus size: 3
13514648 GAGGGTATAT
13514658 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * *
13514702 ATA ATA ATA ATA ATA ATA GTA AAA ATA ATA A-A ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13514744 AACAAGGATC
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:13515700 original size:24 final size:24
Alignment explanation
Indices: 13515649--13515701 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
13515639 AGTTGCAATA
*
13515649 GTTTTTGGCTTTAAGGTTTTAATT
1 GTTTTTGGCTTTAAGGTTTTAATG
13515673 GTTTTTGGCTTT-AGTTGTTTTAA-G
1 GTTTTTGGCTTTAAG--GTTTTAATG
13515697 GTTTT
1 GTTTT
13515702 AATTGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 2 0.08
24 17 0.65
25 7 0.27
ACGTcount: A:0.13, C:0.04, G:0.23, T:0.60
Consensus pattern (24 bp):
GTTTTTGGCTTTAAGGTTTTAATG
Found at i:13518940 original size:37 final size:38
Alignment explanation
Indices: 13518877--13518971 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 38
13518867 CAGAAAATAG
* **
13518877 TAAGATTT-ACTCAGTTA-AGCTCCATTCAATATAACGG
1 TAAGATTTGACTC-GATAGAGCTCCATTCAATATAACAA
* * * *
13518914 TATGATTTG-CTCGATTGAGCTTCATTCAGTATAACAA
1 TAAGATTTGACTCGATAGAGCTCCATTCAATATAACAA
13518951 TAAGATTTGACTCGATAGAGC
1 TAAGATTTGACTCGATAGAGC
13518972 GTACTTCTAG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
36 2 0.04
37 34 0.74
38 10 0.22
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (38 bp):
TAAGATTTGACTCGATAGAGCTCCATTCAATATAACAA
Found at i:13522858 original size:29 final size:29
Alignment explanation
Indices: 13522826--13522884 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
13522816 GGATGGGAAA
* *
13522826 GGAGTAAAAGTTTTAGGGGAAAATAGAAG
1 GGAGTAAAAATTTTAGGGGAAAATAAAAG
*
13522855 GGAGTAAAAATTTTGGGGGAAAATAAAAG
1 GGAGTAAAAATTTTAGGGGAAAATAAAAG
13522884 G
1 G
13522885 TTTTGAGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (29 bp):
GGAGTAAAAATTTTAGGGGAAAATAAAAG
Found at i:13523108 original size:9 final size:9
Alignment explanation
Indices: 13523094--13523136 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
13523084 TATAGTTTGA
*
13523094 TATTCGATT
1 TATTCGAGT
13523103 TATTCGAGT
1 TATTCGAGT
*
13523112 TAGTT-GAAT
1 TA-TTCGAGT
13523121 TATTCGAGT
1 TATTCGAGT
13523130 TATTCGA
1 TATTCGA
13523137 ATTCAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 25 0.86
10 2 0.07
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (9 bp):
TATTCGAGT
Found at i:13523138 original size:18 final size:18
Alignment explanation
Indices: 13523094--13523139 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13523084 TATAGTTTGA
*
13523094 TATTCGATTTATTCGAGT
1 TATTCGAATTATTCGAGT
13523112 TAGTT-GAATTATTCGAGT
1 TA-TTCGAATTATTCGAGT
13523130 TATTCGAATT
1 TATTCGAATT
13523140 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Found at i:13524508 original size:42 final size:40
Alignment explanation
Indices: 13524384--13524509 Score: 101
Period size: 42 Copynumber: 3.0 Consensus size: 40
13524374 GAGAAAGCTG
* * * *
13524384 AAGCAAATATACTAGCACCTAAGTGCATCATCGGTCAAATCG
1 AAGC-AATATACTGGCACATAAGTGCATCATCGGT-AAACCA
* * * *
13524426 AAGCAATTATACGGGTACACAT-AGTGCATTATTAGATAAACCA
1 AAGCAA-TATACTGG--CACATAAGTGCATCA-TCGGTAAACCA
13524469 AAGCAATCATACTGGCACATAAGTGCATCATCGGCTAAACC
1 AAGCAAT-ATACTGGCACATAAGTGCATCATCGG-TAAACC
13524510 GAAGTATAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
41 9 0.14
42 25 0.38
43 24 0.37
44 7 0.11
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (40 bp):
AAGCAATATACTGGCACATAAGTGCATCATCGGTAAACCA
Found at i:13525547 original size:14 final size:13
Alignment explanation
Indices: 13525528--13525569 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
13525518 ATGGTTATTC
13525528 TTTAATTAATTTTA
1 TTTAATT-ATTTTA
13525542 TTTAATTATTTTAA
1 TTTAATTATTTT-A
13525556 TTATAATTATTTTA
1 TT-TAATTATTTTA
13525570 ACTTTAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 11 0.42
15 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTATTTTA
Found at i:13525564 original size:15 final size:14
Alignment explanation
Indices: 13525528--13525577 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
13525518 ATGGTTATTC
13525528 TTTAATTAATTTT-A
1 TTTAATT-ATTTTAA
13525542 TTTAATTATTTTAA
1 TTTAATTATTTTAA
13525556 TTATAATTATTTTAA
1 TT-TAATTATTTTAA
13525571 CTTTAAT
1 -TTTAAT
13525578 GGCCAACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.15
14 10 0.30
15 16 0.48
16 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAATTATTTTAA
Found at i:13532255 original size:20 final size:20
Alignment explanation
Indices: 13532219--13532257 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13532209 TAATACTATT
*
13532219 TATAAAAATATATATATACG
1 TATAAAAATATACATATACG
13532239 TATAATAAA-ATACATATAC
1 TATAA-AAATATACATATAC
13532258 TAATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAAATATACATATACG
Found at i:13532292 original size:21 final size:20
Alignment explanation
Indices: 13532206--13532296 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
13532196 GGATATATGA
*
13532206 AAATAATACTATTTATAAAAAT
1 AAAT-ATACTA-TAATAAAAAT
13532228 ATATATATACGTATAAT-AAAAT
1 A-A-ATATAC-TATAATAAAAAT
* * *
13532250 ACATATACTAATATTAATAAT
1 AAATATACT-ATAATAAAAAT
*
13532271 AAATATACTAGGAATAAAAAT
1 AAATATACTA-TAATAAAAAT
13532292 AAATA
1 AAATA
13532297 AAATAATAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.02
20 11 0.20
21 24 0.44
22 7 0.13
23 8 0.15
24 4 0.07
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATATACTATAATAAAAAT
Found at i:13532730 original size:21 final size:22
Alignment explanation
Indices: 13532706--13532753 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
13532696 TAATGGTAAT
*
13532706 AATATTAAAATACAA-AAAAAG
1 AATAATAAAATACAATAAAAAG
* *
13532727 AATAATAAAATATAATAAAAAT
1 AATAATAAAATACAATAAAAAG
13532749 AATAA
1 AATAA
13532754 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAATAAAATACAATAAAAAG
Found at i:13533543 original size:11 final size:11
Alignment explanation
Indices: 13533521--13533560 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
13533511 AAAAGGTACC
13533521 TTTTTTAT-TT
1 TTTTTTATGTT
13533531 TTTTTTATGTTT
1 TTTTTTATG-TT
13533543 TTTTTATATGTT
1 TTTTT-TATGTT
13533555 TTTTTT
1 TTTTTT
13533561 TATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.30
11 1 0.04
12 14 0.52
13 4 0.15
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTTATGTT
Found at i:13533546 original size:13 final size:13
Alignment explanation
Indices: 13533528--13533561 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13533518 ACCTTTTTTA
13533528 TTTTTTTTTATGT
1 TTTTTTTTTATGT
*
13533541 TTTTTTTATATGT
1 TTTTTTTTTATGT
13533554 TTTTTTTT
1 TTTTTTTT
13533562 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTATGT
Found at i:13533562 original size:14 final size:13
Alignment explanation
Indices: 13533528--13533565 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
13533518 ACCTTTTTTA
13533528 TTTTTTTT-TATG
1 TTTTTTTTATATG
13533540 TTTTTTTTATATG
1 TTTTTTTTATATG
13533553 TTTTTTTTTATAT
1 -TTTTTTTTATAT
13533566 ATATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 4 0.17
14 12 0.50
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (13 bp):
TTTTTTTTATATG
Found at i:13534078 original size:35 final size:35
Alignment explanation
Indices: 13534030--13534131 Score: 152
Period size: 35 Copynumber: 2.9 Consensus size: 35
13534020 AGGGTTTTAA
*
13534030 TGGGT-ATTAGGTTGTATTTGGGTTTTAGGGGATT
1 TGGGTAATTGGGTTGTATTTGGGTTTTAGGGGATT
*
13534064 TGGGTAATTGGGTTGTATTTGGGTTTTAGGGGGTT
1 TGGGTAATTGGGTTGTATTTGGGTTTTAGGGGATT
* *
13534099 TGGATAATTGGGGCTGTATTTGGGTTTTAGGGG
1 TGGGTAATT-GGGTTGTATTTGGGTTTTAGGGG
13534132 GTTAGTGGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 5 0.08
