Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold260
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: 1006324
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 3 of 7
Found at i:350275 original size:28 final size:29
Alignment explanation
Indices: 350193--350277 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
350183 AATAAATTTT
*
350193 TTATCAAGGGAGAGAAAATCTTTTAAGCGA
1 TTATCAAGGGAGAGAAAAT-TTTTAAACGA
*
350223 TTATCAAGGGGGAGAAAATTTTTTAAACGA
1 TTATCAAGGGAGAGAAAA-TTTTTAAACGA
*
350253 TTTTCAAGGGAGAG-AAATTTTTAAA
1 TTATCAAGGGAGAGAAAATTTTTAAA
350278 TGAGAACCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.16
29 3 0.06
30 38 0.76
31 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (29 bp):
TTATCAAGGGAGAGAAAATTTTTAAACGA
Found at i:351627 original size:16 final size:16
Alignment explanation
Indices: 351584--351640 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
351574 TATGTTTATA
351584 TTTAAATA-T-AAAA-
1 TTTAAATATTAAAAAT
*
351597 TTTAAA-ATTATAAAT
1 TTTAAATATTAAAAAT
* *
351612 TTTTAATTTTAAAAAT
1 TTTAAATATTAAAAAT
351628 TTTAAATATTAAA
1 TTTAAATATTAAA
351641 TAAATAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 1 0.03
13 7 0.21
14 3 0.09
15 5 0.15
16 18 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAATATTAAAAAT
Found at i:351674 original size:21 final size:22
Alignment explanation
Indices: 351631--351682 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
351621 TAAAAATTTT
*
351631 AAATATTAAATAAATAAATATA
1 AAATATTAAAAAAATAAATATA
*
351653 AAATATTAAAAAAATATA-ATA
1 AAATATTAAAAAAATAAATATA
*
351674 AATTATTAA
1 AAATATTAA
351683 TAATTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATTAAAAAAATAAATATA
Found at i:351678 original size:18 final size:18
Alignment explanation
Indices: 351637--351678 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
351627 TTTTAAATAT
*
351637 TAAA-TAAATAAATATAA
1 TAAATTAAAAAAATATAA
351654 -AATATTAAAAAAATATAA
1 TAA-ATTAAAAAAATATAA
351672 TAAATTA
1 TAAATTA
351679 TTAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 2 0.10
17 1 0.05
18 16 0.76
19 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTAAAAAAATATAA
Found at i:351766 original size:11 final size:13
Alignment explanation
Indices: 351740--351780 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
351730 TGAATGCAAA
351740 AAATTTAAAAATT
1 AAATTTAAAAATT
351753 AAA-TTAAAAA-T
1 AAATTTAAAAATT
351764 AAATTTAAAAAATT
1 AAATTT-AAAAATT
351778 AAA
1 AAA
351781 ATTTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 9 0.36
13 8 0.32
14 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTAAAAATT
Found at i:352103 original size:19 final size:19
Alignment explanation
Indices: 352079--352117 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
352069 TTTTAAATAT
*
352079 TTTAAATAA-AAATATTAAA
1 TTTAAAAAATAAAT-TTAAA
352098 TTTAAAAAATAAATTTAAA
1 TTTAAAAAATAAATTTAAA
352117 T
1 T
352118 AAAAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAAAAATAAATTTAAA
Found at i:353622 original size:26 final size:26
Alignment explanation
Indices: 353573--353624 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
353563 TTTTAAAAAA
* *
353573 TATTTATATACAATTATTTTATTTTT
1 TATTTATATACAATTAATTAATTTTT
353599 TATTTATA-ACAATATAATTAATTTTT
1 TATTTATATACAAT-TAATTAATTTTT
353625 CAAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTATATACAATTAATTAATTTTT
Found at i:353623 original size:25 final size:26
Alignment explanation
Indices: 353573--353624 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
353563 TTTTAAAAAA
* *
353573 TATTTATATACAATTATTTTATTTTT
1 TATTTATATACAATTATATTAATTTT
353599 TATTTATA-ACAA-TATAATTAATTTT
1 TATTTATATACAATTAT-ATTAATTTT
353624 T
1 T
353625 CAAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 12 0.52
26 8 0.35
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTATATACAATTATATTAATTTT
Found at i:353734 original size:2 final size:2
Alignment explanation
Indices: 353727--353764 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
353717 TCAAATGTGA
353727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
353765 GTATGAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:362279 original size:187 final size:187
Alignment explanation
Indices: 361964--362351 Score: 677
Period size: 187 Copynumber: 2.1 Consensus size: 187
361954 AATTTTTCTA
* * *
361964 ATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGGCTCTATGTATCGATACATTTAACCAT
1 ATGTATCGATACATGCATTTGAAATTTATAACCGTTGGGCTCTATATATCAATACATTTAACCAT
* * *
362029 GTATCGATATAATGTATCGATACTGAGTGAGTTTAGCTATTGCTAGTTTTATATATCGATACAAT
66 GTATCGATATAATGTATCGATACTAAATGAGTTTAGCTACTGCTAGTTTTATATATCGATACAAT
*
362094 TCAGTGTATATCAATACCAAGAACATTTATCGATACAATGTATTGATACTAAGCAAT
131 TCAGTGTATATCAATACCAAGAACATTTATCGATACAATATATTGATACTAAGCAAT
362151 ATGTATCGATACATGCATTTGAAATTTATAACCGTTGGGCTCTATATATCAATACATTTAACCAT
1 ATGTATCGATACATGCATTTGAAATTTATAACCGTTGGGCTCTATATATCAATACATTTAACCAT
362216 GTATCGATATAATGTATCGATACTAAATGAGTTTAGCTACTGCTAGTTTTATATATCGATACAAT
66 GTATCGATATAATGTATCGATACTAAATGAGTTTAGCTACTGCTAGTTTTATATATCGATACAAT
* * * *
362281 TTAGTGTGTATCGATACTAAGAACATTTATCGATACAATATATTGATACTAAGCAAT
131 TCAGTGTATATCAATACCAAGAACATTTATCGATACAATATATTGATACTAAGCAAT
362338 ATGTATCGATACAT
1 ATGTATCGATACAT
362352 CTGGATGTGT
Statistics
Matches: 190, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
187 190 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (187 bp):
ATGTATCGATACATGCATTTGAAATTTATAACCGTTGGGCTCTATATATCAATACATTTAACCAT
GTATCGATATAATGTATCGATACTAAATGAGTTTAGCTACTGCTAGTTTTATATATCGATACAAT
TCAGTGTATATCAATACCAAGAACATTTATCGATACAATATATTGATACTAAGCAAT
Found at i:362893 original size:9 final size:9
Alignment explanation
Indices: 362881--362940 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
362871 TTAAAATTTC
362881 TTTAATATA
1 TTTAATATA
362890 TTTAATATA
1 TTTAATATA
362899 TTT--TATA
1 TTTAATATA
362906 TTTAATATA
1 TTTAATATA
362915 TTT--TATA
1 TTTAATATA
362922 TTTAATATA
1 TTTAATATA
362931 TTT-ATATA
1 TTTAATATA
362939 TT
1 TT
362941 ATATAATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.30
