Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 165 of 199
Found at i:53844762 original size:9 final size:9
Alignment explanation
Indices: 53844678--53844770 Score: 61
Period size: 9 Copynumber: 10.3 Consensus size: 9
53844668 ATTTTAAAAT
53844678 TTTAATATA
1 TTTAATATA
* *
53844687 -TTAAAATT
1 TTTAATATA
53844695 TTTAATATA
1 TTTAATATA
*
53844704 TTCAATATA
1 TTTAATATA
53844713 TTTTTTAAATATA
1 ---TTT-AATATA
*
53844726 TTGAA-AT-
1 TTTAATATA
53844733 TTTAA-ATA
1 TTTAATATA
*
53844741 TATTAAAAT-
1 T-TTAATATA
53844750 TTTAATATA
1 TTTAATATA
53844759 TTTAATATA
1 TTTAATATA
53844768 TTT
1 TTT
53844771 TTAATAGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
7 6 0.09
8 15 0.23
9 33 0.50
10 4 0.06
12 2 0.03
13 6 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (9 bp):
TTTAATATA
Found at i:53844773 original size:11 final size:10
Alignment explanation
Indices: 53844668--53844776 Score: 55
Period size: 9 Copynumber: 11.9 Consensus size: 10
53844658 AGTATAACCA
53844668 ATTTTAA-A-
1 ATTTTAATAT
53844676 ATTTTAATAT
1 ATTTTAATAT
*
53844686 A--TTAAAAT
1 ATTTTAATAT
53844694 -TTTTAATAT
1 ATTTTAATAT
*
53844703 A-TTCAATAT
1 ATTTTAATAT
53844712 ATTTTTTAA-AT
1 A--TTTTAATAT
* *
53844723 ATATTGA-A-
1 ATTTTAATAT
53844731 ATTTTAA-AT
1 ATTTTAATAT
*
53844740 ATATTAA-A-
1 ATTTTAATAT
53844748 ATTTTAATAT
1 ATTTTAATAT
53844758 A-TTTAATAT
1 ATTTTAATAT
53844767 ATTTTTAATA
1 A-TTTTAATA
53844777 GGTAAAGAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
8 25 0.32
9 37 0.47
10 2 0.03
11 10 0.13
12 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:53844818 original size:17 final size:16
Alignment explanation
Indices: 53844796--53844858 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
53844786 AAAAAATAAT
53844796 TTTTAATATATTTAAAA
1 TTTTAA-ATATTTAAAA
*
53844813 TTTTAAAAATTTTAAAAAA
1 TTTTAAATA-TTT--AAAA
*
53844832 TGTTAAATATATTAAAA
1 TTTTAAATAT-TTAAAA
53844849 TTTTAAATAT
1 TTTTAAATAT
53844859 GCTAAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 2 0.05
17 22 0.58
18 1 0.03
19 13 0.34
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTTTAAATATTTAAAA
Found at i:53844821 original size:9 final size:9
Alignment explanation
Indices: 53844809--53844855 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
53844799 TAATATATTT
53844809 AAAATTTTA
1 AAAATTTTA
53844818 AAAATTTTAA
1 AAAATTTT-A
*
53844828 AAAATGTTA
1 AAAATTTTA
* *
53844837 AATATATT-
1 AAAATTTTA
53844845 AAAATTTTA
1 AAAATTTTA
53844854 AA
1 AA
53844856 TATGCTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
10 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:53844837 original size:19 final size:19
Alignment explanation
Indices: 53844809--53844848 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53844799 TAATATATTT
* *
53844809 AAAATTTTAAAAATTTTAA
1 AAAATGTTAAAAATATTAA
*
53844828 AAAATGTTAAATATATTAA
1 AAAATGTTAAAAATATTAA
53844847 AA
1 AA
53844849 TTTTAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATGTTAAAAATATTAA
Found at i:53865621 original size:54 final size:54
Alignment explanation
Indices: 53865528--53865787 Score: 206
Period size: 54 Copynumber: 4.8 Consensus size: 54
53865518 AGTCCACCTC
* * * * *
53865528 CTAACAACATGGGAGGAATGCCT--TAC-AACAATAGGGGAGGTATGCCAGCCAA
1 CTAACAATAGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCC-GCCAA
* **
53865580 C-AAC-ATGGGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCCTC
1 CTAACAAT-AGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCCAA
* * * **
53865633 CTAACAATATGGGAGGAATGCCGCCTCCTAACAGTATGGGAGGAATGCCGCCTC
1 CTAACAATAGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCCAA
* * * * ** * **
53865687 CTAACAGTATGGGAGGAATGCCACCGCGGAACAACATGGGAGGAGGAATGCCGCCTC
1 CTAACAATAGGGGAGGAATGCCTCCTCCTAACAATAT--G-GGAGGAATGCCGCCAA
* * * *
53865744 CTAACAATATGGGAGGAATGCCGCCTCCTGACAACATGGGAGGA
1 CTAACAATAGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGA
53865788 GGAATGCCGC
Statistics
Matches: 174, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 16 0.09
52 1 0.01
53 6 0.03
54 99 0.57
55 3 0.02
56 1 0.01
57 47 0.27
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (54 bp):
CTAACAATAGGGGAGGAATGCCTCCTCCTAACAATATGGGAGGAATGCCGCCAA
Found at i:53865755 original size:57 final size:57
Alignment explanation
Indices: 53865617--53865826 Score: 257
Period size: 57 Copynumber: 3.7 Consensus size: 57
53865607 TAACAATATG
* * * **
53865617 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCTCCTAACAGTAT--G-
1 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCGCCGAACAACATGGGA
* *
53865671 GGAGGAATGCCGCCTCCTAACAGTATGGGAGGAATGCCACCGCGGAACAACATGGGA
1 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCGCCGAACAACATGGGA
* *
53865728 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCGCCTCCTG-ACAACATGGGA
1 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCGCC-GAACAACATGGGA
* * * * *
53865785 GGAGGAATGCCGCCGCCGAACAACATGGGTGGGATGCCACCG
1 GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCG
53865827 GGACCACCGA
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
54 46 0.34
56 1 0.01
57 86 0.64
58 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.32, T:0.14
Consensus pattern (57 bp):
GGAGGAATGCCGCCTCCTAACAATATGGGAGGAATGCCACCGCCGAACAACATGGGA
Found at i:53865822 original size:27 final size:27
Alignment explanation
Indices: 53865589--53865787 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
53865579 ACAACATGGG
*
53865589 GGGAGGAATGCCTCCTCCTAACAATAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
53865616 GGGAGGAATGCCGCCTCCTAACAATAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
*
53865643 GGGAGGAATGCCGCCTCCTAACAGTAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
*
53865670 GGGAGGAATGCCGCCTCCTAACAGTAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
* * ** *
53865697 GGGAGGAATGCCACCGCGGAACAACAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
53865724 GGGAGGAGGAATGCCGCCTCCTAACAATAT
1 --G-GGAGGAATGCCGCCTCCTAACAATAT
* *
53865754 GGGAGGAATGCCGCCTCCTGACAACAT
1 GGGAGGAATGCCGCCTCCTAACAATAT
53865781 GGGAGGA
1 GGGAGGA
53865788 GGAATGCCGC
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 131 0.85
28 1 0.01
29 1 0.01
30 21 0.14
ACGTcount: A:0.29, C:0.25, G:0.30, T:0.16
Consensus pattern (27 bp):
GGGAGGAATGCCGCCTCCTAACAATAT
Found at i:53866570 original size:21 final size:20
Alignment explanation
Indices: 53866537--53866577 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
53866527 ACGTTTGGTT
*
53866537 AATTATGTTTATTTTTTTAA
1 AATTAAGTTTATTTTTTTAA
53866557 AATTAAGTGTTATTTTTTTAA
1 AATTAAGT-TTATTTTTTTAA
53866578 TTTCATGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
AATTAAGTTTATTTTTTTAA
Found at i:53866711 original size:65 final size:65
Alignment explanation
Indices: 53866642--53866846 Score: 161
Period size: 67 Copynumber: 3.1 Consensus size: 65
53866632 TATTTAAGTT
53866642 TACATCTCATAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGG
1 TACATCTCATAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGG
** * * ** * * * *
53866707 TACAT-T-ATAGATGTATTATTTATTTA-ATTTATTATTTTTTACATATACATC--TTATAGGGT
1 TACATCTCATA-A---AAAATAT-TTTACATATAAAATTTTATA-TTAT-CCTCAATTA-A--CT
* *
53866767 TATTTAA-GTT
56 TTTTTAATG-G
53866777 TACATCTCATAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGG
1 TACATCTCATAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGG
53866842 TACAT
1 TACAT
53866847 TATAGTTTGA
Statistics
Matches: 99, Mismatches: 24, Indels: 34
0.63 0.15 0.22
Matches are distributed among these distances:
63 3 0.03
64 2 0.02
65 17 0.17
66 4 0.04
67 26 0.26
68 26 0.26
69 4 0.04
70 12 0.12
71 2 0.02
72 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (65 bp):
TACATCTCATAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGG
Found at i:53866732 original size:135 final size:135
Alignment explanation
Indices: 53866586--53866851 Score: 523
Period size: 135 Copynumber: 2.0 Consensus size: 135
53866576 AATTTCATGG
*
53866586 ATTATTTATTTAATTTATTGTTTTTTACATATACATCTTATAGGGTTATTTAAGTTTACATCTCA
1 ATTATTTATTTAATTTATTATTTTTTACATATACATCTTATAGGGTTATTTAAGTTTACATCTCA
53866651 TAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGGTACATTATA
66 TAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGGTACATTATA
53866716 GATGT
131 GATGT
53866721 ATTATTTATTTAATTTATTATTTTTTACATATACATCTTATAGGGTTATTTAAGTTTACATCTCA
1 ATTATTTATTTAATTTATTATTTTTTACATATACATCTTATAGGGTTATTTAAGTTTACATCTCA
53866786 TAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGGTACATTATA
66 TAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGGTACATTATA
53866851 G
131 G
53866852 TTTGAAAAAG
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (135 bp):
ATTATTTATTTAATTTATTATTTTTTACATATACATCTTATAGGGTTATTTAAGTTTACATCTCA
TAAAAAATATTTTACATATAAAATTTTATATTATCCTCAATTAACTTTTTTAATGGTACATTATA
GATGT
Found at i:53867494 original size:22 final size:22
Alignment explanation
Indices: 53867469--53867516 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
53867459 TCAATTCCTT
* *
53867469 TCAATTTTCTTCCAAAATTTTC
1 TCAATTTCCTTCCAAAATTCTC
53867491 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCCAAAATTCTC
53867513 TCAA
1 TCAA
53867517 ATCCATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAATTTCCTTCCAAAATTCTC
Found at i:53871195 original size:124 final size:124
Alignment explanation
Indices: 53871035--53871260 Score: 398
Period size: 124 Copynumber: 1.8 Consensus size: 124
53871025 TCCAAACATG
* * *
53871035 CTACTGTAGCAAAAGTGCGTCCATAAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
53871100 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTCACATGGC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTCACATGGC
*
53871159 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
53871224 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
53871261 CTCGAAATTA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 96 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTCACATGGC
Found at i:53872102 original size:16 final size:16
Alignment explanation