35 35 0.56
36 22 0.35
ACGTcount: A:0.14, C:0.01, G:0.41, T:0.44
Consensus pattern (35 bp):
TGGGTAATTGGGTTGTATTTGGGTTTTAGGGGATT
Found at i:13539770 original size:13 final size:15
Alignment explanation
Indices: 13539747--13539779 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
13539737 TTTGTTTTGT
13539747 TTTTCTTTCTTTTC-
1 TTTTCTTTCTTTTCA
13539761 TTTT-TTTCTTTTCA
1 TTTTCTTTCTTTTCA
13539775 TTTTC
1 TTTTC
13539780 CTCAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTTCA
Found at i:13546228 original size:153 final size:153
Alignment explanation
Indices: 13545950--13546259 Score: 541
Period size: 153 Copynumber: 2.0 Consensus size: 153
13545940 TAACAAAGAT
*
13545950 TAAGGCTTCCTTTGGATGTGCGATTCACTGCGCTGCGGTGCGTTTAACTTACTTTTTGTCTCACG
1 TAAGGCTTCCTTTGGATGGGCGATTCACTGCGCTGCGGTGCGTTTAACTTACTTTTTGTCTCACG
*
13546015 CCACAATATCGCTACAGTATCTAATCCCACTGTCACCGCTGTTTTTACACTAACCGCAGCTAAAC
66 CCACAATATCGCTACAGTATCTAATCCCACCGTCACCGCTGTTTTTACACTAACCGCAGCTAAAC
13546080 GCACCGCCCATCCAAACTCACCC
131 GCACCGCCCATCCAAACTCACCC
* * *
13546103 TAAGGCTTCGTTTGGATGGGCGATTGACTGCGGTGCGGTGCGTTTAACTTACTTTTTGTCTCACG
1 TAAGGCTTCCTTTGGATGGGCGATTCACTGCGCTGCGGTGCGTTTAACTTACTTTTTGTCTCACG
* *
13546168 CTACAATATCGCTACAGTATCTAATCTCACCG-CAACCGCTGTTTTTACACTAACCGCAGCTAAA
66 CCACAATATCGCTACAGTATCTAATCCCACCGTC-ACCGCTGTTTTTACACTAACCGCAGCTAAA
13546232 CGCACCGCCCATCCAAACTCACCC
130 CGCACCGCCCATCCAAACTCACCC
13546256 TAAG
1 TAAG
13546260 TTATCCTAAT
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
152 1 0.01
153 148 0.99
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (153 bp):
TAAGGCTTCCTTTGGATGGGCGATTCACTGCGCTGCGGTGCGTTTAACTTACTTTTTGTCTCACG
CCACAATATCGCTACAGTATCTAATCCCACCGTCACCGCTGTTTTTACACTAACCGCAGCTAAAC
GCACCGCCCATCCAAACTCACCC
Found at i:13546631 original size:28 final size:29
Alignment explanation
Indices: 13546589--13546649 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 29
13546579 TTTACTCTTT
*
13546589 AAAAGTATATAAAAAT-TAA-ATGTTT-TA
1 AAAAATATATAAAAATATAACAT-TTTCTA
13546616 AAAAATATATGAAAAATATAACATTTTCTA
1 AAAAATATAT-AAAAATATAACATTTTCTA
13546646 AAAA
1 AAAA
13546650 TTTCAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.31
28 6 0.21
29 6 0.21
30 8 0.28
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATATATAAAAATATAACATTTTCTA
Found at i:13546649 original size:29 final size:26
Alignment explanation
Indices: 13546586--13546650 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
13546576 GTCTTTACTC
*
13546586 TTTAAAAGTATATAAAAATTAAATGT
1 TTTAAAAATATATAAAAATTAAATGT
13546612 TTTAAAAAATATATGAAAAATATAACAT-T
1 TTT-AAAAATATAT-AAAAAT-TAA-ATGT
13546641 TTCTAAAAAT
1 TT-TAAAAAT
13546651 TTCAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 3 0.09
27 9 0.27
28 6 0.18
29 12 0.36
30 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (26 bp):
TTTAAAAATATATAAAAATTAAATGT
Found at i:13546810 original size:21 final size:22
Alignment explanation
Indices: 13546786--13546826 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13546776 TTTTTTCGAA
13546786 TTGAGTCGAGT-GAAATGAAAT
1 TTGAGTCGAGTCGAAATGAAAT
*
13546807 TTGAGTCGAGTCGAATTGAA
1 TTGAGTCGAGTCGAAATGAA
13546827 TCGAGTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (22 bp):
TTGAGTCGAGTCGAAATGAAAT
Found at i:13552137 original size:49 final size:49
Alignment explanation
Indices: 13552060--13552153 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
13552050 TGCTATGTAA
* * * *
13552060 TGATAAACTTGGTCTTTCATTGCCTACACTTTTATCACTATTTATACAT
1 TGATAAACTTAGTCTTCCACTGCCTACACTCTTATCACTATTTATACAT
**
13552109 TGATAAACTTAGTCTTCCACTGTTTACACTCTTATCACTATTTAT
1 TGATAAACTTAGTCTTCCACTGCCTACACTCTTATCACTATTTAT
13552154 CCCTTCTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (49 bp):
TGATAAACTTAGTCTTCCACTGCCTACACTCTTATCACTATTTATACAT
Found at i:13553599 original size:27 final size:26
Alignment explanation
Indices: 13553578--13553632 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
13553568 TCATTTTAAG
13553578 TTTCACATCTCATTTCATCATTTCATA
1 TTTCACATCTCATTTC-TCATTTCATA
**
13553605 TTTCATTTCTCATTTCTCATTTCATA
1 TTTCACATCTCATTTCTCATTTCATA
13553631 TT
1 TT
13553633 CATTTCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTCACATCTCATTTCTCATTTCATA
Found at i:13553619 original size:19 final size:19
Alignment explanation
Indices: 13553587--13553642 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
13553577 GTTTCACATC
13553587 TCATTTCATCATTTCAT-ATT
1 TCATTTC-TCATTTC-TCATT
13553607 TCATTTCTCATTTCTCATT
1 TCATTTCTCATTTCTCATT
*
13553626 TCATAT-TCATTTCTCAT
1 TCATTTCTCATTTCTCAT
13553643 CTTTGCCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.35
19 15 0.44
20 7 0.21
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.55
Consensus pattern (19 bp):
TCATTTCTCATTTCTCATT
Found at i:13553640 original size:25 final size:27
Alignment explanation
Indices: 13553585--13553642 Score: 102
Period size: 25 Copynumber: 2.2 Consensus size: 27
13553575 AAGTTTCACA
13553585 TCTCATTTCATCATTTCATATTTCATT
1 TCTCATTTCATCATTTCATATTTCATT
13553612 TCTCATTTC-TCATTTCATA-TTCATT
1 TCTCATTTCATCATTTCATATTTCATT
13553637 TCTCAT
1 TCTCAT
13553643 CTTTGCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 12 0.39
26 10 0.32
27 9 0.29
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (27 bp):
TCTCATTTCATCATTTCATATTTCATT
Found at i:13553673 original size:43 final size:43
Alignment explanation
Indices: 13553617--13553701 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
13553607 TCATTTCTCA
* *
13553617 TTTCTCATTTCATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATATTCATTTCCCATCTTTGCCATTTCAATAT
13553660 TTTCTCATCTCATATTCATTTCCCATCTTTGCCATTTCAATA
1 TTTCTCATCTCATATTCATTTCCCATCTTTGCCATTTCAATA
13553702 ATAATCACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTCCCATCTTTGCCATTTCAATAT
Found at i:13555623 original size:14 final size:15
Alignment explanation
Indices: 13555592--13555623 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13555582 TCCATAACAC
*
13555592 TTTTCAAAATTAATT
1 TTTTCAAAATCAATT
13555607 TTTTCAAAATCAATT
1 TTTTCAAAATCAATT
13555622 TT
1 TT
13555624 CAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCAAAATCAATT
Found at i:13565347 original size:14 final size:14
Alignment explanation
Indices: 13565330--13565360 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13565320 TACGAAAGAG
13565330 AGTTTGTGAAACTA
1 AGTTTGTGAAACTA
13565344 AGTTTGTGAAACTA
1 AGTTTGTGAAACTA
13565358 AGT
1 AGT
13565361 CAGTATGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (14 bp):
AGTTTGTGAAACTA
Found at i:13566941 original size:9 final size:9
Alignment explanation
Indices: 13566924--13566960 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13566914 TGAGTTTTCG
13566924 AATTCGAAT
1 AATTCGAAT
*
13566933 AACTCGAAT
1 AATTCGAAT
13566942 AATTCGAAT
1 AATTCGAAT
13566951 AATTCGAAT
1 AATTCGAAT
13566960 A
1 A
13566961 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13567210 original size:30 final size:31
Alignment explanation
Indices: 13567174--13567231 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13567164 AAACTTTTTA
13567174 TTTCCCC-CAATAATTTTTAC-TCCTTCCTAC
1 TTTCCCCTCAA-AATTTTTACTTCCTTCCTAC
*
13567204 TTTCCCCTTAAAATTTTTACTTCCTTCC
1 TTTCCCCTCAAAATTTTTACTTCCTTCC
13567232 AATCTCACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTCCCCTCAAAATTTTTACTTCCTTCCTAC
Found at i:13574321 original size:18 final size:18
Alignment explanation
Indices: 13574301--13574352 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
13574291 TTCTTGCATG
13574301 TTTATTTCTTGTTTGTAGT
1 TTTATTTCTTGTTT-TAGT
*
13574320 TTTAGTTTC-GGTTTTAGT
1 TTTA-TTTCTTGTTTTAGT
*
13574338 TTTATTTTTTGTTTT