8 7 0.15
9 26 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTAATATA
Found at i:362907 original size:16 final size:16
Alignment explanation
Indices: 362886--362940 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
362876 ATTTCTTTAA
362886 TATATTTAATATATTT
1 TATATTTAATATATTT
362902 TATATTTAATATATTT
1 TATATTTAATATATTT
362918 TATATTTAATATATTT
1 TATATTTAATATATTT
362934 ATATATT
1 -TATATT
362941 ATATAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 32 0.84
17 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTTAATATATTT
Found at i:362909 original size:25 final size:24
Alignment explanation
Indices: 362881--362945 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
362871 TTAAAATTTC
362881 TTTAATATATTTAATATATTT-TATA
1 TTTAATATATTT--TATATTTATATA
362906 TTTAATATATTTTATATTTAATATA
1 TTTAATATATTTTATATTT-ATATA
*
362931 TTT-ATATATTATATA
1 TTTAATATATTTTATA
362946 ATTAAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 7 0.19
24 11 0.30
25 19 0.51
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTAATATATTTTATATTTATATA
Found at i:362945 original size:9 final size:9
Alignment explanation
Indices: 362885--362949 Score: 56
Period size: 8 Copynumber: 8.1 Consensus size: 9
362875 AATTTCTTTA
362885 ATATAT-TT
1 ATATATATT
362893 A-ATATATT
1 ATATATATT
*
362901 TTATAT-TT
1 ATATATATT
362909 A-ATATATT
1 ATATATATT
*
362917 TTATAT-TT
1 ATATATATT
362925 A-ATATATT
1 ATATATATT
362933 -TATATATT
1 ATATATATT
362941 ATATA-ATT
1 ATATATATT
362949 A
1 A
362950 AATTAACTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
7 12 0.26
8 22 0.48
9 12 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATATATATT
Found at i:363523 original size:16 final size:16
Alignment explanation
Indices: 363481--363525 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
363471 GTATTATTTT
*
363481 TATTTTAATATTAATA
1 TATTTTAATATCAATA
*
363497 TATATTAATATCAATA
1 TATTTTAATATCAATA
363513 T-TTTTATATATCA
1 TATTTTA-ATATCA
363526 TTTTGGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTAATATCAATA
Found at i:364886 original size:22 final size:21
Alignment explanation
Indices: 364822--364886 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 21
364812 ATTTTCACTC
*
364822 TAAATTAATT-ATA-TTTTTA
1 TAAATTAATTCAAATTTTTTA
**
364841 TAAATTAATTCAAATTATAATA
1 TAAATTAATTCAAATT-TTTTA
* *
364863 TAAATTATTTTTAAATTTTTTA
1 TAAATTA-ATTCAAATTTTTTA
364885 TA
1 TA
364887 CTTATTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 1 0.03
22 15 0.43
23 7 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTAATTCAAATTTTTTA
Found at i:364920 original size:17 final size:17
Alignment explanation
Indices: 364890--364924 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
364880 TTTTATACTT
364890 ATTTATAAAAAAATAAA
1 ATTTATAAAAAAATAAA
364907 ATTTA-AAAAGAAATAAA
1 ATTTATAAAA-AAATAAA
364924 A
1 A
364925 CTATATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
ATTTATAAAAAAATAAA
Found at i:365835 original size:29 final size:28
Alignment explanation
Indices: 365779--365836 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
365769 ATAATAACTC
* **
365779 TTTTTATTGAATAATTTATTAATTTTAA
1 TTTTTATTGAATAATTAATTAAAATTAA
*
365807 TTTTTATTGAATTTATTAATTAAAATTAA
1 TTTTTATTGAA-TAATTAATTAAAATTAA
365836 T
1 T
365837 CAAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTTTATTGAATAATTAATTAAAATTAA
Found at i:367410 original size:24 final size:22
Alignment explanation
Indices: 367378--367430 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
367368 ATAAATATAA
367378 AAATATAATAAATTATTATTAATT
1 AAATATAATAAATTATT-TTAA-T
* *
367402 AAATTTAATAATTTATTTTAAT
1 AAATATAATAAATTATTTTAAT
367424 AAATATA
1 AAATATA
367431 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 4 0.15
24 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATAATAAATTATTTTAAT
Found at i:367763 original size:18 final size:20
Alignment explanation
Indices: 367740--367781 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
367730 AGTTGAATTA
367740 TTTATTTAA-ATTTAA-AAT
1 TTTATTTAATATTTAAGAAT
367758 TTTATTTAATATTTAAGAAT
1 TTTATTTAATATTTAAGAAT
367778 TTTA
1 TTTA
367782 AATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
19 6 0.27
20 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATTTAATATTTAAGAAT
Found at i:367918 original size:23 final size:22
Alignment explanation
Indices: 367882--367928 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
367872 GAATTTGTTC
367882 ATATTTTTTAATTATATA-ATAT
1 ATATTTTTTAATTAT-TACATAT
*
367904 ATATTATTTTTATTATTACATAT
1 ATATT-TTTTAATTATTACATAT
367927 AT
1 AT
367929 TATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTTAATTATTACATAT
Found at i:367921 original size:26 final size:25
Alignment explanation
Indices: 367883--367938 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
367873 AATTTGTTCA
*
367883 TATTTTTTAATTATATA-ATATATAT
1 TATTTTTTAATTACATATAT-TATAT
*
367908 TATTTTTATTATTACATATATTATAT
1 TATTTTT-TAATTACATATATTATAT
*
367934 AATTT
1 TATTT
367939 ATATCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 17 0.65
27 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTTTTTAATTACATATATTATAT
Found at i:368699 original size:23 final size:22
Alignment explanation
Indices: 368657--368701 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
368647 ATTGATAAAA
368657 TTTAAATTTAAAATTAATAATT
1 TTTAAATTTAAAATTAATAATT
* *
368679 TTTAATATTTAATATTTATAATT
1 TTTAA-ATTTAAAATTAATAATT
368702 ATCAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAATTTAAAATTAATAATT
Found at i:368713 original size:20 final size:19
Alignment explanation
Indices: 368688--368778 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 19
368678 TTTTAATATT
368688 TAATATTTATAATTATCAAA
1 TAATATTTATAA-TATCAAA
368708 TAATATAATTAT-AT-TC-AA
1 TAATAT--TTATAATATCAAA
368726 T-ATATTTAATAACATATCAAA
1 TAATATTT-AT-A-ATATCAAA
*
368747 TAATTTTTATAATAT-AAA
1 TAATATTTATAATATCAAA
368765 TTTAATATTTATAA
1 --TAATATTTATAA
368779 ATTTAATACT
Statistics
Matches: 58, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