Indices: 53872081--53872111 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53872071 TGATTTAATT
*
53872081 TATTTTTATTTTGTTC
1 TATTTTTAATTTGTTC
53872097 TATTTTTAATTTGTT
1 TATTTTTAATTTGTT
53872112 ATCGGATTCC
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:0.16, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TATTTTTAATTTGTTC
Found at i:53872352 original size:8 final size:9
Alignment explanation
Indices: 53872330--53872355 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
53872320 TTAATTTATA
53872330 TAAAAATTT
1 TAAAAATTT
53872339 TAAAAATTT
1 TAAAAATTT
53872348 TAAAAATT
1 TAAAAATT
53872356 CCAAAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:53873203 original size:24 final size:23
Alignment explanation
Indices: 53873159--53873203 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
53873149 CCTTTGTTTT
*
53873159 AATTTTTTTTAAAAATGAAATGA
1 AATTTTTTTTAAAAATAAAATGA
53873182 AATTGTTTTTTAGAAAA-AAAAT
1 AATT-TTTTTTA-AAAATAAAAT
53873204 TGTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
AATTTTTTTTAAAAATAAAATGA
Found at i:53873633 original size:3 final size:3
Alignment explanation
Indices: 53873576--53873618 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
53873566 AAATTAGTCC
* *
53873576 TTA TTA TTA TTA TTA TTA TTTA TTA ATA TT- TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
53873619 CGTCAGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:53873639 original size:24 final size:24
Alignment explanation
Indices: 53873610--53873666 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
53873600 AATATTTTTT
*
53873610 TATTATTATCGTCAGTGTTATTA-
1 TATTATTATCATCAGTGTTATTAC
* * *
53873633 TACTTATTCTCATTATTGTTATTAC
1 TA-TTATTATCATCAGTGTTATTAC
53873658 TATTATTAT
1 TATTATTAT
53873667 ATTTAGTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.07
24 23 0.85
25 2 0.07
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (24 bp):
TATTATTATCATCAGTGTTATTAC
Found at i:53874917 original size:23 final size:23
Alignment explanation
Indices: 53874891--53874989 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
53874881 ATAAGTGCAA
53874891 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
53874914 CACTGTTATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
53874937 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
53874960 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
53874983 CACTGAT
1 CACTGAT
53874990 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:53874958 original size:46 final size:46
Alignment explanation
Indices: 53874891--53874988 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
53874881 ATAAGTGCAA
* **
53874891 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCTGAAGCTAC
53874937 CACTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCTGAAGCTAC
53874983 CACTGA
1 CACTGA
53874989 TCAATAACAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCTGAAGCTAC
Found at i:53880236 original size:16 final size:16
Alignment explanation
Indices: 53880217--53880255 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
53880207 AAAATCAAAT
*
53880217 AAAATTATATTATATA
1 AAAATTACATTATATA
*
53880233 AAAAATACATTATATA
1 AAAATTACATTATATA
53880249 AAAATTA
1 AAAATTA
53880256 AATGAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:53880758 original size:21 final size:21
Alignment explanation
Indices: 53880706--53880748 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
53880696 TTAAATTTCG
*
53880706 AATATAATATT-AAGTCTTAC
1 AATATAATATTAAAGTCATAC
53880726 AATATAATATTAAAGTCATAC
1 AATATAATATTAAAGTCATAC
53880747 AA
1 AA
53880749 ATTTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (21 bp):
AATATAATATTAAAGTCATAC
Found at i:53883334 original size:14 final size:14
Alignment explanation
Indices: 53883315--53883341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53883305 CCGTCTCCTT
53883315 CTGTTTTTTTTAAA
1 CTGTTTTTTTTAAA
53883329 CTGTTTTTTTTAA
1 CTGTTTTTTTTAA
53883342 CATATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
CTGTTTTTTTTAAA
Found at i:53889804 original size:20 final size:20
Alignment explanation
Indices: 53889779--53889816 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53889769 TATATTTGAA
53889779 ATGTTA-TGTTTTAGTTACTT
1 ATGTTATTGTTTT-GTTACTT
53889799 ATGTTATTGTTTTGTTAC
1 ATGTTATTGTTTTGTTAC
53889817 GGAATGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (20 bp):
ATGTTATTGTTTTGTTACTT
Found at i:53891530 original size:207 final size:207
Alignment explanation
Indices: 53891100--53891532 Score: 528
Period size: 207 Copynumber: 2.1 Consensus size: 207
53891090 GTGATATTAC
* * *
53891100 TAAGGCTTGTAGGTAAAGAGTCGTAATCTCCAACACAGTTAGCGAAAGCAAAGTCCCCAGCTGTC
1 TAAGGCTTGTAGGTGAAGAGTCGCAACCTCCAACACAGTTAGCGAAAGCAAAGTCCCCAGCTGTC
* * * * * * * *
53891165 ATATTAAGGCTCGTAGGTGAAGAGCTATAGCCTTTAACACAATTAGTGAGAGCAAAGCTCTCAGT
66 ATATTAAGACTCGCAAGTGAAGAGCCACAGCCTTCAACACAATTAGCGAGAGCAAAGCTCTCAGC
* * *
53891230 TGTCATATTAAGGCTCGTAGGTGAAGAGCCATAGCCTCTAACACAGTTAGCGAGAACAAAACTCC
131 TGTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAACTCC
* *
53891295 TAACTATCATAT
196 CAACTATCACAT
* * * * * * *
53891307 GAAGACTTGCAGGTGAAGAGTCGCAACCTTCAACACAGTTAGTGAGAGTAAA-TCTCCCAGCTGT
1 TAAGGCTTGTAGGTGAAGAGTCGCAACCTCCAACACAGTTAGCGAAAGCAAAGTC-CCCAGCTGT
* * * * *
53891371 CATATTAAGACTCGCAAGTGAAGAGCCGCAGCCTTCAACACAGTTAGCGAGATCGAAGTTCTCAG
65 CATATTAAGACTCGCAAGTGAAGAGCCACAGCCTTCAACACAATTAGCGAGAGCAAAGCTCTCAG
* * * * *
53891436 CTGTCATATTAAGGCTTGCAGGTGAAGAGCCGCAGCCTCCAACATAGTTAGCGAGAGCAAAGCTC
130 CTGTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAACTC
53891501 CCAAC-AGTCACAT
195 CCAACTA-TCACAT
*
53891514 TAAGGCTCGTAGGTGAAGA
1 TAAGGCTTGTAGGTGAAGA
53891533 ACCACAGCCT
Statistics
Matches: 187, Mismatches: 37, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
206 3 0.02
207 184 0.98
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (207 bp):
TAAGGCTTGTAGGTGAAGAGTCGCAACCTCCAACACAGTTAGCGAAAGCAAAGTCCCCAGCTGTC
ATATTAAGACTCGCAAGTGAAGAGCCACAGCCTTCAACACAATTAGCGAGAGCAAAGCTCTCAGC
TGTCATATTAAGGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAACAAAACTCC
CAACTATCACAT
Found at i:53891543 original size:69 final size:69
Alignment explanation
Indices: 53891127--53891555 Score: 428
Period size: 69 Copynumber: 6.2 Consensus size: 69
53891117 GAGTCGTAAT
* * *
53891127 CTCCAACACAGTTAGCGAAAGCAAAG-TCCCCAGCTGTCATATTAAGGCTCGTAGGTGAAGAGCT
1 CTCCAACACAGTTAGCGAGAGCAAAGCT-CCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCC
*
53891191 ATAGC
65 ACAGC
** * * * * *
53891196 CTTTAACACAATTAGTGAGAGCAAAGCTCTCAGTTGTCATATTAAGGCTCGTAGGTGAAGAGCCA
1 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
*
53891261 TAGC
66 CAGC
* * * * * * * * * * *
53891265 CTCTAACACAGTTAGCGAGAACAAAACTCCTAACTATCATATGAAGACTTGCAGGTGAAGAGTCG
1 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
*
53891330 CAAC
66 CAGC
* * * * * * *
53891334 CTTCAACACAGTTAGTGAGAGTAAATCTCCCAGCTGTCATATTAAGACTCGCAAGTGAAGAGCCG
1 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
53891399 CAGC
66 CAGC
* * * * * * *
53891403 CTTCAACACAGTTAGCGAGATCGAAGTTCTCAGCTGTCATATTAAGGCTTGCAGGTGAAGAGCCG
1 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
53891468 CAGC
66 CAGC
* * * * * *
53891472 CTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACAGTCACATTAAGGCTCGTAGGTGAAGAACCA
1 CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
53891537 CAGC
66 CAGC
* *
53891541 CTCCAAAATAGTTAG
1 CTCCAACACAGTTAG
53891556 TACAAGCTTA
Statistics
Matches: 295, Mismatches: 64, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
69 294 1.00
70 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (69 bp):
CTCCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCATATTAAGGCTCGCAGGTGAAGAGCCA
CAGC
Found at i:53896081 original size:20 final size:20
Alignment explanation
Indices: 53896031--53896085 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
53896021 CAATTTCAGT
53896031 AAATTTTATAAT-TTGTTTGA
1 AAATTTTATAATATT-TTTGA
**
53896051 ATGTTTTATAATATTTTTGA
1 AAATTTTATAATATTTTTGA
*
53896071 AAATTTGATAA-ATTT
1 AAATTTTATAATATTT
53896086 GTACTTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 23 0.79
21 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
AAATTTTATAATATTTTTGA
Found at i:53899678 original size:11 final size:11
Alignment explanation
Indices: 53899641--53899680 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
53899631 CAATGACAAC
53899641 AAAATAGTAGT
1 AAAATAGTAGT
* *
53899652 AATATAATAGT
1 AAAATAGTAGT
*
53899663 GAAATAGTAGT
1 AAAATAGTAGT
53899674 AAAATAG
1 AAAATAG
53899681 GGAAAAAGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:53901856 original size:26 final size:26
Alignment explanation
Indices: 53901820--53901874 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
53901810 GTATGTACAT
*
53901820 GCTCTTAGTAAAGTAAT-TACGTGCGA
1 GCTCTTAGTAAAGT-ATCTAAGTGCGA
*
53901846 GCTCTTTGTAAAGTATCTAAGTGCGA
1 GCTCTTAGTAAAGTATCTAAGTGCGA
53901872 GCT
1 GCT
53901875 AGTCTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
GCTCTTAGTAAAGTATCTAAGTGCGA
Found at i:53904511 original size:20 final size:21
Alignment explanation
Indices: 53904456--53904513 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
53904446 AAAATTCTAG
53904456 AATAACCACAAGTGTGAATTAA
1 AATAACCACAAGTGTGAATT-A
* *
53904478 AGATAA-AATTAAGTGTGAATT-
1 A-ATAACCA-CAAGTGTGAATTA
53904499 AATAACCACAAGTGT
1 AATAACCACAAGTGT
53904514 ACCCATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
20 10 0.34
21 2 0.07
22 2 0.07
23 15 0.52
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (21 bp):
AATAACCACAAGTGTGAATTA
Found at i:53907094 original size:9 final size:9
Alignment explanation
Indices: 53907080--53907108 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
53907070 AGTCCTTCTG
53907080 ACTTGAAAA
1 ACTTGAAAA
53907089 ACTTGAAAA
1 ACTTGAAAA
53907098 ACTTGAAAA
1 ACTTGAAAA
53907107 AC
1 AC
53907109 ATATAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (9 bp):
ACTTGAAAA
Found at i:53907885 original size:10 final size:10
Alignment explanation
Indices: 53907872--53907938 Score: 55