1 TTTATTTCTTGTTTT
13574353 TGGGTAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.11
18 13 0.46
19 8 0.29
20 4 0.14
ACGTcount: A:0.10, C:0.04, G:0.15, T:0.71
Consensus pattern (18 bp):
TTTATTTCTTGTTTTAGT
Found at i:13575629 original size:18 final size:17
Alignment explanation
Indices: 13575609--13575641 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13575599 GTTCATTTGT
13575609 TTTTC-TTTATTTATTTC
1 TTTTCATTT-TTTATTTC
13575626 TTTTCATTTTTTATTT
1 TTTTCATTTTTTATTT
13575642 ACTATTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCATTTTTTATTTC
Found at i:13577314 original size:21 final size:21
Alignment explanation
Indices: 13577256--13577317 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
13577246 ATCAAACTAA
*
13577256 TAAAATATCATAAAAAT--ATT
1 TAAAAT-TTATAAAAATAAATT
13577276 TAAAATTTATAAAAAAATAAATT
1 TAAAATTTAT--AAAAATAAATT
*
13577299 TATAATTTATAAAAATAAA
1 TAAAATTTATAAAAATAAA
13577318 AAATATTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.17
21 15 0.42
23 12 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATTTATAAAAATAAATT
Found at i:13578890 original size:18 final size:19
Alignment explanation
Indices: 13578869--13578909 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
13578859 TTTTTATAAT
13578869 TAAATAATAT-TTTTTTTA
1 TAAATAATATATTTTTTTA
**
13578887 TAAATTTTATATTTTTTTA
1 TAAATAATATATTTTTTTA
13578906 -AAAT
1 TAAAT
13578910 CATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAATAATATATTTTTTTA
Found at i:13578951 original size:20 final size:21
Alignment explanation
Indices: 13578913--13578953 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13578903 TTAAAATCAT
* *
13578913 TTTTAATATTTTTATAATTTA
1 TTTTAATATTTTAAAAATTTA
13578934 TTTTAA-ATTTTAAAAATTTA
1 TTTTAATATTTTAAAAATTTA
13578954 AAGAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAATATTTTAAAAATTTA
Found at i:13586510 original size:22 final size:22
Alignment explanation
Indices: 13586482--13586527 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13586472 GTCCTTCGCG
13586482 CACGGCCTGGCCTCATCATTCA
1 CACGGCCTGGCCTCATCATTCA
13586504 CACGGCCTGGCCTCATCATTCA
1 CACGGCCTGGCCTCATCATTCA
13586526 CA
1 CA
13586528 TGGCTTACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (22 bp):
CACGGCCTGGCCTCATCATTCA
Found at i:13589230 original size:69 final size:69
Alignment explanation
Indices: 13589119--13589384 Score: 284
Period size: 69 Copynumber: 3.9 Consensus size: 69
13589109 TCGCAACTCT
* * * * *
13589119 AAAATAGCTCACAGACCTATGCTC-CTGACTGATATTGTAAAGGCTCGCTGATTTAAGATTACAG
1 AAAATAGCTCGCGGACCTACGCTCTCAG-CTGATATTGTAAAGGCTCGTTGATTTAAGATTACAG
*
13589183 CTTCA
65 CCTCA
* * *
13589188 AAAATAGCTCGCGGACCTATGCTCTCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTGCAAC
1 AAAATAGCTCGCGGACCTACGCTCTCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGC
*
13589253 CTCC
66 CTCA
* * * * * * *
13589257 AAAATAGCTCGTGGACCTACACT-TCCAGTTGATATTGTAAAGGCTTGTTGATATAAGGTAACAG
1 AAAATAGCTCGCGGACCTACGCTCT-CAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAG
*
13589321 CCTCG
65 CCTCA
** * * * *
13589326 AAAATAGCTCGCTAACCTACGCTCTTAGTTGATATTGTAAATGCTCATTGATTTAAGAT
1 AAAATAGCTCGCGGACCTACGCTCTCAGCTGATATTGTAAAGGCTCGTTGATTTAAGAT
13589385 CGCAACCTCT
Statistics
Matches: 165, Mismatches: 29, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
68 1 0.01
69 161 0.98
70 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (69 bp):
AAAATAGCTCGCGGACCTACGCTCTCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGC
CTCA
Found at i:13589377 original size:138 final size:138
Alignment explanation
Indices: 13589148--13589405 Score: 363
Period size: 138 Copynumber: 1.9 Consensus size: 138
13589138 TGCTCCTGAC
* * * * *
13589148 TGATATTGTAAAGGCTCGCTGATTTAAGATTACAGCTTCAAAAATAGCTCGCGGACCTATGCTCT
1 TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
* *
13589213 CAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTGCAACCTCCAAAATAGCTCGTGGACCTACA
66 CAGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCGTGGACCTACA
13589278 CTTCCAGT
131 CTTCCAGT
* * * * *
13589286 TGATATTGTAAAGGCTTGTTGATATAAGGTAACAGCCTCGAAAATAGCTCGCTAACCTACGCTCT
1 TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
* * * **
13589351 TAGTTGATATTGTAAATGCTCATTGATTTAAGATCGCAACCTCTGAAATAGCTCG
66 CAGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCG
13589406 CAAACCTACG
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 103 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (138 bp):
TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
CAGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCGTGGACCTACA
CTTCCAGT
Found at i:13589400 original size:69 final size:68
Alignment explanation
Indices: 13589148--13589415 Score: 270
Period size: 69 Copynumber: 3.9 Consensus size: 68
13589138 TGCTCCTGAC
* * * ** *
13589148 TGATATTGTAAAGGCTCGCTGATTTAAGATTACAGCTTCAAAAATAGCTCGCGGACCTATGCTCT
1 TGATATTGTAAAGGCTCGTTGATTTAAGATTACAACCTC-AAAATAGCTCGCTAACCTACGCTCT
*
13589213 CAGC
65 CAGT
* * *
13589217 TGATATTGTAAAGGCTCGTTGATTTAAGATTGCAACCTCCAAAATAGCTCG-TGGACCTACACT-
1 TGATATTGTAAAGGCTCGTTGATTTAAGATTACAACCT-CAAAATAGCTCGCT-AACCTACGCTC
13589280 TCCAGT
64 T-CAGT
* * * * *
13589286 TGATATTGTAAAGGCTTGTTGATATAAGGTAACAGCCTCGAAAATAGCTCGCTAACCTACGCTCT
1 TGATATTGTAAAGGCTCGTTGATTTAAGATTACAACCTC-AAAATAGCTCGCTAACCTACGCTCT
*
13589351 TAGT
65 CAGT
* * ** * *
13589355 TGATATTGTAAATGCTCATTGATTTAAGATCGCAACCTCTGAAATAGCTCGCAAACCTACG
1 TGATATTGTAAAGGCTCGTTGATTTAAGATTACAACCTC-AAAATAGCTCGCTAACCTACG
13589416 TTCCTAGCTA
Statistics
Matches: 165, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
68 2 0.01
69 160 0.97
70 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (68 bp):
TGATATTGTAAAGGCTCGTTGATTTAAGATTACAACCTCAAAATAGCTCGCTAACCTACGCTCTC
AGT
Found at i:13589519 original size:37 final size:37
Alignment explanation
Indices: 13589456--13589536 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
13589446 TTGAGCTCGT
* * *
13589456 AACCTCTAATTATTTGGGCTCACTGATTTAAGATCGC
1 AACCTCCAATTATTTGAGCTCACTGATTGAAGATCGC
* *
13589493 AACCTCCAATTATTTGAG-TTAGCTGATTGAATATCGC
1 AACCTCCAATTATTTGAGCTCA-CTGATTGAAGATCGC
13589530 AA-CTCCA
1 AACCTCCA
13589537 CACAGCTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 7 0.18
37 31 0.82
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (37 bp):
AACCTCCAATTATTTGAGCTCACTGATTGAAGATCGC
Found at i:13594345 original size:3 final size:3
Alignment explanation
Indices: 13594337--13594441 Score: 133
Period size: 3 Copynumber: 35.7 Consensus size: 3
13594327 TTAACAGTAA
* * *
13594337 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG -AG GAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * *
13594384 GAG GAG GAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
13594432 AAG -AG AAG AA
1 AAG AAG AAG AA
13594442 ATAGAGATGC
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
2 4 0.04
3 91 0.96
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:13602547 original size:47 final size:47
Alignment explanation
Indices: 13602472--13602789 Score: 278
Period size: 47 Copynumber: 6.7 Consensus size: 47
13602462 GATTTCTTGT
**
13602472 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
*
13602518 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATAGA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGACGATGA
* *
13602566 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* * * *
13602613 -TAGCCAGTGTAAGATATGTCTGGGACATGCATCGGCTAAGA-G-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
* * * *
13602657 GTGCTAGTGTAAGACATGTTTGGGACATGCATCAG-CACGTA-TATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ACGAT--GA
* * * * * *