15 2 0.03
16 2 0.03
17 4 0.07
18 6 0.10
19 8 0.14
20 21 0.36
21 6 0.10
22 9 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTTATAATATCAAA
Found at i:368757 original size:37 final size:33
Alignment explanation
Indices: 368672--368757 Score: 82
Period size: 37 Copynumber: 2.4 Consensus size: 33
368662 ATTTAAAATT
* *
368672 AATAATTTTTAATATTTAATATTTATAATTATCA
1 AATAATTTTT-ATATTAAATATTTATAAATATCA
*
368706 AATAATATAATTATATTCAATATATTTAATAACATATCA
1 AATAAT-T-TTTATATT-AA-ATATTT-ATAA-ATATCA
368745 AATAATTTTTATA
1 AATAATTTTTATA
368758 ATATAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
34 6 0.14
35 6 0.14
36 3 0.07
37 11 0.26
38 5 0.12
39 11 0.26
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (33 bp):
AATAATTTTTATATTAAATATTTATAAATATCA
Found at i:369296 original size:24 final size:24
Alignment explanation
Indices: 369233--369298 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
369223 TTTAAATACA
*
369233 ATAAAATATAACAATATATATATAT
1 ATAAAATATAA-AATAAATATATAT
*
369258 ATAAAATAATTAAATCAAATATATAT
1 ATAAAAT-ATAAAAT-AAATATATAT
369284 A-AAAATATAAAATAA
1 ATAAAATATAAAATAA
369299 TCAAATAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.06
24 6 0.17
25 15 0.42
26 13 0.36
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAAAATATAAAATAAATATATAT
Found at i:369321 original size:2 final size:2
Alignment explanation
Indices: 369314--369348 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
369304 TAGCAATTTT
369314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
369349 GAAAAGATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:369426 original size:48 final size:48
Alignment explanation
Indices: 369355--369451 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
369345 ATATGAAAAG
369355 ATAGATGGTCCAATATCCCCATCAGTGGGGACCATAACGTCCGCCACT
1 ATAGATGGTCCAATATCCCCATCAGTGGGGACCATAACGTCCGCCACT
369403 ATAGATGGTCCAATATCCCCATCAGTGGGGACCATAACGTCCGCCACT
1 ATAGATGGTCCAATATCCCCATCAGTGGGGACCATAACGTCCGCCACT
369451 A
1 A
369452 ATGGGTCTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (48 bp):
ATAGATGGTCCAATATCCCCATCAGTGGGGACCATAACGTCCGCCACT
Found at i:378341 original size:20 final size:21
Alignment explanation
Indices: 378314--378370 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
378304 TAAAAAACTC
378314 AGAATGTATCGATACAATG-A
1 AGAATGTATCGATACAATGCA
* * *
378334 ATAATGTATCAATACATTGCA
1 AGAATGTATCGATACAATGCA
*
378355 AGCATGTATCGATACA
1 AGAATGTATCGATACA
378371 TTCACTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
AGAATGTATCGATACAATGCA
Found at i:378383 original size:20 final size:20
Alignment explanation
Indices: 378316--378390 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
378306 AAAAACTCAG
* * *
378316 AATGTATCGATACAATGAAT
1 AATGTATCAATACATTCAAT
*
378336 AATGTATCAATACATTGCAAG
1 AATGTATCAATACATT-CAAT
* * *
378357 CATGTATCGATACATTCACT
1 AATGTATCAATACATTCAAT
*
378377 TATGTATCAATACA
1 AATGTATCAATACA
378391 ATTTTTTCAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCAATACATTCAAT
Found at i:379515 original size:21 final size:22
Alignment explanation
Indices: 379474--379515 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
379464 GGCAAGTCTA
*
379474 AATGTTTTTCAAGTAATAAATC
1 AATGTTTTTCAAGTAAGAAATC
379496 AATGTTTTTCAAGT-AGAAAT
1 AATGTTTTTCAAGTAAGAAAT
379516 ACATGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
AATGTTTTTCAAGTAAGAAATC
Found at i:380293 original size:34 final size:34
Alignment explanation
Indices: 380222--380355 Score: 153
Period size: 34 Copynumber: 3.9 Consensus size: 34
380212 CGAAGTGATT
* * *
380222 AAGAGGTTCTACCTTCGCCTTTGAAAAAGATAAGG
1 AAGAGGTTCTATCTTAGCCTGTG-AAAAGATAAGG
* * *
380257 AAGAGGTTCTGTCTTAGACTGTGAAAAGATAGGG
1 AAGAGGTTCTATCTTAGCCTGTGAAAAGATAAGG
* * *
380291 AAGATGTTCTATCTTAGCCTATGAAAAAATAAGG
1 AAGAGGTTCTATCTTAGCCTGTGAAAAGATAAGG
*
380325 -AGAAGGTTCTATCTTAGCCCGTGAAAAGATA
1 AAG-AGGTTCTATCTTAGCCTGTGAAAAGATA
380356 GGGTTATAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
33 2 0.02
34 62 0.76
35 18 0.22
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (34 bp):
AAGAGGTTCTATCTTAGCCTGTGAAAAGATAAGG
Found at i:380340 original size:68 final size:69
Alignment explanation
Indices: 380222--380380 Score: 189
Period size: 68 Copynumber: 2.3 Consensus size: 69
380212 CGAAGTGATT
* * * *
380222 AAGAGGTTCTACCTTCGCCTTTGAAAAAGATAAGGAAGAGGTTCTGTCTTAGACTGTGAAAAGAT
1 AAGAGGTTCTACCTTAGCCTATGAAAAAGATAAGGAAGAGGTTCTATCTTAGACCGTGAAAAGAT
380287 AGGG
66 AGGG
* * *
380291 AAGATGTTCTATCTTAGCCTATGAAAAA-ATAAGG-AGAAGGTTCTATCTTAGCCCGTGAAAAGA
1 AAGAGGTTCTACCTTAGCCTATGAAAAAGATAAGGAAG-AGGTTCTATCTTAGACCGTGAAAAGA
380354 TAGGG
65 TAGGG
*
380359 TTATA-AGGTTATACCTTAGCCT
1 --A-AGAGGTTCTACCTTAGCCT
380381 CAAAGGTAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
67 2 0.03
68 34 0.45
69 24 0.32
70 15 0.20
71 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (69 bp):
AAGAGGTTCTACCTTAGCCTATGAAAAAGATAAGGAAGAGGTTCTATCTTAGACCGTGAAAAGAT
AGGG
Found at i:381597 original size:3 final size:3
Alignment explanation
Indices: 381579--381617 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
381569 TGTAATGTTG
* *
381579 ATT ATT GTT TTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
381618 TACTTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:390612 original size:13 final size:13
Alignment explanation
Indices: 390594--390619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
390584 CAATTTTTTG
390594 TGTATCGATACAT
1 TGTATCGATACAT
390607 TGTATCGATACAT
1 TGTATCGATACAT
390620 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:390684 original size:21 final size:21
Alignment explanation
Indices: 390658--390733 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
390648 CTGCCAAGAA
*
390658 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
390679 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
390699 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
390720 ATGTATCGATACAT
1 ATGTATCGATACAT
390734 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:390704 original size:20 final size:20