Period size: 10 Copynumber: 6.8 Consensus size: 10
53907862 ATCGTCTGTT
*
53907872 ATAATTTCTA
1 ATAATTTTTA
*
53907882 ATAATTTTTT
1 ATAATTTTTA
*
53907892 ATAATTTTTT
1 ATAATTTTTA
* *
53907902 ACAATATTT-
1 ATAATTTTTA
* *
53907911 ACAATTTCTA
1 ATAATTTTTA
*
53907921 ACAATTTTTA
1 ATAATTTTTA
53907931 ATAATTTT
1 ATAATTTT
53907939 ATTATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
9 7 0.15
10 41 0.85
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:53907895 original size:20 final size:20
Alignment explanation
Indices: 53907870--53907937 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
53907860 TTATCGTCTG
*
53907870 TTATAATTTCTAATAATTTT
1 TTATAATTTCTAACAATTTT
* * *
53907890 TTATAATTTTTTACAA-TAT
1 TTATAATTTCTAACAATTTT
*
53907909 TTACAATTTCTAACAATTTT
1 TTATAATTTCTAACAATTTT
*
53907929 TAATAATTT
1 TTATAATTT
53907938 TATTATTTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATAATTTCTAACAATTTT
Found at i:53907924 original size:19 final size:19
Alignment explanation
Indices: 53907874--53907930 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
53907864 CGTCTGTTAT
* *
53907874 AATTTCTAATAATTTTTTAT
1 AATTTCTAACAA-TTTTTAC
* * *
53907894 AATTTTTTACAATATTTAC
1 AATTTCTAACAATTTTTAC
53907913 AATTTCTAACAATTTTTA
1 AATTTCTAACAATTTTTA
53907931 ATAATTTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTCTAACAATTTTTAC
Found at i:53924359 original size:23 final size:23
Alignment explanation
Indices: 53924300--53924369 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
53924290 TATACGAAAA
* *
53924300 AATTTAAAATAGATAATATCGA-AC
1 AATTTAAAATAAATAATA-C-ATAT
**
53924324 AATTTAATGTAAATAATACATAT
1 AATTTAAAATAAATAATACATAT
53924347 AATTTAAAATAAATAA-A-ATAT
1 AATTTAAAATAAATAATACATAT
53924368 AA
1 AA
53924370 ACCATTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 6 0.15
22 2 0.05
23 16 0.41
24 15 0.38
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTTAAAATAAATAATACATAT
Found at i:53925618 original size:18 final size:19
Alignment explanation
Indices: 53925576--53925618 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
53925566 GGGCTGTTAG
53925576 GTTTGGGCTTAGGGTTATT
1 GTTTGGGCTTAGGGTTATT
** *
53925595 AATTGGGCTT-GGGTTGTT
1 GTTTGGGCTTAGGGTTATT
53925613 GTTTGG
1 GTTTGG
53925619 TCTGGGGTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.09, C:0.05, G:0.40, T:0.47
Consensus pattern (19 bp):
GTTTGGGCTTAGGGTTATT
Found at i:53928158 original size:21 final size:21
Alignment explanation
Indices: 53928129--53928240 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
53928119 TTTGACGCTG
53928129 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
53928150 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
53928171 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
53928192 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
53928213 CTCTGTTTCTCTTGCCGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
53928234 CTCTGCT
1 CTCTGCT
53928241 CTAAGCTGCT
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.04, C:0.44, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:53928322 original size:66 final size:65
Alignment explanation
Indices: 53928235--53928381 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 65
53928225 TGCCGCCGCC
* * * *
53928235 TCTGCTCTAAGCTGCTACTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTGCTG
1 TCTGCTTTAAGTTG-TACTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGATGCTA
53928299 CA
64 CA
* *
53928301 TCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTTAC
1 TCTGCTTTAAGTTGTA-CTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTAC
*
53928366 C
65 A
53928367 TCTGCTTTAAGTTGT
1 TCTGCTTTAAGTTGT
53928382 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 66 0.92
67 4 0.06
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (65 bp):
TCTGCTTTAAGTTGTACTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTACA
Found at i:53933781 original size:25 final size:25
Alignment explanation
Indices: 53933725--53933781 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
53933715 AGTATTTCCT
* *
53933725 AATTATGTAAGTTATTTATTACCCA
1 AATTATGTAAGTTATGTATTACCAA
* * **
53933750 AACTATGTAAGTTGTGTATTATGAA
1 AATTATGTAAGTTATGTATTACCAA
53933775 AATTATG
1 AATTATG
53933782 CTAGGTAAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (25 bp):
AATTATGTAAGTTATGTATTACCAA
Found at i:53933900 original size:9 final size:9
Alignment explanation
Indices: 53933886--53933996 Score: 65
Period size: 9 Copynumber: 12.6 Consensus size: 9
53933876 AATTAAAAAA
53933886 ATGTAAGTT
1 ATGTAAGTT
53933895 ATGTAAG-T
1 ATGTAAGTT
53933903 -TGTAAGTT
1 ATGTAAGTT
*
53933911 ATGTATA-AT
1 ATGTA-AGTT
53933920 AT-TAA-TT
1 ATGTAAGTT
** *
53933927 AACTAACTT
1 ATGTAAGTT
*
53933936 ATGTAATTT
1 ATGTAAGTT
* *
53933945 AAGTATAATATT
1 -A-TGTAA-GTT
53933957 AATGTAAGTT
1 -ATGTAAGTT
53933967 ATGTAAG-T
1 ATGTAAGTT
53933975 -TGTAAGTT
1 ATGTAAGTT
53933983 ATGTAAGTT
1 ATGTAAGTT
53933992 ATGTA
1 ATGTA
53933997 TCGAAGTTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
7 15 0.18
8 9 0.11
9 42 0.51
10 4 0.05
11 8 0.10
12 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:53933909 original size:75 final size:72
Alignment explanation
Indices: 53933828--53933987 Score: 196
Period size: 75 Copynumber: 2.2 Consensus size: 72
53933818 AAGTTATTTA
* * * * *
53933828 TGTAAGTTATTTATTATGA-AAATTAAGTAAGTTATGTAATTTACGAATAATTAAAAAAATGTAA
1 TGTAAGTTATGTATAAT-ATAAATTAACTAACTTATGTAATTTAAGAATAA-T--AAAAATGTAA
53933892 GTTATGTAAGT
62 GTTATGTAAGT
* * **
53933903 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATAAATTAACTAACTTATGTAATTTAAGAATAATAAAAATGTAAGTTA
53933968 TGTAAGT
66 TGTAAGT
53933975 TGTAAGTTATGTA
1 TGTAAGTTATGTA
53933988 AGTTATGTAT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
72 32 0.43
74 2 0.03
75 41 0.55
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.42
Consensus pattern (72 bp):
TGTAAGTTATGTATAATATAAATTAACTAACTTATGTAATTTAAGAATAATAAAAATGTAAGTTA
TGTAAGT
Found at i:53933980 original size:16 final size:16
Alignment explanation
Indices: 53933959--53933991 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53933949 ATAATATTAA
53933959 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
53933975 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
53933991 T
1 T
53933992 ATGTATCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:53934030 original size:82 final size:81
Alignment explanation
Indices: 53933886--53934119 Score: 264
Period size: 82 Copynumber: 2.8 Consensus size: 81
53933876 AATTAAAAAA
*
53933886 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTAT
1 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAACTAACTAACTTATGTAATTTAAGTAT
53933951 AATATTAATGTAAGTT
66 AATATTAATGTAAGTT
*
53933967 ATGTAAG-T-TGTAAGTTATGTAAGTTATGTATCGAA-GTTAACTAACTAACTTATGTAATTTAA
1 ATGTAAGTTATGTAAG-T-TGTAAGTTATGTAT--AATATTAACTAACTAACTTATGTAATTTAA
53934029 GTATAATATTAATGTAAGTT
62 GTATAATATTAATGTAAGTT
* * *
53934049 ATGTATAATATTAATGTAATTAGTTATGTAATTTATGTAT--T-TTAATTAACTAACTTATGTAA
1 ATG--TAA-GTT-ATGT-A--AG-T-TGTAAGTTATGTATAATATTAACTAACTAACTTATGTAA
53934111 TTTAAGTAT
57 TTTAAGTAT
53934120 TATTTTAAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 22
0.83 0.03 0.14
Matches are distributed among these distances:
79 6 0.04
80 2 0.01
81 21 0.16
82 48 0.36
83 2 0.01
84 3 0.02
86 1 0.01
87 29 0.22
88 3 0.02
89 1 0.01
91 18 0.13
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (81 bp):
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAACTAACTAACTTATGTAATTTAAGTAT
AATATTAATGTAAGTT
Found at i:53934043 original size:22 final size:22
Alignment explanation
Indices: 53934018--53934069 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
53934008 TAACTAACTT
53934018 ATGTAATTTAAGTATAATATTA
1 ATGTAATTTAAGTATAATATTA
* *
53934040 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTAAGTATAATATTA
53934062 ATGTAATT
1 ATGTAATT
53934070 AGTTATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
ATGTAATTTAAGTATAATATTA
Found at i:53934812 original size:21 final size:21
Alignment explanation
Indices: 53934788--53934832 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
53934778 TGAAGTAACG
53934788 AATGATACAGAAGCAGAGACA
1 AATGATACAGAAGCAGAGACA
** *
53934809 AATGATGTAGAGGCAGAGACA
1 AATGATACAGAAGCAGAGACA
53934830 AAT
1 AAT
53934833 TTCATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.27, T:0.13
Consensus pattern (21 bp):
AATGATACAGAAGCAGAGACA
Found at i:53936408 original size:20 final size:20
Alignment explanation
Indices: 53936382--53936426 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
53936372 ACATTATTAG
53936382 TTTTTTTATTTCCTTT-TTATA
1 TTTTTTTATTT--TTTCTTATA
53936403 TTTTTTTATTTTTTCTTATA
1 TTTTTTTATTTTTTCTTATA
53936423 TTTT
1 TTTT
53936427 GGTTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTATTTTTTCTTATA
Found at i:53936957 original size:93 final size:89
Alignment explanation
Indices: 53936803--53937057 Score: 386
Period size: 93 Copynumber: 2.8 Consensus size: 89
53936793 CCAAACCATA
* * * *
53936803 AACCCCTAAA-CCCTAAACATTATTTAATATATAAGTTATAAAACATTAATCAATCTAAATCCTA
1 AACCCC-AAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTA
*
53936867 AACCCTAACTCGACCTCGAATCACT
65 AACCCTAACTCGACCCCGAATCACT
53936892 AACCCCAAACCCCTAAACATTATTTATTAATATATAAATTAAAAAAACACTAATTAATCTAAATC
1 AACCCCAAACCCCTAAACATTA--T-TTAATATATAAATT-AAAAAACACTAATTAATCTAAATC
53936957 CTAAACCCTAACTCGACCCCGAATCACT
62 CTAAACCCTAACTCGACCCCGAATCACT
* * *
53936985 AACCCCTAACCCCTAAAAATTATTTAATATATCAATTAAAAAACACTAATTAATCTAAATCCTAA
1 AACCCCAAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAA
53937050 ACCCTAAC
66 ACCCTAAC
53937058 CCTAAATCCC
Statistics
Matches: 153, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
88 3 0.02
89 54 0.35
90 13 0.08
91 2 0.01
92 13 0.08
93 68 0.44
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (89 bp):
AACCCCAAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAA
ACCCTAACTCGACCCCGAATCACT
Found at i:53937064 original size:20 final size:21
Alignment explanation