13602705 GAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGACAATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGACGATGA
*
13602754 -TAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
13602790 ACAACTTATC
Statistics
Matches: 223, Mismatches: 31, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.13
45 3 0.01
46 24 0.11
47 70 0.31
48 37 0.17
49 45 0.20
50 7 0.03
51 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGACGATGA
Found at i:13602633 original size:94 final size:93
Alignment explanation
Indices: 13602472--13602791 Score: 332
Period size: 94 Copynumber: 3.4 Consensus size: 93
13602462 GATTTCTTGT
*
13602472 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGT-GCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGA-TATGA-TAGCCAGTGTAAGACCA
13602535 TGTCTGGGACATGGCATCGGCATAGAGATGA
64 TGTCTGGGACATGGCATCGGC-TAGAGATGA
* * *
13602566 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGACGATGATAGCCAGTGTAAGA-TAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGA-TATGATAGCCAGTGTAAGACCAT
*
13602630 GTCTGGGACAT-GCATCGGCTA-AGA-GTT
65 GTCTGGGACATGGCATCGGCTAGAGATG-A
* * * * * *
13602657 GTGCTAGTGTAAGACATGTTTGGGACATGCATC-AGCACGTATATACGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACG-ATAT--GATAGCCAGTGTAAGACC
* * *
13602721 ATGTCTAGGACATGGCATCGGCCTCGACAATGA
63 ATGTCTGGGACATGGCATCGG-CTAGA-GATGA
*
13602754 -TAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
13602792 AACTTATCCC
Statistics
Matches: 189, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
90 7 0.04
91 35 0.19
92 15 0.08
93 20 0.11
94 58 0.31
95 19 0.10
96 2 0.01
97 12 0.06
98 15 0.08
99 5 0.03
100 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACGATATGATAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCTAGAGATGA
Found at i:13602739 original size:141 final size:141
Alignment explanation
Indices: 13602474--13602789 Score: 381
Period size: 141 Copynumber: 2.2 Consensus size: 141
13602464 TTTCTTGTGT
*
13602474 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGACCATGTC
* * * * *
13602539 TGGGACATGGCATCGGCATAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCT
66 TGGGACATGGCATCAGCATAGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGCATCGACCT
*
13602604 CGACGATGATA
131 CGACAATGATA
* * * *
13602615 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCTA-A-GA-GTTGTGCTAGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGTGCCAGTGTAAGACCATGT
* * * *
13602676 TTGGGACAT-GCATCAGCACGTATATACGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATC
65 CTGGGACATGGCATCAGCA--TAGAGACGAGAGCCAGTATAAGA-CATGTCTAGGACAT-GCATC
*
13602740 GGCCTCGACAATGATA
126 GACCTCGACAATGATA
*
13602756 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
13602790 ACAACTTATC
Statistics
Matches: 150, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
137 8 0.05
138 14 0.09
139 31 0.21
140 14 0.09
141 65 0.43
142 12 0.08
143 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATAGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGCATCGACCT
CGACAATGATA
Found at i:13603684 original size:13 final size:13
Alignment explanation
Indices: 13603666--13603691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13603656 TGGTTGTATG
13603666 AAAGGACATGGGC
1 AAAGGACATGGGC
13603679 AAAGGACATGGGC
1 AAAGGACATGGGC
13603692 GTGTGTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.08
Consensus pattern (13 bp):
AAAGGACATGGGC
Found at i:13606600 original size:28 final size:28
Alignment explanation
Indices: 13606547--13606653 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
13606537 CACTTTGTGC
13606547 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
13606576 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
13606604 GATACTAGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
13606629 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
13606654 CTGGTGTGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.25
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 27 0.39
29 18 0.26
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:13606662 original size:25 final size:23
Alignment explanation
Indices: 13606551--13606665 Score: 113
Period size: 23 Copynumber: 4.5 Consensus size: 23
13606541 TTGTGCTATT
13606551 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-T-TA-TA
*
13606578 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---AT-T-ATA
*
13606608 CTAGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
13606631 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
13606654 CTGGTGTGTTTT
1 CTGGTGTGTTTT
13606666 AGTTGGACAT
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
23 37 0.47
24 1 0.01
25 2 0.03
28 17 0.22
29 14 0.18
30 5 0.06
31 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
CTGGTGTGTTTTGGAGGATTATA
Found at i:13606695 original size:23 final size:24
Alignment explanation
Indices: 13606605--13606695 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 24
13606595 GGATTATATG
* *
13606605 ATACTAGTGTGTTTTGGA-GGATT
1 ATACTGGTGTGTTTTGGATGGATC
*
13606628 ATACTGGTGTGTTTTGGA-GGATT
1 ATACTGGTGTGTTTTGGATGGATC
* *
13606651 ATACTGGTGTGTTTTAGTTGGA-C
1 ATACTGGTGTGTTTTGGATGGATC
**
13606674 ATTTTGGTGTGTTTTGGATGGA
1 ATACTGGTGTGTTTTGGATGGA
13606696 ATCCATGTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
23 56 0.95
24 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (24 bp):
ATACTGGTGTGTTTTGGATGGATC
Found at i:13606896 original size:22 final size:23
Alignment explanation
Indices: 13606859--13606903 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
13606849 GCTTTACTGA
13606859 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
13606882 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
13606904 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:13616714 original size:22 final size:22
Alignment explanation
Indices: 13616688--13616773 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
13616678 AATGGGGTAG
*
13616688 GATATGCTCTGATATTTTATAT
1 GATATGCTCTGATATATTATAT
* *
13616710 GATATGCT-TCGATATGTTATAC
1 GATATGCTCT-GATATATTATAT
* *
13616732 AATATGCTCCGATATATTATAT
1 GATATGCTCTGATATATTATAT
13616754 GATATGCTCTGATATATTAT
1 GATATGCTCTGATATATTAT
13616774 GATACAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.98
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
GATATGCTCTGATATATTATAT
Found at i:13616768 original size:44 final size:44
Alignment explanation
Indices: 13616689--13616773 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
13616679 ATGGGGTAGG
* * *
13616689 ATATGCTCTGATATTTTATATGATATGCTTCGATATGTTATACA
1 ATATGCTCCGATATATTATATGATATGCTTCGATATATTATACA
13616733 ATATGCTCCGATATATTATATGATATGC-TCTGATATATTAT
1 ATATGCTCCGATATATTATATGATATGCTTC-GATATATTAT
13616774 GATACAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (44 bp):
ATATGCTCCGATATATTATATGATATGCTTCGATATATTATACA
Found at i:13618176 original size:46 final size:45
Alignment explanation
Indices: 13618119--13618209 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
13618109 TGGGTGATAA
13618119 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAAGTTGATAGTGAG
1 TGATAGTGATAGTGAACTTTGTAACAGG-AAAAAGTTGATAGTGAG
13618165 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
1 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
13618210 AATTATTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 17 0.38
46 28 0.62
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (45 bp):
TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
Found at i:13621875 original size:18 final size:17
Alignment explanation
Indices: 13621796--13621875 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
13621786 GAAGGCGTAT
*
13621796 GTGAGGAAGAAGATGCG