Alignment explanation
Indices: 390679--390751 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
390669 CATCTTTTTT
390679 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
390699 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
390720 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
390740 ATGTATCGATAC
1 ATGTATCGATAC
390752 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:390715 original size:41 final size:41
Alignment explanation
Indices: 390658--390751 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
390648 CTGCCAAGAA
*
390658 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
390699 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
390740 ATGTATCGATAC
1 ATGTATCGATAC
390752 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:391411 original size:31 final size:31
Alignment explanation
Indices: 391373--391433 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
391363 CCCGTTTATT
391373 AAAAAATCTCCCCCTTAATCAAGTAATTCAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCAA
391404 AAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCA
391434 TATCAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCAA
Found at i:393244 original size:13 final size:13
Alignment explanation
Indices: 393226--393263 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
393216 ATAAACACCC
393226 TGTATCGATACAG
1 TGTATCGATACAG
*
393239 TGTATCGATACAT
1 TGTATCGATACAG
393252 TGTATCGATACA
1 TGTATCGATACA
393264 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:395362 original size:15 final size:15
Alignment explanation
Indices: 395342--395372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
395332 ATTTCGTTTG
*
395342 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
395357 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
395372 G
1 G
395373 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:399452 original size:13 final size:13
Alignment explanation
Indices: 399434--399459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399424 CAATTTTTTG
399434 TGTATCGATACAT
1 TGTATCGATACAT
399447 TGTATCGATACAT
1 TGTATCGATACAT
399460 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:399524 original size:21 final size:21
Alignment explanation
Indices: 399498--399573 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
399488 CTGCCAAGAA
*
399498 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
399519 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
399539 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
399560 ATGTATCGATACAT
1 ATGTATCGATACAT
399574 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:399544 original size:20 final size:20
Alignment explanation
Indices: 399519--399591 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
399509 CATCTTTTTT
399519 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
399539 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
399560 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
399580 ATGTATCGATAC
1 ATGTATCGATAC
399592 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:399555 original size:41 final size:41
Alignment explanation
Indices: 399498--399591 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
399488 CTGCCAAGAA
*
399498 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
399539 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
399580 ATGTATCGATAC
1 ATGTATCGATAC
399592 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:401503 original size:20 final size:20
Alignment explanation
Indices: 401464--401537 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
401454 TTCTACAATT
* *
401464 TGTATCAATACAACAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
401485 TGTATCGATATATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
401505 TATATCTATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
401525 TGTATCGATACAT
1 TGTATCGATACAT
401538 GTTTGAAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 36 0.80
21 9 0.20
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:402399 original size:34 final size:32
Alignment explanation
Indices: 402350--402414 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
402340 TACAAGCCAA
402350 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA--TTTTGTGTATCGATACAT
* *
402384 TGTATTGATATATATTTTGTGTATCGATACA
1 TGTATCGATACATATTTTGTGTATCGATACA
402415 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 17 0.59
34 12 0.41
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (32 bp):
TGTATCGATACATATTTTGTGTATCGATACAT
Found at i:404962 original size:13 final size:13
Alignment explanation
Indices: 404944--404981 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
404934 ATAATCCCCC
404944 TGTATCGATACAG
1 TGTATCGATACAG
*
404957 TGTATCGATACAT
1 TGTATCGATACAG
404970 TGTATCGATACA
1 TGTATCGATACA
404982 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:406463 original size:21 final size:21
Alignment explanation
Indices: 406437--406512 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
406427 AAAAATTCCA
406437 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
406458 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
406478 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
406499 AATGTATCGATACA
1 AATGTATCGATACA
406513 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 33 0.65
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:406572 original size:19 final size:19
Alignment explanation
Indices: 406548--406615 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
406538 AATTCAACGA
406548 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
406567 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
406582 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
406599 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
406616 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:406586 original size:32 final size:32
Alignment explanation
Indices: 406550--406612 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
406540 TTCAACGATT
*