Indices: 53937039--53937077 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53937029 ACTAATTAAT
53937039 CTAAAT-CCTAAACCCTAACC
1 CTAAATCCCTAAACCCTAACC
*
53937059 CTAAATCCCTAACCCCTAA
1 CTAAATCCCTAAACCCTAA
53937078 ACATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAAATCCCTAAACCCTAACC
Found at i:53937799 original size:40 final size:41
Alignment explanation
Indices: 53937739--53937850 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
53937729 AGGCTTTTTG
* * *
53937739 CGGCGCTCTTAGAAAAACGCCGCT-AAAGACCTGACCATTAA
1 CGGCGCT-TTACAGAAACGCCGCTAAAAGACCTGACAATTAA
* *
53937780 CGGCGCTTTACAGAAACGCCGCTAAAAGACCTGAGAATTAG
1 CGGCGCTTTACAGAAACGCCGCTAAAAGACCTGACAATTAA
* *
53937821 CGGCGCATTACAGAAACGCCG-TGAAAGACC
1 CGGCGCTTTACAGAAACGCCGCTAAAAGACC
53937851 CCAAAAACTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 22 0.35
41 41 0.65
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (41 bp):
CGGCGCTTTACAGAAACGCCGCTAAAAGACCTGACAATTAA
Found at i:53937899 original size:113 final size:112
Alignment explanation
Indices: 53937780--53938036 Score: 408
Period size: 113 Copynumber: 2.3 Consensus size: 112
53937770 TGACCATTAA
* * *
53937780 CGGCGCTTTACAGAAACGCCGCTAAAAGACCTGAGAATTAGCGGCGCATTACAGAAACGCCG-TG
1 CGGCGCTTTAAAAAAACGCCGCT-AAAGACCTGAGAATTAGCGACGCATTACAGAAACGCCGCT-
53937844 AAAGACCCCAAAAACTCAGAAAACAGTGCCGTTGGGTTTAGGCTATTTG
64 AAAGACCCCAAAAACTCAGAAAACAGTGCCGTTGGGTTTAGGCTATTTG
* *
53937893 CGGCGCTTTGAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGACGCATTACAGAAATGCCGCTA
1 CGGCGCTTT-AAAAAAACGCCGCTAAAGACCTGAGAATTAGCGACGCATTACAGAAACGCCGCTA
* *
53937958 AAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTTTTG
65 AAGACCCCAAAAACTCAGAAAACAGTGCCGTTGGGTTTAGGCTATTTG
53938006 CGGCGCTTTTAAAAAAACGCCGCTAAAGACC
1 CGGCGC-TTTAAAAAAACGCCGCTAAAGACC
53938037 CCCAAAAACT
Statistics
Matches: 134, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
113 118 0.88
114 16 0.12
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.19
Consensus pattern (112 bp):
CGGCGCTTTAAAAAAACGCCGCTAAAGACCTGAGAATTAGCGACGCATTACAGAAACGCCGCTAA
AGACCCCAAAAACTCAGAAAACAGTGCCGTTGGGTTTAGGCTATTTG
Found at i:53937909 original size:154 final size:153
Alignment explanation
Indices: 53937639--53937963 Score: 494
Period size: 154 Copynumber: 2.1 Consensus size: 153
53937629 GCTTTTTAAA
*
53937639 AAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAGAAACGCCGCTGAAGACCCCAAAAA
1 AAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTA-TCAGAAACGCCGCTGAAGACCCCAAAAA
* * *
53937704 CTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCTCTTAGAAAAACGCCGCTAAAGAC
65 CTCAGAAAACAGTGCCGTTGGGCTTAGGCTATTTGCGGCGCTCTTAAAAAAACGCCGCTAAAGAC
* *
53937769 CTGACCATTAACGGCGCTTTACAG
130 CTGACCATTAACGACGCATTACAG
53937793 AAACGCCGCTAAAAGACCTGAGAATTAGCGGCGCATTA-CAGAAACGCCG-TGAAAGACCCCAAA
1 AAACGCCGCT-AAAGACCTGAGAATTAGCGGCGC-TTATCAGAAACGCCGCTG-AAGACCCCAAA
*
53937856 AACTCAGAAAACAGTGCCGTTGGGTTTAGGCTATTTGCGGCGCT-TTGAAAAAAACGCCGCTAAA
63 AACTCAGAAAACAGTGCCGTTGGGCTTAGGCTATTTGCGGCGCTCTT-AAAAAAACGCCGCTAAA
* *
53937920 GACCTGAGCATTAGCGACGCATTACAG
127 GACCTGACCATTAACGACGCATTACAG
*
53937947 AAATGCCGCTAAAGACC
1 AAACGCCGCTAAAGACC
53937964 CCAAAAACTC
Statistics
Matches: 157, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
153 11 0.07
154 121 0.77
155 22 0.14
156 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (153 bp):
AAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATCAGAAACGCCGCTGAAGACCCCAAAAAC
TCAGAAAACAGTGCCGTTGGGCTTAGGCTATTTGCGGCGCTCTTAAAAAAACGCCGCTAAAGACC
TGACCATTAACGACGCATTACAG
Found at i:53938037 original size:73 final size:74
Alignment explanation
Indices: 53937951--53938105 Score: 231
Period size: 74 Copynumber: 2.1 Consensus size: 74
53937941 TTACAGAAAT
* * *
53937951 GCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTT
1 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGAGCTTAGGCTTTTTGCGGCGCTTT
*
53938015 TAAAAAAAC
66 CAAAAAAAC
* *
53938024 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTTAGCTTAGGTTTTTTGCGGCGCTTT
1 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGAGCTTAGGCTTTTTGCGGCGCTTT
* *
53938089 CAAATAAAT
66 CAAAAAAAC
53938098 GCCGCTAA
1 GCCGCTAA
53938106 TGCTTATTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 11 0.15
74 62 0.85
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (74 bp):
GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTACCGTTGAGCTTAGGCTTTTTGCGGCGCTTT
CAAAAAAAC
Found at i:53938235 original size:12 final size:12
Alignment explanation
Indices: 53938218--53938242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53938208 TTTGTCTAAT
53938218 CGCCGCTAAAAG
1 CGCCGCTAAAAG
53938230 CGCCGCTAAAAG
1 CGCCGCTAAAAG
53938242 C
1 C
53938243 CTTTTTTGGT
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:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CGCCGCTAAAAG
Found at i:53943352 original size:39 final size:38
Alignment explanation
Indices: 53943285--53943383 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 38
53943275 ATAATTGTTC
* * *
53943285 AAAAAATA-AAAATTCTTA-AATTTTTTAAA-ATTTGTA
1 AAAAAATATAAAATTATTAGAAATTGTTAAATA-TTGTA
53943321 AAAAAATAATAAAATTATTAGAAATTGTTAAATATTGTA
1 AAAAAAT-ATAAAATTATTAGAAATTGTTAAATATTGTA
* *
53943360 AAAACATTATAAAAATTGTTAGAA
1 AAAA-AATAT-AAAATTATTAGAA
53943384 TCATAAAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
36 7 0.13
37 1 0.02
38 9 0.17
39 20 0.38
40 15 0.29
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (38 bp):
AAAAAATATAAAATTATTAGAAATTGTTAAATATTGTA
Found at i:53946334 original size:91 final size:91
Alignment explanation
Indices: 53946208--53946415 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
53946198 TTGATTTTAG
** *
53946208 TAAATTCATATAAGAACGTTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
53946273 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
53946300 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
53946365 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * *
53946391 CAAATTCATATAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
53946416 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:53946382 original size:47 final size:46
Alignment explanation
Indices: 53946240--53946383 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 46
53946230 ATTATTAAGA
*
53946240 ATTTTATGAAATTATATATCATTATTAAATTATATTTAAT-ATTAATT
1 ATTTTATGAAATTATATATTATTATTAAATTATA-TTAATAATT-ATT
* * ** *
53946287 ATTTTA--AATTGTATAAATTCATATAAGAAAATT-TATT-ATCAA-GA--
1 ATTTTATGAAAT-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATT
53946331 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATTATT
1 ATTTTATGAAATTATATATTATTATTAAATTATAT-TAATAATTATT
53946378 ATTTTA
1 ATTTTA
53946384 AATTATACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
42 6 0.08
43 4 0.06
44 11 0.15
45 13 0.18
46 12 0.17
47 16 0.22
48 4 0.06
49 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (46 bp):
ATTTTATGAAATTATATATTATTATTAAATTATATTAATAATTATT
Found at i:53946390 original size:44 final size:43
Alignment explanation
Indices: 53946248--53946390 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
53946238 GAATTTTATG
*
53946248 AAATTATATATCATTATTAAATTATATTTAAT-ATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATT-ATTATTTT
* ** ** *
53946292 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATTATT-TT
53946339 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATTATTATTTT
53946383 AAATTATA
1 AAATTATA
53946391 CAAATTCATA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 20 0.27
45 12 0.16
46 11 0.15
47 11 0.15
48 4 0.05
49 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATTATTATTTT
Found at i:53946577 original size:16 final size:16
Alignment explanation
Indices: 53946556--53946597 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53946546 TTATTAAATT
*
53946556 ATATATTTTAATTATA
1 ATATATTTTAATAATA
53946572 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
53946587 AT-TATGTTTAA
1 ATATAT-TTTAA
53946598 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:53946582 original size:15 final size:15
Alignment explanation
Indices: 53946547--53946588 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53946537 TTAAGAATTT
*
53946547 TATTAAATTAT-ATA
1 TATTTAATTATAATA
53946561 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
53946575 TATTTAATAATAAT
1 TATTTAATTATAAT
53946589 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:53949027 original size:23 final size:23
Alignment explanation
Indices: 53948992--53949036 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
53948982 TTTTAAATAA
53948992 TTTTGATAATTTTGTAATTTTTC
1 TTTTGATAATTTTGTAATTTTTC
*
53949015 TTTT-ATAATTTTTGTCATTTTT
1 TTTTGATAA-TTTTGTAATTTTT
53949037 GAAGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTGATAATTTTGTAATTTTTC
Found at i:53970770 original size:15 final size:17
Alignment explanation
Indices: 53970752--53970783 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53970742 TAATACGTAT
53970752 AAATAAA-ATT-TTTAA
1 AAATAAATATTCTTTAA
53970767 AAATAAATATTCTTTAA
1 AAATAAATATTCTTTAA
53970784 TTAGTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAAATATTCTTTAA
Found at i:53973087 original size:13 final size:13
Alignment explanation
Indices: 53972995--53973097 Score: 80
Period size: 13 Copynumber: 7.6 Consensus size: 13
53972985 TCTATGCGCA
*
53972995 AACCCTATGTATG
1 AACCCTATGTGTG
* *
53973008 AACACTATATAAGTG
1 AACCCTATGT--GTG
*
53973023 AACCCTATGTTTG
1 AACCCTATGTGTG
*
53973036 AACCCTACGTGTG
1 AACCCTATGTGTG
**
53973049 AACCCTATGTGCA
1 AACCCTATGTGTG
*
53973062 AACTCTGTATGTGTG
1 AAC-C-CTATGTGTG
**
53973077 AACCCTATGTGCA
1 AACCCTATGTGTG
53973090 AACCCTAT
1 AACCCTAT
53973098 AGGAAAGCCA
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
13 48 0.70
14 2 0.03
15 19 0.28
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (13 bp):
AACCCTATGTGTG
Found at i:53973782 original size:19 final size:19
Alignment explanation
Indices: 53973758--53973794 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53973748 TTGAATGCTT
*
53973758 TATTGTTTGAATAATTATA
1 TATTGTTTGAAGAATTATA