1 GTGAGGAAGAAGATGCA
*
13621813 GCTGAGGAAGAAGATACA
1 G-TGAGGAAGAAGATGCA
*
13621831 G-GTAAGAAGTAAGATGCA
1 GTG-AGGAAG-AAGATGCA
*
13621849 GTCGTGGAAGAAGATGCA
1 GT-GAGGAAGAAGATGCA
13621867 GATGAGGAA
1 G-TGAGGAA
13621876 CAAGGGACAG
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.02
17 6 0.12
18 37 0.74
19 5 0.10
20 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.39, T:0.14
Consensus pattern (17 bp):
GTGAGGAAGAAGATGCA
Found at i:13623168 original size:12 final size:13
Alignment explanation
Indices: 13623151--13623188 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13623141 ATCCTGGAAT
13623151 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
13623163 ATTAAGAACACATA
1 ATTAAGAACA-AGA
13623177 ATTAAGAACAAG
1 ATTAAGAACAAG
13623189 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:13631317 original size:40 final size:40
Alignment explanation
Indices: 13631262--13631491 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
13631252 AATGATAACG
*
13631262 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
13631302 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
13631342 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
13631382 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCC
* *
13631422 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-CTATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCC
*
13631462 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13631492 AGCTATATCC
Statistics
Matches: 178, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.02
40 172 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:13640668 original size:46 final size:45
Alignment explanation
Indices: 13640592--13640686 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 45
13640582 GATCTTATTT
* * *
13640592 ATTTTCGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTC
1 ATTTTCGACATGATGCCATAGTATCATTCAACCATGGTCTTACTC
* * * *
13640637 ATTTTCTGTCATGTTGCCATGGTATCATTCAACCATGGTCTTATTC
1 ATTTTC-GACATGATGCCATAGTATCATTCAACCATGGTCTTACTC
13640683 ATTT
1 ATTT
13640687 CCCCGTTATC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 6 0.14
46 36 0.86
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (45 bp):
ATTTTCGACATGATGCCATAGTATCATTCAACCATGGTCTTACTC
Found at i:13640745 original size:46 final size:46
Alignment explanation
Indices: 13640693--13640854 Score: 306
Period size: 46 Copynumber: 3.5 Consensus size: 46
13640683 ATTTCCCCGT
13640693 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
*
13640739 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCTTGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
*
13640785 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
13640831 TATCTTTCAACCATGGTCTTACAC
1 TATCTTTCAACCATGGTCTTACAC
13640855 ATTTTCTATC
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
Found at i:13643031 original size:11 final size:11
Alignment explanation
Indices: 13643015--13643066 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
13643005 TATACTAAAT
13643015 AAATAATAATA
1 AAATAATAATA
*
13643026 AAATAAT-ATT
1 AAATAATAATA
* *
13643036 AAATATCTCATA
1 AAATA-ATAATA
*
13643048 AAATATTAATA
1 AAATAATAATA
13643059 AAATAATA
1 AAATAATA
13643067 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:13658172 original size:17 final size:19
Alignment explanation
Indices: 13658142--13658179 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13658132 TTTATAATGA
*
13658142 AAAAGAAT-ATTTTAATTT
1 AAAAGAATAATTTAAATTT
13658160 AAAA-AATAATTTAAATTT
1 AAAAGAATAATTTAAATTT
13658178 AA
1 AA
13658180 CATAATCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAAGAATAATTTAAATTT
Found at i:13659936 original size:6 final size:6
Alignment explanation
Indices: 13659922--13660010 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
13659912 TTCCATTTTC
* * * *
13659922 TCTTAT TCTTTT TCTCCT -CTTCT TCTT-T TCTTTT TCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * *
13659968 TCTTC- TCTAT-T TCTTC- TCTTAT TCTTTT TATTC- TCTTCT TCTT
1 TCTTCT TCT-TCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTT
13660011 TTACTGCCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
5 21 0.32
6 45 0.68
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTCT
Found at i:13659947 original size:3 final size:3
Alignment explanation
Indices: 13659939--13660010 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
13659929 CTTTTTCTCC
*
13659939 TCT TCT TCT T-T TCT TTT TCT TCT TCT TCT TCT TC- TCT AT-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT
* * *
13659982 TC- TCT TAT TCT TTT TAT TC- TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
13660011 TTACTGCCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 9 0.16
3 46 0.82
4 1 0.02
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:13659947 original size:17 final size:16
Alignment explanation
Indices: 13659920--13660012 Score: 77
Period size: 17 Copynumber: 5.9 Consensus size: 16
13659910 CCTTCCATTT
*
13659920 TCTCTTATTCTTTTTC
1 TCTCTTCTTCTTTTTC
13659936 TCCTCTTCTTC-TTTTC
1 T-CTCTTCTTCTTTTTC
* *
13659952 T-TTTTCTTCTTCTTC
1 TCTCTTCTTCTTTTTC
*
13659967 T-TCTTC-TCTATTTC
1 TCTCTTCTTCTTTTTC
* *
13659981 TTCTCTTATTCTTTTTAT
1 -TCTCTTCTTCTTTTT-C
13659999 TCTCTTCTTCTTTT
1 TCTCTTCTTCTTTT
13660013 ACTGCCCAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
14 13 0.21
15 10 0.16
16 11 0.18
17 27 0.44
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTCTTCTTCTTTTTC
Found at i:13659982 original size:34 final size:34
Alignment explanation
Indices: 13659917--13660006 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
13659907 GACCCTTCCA
* * *
13659917 TTTTCTCTTATTCTTTTTCTCCTCTTCTTCTTTTC
1 TTTT-TCTTATTCTTCTTCTTCTCTTCTTCTTCTC
*
13659952 TTTTTCTTCTTCTTCTTCTTCTCTAT-TTCTTCTC
1 TTTTTCTTATTCTTCTTCTTCTCT-TCTTCTTCTC
* * *
13659986 TTATTCTTTTTATTC-TCTTCT
1 TTTTTCTTATTCTTCTTCTTCT
13660007 TCTTTTACTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 6 0.13
34 36 0.77
35 5 0.11
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (34 bp):
TTTTTCTTATTCTTCTTCTTCTCTTCTTCTTCTC
Found at i:13664173 original size:40 final size:39
Alignment explanation
Indices: 13664077--13664227 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 39
13664067 TGGATGATAA
* * * *
13664077 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
13664116 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
13664156 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
13664196 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13664228 AGTTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 31 0.31
40 64 0.65
41 2 0.02
42 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:13672228 original size:40 final size:40
Alignment explanation
Indices: 13672137--13672327 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
13672127 TGGATGATAA
* * * *
13672137 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
13672176 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
13672216 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
13672256 CCGGGCTAAGTCCCGAAGGCAATTGTACGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
13672296 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13672328 AGTTATATCC
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 32 0.23
40 105 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:13674343 original size:25 final size:25
Alignment explanation
Indices: 13674315--13674373 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13674305 AATCGGAAGT
13674315 TCAAGAGAGCC-ATATCAGGAAGCTC
1 TCAA-AGAGCCTATATCAGGAAGCTC
*
13674340 TCAAAGAGCCTATATCAGGACGCTC
1 TCAAAGAGCCTATATCAGGAAGCTC
13674365 AT-AAAGAGC
1 -TCAAAGAGC