406550 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
406582 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
406613 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:406587 original size:13 final size:13
Alignment explanation
Indices: 406569--406593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
406559 ACATAAGTTT
406569 TGTATCGATACAA
1 TGTATCGATACAA
406582 TGTATCGATACA
1 TGTATCGATACA
406594 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:406834 original size:1 final size:1
Alignment explanation
Indices: 406828--406880 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
406818 CCTTCTCTTC
* ** * *
406828 AAAAAAAAAAAAAAGAGCAAAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
406881 CAAAGGAAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.91, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:406858 original size:23 final size:23
Alignment explanation
Indices: 406828--406880 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
406818 CCTTCTCTTC
* *
406828 AAAAAAAAAAAAAAGAGCAAAAA
1 AAAAAAAAAAAAAAAAACAAAAA
406851 AAAAAAAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAACAAAAA
*
406874 AACAAAA
1 AAAAAAA
406881 CAAAGGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.91, C:0.06, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAACAAAAA
Found at i:407957 original size:55 final size:55
Alignment explanation
Indices: 407873--408935 Score: 1591
Period size: 55 Copynumber: 19.3 Consensus size: 55
407863 TCCGCTTTTT
**
407873 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
407928 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
407983 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
408038 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
408093 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAACTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
408148 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
408203 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
408258 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
408313 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
408368 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
408423 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
408478 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
408533 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
408588 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
408643 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
408698 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
408753 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT--
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA--TTTTCC
* * * * *
408808 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
408863 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
408918 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
408936 TACAATTTAT
Statistics
Matches: 945, Mismatches: 44, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
54 24 0.03
55 896 0.95
56 25 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:408804 original size:29 final size:29
Alignment explanation
Indices: 408661--408804 Score: 110
Period size: 29 Copynumber: 5.2 Consensus size: 29
408651 AAGAGCAGGA
408661 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
408690 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
408715 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
408745 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
408770 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
408800 CACCT
1 CACCT
408805 TTTATTCCCC
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.07
26 16 0.19
27 18 0.21
28 18 0.21
29 21 0.25
30 6 0.07
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:409504 original size:1 final size:1
Alignment explanation
Indices: 409498--409522 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
409488 AGAGTGTTTT
409498 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
409523 TTCCAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:409554 original size:21 final size:21
Alignment explanation
Indices: 409528--409603 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
409518 AAAAATTCCA
409528 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
409549 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
409569 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
409590 AATGTATCGATACA
1 AATGTATCGATACA
409604 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 33 0.65
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:409663 original size:19 final size:19
Alignment explanation
Indices: 409639--409706 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
409629 AATTCAACGA
409639 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
409658 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
409673 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
409690 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
409707 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:409677 original size:32 final size:32
Alignment explanation
Indices: 409641--409703 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
409631 TTCAACGATT
*
409641 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
409673 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
409704 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:409678 original size:13 final size:13
Alignment explanation
Indices: 409660--409684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
409650 ACATAAGTTT
409660 TGTATCGATACAA
1 TGTATCGATACAA
409673 TGTATCGATACA
1 TGTATCGATACA
409685 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:409764 original size:13 final size:13
Alignment explanation
Indices: 409746--409771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
409736 CATTTTTTTG
409746 TGTATCGATACAT
1 TGTATCGATACAT
409759 TGTATCGATACAT
1 TGTATCGATACAT
409772 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:412308 original size:28 final size:27
Alignment explanation