53973777 TATTGTTTGAAGAATTAT
1 TATTGTTTGAAGAATTAT
53973795 CACTCGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (19 bp):
TATTGTTTGAAGAATTATA
Found at i:53975618 original size:42 final size:42
Alignment explanation
Indices: 53975571--53975654 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
53975561 CGATCATGCG
53975571 AAAACATCTTTGAATTCTTAGAGTAACTCAATGACGTCTCGC
1 AAAACATCTTTGAATTCTTAGAGTAACTCAATGACGTCTCGC
* *
53975613 AAAACATCTTTGAATTCTTGGTGTAACTCAATGACGTCTCGC
1 AAAACATCTTTGAATTCTTAGAGTAACTCAATGACGTCTCGC
53975655 TTTGATACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
AAAACATCTTTGAATTCTTAGAGTAACTCAATGACGTCTCGC
Found at i:53978129 original size:15 final size:15
Alignment explanation
Indices: 53978109--53978138 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53978099 CCCTAACCCG
*
53978109 ACCCTAAATCTCTAA
1 ACCCTAAATCACTAA
53978124 ACCCTAAATCACTAA
1 ACCCTAAATCACTAA
53978139 CTCTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCCTAAATCACTAA
Found at i:53978254 original size:89 final size:89
Alignment explanation
Indices: 53978152--53978328 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 89
53978142 TTAACCCCAA
* * *
53978152 ACCCCAAACCCCTAAACATTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTA
1 ACCCCAAACCCCTAAACACTAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTA
53978217 ATCTAAATCC-TAAACCCTAACCTG
66 ATCTAAA-CCTTAAACCCTAACCTG
* * * * * *
53978241 ACCCCAAATCCCTAATCCCTAACCCTTAAACATTATTTAATACATATATTAAAACACACTAATTA
1 ACCCCAAACCCCTAAACACTAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTA
*
53978306 ATCTAAACCTTAAATCCTAACCT
66 ATCTAAACCTTAAACCCTAACCT
53978329 AGCATCGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 2 0.03
89 75 0.97
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.28
Consensus pattern (89 bp):
ACCCCAAACCCCTAAACACTAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTA
ATCTAAACCTTAAACCCTAACCTG
Found at i:53978350 original size:89 final size:89
Alignment explanation
Indices: 53978171--53978351 Score: 222
Period size: 89 Copynumber: 2.0 Consensus size: 89
53978161 CCCTAAACAT
* *
53978171 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTA
1 TAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTA
* * *
53978236 ACCTGACCCCAAATCCCTAATCCC
66 ACCTGACACCAAATCCATAAACCC
* * * *
53978260 TAACCCTTAAACATTATTTAATACATATATTAAAACACACTAATTAATCTAAA-CCTTAAATCCT
1 TAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTAATCTAAATCC-TAAACCCT
* * *
53978324 AACCT-AGCATCGAATCTATAAACCC
65 AACCTGA-CACCAAATCCATAAACCC
53978349 TAA
1 TAA
53978352 ATCCCTAACT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
88 3 0.04
89 75 0.96
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.29
Consensus pattern (89 bp):
TAACCCCTAAACATTATTTAATACATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTA
ACCTGACACCAAATCCATAAACCC
Found at i:53978453 original size:7 final size:7
Alignment explanation
Indices: 53978413--53978450 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
53978403 CTTAAATCAG
53978413 AATCCCT
1 AATCCCT
53978420 AATCCCT
1 AATCCCT
53978427 AATCCCT
1 AATCCCT
53978434 AATCCCT
1 AATCCCT
*
53978441 AATTCCT
1 AATCCCT
53978448 AAT
1 AAT
53978451 TCCATAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (7 bp):
AATCCCT
Found at i:53979016 original size:42 final size:41
Alignment explanation
Indices: 53978866--53979016 Score: 230
Period size: 41 Copynumber: 3.7 Consensus size: 41
53978856 ATGTTTTTGT
53978866 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
** *
53978907 GGTACTTTTTCAAAAATGCCGCTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* *
53978948 GGCGCTTTTTCAAAAACACCACTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
* *
53978989 GGCGCTTTTTTTAAAAACGCCGTTAAAG
1 GGCGC-TTTTTCAAAAACGCCGCTAAAG
53979017 CCCCGAAAGG
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 79 0.81
42 18 0.19
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
Found at i:53981140 original size:17 final size:17
Alignment explanation
Indices: 53981113--53981393 Score: 239
Period size: 18 Copynumber: 15.9 Consensus size: 17
53981103 TAAAAAAAGC
53981113 AAAAGTTTTTGAAACACG
1 AAAA-TTTTTGAAACACG
*
53981131 AGAATTTTTGAAAACACG
1 AAAATTTTTG-AAACACG
*
53981149 AAAATTTTTGAAACAAG
1 AAAATTTTTGAAACACG
**
53981166 AAAATTTTAAAAACAC-
1 AAAATTTTTGAAACACG
* *
53981182 AAATTTTTTTAAAAACACG
1 AAA-ATTTTT-GAAACACG
*
53981201 ACAATTTTTGAAACACG
1 AAAATTTTTGAAACACG
* * *
53981218 AGAATTTTTTTTAAACA-T
1 A-AA-ATTTTTGAAACACG
* *
53981236 AAAAATTTTAAAACACG
1 AAAATTTTTGAAACACG
53981253 AAAA-TTTTGAAAACACG
1 AAAATTTTTG-AAACACG
*
53981270 AAAATTTTTGAAAACATG
1 AAAATTTTTG-AAACACG
*
53981288 AAAATTTTTGATACACG
1 AAAATTTTTGAAACACG
*
53981305 GAAATTTTTAGAAAACACG
1 AAAATTTTT-G-AAACACG
*
53981324 AAAAATTTTTGAAAACACA
1 -AAAATTTTTG-AAACACG
53981343 AAAATTTTTGAAAACAC-
1 AAAATTTTTG-AAACACG
*
53981360 AAGAATTTTTGAAATCATG
1 AA-AATTTTTGAAA-CACG
53981379 AAAA-TTTTGAAACAC
1 AAAATTTTTGAAACAC
53981394 CGGAATTTTT
Statistics
Matches: 219, Mismatches: 29, Indels: 32
0.78 0.10 0.11
Matches are distributed among these distances:
16 18 0.08
17 80 0.37
18 85 0.39
19 28 0.13
20 8 0.04
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (17 bp):
AAAATTTTTGAAACACG
Found at i:53981157 original size:35 final size:35
Alignment explanation
Indices: 53981113--53981390 Score: 266
Period size: 35 Copynumber: 7.9 Consensus size: 35
53981103 TAAAAAAAGC
*
53981113 AAAAGTTTTTGAAACACGAGAATTTTTGAAAACACG
1 AAAA-TTTTTGAAACACGAAAATTTTTGAAAACACG
* *
53981149 AAAATTTTTGAAACAAGAAAA-TTTTAAAAACAC-
1 AAAATTTTTGAAACACGAAAATTTTTGAAAACACG
* * *
53981182 AAATTTTTTTAAAAACACGACAATTTTTG-AAACACG
1 AAA-ATTTTT-GAAACACGAAAATTTTTGAAAACACG
* * * *
53981218 AGAATTTTTTTTAAACA-TAAAAATTTT-AAAACACG
1 A-AA-ATTTTTGAAACACGAAAATTTTTGAAAACACG
*
53981253 AAAA-TTTTGAAAACACGAAAATTTTTGAAAACATG
1 AAAATTTTTG-AAACACGAAAATTTTTGAAAACACG
* *
53981288 AAAATTTTTGATACACGGAAATTTTTAGAAAACACG
1 AAAATTTTTGAAACACGAAAATTTTT-GAAAACACG
*
53981324 AAAAATTTTTGAAAACACAAAAATTTTTGAAAACAC-
1 -AAAATTTTTG-AAACACGAAAATTTTTGAAAACACG
*
53981360 AAGAATTTTTGAAATCATGAAAA-TTTTGAAA
1 AA-AATTTTTGAAA-CACGAAAATTTTTGAAA
53981391 CACCGGAATT
Statistics
Matches: 202, Mismatches: 25, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
32 4 0.02
33 8 0.04
34 26 0.13
35 83 0.41
36 41 0.20
37 27 0.13
38 13 0.06
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAATTTTTGAAACACGAAAATTTTTGAAAACACG
Found at i:53981157 original size:87 final size:86
Alignment explanation
Indices: 53981067--53981415 Score: 291
Period size: 87 Copynumber: 4.0 Consensus size: 86
53981057 CATGAGAATT
* ** *
53981067 TTTTTTAAACACGGGAATTTTGAAGA-ACGAATTTTTTAAAAAAAGCAAAAGTTTTTGAAACACG
1 TTTTTAAAACACGAAAATTTTGAAAACACGAATTTTTTAAAAAAAGCAAAA-TTTTTGAAACACG
53981131 AGAATTTTTGAAAACACGAAAA
65 AGAATTTTTGAAAACACGAAAA
* * * * * *
53981153 TTTTTGAAACAAGAAAATTTTAAAAACACAAATTTTTTTAAAAACA-CGACAATTTTTGAAACAC
1 TTTTTAAAACACGAAAATTTTGAAAACACGAA-TTTTTTAAAAAAAGC-AAAATTTTTGAAACAC
** *
53981217 GAGAATTTTTTTTAAACA-TAAAA
64 GAGAA-TTTTTGAAAACACGAAAA
* * * * *
53981240 ATTTTAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAAACATG-AAAATTTTTGATACAC
1 TTTTTAAAACACGAAAATTTTGAAAACACG--AATTTTTTAAAAAAAGCAAAATTTTTGAAACAC
53981304 G-GAAATTTTTAGAAAACACGAAAAA
64 GAG-AATTTTT-GAAAACACG-AAAA
* * ** *
53981329 TTTTTGAAAACACAAAAATTTTTGAAAACACAAGAATTTTTGAAATCATG-AAAA-TTTTGAAAC
1 TTTTT-AAAACACGAAAA-TTTTGAAAACAC--GAATTTTTTAAAAAAAGCAAAATTTTTGAAAC
*
53981392 ACCG-GAATTTTTTTAAAACACGAA
62 A-CGAGAA-TTTTTGAAAACACGAA
53981416 TTTTTTGATT
Statistics
Matches: 215, Mismatches: 31, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
86 26 0.12
87 73 0.34
88 34 0.16
89 12 0.06
90 30 0.14
91 39 0.18
93 1 0.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (86 bp):
TTTTTAAAACACGAAAATTTTGAAAACACGAATTTTTTAAAAAAAGCAAAATTTTTGAAACACGA
GAATTTTTGAAAACACGAAAA
Found at i:53981578 original size:18 final size:17
Alignment explanation
Indices: 53981543--53981578 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
53981533 ATACGCGAAT
*
53981543 ATTTTTTTTGAAATACG
1 ATTTTTTTTGAAACACG
53981560 ATTTTTTTTGAAGACACG
1 ATTTTTTTTGAA-ACACG
53981578 A
1 A
53981579 AAATTACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (17 bp):
ATTTTTTTTGAAACACG
Found at i:53981988 original size:14 final size:15
Alignment explanation
Indices: 53981944--53981989 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
53981934 AATTAAACCC
*
53981944 CCTTTTTTTTCCTTCT
1 CCTTTTTTTTTCTT-T
53981960 CCTTTTCTTTTTCTTT
1 CCTTTT-TTTTTCTTT
53981976 -CTTTTTTTTTCTTT
1 CCTTTTTTTTTCTTT
53981990 ATTTCTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
15 5 0.18
16 7 0.25
17 7 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CCTTTTTTTTTCTTT
Found at i:53982148 original size:18 final size:18
Alignment explanation
Indices: 53982121--53982155 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53982111 ATGGCCTGCT
*
53982121 TTCTTTTTTTTTGCTTTC
1 TTCTTCTTTTTTGCTTTC
*
53982139 TTCTTCTTTTTTTCTTT
1 TTCTTCTTTTTTGCTTT
53982156 TTGGGCTGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (18 bp):
TTCTTCTTTTTTGCTTTC
Found at i:53982276 original size:32 final size:32
Alignment explanation
Indices: 53982239--53982310 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
53982229 CTTTAATTTT
53982239 TTCTTTTTTTCCCTTTTTCTT-CTTCTTCTTCC
1 TTCTTTTTTTCCCTTTTT-TTCCTTCTTCTTCC
* * * *
53982271 TTCTTTCTTTCTCTTTTTTTCCTTCTTTTTTC
1 TTCTTTTTTTCCCTTTTTTTCCTTCTTCTTCC
53982303 TTCTTTTT
1 TTCTTTTT
53982311 CTTCTCCGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.06
32 32 0.94
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (32 bp):
TTCTTTTTTTCCCTTTTTTTCCTTCTTCTTCC
Found at i:53982702 original size:29 final size:29
Alignment explanation
Indices: 53982669--53982867 Score: 183
Period size: 30 Copynumber: 6.7 Consensus size: 29
53982659 CAGTAAAACT
* *
53982669 TTTAGGG-CTAAAATGTAATTTCGAGGAAG
1 TTTAGGGTC-AAAATGTAATTTAGAGAAAG
*
53982698 TTTAGTGGTCAAAATGTAATTTTGAGAAAG
1 TTTAG-GGTCAAAATGTAATTTAGAGAAAG
53982728 TTTAGGGGTCAAAATGTAATTTAGA-AAAG