13674374 TGTGGTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 24 0.77
26 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (25 bp):
TCAAAGAGCCTATATCAGGAAGCTC
Found at i:13681272 original size:21 final size:20
Alignment explanation
Indices: 13681233--13681302 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
13681223 GTATATACAT
13681233 ATTA-AAAAA-ATAT-AAAA
1 ATTAGAAAAATATATAAAAA
13681250 ATGTA-AATAAATATATAAAAA
1 AT-TAGAA-AAATATATAAAAA
*
13681271 ATTCAGAAAAATATATATAAA
1 ATT-AGAAAAATATATAAAAA
13681292 ATCTAGAAAAA
1 AT-TAGAAAAA
13681303 AAATATAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
17 2 0.04
18 4 0.09
19 3 0.07
20 5 0.11
21 28 0.62
22 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
ATTAGAAAAATATATAAAAA
Found at i:13681308 original size:20 final size:20
Alignment explanation
Indices: 13681236--13681311 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 20
13681226 TATACATATT
13681236 AAAA-AAATATAAAAATGTA-A
1 AAAATAAATAT-AAAAT-TAGA
* *
13681256 ATAAATATATAAAAAATTCAGA
1 A-AAATAAATATAAAATT-AGA
*
13681278 AAAATATATATAAAATCTAGA
1 AAAATAAATATAAAAT-TAGA
13681299 AAAA-AAATATAAA
1 AAAATAAATATAAA
13681312 TTTTGAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 10 0.21
21 30 0.64
22 7 0.15
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAATAAATATAAAATTAGA
Found at i:13681442 original size:25 final size:27
Alignment explanation
Indices: 13681405--13681457 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
13681395 AAAAAATGTA
13681405 AAAAAATTGT-AAAA-AAAATATTTTT
1 AAAAAATTGTAAAAATAAAATATTTTT
*
13681430 AAAAAATTTTAAAAATAAAATATTTTT
1 AAAAAATTGTAAAAATAAAATATTTTT
13681457 A
1 A
13681458 TAAATTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AAAAAATTGTAAAAATAAAATATTTTT
Found at i:13681462 original size:26 final size:26
Alignment explanation
Indices: 13681405--13681469 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
13681395 AAAAAATGTA
*
13681405 AAAAAATTGT-AAAAAAAATATTTTT
1 AAAAAATTCTAAAAAAAAATATTTTT
*
13681430 AAAAAATTTTAAAAATAAAATATTTTT
1 AAAAAATTCTAAAAA-AAAATATTTTT
*
13681457 -ATAAATTCTAAAA
1 AAAAAATTCTAAAA
13681470 CATACAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.26
26 15 0.43
27 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAAATTCTAAAAAAAAATATTTTT
Found at i:13685863 original size:16 final size:16
Alignment explanation
Indices: 13685842--13685878 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
13685832 TGAATCCTTG
13685842 AAATCTTAAAATCCCC
1 AAATCTTAAAATCCCC
* *
13685858 AAATCTTGAAATCCCT
1 AAATCTTAAAATCCCC
13685874 AAATC
1 AAATC
13685879 GTTAGCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATCTTAAAATCCCC
Found at i:13686995 original size:26 final size:26
Alignment explanation
Indices: 13686959--13687012 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
13686949 TTGCCGATGA
*
13686959 ATATGCTGGTGATTTCGTAACATCAG
1 ATATGCTGGTGATTTCGCAACATCAG
*
13686985 ATATGCTGGTGATTTTGCAACATCAG
1 ATATGCTGGTGATTTCGCAACATCAG
13687011 AT
1 AT
13687013 GGAGTGGATA
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:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATGCTGGTGATTTCGCAACATCAG
Found at i:13690439 original size:16 final size:16
Alignment explanation
Indices: 13690385--13690440 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
13690375 AATGTTATGG
* *
13690385 ATTTGGGGATTTCACA
1 ATTTGGGAATTTCAGA
*
13690401 ATTTAGGGAATTTGATGA
1 ATTT-GGGAATTTCA-GA
*
13690419 A-TTGGGAATTTTAGA
1 ATTTGGGAATTTCAGA
13690434 ATTTGGG
1 ATTTGGG
13690441 GAAAGTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.09
16 18 0.55
17 10 0.30
18 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (16 bp):
ATTTGGGAATTTCAGA
Found at i:13696004 original size:19 final size:19
Alignment explanation
Indices: 13695980--13696018 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13695970 AAATTAGTAG
13695980 TATATGTCAATTTTTTTAA
1 TATATGTCAATTTTTTTAA
*
13695999 TATATGTCGATTTTTTTAA
1 TATATGTCAATTTTTTTAA
13696018 T
1 T
13696019 TGGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (19 bp):
TATATGTCAATTTTTTTAA
Found at i:13704763 original size:23 final size:23
Alignment explanation
Indices: 13704733--13704787 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
13704723 CCACTGTGTC
13704733 TGATGAGAAAAGGGTTCGCGGAT
1 TGATGAGAAAAGGGTTCGCGGAT
13704756 TGATGAGAAAAGGGTTCGCGGAT
1 TGATGAGAAAAGGGTTCGCGGAT
* *
13704779 GGATAAGAA
1 TGATGAGAA
13704788 TTCCATCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.38, T:0.20
Consensus pattern (23 bp):
TGATGAGAAAAGGGTTCGCGGAT
Found at i:13706891 original size:26 final size:24
Alignment explanation
Indices: 13706861--13706908 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
13706851 AATAAAAAAA
13706861 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAATATAA-AAA-CAAATATAT
13706887 TTAAAAATATAAAAACAAATAT
1 TTAAAAATATAAAAACAAATAT
13706909 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TTAAAAATATAAAAACAAATATAT
Found at i:13706906 original size:12 final size:12
Alignment explanation
Indices: 13706891--13706923 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13706881 ATATATTTAA
13706891 AAATATAAAAAC
1 AAATATAAAAAC
*
13706903 AAATATTAAAAC
1 AAATATAAAAAC
13706915 AAATA-AAAA
1 AAATATAAAA
13706924 TAATACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATATAAAAAC
Found at i:13706918 original size:24 final size:25
Alignment explanation
Indices: 13706863--13706924 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
13706853 TAAAAAAATT
**
13706863 AAAAATATAATAAATCAAATATATTT
1 AAAAATATAA-AAATCAAATATATAA
13706889 AAAAATATAAAAA-CAAATAT-TAA
1 AAAAATATAAAAATCAAATATATAA
*
13706912 AACAA-ATAAAAAT
1 AAAAATATAAAAAT
13706925 AATACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 7 0.22
25 3 0.09
26 10 0.31
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAATATAAAAATCAAATATATAA
Found at i:13706928 original size:21 final size:21
Alignment explanation
Indices: 13706879--13706937 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
13706869 ATAATAAATC
*
13706879 AAAT-ATATTTAAAA-ATATAA
1 AAATAATA-TTAAAACAAATAA
*
13706899 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
13706921 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
13706938 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:13707014 original size:15 final size:16
Alignment explanation
Indices: 13706984--13707016 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13706974 AAATGGTTAT
13706984 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
13707001 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
13707016 A
1 A
13707017 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:13708323 original size:20 final size:21
Alignment explanation
Indices: 13708285--13708325 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13708275 AAATAGTATC
*
13708285 TAAATATTAATTAAATAAAAT
1 TAAATATTAAATAAATAAAAT
*
13708306 TAAA-ATTAAATAATTAAAAT
1 TAAATATTAAATAAATAAAAT
13708326 ATCTCATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATATTAAATAAATAAAAT
Found at i:13710779 original size:42 final size:42
Alignment explanation
Indices: 13710715--13710894 Score: 157
Period size: 45 Copynumber: 4.2 Consensus size: 42
13710705 TACTGAATTA
* * * *
13710715 GTTGTTTTGAATTGATTTTTTTCTTCTTTGAATAGATTGTTT
1 GTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTGTTT
* *
13710757 GTTGTTTTAAATTAATTCTTTTCTTTTTTGAATTGATTCATTGTT
1 GTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATT--GT-TT
* * *
13710802 GTTGTTTTAAACTT-ATTATTTTCTTTTTTGAATCGATTCATGATT
1 GTTGTTTTAAA-TTGATTCTTTTCTTTTTTGAATTGA-T--TGTTT
* * * * *
13710847 ATTGTTTTAAATTGATTC-ATTATTGTTTGAATTGATTCTTT