Indices: 412241--412313 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
412231 CTTCACAATC
* *
412241 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
412268 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
412296 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
412314 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:412358 original size:51 final size:51
Alignment explanation
Indices: 412296--412466 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
412286 TTATTTCTGA
* * *
412296 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
412347 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
412400 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
412452 GAGGATACTCCAACC
1 GGGGATACTCCAACC
412467 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:412485 original size:28 final size:28
Alignment explanation
Indices: 412449--412530 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
412439 ATTTTTCACA
*
412449 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
412477 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
412505 --CGAGGAAACACTCCAACCTCGTTATT
1 ATCG-GG-GATACTCCAACCTCGTTATT
412531 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 41 0.91
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:424927 original size:1 final size:1
Alignment explanation
Indices: 424921--424969 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
424911 CCTTCTCTTC
* ** * *
424921 AAAAAAAAAAAAAAGAGCAAAAAAAAAAAAAAAAAACAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
424970 CAAAGGAAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:424946 original size:20 final size:20
Alignment explanation
Indices: 424921--424974 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
424911 CCTTCTCTTC
*
424921 AAAAAAAAAAAAAAGAGCAA
1 AAAAAAAAAAAAAAGAACAA
424941 AAAAAAAAAAAAAA-AACAA
1 AAAAAAAAAAAAAAGAACAA
* *
424960 AAAAACAAAACAAAG
1 AAAAAAAAAAAAAAG
424975 GAAAGGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAGAACAA
Found at i:426046 original size:55 final size:55
Alignment explanation
Indices: 425962--427024 Score: 1591
Period size: 55 Copynumber: 19.3 Consensus size: 55
425952 TCCGCTTTTT
**
425962 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
426017 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
426072 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
426127 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
426182 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAACTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
426237 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
426292 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
426347 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
426402 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
426457 AGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
426512 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
426567 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
426622 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
426677 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
426732 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
426787 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
426842 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT--
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA--TTTTCC
* * * * *
426897 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
426952 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
427007 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
427025 TACAATTTAT
Statistics
Matches: 945, Mismatches: 44, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
54 24 0.03
55 896 0.95
56 25 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:426893 original size:29 final size:29
Alignment explanation
Indices: 426750--426893 Score: 110
Period size: 29 Copynumber: 5.2 Consensus size: 29
426740 AAGAGCAGGA
426750 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
426779 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
426804 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
426834 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
426859 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
426889 CACCT
1 CACCT
426894 TTTATTCCCC
Statistics
Matches: 85, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
25 6 0.07
26 16 0.19
27 18 0.21
28 18 0.21
29 21 0.25
30 6 0.07
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:427642 original size:21 final size:21
Alignment explanation
Indices: 427616--427691 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
427606 AAAAATTCCA
427616 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
427637 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
427657 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
427678 AATGTATCGATACA
1 AATGTATCGATACA
427692 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 33 0.65
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:427751 original size:19 final size:19
Alignment explanation
Indices: 427727--427794 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
427717 AATTCAACGA
427727 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
427746 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
427761 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
427778 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
427795 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:427765 original size:32 final size:32
Alignment explanation
Indices: 427729--427791 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
427719 TTCAACGATT
*
427729 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
427761 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
427792 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:427766 original size:13 final size:13
Alignment explanation
Indices: 427748--427772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
427738 ACATAAGTTT
427748 TGTATCGATACAA
1 TGTATCGATACAA
427761 TGTATCGATACA