1 TTTA-GGGTCAAAATGTAATTTAGAGAAAG
*
53982757 TTTATGGGTCAAAATGTAATTTTA-AAAAAG
1 TTTA-GGGTCAAAATGTAA-TTTAGAGAAAG
* * *
53982787 TTTAGGGGTTAAAATATAATCTTAG-GAAAA
1 TTTA-GGGTCAAAATGTAAT-TTAGAGAAAG
* * *
53982817 TTTAAGGGTCAAAATGCAATTT-TATAAAG
1 TTT-AGGGTCAAAATGTAATTTAGAGAAAG
*
53982846 TTTAGGGGCCAAAATGTAATTT
1 TTTA-GGGTCAAAATGTAATTT
53982868 TTTTATTTTT
Statistics
Matches: 143, Mismatches: 17, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
28 1 0.01
29 52 0.36
30 87 0.61
31 3 0.02
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTAGAGAAAG
Found at i:53982767 original size:59 final size:57
Alignment explanation
Indices: 53982669--53982867 Score: 231
Period size: 59 Copynumber: 3.4 Consensus size: 57
53982659 CAGTAAAACT
* * * *
53982669 TTTAGGGCT-AAAATGTAATTTCGAGGAAGTTTAGTGGTCAAAATGTAATTTTGAGAAAG
1 TTTAGGGGTCAAAATGTAATTTAGA-AAAGTTTAG-GGTCAAAATGTAATTTT-AAAAAG
53982728 TTTAGGGGTCAAAATGTAATTTAGAAAAGTTTATGGGTCAAAATGTAATTTTAAAAAAG
1 TTTAGGGGTCAAAATGTAATTTAGAAAAGTTTA-GGGTCAAAATGTAATTTT-AAAAAG
* * * *
53982787 TTTAGGGGTTAAAATATAATCTTAGGAAAA-TTTAAGGGTCAAAATGCAATTTTATAAAG
1 TTTAGGGGTCAAAATGTAAT-TTA-GAAAAGTTT-AGGGTCAAAATGTAATTTTAAAAAG
*
53982846 TTTAGGGGCCAAAATGTAATTT
1 TTTAGGGGTCAAAATGTAATTT
53982868 TTTTATTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
58 2 0.02
59 77 0.63
60 38 0.31
61 6 0.05
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (57 bp):
TTTAGGGGTCAAAATGTAATTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAAAAAG
Found at i:53982829 original size:89 final size:89
Alignment explanation
Indices: 53982669--53982868 Score: 226
Period size: 89 Copynumber: 2.3 Consensus size: 89
53982659 CAGTAAAACT
* ** ** * * * * *
53982669 TTTA-GGGCTAAAATGTAATTTCGAGGAAGTTTAGTGGTCAAAATGTAATTTTGAGAAAGTTTAG
1 TTTAGGGGCCAAAATGTAATTTTAAAAAAGTTTAGGGGTCAAAATATAATTTAGAGAAAATTTAA
*
53982733 GGGTCAAAATGTAA-TTTAGAAAAG
66 GGGTCAAAATGCAATTTTA-AAAAG
* * *
53982757 TTTATGGGTCAAAATGTAATTTTAAAAAAGTTTAGGGGTTAAAATATAATCTTAG-GAAAATTTA
1 TTTAGGGGCCAAAATGTAATTTTAAAAAAGTTTAGGGGTCAAAATATAAT-TTAGAGAAAATTTA
*
53982821 AGGGTCAAAATGCAATTTTATAAAG
65 AGGGTCAAAATGCAATTTTAAAAAG
53982846 TTTAGGGGCCAAAATGTAATTTT
1 TTTAGGGGCCAAAATGTAATTTT
53982869 TTTATTTTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
88 4 0.04
89 82 0.88
90 7 0.08
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (89 bp):
TTTAGGGGCCAAAATGTAATTTTAAAAAAGTTTAGGGGTCAAAATATAATTTAGAGAAAATTTAA
GGGTCAAAATGCAATTTTAAAAAG
Found at i:53983251 original size:75 final size:76
Alignment explanation
Indices: 53983076--53984045 Score: 1011
Period size: 75 Copynumber: 12.6 Consensus size: 76
53983066 ATCGGCGTGT
* * * *
53983076 GGCTCAACTCACCTCTAGCATTATGAGTTGATTTTTTTTTGAAAAACAGAAATATAAAAGAAATA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTAAAAAACAGAAAT-T-TAA-AAATA
* *
53983141 CCTCGGCATGTG-TCCAA
59 CCTCGGCATGTGACCCGA
* * * * * * **
53983158 TGTTCAACTCACTTCTCGCAATATGAGTCGATTTTAAAAAAAAACAGAAA-TTGAAAATACCTTA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TAAAAAACAGAAATTTAAAAATACCTCG
*
53983222 G-A-GTGACCCGT
64 GCATGTGACCCGA
* * *
53983233 GGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATACCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAAT-T-TAA-AAATACCTC
*
53983298 GGCATGTGA-TCGA
63 GGCATGTGACCCGA
*
53983311 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGAAATACCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTC
53983376 GGCA--TGACCCGA
63 GGCATGTGACCCGA
* *
53983388 AGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAGACAGAAATTTAAAAGAAATACCT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAA-ACAGAAATTT--AA-AAATACCT
*
53983452 CGGCATGTG-TCCGA
62 CGGCATGTGACCCGA
** *
53983466 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATATAAAAGAAATACCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAAT-T-TAA-AAATACCTC
53983531 GGCATGTGA-CCGA
63 GGCATGTGACCCGA
* * * *
53983544 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-GAAAACAAAAATTTAAAAGAAATACTTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTC
53983608 GGCA--TGACCCGA
63 GGCATGTGACCCGA
* * * * * *
53983620 GGCTCAACTCACCTCTCGCATTATGAATCGATTTTTGAAAAATAGAAA-TTGAAAATACCTCGGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
* *
53983684 ATATGACTCGA
66 ATGTGACCCGA
* * * * * *
53983695 GGCTCAGCTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGAAACTT-AAAATACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
* * *
53983759 GTGCGACCTGA
66 ATGTGACCCGA
* * * **
53983770 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTTAAAATACCTCAAC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
* *
53983835 GTGCGACCCGA
66 ATGTGACCCGA
* *
53983846 GGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAAAACAGAAACTT-AAAATACCTCGGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
*
53983910 ATGCGACCCGA
66 ATGTGACCCGA
* * *
53983921 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTTAAAATACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
* **
53983986 GTACGACCCGA
66 ATGTGACCCGA
*
53983997 GGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT-AAAAACAGCAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAG-AAAT
53984046 AAAAATTTTG
Statistics
Matches: 773, Mismatches: 86, Indels: 64
0.84 0.09 0.07
Matches are distributed among these distances:
73 23 0.03
74 4 0.01
75 230 0.30
76 192 0.25
77 104 0.13
78 170 0.22
79 14 0.02
80 11 0.01
82 25 0.03
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (76 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCGGC
ATGTGACCCGA
Found at i:53983847 original size:151 final size:150
Alignment explanation
Indices: 53983076--53984040 Score: 1024
Period size: 151 Copynumber: 6.3 Consensus size: 150
53983066 ATCGGCGTGT
* *
53983076 GGCTCAACTCACCTCTAGCATTATGAGTTGATTTTTTTTTGAAAAACAGAAA-TATAAAAGAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAACT-T--AAGAAAT
* * * * * * * **
53983140 ACCTCGGCATGTGTCCAATGTTCAACTCACTTCTCGCAATATGAGTCGATTTTAAAAAAAAACAG
59 ACCTCGGCATGCGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TGAAAAACAG
* * *
53983205 AAA-TTGAAAATACCTTAG-AGTGACCCGT
122 AAATTTAAAAATACCTCAGCA-TGACCCGA
*
53983233 GGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TATAAAAGAAATACCT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACT-T--AAGAAATACCT
* * * *
53983297 CGGCATGTGATCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTT
63 CGGCATGCGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
*
53983362 AAAAGAAATACCTCGGCATGACCCGA
128 --AA-AAATACCTCAGCATGACCCGA
* * * *
53983388 AGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAGACAGAAATTTAAAAGAAATACCT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACAGAAACTT--AAGAAATACCT
* * *
53983452 CGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATAT
63 CGGCATGCGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT-T
* *
53983517 AAAAGAAATACCTCGGCATGTGA-CCGA
127 -TAA-AAATACCTCAGCA--TGACCCGA
* * * *
53983544 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTTAAAAGAAATACTTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTT--AAGAAATACCTC
* * * *
53983608 GGCAT--GACCCGAGGCTCAACTCACCTCTCGCATTATGAATCGATTTTTGAAAAATAGAAA-TT
64 GGCATGCGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
* * *
53983670 GAAAATACCTCGGCATATGACTCGA
128 AAAAATACCTCAGC--ATGACCCGA
* * * *
53983695 GGCTCAGCTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGAAACTT-A-AAATACCTCAG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAGAAATACCTCGG
* * *
53983758 CGTGCGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTTA
66 CATGCGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAA
* *
53983823 AAATACCTCAACGTGCGACCCGA
130 AAATACCTCAGCAT--GACCCGA
* *
53983846 GGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAAAACAGAAACTT-A-AAATACCTCGG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAGAAATACCTCGG
*
53983909 CATGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTTA
66 CATGCGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAA
*
53983974 AAATACCTCAGCGTACGACCCGA
130 AAATACCTCAGC--ATGACCCGA
*
53983997 GGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT-AAAAACAG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
53984041 CAAATAAAAA
Statistics
Matches: 715, Mismatches: 67, Indels: 59
0.85 0.08 0.07
Matches are distributed among these distances:
148 11 0.02
149 4 0.01
150 72 0.10
151 240 0.34
152 16 0.02
153 77 0.11
154 56 0.08
155 166 0.23
156 38 0.05
157 35 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (150 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTTAAGAAATACCTCGG
CATGCGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAA
AATACCTCAGCATGACCCGA
Found at i:53988933 original size:4 final size:4
Alignment explanation
Indices: 53988924--53988956 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
53988914 ATGTACATGC
53988924 AATG AATG AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG A
53988957 CCAATAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:53991103 original size:18 final size:18
Alignment explanation
Indices: 53991080--53991223 Score: 93
Period size: 18 Copynumber: 8.0 Consensus size: 18
53991070 GATCCGATTG
*
53991080 AAACATGAGAATTTTTGA
1 AAACACGAGAATTTTTGA
*
53991098 AAACATGA-AATTTTTTG-
1 AAACACGAGAA-TTTTTGA
**
53991115 ATTCACG-GAAATTTTTAGA
1 AAACACGAG-AATTTTT-GA
*
53991134 AAACACGAAAAATTTTTGA
1 AAACACG-AGAATTTTTGA
53991153 AAACACGAGAATTTTTGA
1 AAACACGAGAATTTTTGA
* * *
53991171 AATCATGA-AAATTTT-A
1 AAACACGAGAATTTTTGA
* *
53991187 AAACACCGGGAATTATTTTA
1 AAACA-CGAGAATT-TTTGA
*
53991207 AAACACGA-ATTTTTTGA
1 AAACACGAGAATTTTTGA
53991224 TTTTTTATTA
Statistics
Matches: 98, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.05
17 22 0.22
18 39 0.40
19 19 0.19
20 13 0.13
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (18 bp):
AAACACGAGAATTTTTGA
Found at i:53991210 original size:73 final size:73
Alignment explanation
Indices: 53991080--53991215 Score: 168
Period size: 73 Copynumber: 1.9 Consensus size: 73
53991070 GATCCGATTG
* * * **
53991080 AAACATGAGAATTTTTGAAAACATGAAATTTTTTGATTCACGGAAATTTTTAGAAAACACGAAAA