1 GTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTGTTT
13710888 GTTGTTT
1 GTTGTTT
13710895 AACTCAATTC
Statistics
Matches: 111, Mismatches: 19, Indels: 17
0.76 0.13 0.12
Matches are distributed among these distances:
41 9 0.08
42 33 0.30
43 1 0.01
44 16 0.14
45 48 0.43
46 3 0.03
48 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.13, T:0.61
Consensus pattern (42 bp):
GTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTGTTT
Found at i:13710795 original size:21 final size:21
Alignment explanation
Indices: 13710719--13710887 Score: 92
Period size: 21 Copynumber: 7.8 Consensus size: 21
13710709 GAATTAGTTG
*
13710719 TTTTGAATTGATTTTTTTCTT
1 TTTTGAATTGATTCTTTTCTT
* * * *
13710740 CTTTGAATAGATTGTTTGT-TG
1 TTTTGAATTGATTCTTT-TCTT
* *
13710761 TTTTAAATTAATTCTTTTCTT
1 TTTTGAATTGATTCTTTTCTT
*
13710782 TTTTGAATTGATTCATTGTTGTT
1 TTTTGAATTGATTC-TT-TTCTT
* *
13710805 GTTTTAAACTT-ATTATTTTCTT
1 -TTTTGAA-TTGATTCTTTTCTT
* * *
13710827 TTTTGAATCGATTCATGATTATT
1 TTTTGAATTGATTC-T-TTTCTT
* * *
13710850 GTTTTAAATTGATTC-ATTATT
1 -TTTTGAATTGATTCTTTTCTT
*
13710871 GTTTGAATTGATTCTTT
1 TTTTGAATTGATTCTTT
13710888 GTTGTTTAAC
Statistics
Matches: 111, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
20 14 0.13
21 56 0.50
22 8 0.07
23 10 0.09
24 21 0.19
25 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTGAATTGATTCTTTTCTT
Found at i:13710881 original size:20 final size:20
Alignment explanation
Indices: 13710844--13710896 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13710834 TCGATTCATG
13710844 ATTATTGTTTTAAATTGATTC
1 ATTATTG-TTTAAATTGATTC
*
13710865 ATTATTGTTTGAATTGATTC
1 ATTATTGTTTAAATTGATTC
* *
13710885 TTTGTTGTTTAA
1 ATTATTGTTTAA
13710897 CTCAATTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (20 bp):
ATTATTGTTTAAATTGATTC
Found at i:13712516 original size:25 final size:25
Alignment explanation
Indices: 13712486--13712535 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13712476 ATGCTTTATT
13712486 TCTTTACAATAAAATTATATTTTTA
1 TCTTTACAATAAAATTATATTTTTA
13712511 TCTTTACAATAAAATTATATTTTTA
1 TCTTTACAATAAAATTATATTTTTA
13712536 CATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (25 bp):
TCTTTACAATAAAATTATATTTTTA
Found at i:13715553 original size:35 final size:35
Alignment explanation
Indices: 13715499--13715565 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
13715489 ACTTTGGTGT
*
13715499 TGTTAATATAGGCTCAAATATTCGGTCTTAGATAC
1 TGTTAATAAAGGCTCAAATATTCGGTCTTAGATAC
* * *
13715534 TGTTAATAAAGGTTGAAATATTGGGTCTTAGA
1 TGTTAATAAAGGCTCAAATATTCGGTCTTAGA
13715566 GTATCTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (35 bp):
TGTTAATAAAGGCTCAAATATTCGGTCTTAGATAC
Found at i:13720636 original size:65 final size:67
Alignment explanation
Indices: 13720547--13720688 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 67
13720537 TTTTTTAAGG
* *
13720547 AAAAAATTAATTAAATTAGGGTTTAGGG-T-TT-TTAAGGTTTATTAATTAAATTAACTATTAAT
1 AAAAAATAAATTAAATTAGGGTTTAGGGATGTTATTAAGGTTAATTAATTAAATTAACTATTAAT
13720609 TT
66 TT
* *
13720611 AAAAGAATAAATTAAATTAGTGTTTAGGGTATAGGGTTATTAGGGTTAATTAATTAAATTAACTA
1 AAAA-AATAAATTAAATTAGGGTTTAGGG-AT---GTTATTAAGGTTAATTAATTAAATTAACTA
13720676 TTAATTT
61 TTAATTT
13720683 AAAAAA
1 AAAAAA
13720689 ATCAATATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
64 4 0.06
65 22 0.33
67 1 0.02
71 4 0.06
72 35 0.53
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (67 bp):
AAAAAATAAATTAAATTAGGGTTTAGGGATGTTATTAAGGTTAATTAATTAAATTAACTATTAAT
TT
Found at i:13720938 original size:126 final size:127
Alignment explanation
Indices: 13720713--13720980 Score: 362
Period size: 126 Copynumber: 2.1 Consensus size: 127
13720703 TTTTTATTTT
* * * *
13720713 TTTTGCTGCAGTAGTATTAGAGAAAATAATTTTGAGAAGACGTTCCTGAACAAATAGTGTCAAAA
1 TTTTGCTACAGTAGTATTAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAAA
* * *
13720778 ACGCTTCAAGCAGGATGCACTGTCAGCTAAATTACGG-AAAAAAGCTCTCAT-GTGGAAGCTC
66 ACGCTTCAAGCAGGATACACTGTCAGCAAAATTACGGAAAAAAATCTC-CATCGTGGAAGCTC
* * * *
13720839 TTTTGCTACAGTAGTATCT-GAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATATTATCCAT
1 TTTTGCTACAGTAGTAT-TAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAA
* * * *
13720903 AACGCTTCAAGCAGGATACATTGTCAGGAAAATTACGGAAAAAAATCTCCCTCGTGGACGCTC
65 AACGCTTCAAGCAGGATACACTGTCAGCAAAATTACGGAAAAAAATCTCCATCGTGGAAGCTC
13720966 TTTTGCTACAGTAGT
1 TTTTGCTACAGTAGT
13720981 TACTATTTGG
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
126 90 0.73
127 34 0.27
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (127 bp):
TTTTGCTACAGTAGTATTAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAAA
ACGCTTCAAGCAGGATACACTGTCAGCAAAATTACGGAAAAAAATCTCCATCGTGGAAGCTC
Found at i:13724044 original size:9 final size:9
Alignment explanation
Indices: 13724014--13724045 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13724004 ATTTATATTT
13724014 TATTAAAAA
1 TATTAAAAA
*
13724023 TATAAAAAA
1 TATTAAAAA
13724032 TATTAAAAA
1 TATTAAAAA
13724041 TATTA
1 TATTA
13724046 TCGTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:13724080 original size:39 final size:39
Alignment explanation
Indices: 13724036--13724116 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
13724026 AAAAAATATT
* *
13724036 AAAAATATTATCGT-ATTCAAAATAACATTTATTTTAATA
1 AAAAATATTAGC-TAATTCAAAAGAACATTTATTTTAATA
* * *
13724075 AAAAATATTGGCTAATTTAAAAGAACATTTATTTTATTA
1 AAAAATATTAGCTAATTCAAAAGAACATTTATTTTAATA
13724114 AAA
1 AAA
13724117 TTATAAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (39 bp):
AAAAATATTAGCTAATTCAAAAGAACATTTATTTTAATA
Found at i:13724762 original size:30 final size:30
Alignment explanation
Indices: 13724722--13724813 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
13724712 GAAGTGTTGA
13724722 GCCCGATGACTGTGTGGGCACTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
* * *
13724752 GCCCGGTGACTGTGTGAGCGCTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
* *
13724782 GCCTGATGACTGTGTGGCCACTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
13724812 GC
1 GC
13724814 TCACATCATC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.12, C:0.21, G:0.40, T:0.27
Consensus pattern (30 bp):
GCCCGATGACTGTGTGGGCACTGTTGATGG
Found at i:13726559 original size:11 final size:11
Alignment explanation
Indices: 13726511--13726553 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
13726501 TGACAAAAAC
13726511 TTAGAGA-AAT
1 TTAGAGAGAAT
13726521 TT-GAGAGAAT
1 TTAGAGAGAAT
* *
13726531 TTGGAGAGGAT
1 TTAGAGAGAAT
13726542 TTAGAGAGAAT
1 TTAGAGAGAAT
13726553 T
1 T
13726554 GTGAGATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 4 0.14
10 7 0.25
11 17 0.61
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (11 bp):
TTAGAGAGAAT
Found at i:13727058 original size:17 final size:17
Alignment explanation
Indices: 13727036--13727068 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13727026 TTAATTTAAA
13727036 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
*
13727053 TAAATTATTTTCTCAA
1 TAAATTAATTTCTCAA
13727069 CCCAATTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:13736689 original size:47 final size:46
Alignment explanation
Indices: 13736532--13736801 Score: 180
Period size: 47 Copynumber: 5.8 Consensus size: 46
13736522 GGAATAAATT
* * * * *
13736532 GTCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATAT-AC
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTGAG
* * * *
13736580 GTGCTGATGCATGTCCCAGACATGTCTTACAGTAGCACAACTCT-T-A-
1 GT-C-GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGAG
* * *
13736626 GCCGATGCTTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT-GAG
* *