1 TGTATCGATACA
427773 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:427853 original size:13 final size:13
Alignment explanation
Indices: 427835--427860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
427825 ATTTTTTTTG
427835 TGTATCGATACAT
1 TGTATCGATACAT
427848 TGTATCGATACAT
1 TGTATCGATACAT
427861 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:430446 original size:51 final size:51
Alignment explanation
Indices: 430387--430557 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
430377 TTATTTCTGA
* * * *
430387 GGGGATACTCTAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
430438 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
430491 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
430543 GAGGATACTCCAACC
1 GGGGATACTCCAACC
430558 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 35 0.36
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:430576 original size:28 final size:28
Alignment explanation
Indices: 430540--430621 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
430530 ATTTTTCACA
*
430540 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
430568 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
430596 --CGAGGAAACACTCCAACCTCGTTATT
1 ATCG-GG-GATACTCCAACCTCGTTATT
430622 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 41 0.91
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:432421 original size:15 final size:15
Alignment explanation
Indices: 432401--432431 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
432391 ATTTTGTTTG
*
432401 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
432416 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
432431 G
1 G
432432 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:436514 original size:32 final size:33
Alignment explanation
Indices: 436457--436521 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
436447 TACAAGCCAA
436457 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
*
436491 TGTATTGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
436522 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.57
34 13 0.43
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:436519 original size:19 final size:19
Alignment explanation
Indices: 436457--436521 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
436447 TACAAGCCAA
436457 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
436478 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
*
436491 TGTATTGATACATATTTTG
1 TGTATCGATACATATTTTG
436510 TGTATCGATACA
1 TGTATCGATACA
436522 AGTTTGGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.33
21 11 0.31
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:437146 original size:79 final size:77
Alignment explanation
Indices: 437015--437291 Score: 308
Period size: 79 Copynumber: 3.5 Consensus size: 77
437005 ATTCTTCGAT
* *
437015 GTATCC-CTGATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAA
1 GTATCCTC-GATGGTG-AAAATTGGTATTTTAGAAATAAAATC-GGGTTAGAGTATCCCCTCGAA
*
437079 AATAATGGGGTTGGA
63 AATAACGGGGTTGGA
* * * *
437094 GTATCCCCAATGGTAGAAAATTGGTATTTTAGAAATAAAATCGAAGTTAGAGTATTCCCTC-AGA
1 GTATCCTCGATGGT-GAAAATTGGTATTTTAGAAATAAAATCG-GGTTAGAGTATCCCCTCGA-A
437158 AATAACGGGGTTGGA
63 AATAACGGGGTTGGA
* * ** *
437173 GTATCCTCGATAGTGAAAAATCT-GTATTTTAGAAATAAAATTGGGATTAGAGTATCTTCTCGGA
1 GTATCCTCGATGGTG-AAAAT-TGGTATTTTAGAAATAAAATCGGG-TTAGAGTATCCCCTCGAA
*
437237 AATAACAGGGTTGGA
63 AATAACGGGGTTGGA
**
437252 GTATCCTCGATGGTGGAAAATTGACATTTTAGAAATAAAA
1 GTATCCTCGATGGT-GAAAATTGGTATTTTAGAAATAAAA
437292 ACATCAATGA
Statistics
Matches: 169, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
78 5 0.03
79 160 0.95
80 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (77 bp):
GTATCCTCGATGGTGAAAATTGGTATTTTAGAAATAAAATCGGGTTAGAGTATCCCCTCGAAAAT
AACGGGGTTGGA
Found at i:439623 original size:12 final size:12
Alignment explanation
Indices: 439604--439644 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
439594 GCAAGAGCAG
439604 AAAA-GTGGCTC
1 AAAATGTGGCTC
*
439615 GAAATGTGGCTC
1 AAAATGTGGCTC
*
439627 AAAATGTAGCTC
1 AAAATGTGGCTC
439639 AAAATG
1 AAAATG
439645 GTAAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (12 bp):
AAAATGTGGCTC
Found at i:442170 original size:31 final size:28
Alignment explanation
Indices: 442087--442159 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
442077 CTTCACAATC
* * ***
442087 GGGGATACTCCAATCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
442114 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
442142 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
442160 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:442205 original size:51 final size:51
Alignment explanation
Indices: 442142--442363 Score: 246
Period size: 52 Copynumber: 4.3 Consensus size: 51
442132 TTATTTCCGA
* * *** *
442142 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * *
442193 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CACAATC
* * * **
442245 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ACAATC
* * *
442297 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAATTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
442349 GAGGATACTCCAACC
1 GGGGATACTCCAACC
442364 TCGTTATTTC
Statistics
Matches: 143, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 38 0.27
52 92 0.64
53 13 0.09
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:442382 original size:28 final size:28
Alignment explanation
Indices: 442346--442422 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
442336 AATTTTCACA
* *
442346 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
442374 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
442402 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
442423 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:442440 original size:263 final size:263
Alignment explanation
Indices: 441973--442473 Score: 774
Period size: 263 Copynumber: 1.9 Consensus size: 263
441963 TTCTCAATTC
* * * *
441973 TCCACAATCGGAGATATTCCAACTCTGATTTTATTTTCAAAACACTAATTTTCTATAATCGAGGA