1 AAACACGAGAATTTTTGAAAACATGAAATATTTTAAAACACGGAAATTTTTAGAAAACACGAAAA
53991145 ATTTTTGA
66 ATTTTTGA
* * *
53991153 AAACACGAGAATTTTTGAAATCATGAAA-ATTTTAAAACACCGGGAATTATTT-TAAAACACGAA
1 AAACACGAGAATTTTTGAAAACATGAAATATTTTAAAACA-CGGAAATT-TTTAGAAAACACGAA
53991216 TTTTTTGATT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 7 0.13
73 43 0.81
74 3 0.06
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (73 bp):
AAACACGAGAATTTTTGAAAACATGAAATATTTTAAAACACGGAAATTTTTAGAAAACACGAAAA
ATTTTTGA
Found at i:53991405 original size:21 final size:18
Alignment explanation
Indices: 53991322--53991426 Score: 72
Period size: 17 Copynumber: 5.6 Consensus size: 18
53991312 TTCGTTGCCT
*
53991322 TTTTTTTGAAAGCGCGAATA
1 TTTTTTTGAAA-CACGAA-A
* *
53991342 TTTTTTTTGAAATACG-AT
1 -TTTTTTTGAAACACGAAA
*
53991360 TTTTTTTGAAGACATGAAA
1 TTTTTTTGAA-ACACGAAA
*
53991379 --ATTTTGAAACACGGAAAA
1 TTTTTTTGAAACAC-G-AAA
53991397 TATTTTTTGAAAACACGAAA
1 T-TTTTTTG-AAACACGAAA
53991417 TTTTTTTGAA
1 TTTTTTTGAA
53991427 TATTTACAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
16 3 0.04
17 18 0.27
18 8 0.12
19 9 0.13
20 6 0.09
21 17 0.25
22 6 0.09
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTTTTTGAAACACGAAA
Found at i:53991766 original size:17 final size:17
Alignment explanation
Indices: 53991744--53991785 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
53991734 TTAAACCCCT
53991744 TTTTTC-TTCTCTTTTTC
1 TTTTTCTTTCT-TTTTTC
53991761 TTTTTCTTTCTTTTTTC
1 TTTTTCTTTCTTTTTTC
53991778 -TTTTCTTT
1 TTTTTCTTT
53991786 ATTTCTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 12 0.50
18 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:53991772 original size:16 final size:15
Alignment explanation
Indices: 53991743--53991785 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
53991733 ATTAAACCCC
53991743 TTTTTTCTTCTCTTTT
1 TTTTTTCTT-TCTTTT
53991759 TCTTTTTCTTTCTTTT
1 T-TTTTTCTTTCTTTT
53991775 TTCTTTTCTTT
1 TT-TTTTCTTT
53991786 ATTTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 16 0.64
17 8 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTCTTTCTTTT
Found at i:53991929 original size:14 final size:14
Alignment explanation
Indices: 53991912--53991951 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
53991902 AAAGATGGCC
53991912 TGCTTTCTTTTTTT
1 TGCTTTCTTTTTTT
53991926 TGCTTTCTTCTTTTT
1 TGCTTTCTT-TTTTT
*
53991941 T-TTTTCTTTTT
1 TGCTTTCTTTTT
53991952 GGGCTGCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 15 0.62
15 6 0.25
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (14 bp):
TGCTTTCTTTTTTT
Found at i:53992090 original size:17 final size:18
Alignment explanation
Indices: 53992068--53992135 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 18
53992058 ATTTCTTTAA
53992068 TTTTTTCTTTTTTTCC-C
1 TTTTTTCTTTTTTTCCTC
*
53992085 TTTTTTCTTCTTCTTCCTTC
1 TTTTTTCTT-TTTTTCC-TC
53992105 TTTCTTTCTCTTTTTTTCCTTC
1 -TT-TTT-TCTTTTTTTCC-TC
53992127 TTTTTTCTT
1 TTTTTTCTT
53992136 CTTCTTCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
17 9 0.21
18 6 0.14
19 4 0.09
20 4 0.09
21 4 0.09
22 12 0.28
23 4 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCCTC
Found at i:53992555 original size:30 final size:28
Alignment explanation
Indices: 53992521--53992703 Score: 179
Period size: 30 Copynumber: 6.2 Consensus size: 28
53992511 GGCCAAAACA
*
53992521 TAATTTTGAGGAAGTTTAGTGGTCAAAATG
1 TAATTTT-AGAAAGTTTAG-GGTCAAAATG
53992551 TAATTTTGAGAAAGTTTAGGGGT-AAAATG
1 TAATTTT-AGAAAGTTTA-GGGTCAAAATG
* *
53992580 TAATTTAAAAAAGTTTATGGGTCAAAATG
1 TAATTTTAGAAAGTTTA-GGGTCAAAATG
* * * *
53992609 TAATTTCAAAAAAGTTTAGGGGTTAAAATA
1 TAATTT-TAGAAAGTTTA-GGGTCAAAATG
*
53992639 TAATTTTAGGAAAATTTAAGGGTCAAAATG
1 TAATTTTA-GAAAGTTT-AGGGTCAAAATG
* * *
53992669 CAATTTTATAAAGTTTAGGGCCAAAATG
1 TAATTTTAGAAAGTTTAGGGTCAAAATG
53992697 TAATTTT
1 TAATTTT
53992704 TTATTTTTTG
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
28 30 0.23
29 31 0.24
30 68 0.52
31 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (28 bp):
TAATTTTAGAAAGTTTAGGGTCAAAATG
Found at i:53992694 original size:88 final size:88
Alignment explanation
Indices: 53992532--53992702 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
53992522 AATTTTGAGG
* * * * *
53992532 AAGTTTAGTGGTCAAAATGTAATTTTGAGAAAGTTTAGGGGTAAAATGTAATTTAAAAAAGTTTA
1 AAGTTTAGGGGTCAAAATATAATTTTGAGAAAATTTAAGGGTAAAATGCAATTTAAAAAAGTTTA
*
53992597 TGGGTCAAAATGTAATTTCAAAA
66 TGGGCCAAAATGTAATTTCAAAA
* * *
53992620 AAGTTTAGGGGTTAAAATATAATTTT-AGGAAAATTTAAGGGTCAAAATGCAATTTTATAAAGTT
1 AAGTTTAGGGGTCAAAATATAATTTTGA-GAAAATTTAAGGGT-AAAATGCAATTTAAAAAAGTT
53992684 TA-GGGCCAAAATGTAATTT
64 TATGGGCCAAAATGTAATTT
53992703 TTTATTTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
87 1 0.01
88 51 0.71
89 20 0.28
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.35
Consensus pattern (88 bp):
AAGTTTAGGGGTCAAAATATAATTTTGAGAAAATTTAAGGGTAAAATGCAATTTAAAAAAGTTTA
TGGGCCAAAATGTAATTTCAAAA
Found at i:53995096 original size:19 final size:19
Alignment explanation
Indices: 53995074--53995119 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
53995064 AAAATTATAA
*
53995074 ATATACATAAATATTTAAAAT
1 ATATA-ATAAAT-TTAAAAAT
53995095 ATATAATAAATTTAAAAAT
1 ATATAATAAATTTAAAAAT
53995114 ATATAA
1 ATATAA
53995120 ATAATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATAATAAATTTAAAAAT
Found at i:53997511 original size:3 final size:3
Alignment explanation
Indices: 53997503--53997552 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
53997493 TATAAGAAAT
* * * * *
53997503 ATA ATA ATA ATA GTA ATA ATA ATA TTA TTA ATA ATA GTA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53997551 AT
1 AT
53997553 GAAGTCCAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:53997519 original size:12 final size:12
Alignment explanation
Indices: 53997500--53997550 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
53997490 TGTTATAAGA
53997500 AATA-TAATAAT
1 AATAGTAATAAT
53997511 AATAGTAATAAT
1 AATAGTAATAAT
* *
53997523 AATATTATTAAT
1 AATAGTAATAAT
*
53997535 AATAGTAATAGT
1 AATAGTAATAAT
53997547 AATA
1 AATA
53997551 ATGAAGTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 4 0.12
12 30 0.88
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:53997521 original size:15 final size:15
Alignment explanation
Indices: 53997503--53997552 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
53997493 TATAAGAAAT
53997503 ATAATAATAATAGTA
1 ATAATAATAATAGTA
* *
53997518 ATAATAATATTATTA
1 ATAATAATAATAGTA
*
53997533 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
53997548 ATAAT
1 ATAAT
53997553 GAAGTCCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:53999390 original size:2 final size:2
Alignment explanation
Indices: 53999379--53999411 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
53999369 TTTCAATTAT
53999379 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53999412 ATGTATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:53999612 original size:8 final size:8
Alignment explanation
Indices: 53999595--53999632 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
53999585 TAACCTTTTA
*
53999595 AAAATCAT
1 AAAATTAT
53999603 AAAATTAT
1 AAAATTAT
53999611 AAAATTAT
1 AAAATTAT
53999619 AAAATTAT
1 AAAATTAT
53999627 AAAATT
1 AAAATT
53999633 TCATTTATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:54007485 original size:3 final size:3
Alignment explanation
Indices: 54007471--54007510 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
54007461 TTGACTTTCA
* *
54007471 TTG TTA TTG TTG TTG TTG TTG TTG TAG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
54007511 CGTCGTCGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.00, G:0.30, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:54014785 original size:23 final size:23
Alignment explanation
Indices: 54014726--54014795 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
54014716 TATACGAAAA
* *
54014726 AATTTAAAATAGATAATATCGA-AC
1 AATTTAAAATAAATAATA-C-ATAT
**
54014750 AATTTAATGTAAATAATACATAT
1 AATTTAAAATAAATAATACATAT
54014773 AATTTAAAATAAATAA-A-ATAT
1 AATTTAAAATAAATAATACATAT
54014794 AA
1 AA
54014796 ACCATTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 6 0.15
22 2 0.05
23 16 0.41
24 15 0.38
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTTAAAATAAATAATACATAT
Found at i:54017127 original size:18 final size:19
Alignment explanation
Indices: 54017093--54017128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54017083 TAAATAATAT
54017093 AGTAAAATTTATCAATTTC
1 AGTAAAATTTATCAATTTC
*
54017112 AGTAAATTTTAT-AATTT
1 AGTAAAATTTATCAATTT
54017129 TTTTGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (19 bp):
AGTAAAATTTATCAATTTC
Found at i:54017165 original size:20 final size:20
Alignment explanation
Indices: 54017115--54017171 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
54017105 CAATTTCAGT
*
54017115 AAATTTTATAATTTTTTTGA
1 AAATTTTATAATATTTTTGA
**
54017135 ATGTTTTATAATATTTTTGA
1 AAATTTTATAATATTTTTGA
*
54017155 AAATTTGATAA-ATTTTT
1 AAATTTTATAATATTTTT
54017172 ATTTATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
AAATTTTATAATATTTTTGA
Found at i:54029322 original size:17 final size:16
Alignment explanation
Indices: 54029300--54029349 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
54029290 TAAATTTAAA
54029300 TAATATATTATATGATC
1 TAATATATTATAT-ATC
*
54029317 TAATATATTATATATT
1 TAATATATTATATATC
54029333 TAAT-TA-TATATCATC
1 TAATATATTATAT-ATC
54029348 TA
1 TA
54029350 CAAACTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 6 0.20
17 13 0.43
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATATATTATATATC
Found at i:54040101 original size:23 final size:23
Alignment explanation
Indices: 54040066--54040110 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54040056 TTTTAAATAA
54040066 TTTTGATAATTTTGTAATTTTTC
1 TTTTGATAATTTTGTAATTTTTC
*
54040089 TTTT-ATAATTTTTGTCATTTTT
1 TTTTGATAA-TTTTGTAATTTTT
54040111 GAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTGATAATTTTGTAATTTTTC
Found at i:54049775 original size:32 final size:34