13736673 GTCGATGCATGTCCCAGACATGTCTTACTCTGGC-A-CTCATAAT-ATG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTC-T-GTGA-G
* * ** *
13736719 G-CTGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GAT
1 GTC-GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTGAG
13736765 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
13736802 CACAAATCAC
Statistics
Matches: 176, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
43 5 0.03
44 28 0.16
45 6 0.03
46 38 0.22
47 49 0.28
48 28 0.16
49 18 0.10
50 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGAG
Found at i:13737558 original size:18 final size:17
Alignment explanation
Indices: 13737528--13737562 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13737518 GAGAAAGGAG
*
13737528 TTTTAGCTCAAAAATCT
1 TTTTAGCTAAAAAATCT
13737545 TTTTCAGCTAAAAAATCT
1 TTTT-AGCTAAAAAATCT
13737563 GACTTAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
TTTTAGCTAAAAAATCT
Found at i:13738799 original size:16 final size:16
Alignment explanation
Indices: 13738778--13738809 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13738768 AGTTAATTAA
13738778 ATTAGTTAATTTTAGT
1 ATTAGTTAATTTTAGT
13738794 ATTAGTTAATTTTAGT
1 ATTAGTTAATTTTAGT
13738810 TTCAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTAGTTAATTTTAGT
Found at i:13748128 original size:12 final size:12
Alignment explanation
Indices: 13748111--13748135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13748101 TAAAAATGTA
13748111 AAAATCATCAAG
1 AAAATCATCAAG
13748123 AAAATCATCAAG
1 AAAATCATCAAG
13748135 A
1 A
13748136 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:13753627 original size:27 final size:27
Alignment explanation
Indices: 13753597--13753650 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
13753587 GAATATCTCA
*
13753597 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGCTATTTCG
13753624 GTAATTCTACCCTACAGGGCTATTTCG
1 GTAATTCTACCCTACAGGGCTATTTCG
13753651 ATATTTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGCTATTTCG
Found at i:13753820 original size:27 final size:27
Alignment explanation
Indices: 13753679--13753819 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
13753669 GTATTTTAAA
* *
13753679 AATTTCACAAATCAAGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTGGT
* *
13753706 AATTTTACAAGCCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTGGT
*
13753733 AATTTTACAAACCAAGGGTATTTTAGT
1 AATTTTACAAACCAAGGGTATTTTGGT
*
13753760 AATTTTACAAACCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTGGT
** * *
13753787 AATTTTGTAAACTAAGGGTATTTTAGT
1 AATTTTACAAACCAAGGGTATTTTGGT
13753814 AATTTT
1 AATTTT
13753820 GGAAATTGAG
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AATTTTACAAACCAAGGGTATTTTGGT
Found at i:13753832 original size:81 final size:81
Alignment explanation
Indices: 13753653--13753833 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
13753643 CTATTTCGAT
* * *
13753653 ATTTTACAAATCGAGAGTATTTTAAAAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAGC
1 ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAC
* *
13753718 CAGGGGTATTTTGGTA
66 CAAGGGTATTTTAGTA
* * ** * * **
13753734 ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
1 ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAC
*
13753799 TAAGGGTATTTTAGTA
66 CAAGGGTATTTTAGTA
** *
13753815 ATTTTGGAAATTGAGGGTA
1 ATTTTACAAATCGAGGGTA
13753834 AAACGGTAAT
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (81 bp):
ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAC
CAAGGGTATTTTAGTA
Found at i:13753833 original size:54 final size:54
Alignment explanation
Indices: 13753679--13753819 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
13753669 GTATTTTAAA
* * * *
13753679 AATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
13753733 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
** *
13753787 AATTTTGTAAACTAAGGGTATTTTAGTAATTTT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTT
13753820 GGAAATTGAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
Found at i:13753842 original size:27 final size:27
Alignment explanation
Indices: 13753822--13753898 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
13753812 GTAATTTTGG
*
13753822 AAATTGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
13753849 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* *
13753876 AAATCAAGGGTAAAACAGTAATT
1 AAATCGAGGGTAAAACGGTAATT
13753899 TTACAAGTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAT
Found at i:13768851 original size:9 final size:10
Alignment explanation
Indices: 13768831--13768870 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
13768821 ATTGCTTGTT
13768831 TGAATAGAAA
1 TGAATAGAAA
13768841 TGAAT-GAAA
1 TGAATAGAAA
13768850 TGAATAGAAA
1 TGAATAGAAA
13768860 --AATAGAAA
1 TGAATAGAAA
13768868 TGA
1 TGA
13768871 GAAACATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.30
9 9 0.33
10 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:13768995 original size:46 final size:46
Alignment explanation
Indices: 13768943--13769037 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
13768933 ATATAGGTTT
*
13768943 CTAAAAGTAGAAATGAAAATAAAAATGAAAATAGAAATTTGCAATC
1 CTAAAAGTAGAAATGAAAATAAAAAAGAAAATAGAAATTTGCAATC
13768989 CTAAAAGTAGAAATGAAAATAAAAAAGAAAATAGAAATTTGCAATC
1 CTAAAAGTAGAAATGAAAATAAAAAAGAAAATAGAAATTTGCAATC
13769035 CTA
1 CTA
13769038 TATAGGATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.59, C:0.07, G:0.13, T:0.21
Consensus pattern (46 bp):
CTAAAAGTAGAAATGAAAATAAAAAAGAAAATAGAAATTTGCAATC
Found at i:13769213 original size:26 final size:26
Alignment explanation
Indices: 13769169--13769240 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
13769159 AATTTTCTCG
*
13769169 AAATTTTACTCGGGGTAAAATCATTA
1 AAATTTTACTCGGGGTAAAATCATCA
*
13769195 AAATTTTA-TCGGGGTTAAAATCGTCA
1 AAATTTTACTCGGGG-TAAAATCATCA
*
13769221 AAATTTTACT-GGAGTAAAAT
1 AAATTTTACTCGGGGTAAAAT
13769241 TGGGATGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.29
26 28 0.68
27 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATTTTACTCGGGGTAAAATCATCA
Found at i:13784869 original size:21 final size:21
Alignment explanation
Indices: 13784843--13784884 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13784833 CTTTTAGACT
13784843 TAATTAATTACTTGTACTTAA
1 TAATTAATTACTTGTACTTAA
13784864 TAATTAATTACTTGTACTTAA
1 TAATTAATTACTTGTACTTAA
13784885 GTAAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (21 bp):
TAATTAATTACTTGTACTTAA
Found at i:13790037 original size:11 final size:12
Alignment explanation
Indices: 13790007--13790039 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13789997 GTCACAAGTG
13790007 AATTAATTCAGA
1 AATTAATTCAGA
*
13790019 AATGAATTCA-A
1 AATTAATTCAGA
13790030 AATTAATTCA
1 AATTAATTCA
13790040 CTTGGGTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (12 bp):
AATTAATTCAGA
Found at i:13793032 original size:48 final size:48
Alignment explanation
Indices: 13792975--13793205 Score: 208
Period size: 48 Copynumber: 4.9 Consensus size: 48
13792965 CACATGATAG
* * * *
13792975 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* ** *
13793023 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* * *
13793071 GATGCCAATGCTATATCTCAGACATGGTCTTACATAAGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* * * *
13793119 GATGCC---G--ATAACCCAG-CTATGGTCTTACA-CGAAATTACATATC
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATAG-GATCACATATC
* * * *
13793162 GATGCCATAT-TCATGTCCCAGACATGGTCTTAAATGGGATCACA
1 GATGCCA-ATGCCATATCCCAGACATGGTCTTACATAGGATCACA
13793206 CATGACCCTA
Statistics
Matches: 146, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.23
45 1 0.01
48 109 0.75
49 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
Done.