Alignment explanation
Indices: 54049738--54049805 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 34
54049728 TGTTTAAAAA
**
54049738 TTTTATTAAAAAGTTTTAA-ATTT-TATATAATT
1 TTTTATTAAAAACCTTTAATATTTATATATAATT
*
54049770 TTTTATTAAAAACCTTTAATATTTATATTTAATT
1 TTTTATTAAAAACCTTTAATATTTATATATAATT
54049804 TT
1 TT
54049806 AAAAATAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 17 0.55
33 4 0.13
34 10 0.32
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTTATTAAAAACCTTTAATATTTATATATAATT
Found at i:54053419 original size:43 final size:43
Alignment explanation
Indices: 54053309--54053409 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
54053299 GATATGTGTT
*
54053309 TTTTTGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTATG
1 TTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTATG
* *
54053352 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTTTG
1 TTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTATG
54053395 TTTTCGTGTAAGACC
1 TTTTCGTGTAAGACC
54053410 CTATTTGGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.39
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTATG
Found at i:54053427 original size:43 final size:43
Alignment explanation
Indices: 54053309--54053458 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
54053299 GATATGTGTT
* * * *
54053309 TTTTTGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTATG
1 TTTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGATTTATG
* * *
54053352 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTTTG
1 TTTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGATTTATG
* * *
54053395 TTTTCGTGTAAGACC-CTATTTGGGATAG-TGGCATCGATCTGTG
1 TTTTCGTGTAAGACCAC-ATCTGGGA-AGTTGGCATCGATTTATG
* * *
54053438 ATTACATGTAAGACCACATCT
1 TTTTCGTGTAAGACCACATCT
54053459 AGGGCACTGG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 89 0.97
44 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGATTTATG
Found at i:54055742 original size:19 final size:21
Alignment explanation
Indices: 54055703--54055742 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
54055693 TCACATGTCC
54055703 CTAGGGTTCGCATATTAATTAT
1 CTAGGGTTCG-ATATTAATTAT
54055725 CTAGGGTTCG-TA-TAATTA
1 CTAGGGTTCGATATTAATTA
54055743 GCATAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
22 10 0.56
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (21 bp):
CTAGGGTTCGATATTAATTAT
Found at i:54055829 original size:22 final size:22
Alignment explanation
Indices: 54055802--54055861 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
54055792 TTCATGTAAT
54055802 AAACATATAGGGTTTGCATATA
1 AAACATATAGGGTTTGCATATA
* ** * *
54055824 TAACATCCAGGGTTCGCATGTA
1 AAACATATAGGGTTTGCATATA
54055846 AACACATATAGGGTTT
1 AA-ACATATAGGGTTT
54055862 TTACAGTACA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (22 bp):
AAACATATAGGGTTTGCATATA
Found at i:54065575 original size:46 final size:45
Alignment explanation
Indices: 54065518--54065613 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 45
54065508 ATCAGATAAT
* *
54065518 TGTGGTCAAGCCATTGA-ATTGCATCTCAA-CTGCCAAAACAAAAATA
1 TGTGGTCAAGCCACT-ATATTCCATC-CAAGCTGCC-AAACAAAAATA
* *
54065564 TGTGGTGAAGCCACTATATTCCATCCAAGCTGCCAAATAAAAATA
1 TGTGGTCAAGCCACTATATTCCATCCAAGCTGCCAAACAAAAATA
54065609 TGTGG
1 TGTGG
54065614 ATAAACCATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
45 19 0.43
46 25 0.57
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (45 bp):
TGTGGTCAAGCCACTATATTCCATCCAAGCTGCCAAACAAAAATA
Found at i:54068645 original size:13 final size:12
Alignment explanation
Indices: 54068602--54068651 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
54068592 TTTATGATAT
54068602 TATCATTA-TAC
1 TATCATTATTAC
* * *
54068613 CATTATTATTAT
1 TATCATTATTAC
54068625 TA-CATTATTTAC
1 TATCATTA-TTAC
54068637 TATCATTATTAC
1 TATCATTATTAC
54068649 TAT
1 TAT
54068652 TGTACTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 10 0.33
12 15 0.50
13 5 0.17
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (12 bp):
TATCATTATTAC
Found at i:54068707 original size:23 final size:22
Alignment explanation
Indices: 54068677--54068721 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
54068667 TATACATACG
*
54068677 CATATTTTATATATA-ATATATT
1 CATATTTTA-ACATAGATATATT
54068699 CATATTTTTAACATAGATATATT
1 CATA-TTTTAACATAGATATATT
54068722 TTTTTGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
CATATTTTAACATAGATATATT
Found at i:54068959 original size:17 final size:16
Alignment explanation
Indices: 54068939--54068978 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
54068929 TCTATTATTT
*
54068939 TATATACATATTGTACA
1 TATATACATATT-TAAA
*
54068956 TATATACGTATTTAAA
1 TATATACATATTTAAA
54068972 TATATAC
1 TATATAC
54068979 GAATGCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:54074016 original size:18 final size:18
Alignment explanation
Indices: 54073993--54074027 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
54073983 AAAATAATAG
54073993 CAAAGAAAAAGAAAAAAA
1 CAAAGAAAAAGAAAAAAA
54074011 CAAAGAAAAAGAAAAAA
1 CAAAGAAAAAGAAAAAA
54074028 GGAGAGGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (18 bp):
CAAAGAAAAAGAAAAAAA
Found at i:54074025 original size:5 final size:6
Alignment explanation
Indices: 54073994--54074026 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
54073984 AAATAATAGC
54073994 AAAGAA AAAGAA AAA-AA CAAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA -AAAGAA AAAGAA AAA
54074027 AGGAGAGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.08
6 21 0.84
7 2 0.08
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:54075573 original size:132 final size:132
Alignment explanation
Indices: 54075392--54076436 Score: 1700
Period size: 132 Copynumber: 7.9 Consensus size: 132
54075382 CATTGACAGT
* *
54075392 GGAGTAGATCGAAGATGG-AGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCGAAGATGGTA-GATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* *
54075456 AATTCTACTTCCCTGGGAAACAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
65 AATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
*
54075521 AGT
130 AGC
* * *
54075524 GGAGCAGATCGAAGATGGTGGATTTTACCTCCCTATGGTTACAGCGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
54075589 ATTCTATTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
*
54075654 GT
131 GC
* * *
54075656 GGAGCAGATCGAAGATGGTGGATTTTAGCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
54075721 ATTCTACTTCCCTGGGCAACAGTGTAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
*
54075786 GT
131 GC
*
54075788 GGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
54075853 ATTCTACTTCCCTGGGCAAGAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGTA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
54075918 GC
131 GC
* *
54075920 AGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
54075985 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
54076050 GC
131 GC
* *
54076052 GGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACACTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
54076117 ATTCTACTTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
54076182 GC
131 GC
* * * *
54076184 GGAGTAGATCAAAGATGGTAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
54076249 ATTCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC-AAGAAATA
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
54076313 GC
131 GC
* * *
54076315 GGAGCAGATCAAAGATGGTAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATAGAAGCCAGTA
1 GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
54076380 ATTCTACTTCACTGGGCAATAGTGGAATAGATTGAAGATTGTGA-ATCCTATCTCCCT
66 ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
54076437 TGTCAATAGT
Statistics
Matches: 860, Mismatches: 50, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
131 117 0.14
132 743 0.86
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
GC
Found at i:54076459 original size:44 final size:44
Alignment explanation
Indices: 54076391--54076503 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
54076381 TTCTACTTCA
* * *
54076391 CTGGGCAATAGTGGAATAGATTGAAGATTGTGAATCCTATCTCC
1 CTGGTCAATAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCC
*
54076435 CTTGTCAATAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCC
1 CTGGTCAATAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCC
**
54076479 CTGGTCAGCAGTGGAATAGGTTGAA
1 CTGGTCAATAGTGGAATAGGTTGAA
54076504 AGTAAACAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (44 bp):
CTGGTCAATAGTGGAATAGGTTGAAGATTGAGAATCCTATCTCC
Found at i:54078086 original size:23 final size:22
Alignment explanation
Indices: 54078056--54078100 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
54078046 TATACATACG
*
54078056 CATATTTTATATATA-ATATATT
1 CATATTTTA-ACATAGATATATT
54078078 CATATTTTTAACATAGATATATT
1 CATA-TTTTAACATAGATATATT
54078101 TTTTTGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
CATATTTTAACATAGATATATT
Found at i:54078340 original size:17 final size:16
Alignment explanation
Indices: 54078320--54078359 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
54078310 TCTATTATTT
*
54078320 TATATACATATTGTACA
1 TATATACATATT-TAAA
*
54078337 TATATACGTATTTAAA
1 TATATACATATTTAAA
54078353 TATATAC
1 TATATAC
54078360 GAATGCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATACATATTTAAA
Found at i:54082710 original size:23 final size:23
Alignment explanation
Indices: 54082675--54082719 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54082665 TTTTAAATAA
54082675 TTTTGATAATTTTGTAATTTTTC
1 TTTTGATAATTTTGTAATTTTTC
*
54082698 TTTT-ATAATTTTTGTCATTTTT
1 TTTTGATAA-TTTTGTAATTTTT
54082720 GAAGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTGATAATTTTGTAATTTTTC
Found at i:54086330 original size:11 final size:11
Alignment explanation
Indices: 54086316--54086340 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54086306 CACGTCAAAC
54086316 GAAAAGAAAAA
1 GAAAAGAAAAA
54086327 GAAAAGAAAAA
1 GAAAAGAAAAA
54086338 GAA
1 GAA
54086341 CAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Done.