1 TCCACAATCGGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
* * * *
442038 TACTCTAACTCCTATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAATCC
*
442103 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
442168 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
442233 TTT
261 TTT
* * * *
442236 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGAGG
*
442301 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAAATT-TTCACAATCGAGGATACTCCAA-C
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAATC
* * *
442363 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTT
130 C-CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
442428 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
442474 TTATTTTCGA
Statistics
Matches: 215, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
261 2 0.01
262 26 0.12
263 154 0.72
264 33 0.15
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAATCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:442522 original size:79 final size:78
Alignment explanation
Indices: 442376--442578 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 78
442366 GTTATTTCAT
* * *
442376 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CGACTTTATTCCCAAAATAT
* *
442441 TGATTTCTCATAAT
65 TGATTTCTCACAAC
* * * ** *
442455 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGACTTTATTCCCAAAAT-A
442519 TTGATTTCTCACAAC
64 TTGATTTCTCACAAC
* * * * *
442534 CGGGGATACTCTAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
442579 CGTTATTATC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 6 0.06
79 97 0.92
80 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGACTTTATTCCCAAAATATT
GATTTCTCACAAC
Found at i:454990 original size:13 final size:12
Alignment explanation
Indices: 454969--455003 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
454959 TTCAAAAAAG
454969 AAAAAAAAACAA
1 AAAAAAAAACAA
454981 AAAAACAAAACAA
1 AAAAA-AAAACAA
454994 AGAAAAAAAA
1 A-AAAAAAAA
455004 AAGAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 12 0.57
14 4 0.19
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:456248 original size:55 final size:54
Alignment explanation
Indices: 456011--456498 Score: 537
Period size: 55 Copynumber: 8.9 Consensus size: 54
456001 TTTCCTTTTA
* **
456011 AAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC
* *
456067 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC
* ** * * *
456127 TTTTAAAGCCCACATAAGTTGGTGGCACCTTCAATCCCCAAAGAGTAGGAC-CCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACC-TTTC
*
456185 GAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
456240 AAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACCT-TTC
* *
456287 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * *
456342 AAAGGCCACATAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* *
456397 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* *
456452 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
456499 TACACTTTAT
Statistics
Matches: 380, Mismatches: 32, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
47 42 0.11
48 4 0.01
54 32 0.08
55 191 0.50
56 7 0.02
58 7 0.02
59 16 0.04
60 81 0.21
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:456431 original size:212 final size:213
Alignment explanation
Indices: 456069--456474 Score: 570
Period size: 212 Copynumber: 1.9 Consensus size: 213
456059 GCCTTTTCTT
* * * *
456069 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
1 TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAGGACACCTTTTC---TAAA
* * * *
456134 GCCCACATAAGTTGGTGGCACCTTCAATCCCCAAAGAGTAGGACCCTTTTCGAAGCCCACACAAG
63 GCCCACATAAGTTAGTGGCACCTTCAATCCCCAAAGAGCAGGACCCTCTTCAAAGCCCACACAAG
*
456199 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
128 TTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
456264 CCTCAAAGAGCAGGACACCTC
193 CCTCAAAGAGCAGGACACCTC
*
456285 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACC-TTTC-AAAGG
1 TTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCCCAAAGAGCAGGACACCTTTTCTAAAGC
** * *
456347 CCACATAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAG
65 CCACATAAGTTAGTGGCACCTT-CAATCCCCAAAGAGCAGGAC-CCTCTTCAAAGCCCACACAAG
* *
456411 TTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
128 TTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
456475 CTTTTTAGTC
Statistics
Matches: 170, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
211 23 0.14
212 87 0.51
213 8 0.05
215 4 0.02
216 45 0.26
217 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (213 bp):
TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAGGACACCTTTTCTAAAGCC
CACATAAGTTAGTGGCACCTTCAATCCCCAAAGAGCAGGACCCTCTTCAAAGCCCACACAAGTTG
GTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCT
CAAAGAGCAGGACACCTC
Found at i:456689 original size:117 final size:117
Alignment explanation
Indices: 456544--456809 Score: 498
Period size: 117 Copynumber: 2.3 Consensus size: 117
456534 AACAGGACGT
*
456544 ATTTCATTTCCCTTTTCCTTTGTCCTTGGAAAATGGGACGTACTCTTTTTCACTTTGTCCTCAAG
1 ATTTCA-TTCTCTTTTCCTTTGTCCTTGGAAAATGGGACGTACTCTTTTTCACTTTGTCCTCAAG
*
456609 AAGCAGGACACTTTCCTTTTCTTCTCTTCCTTGGTCTTCAAGGAGCAAGACCC
65 AAGCAAGACACTTTCCTTTTCTTCTCTTCCTTGGTCTTCAAGGAGCAAGACCC
456662 ATTTCATTCTCTTTTCCTTTGTCCTTGGAAAATGGGACGTACTCTTTTTCACTTTGTCCTCAAGA
1 ATTTCATTCTCTTTTCCTTTGTCCTTGGAAAATGGGACGTACTCTTTTTCACTTTGTCCTCAAGA
456727 AGCAAGACACTTTCCTTTTCTTCTCTTCCTTGGTCTTCAAGGAGCAAGACCC
66 AGCAAGACACTTTCCTTTTCTTCTCTTCCTTGGTCTTCAAGGAGCAAGACCC
456779 ATTTCATTCTCTTTTCCTTTGTCCTT-GAAAA
1 ATTTCATTCTCTTTTCCTTTGTCCTTGGAAAA
456810 GTAGACACCT
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
116 5 0.03
117 135 0.92
118 6 0.04
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (117 bp):
ATTTCATTCTCTTTTCCTTTGTCCTTGGAAAATGGGACGTACTCTTTTTCACTTTGTCCTCAAGA
AGCAAGACACTTTCCTTTTCTTCTCTTCCTTGGTCTTCAAGGAGCAAGACCC
Found at i:457378 original size:21 final size:21
Alignment explanation
Indices: 457352--457407 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
457342 AAATTATCCA
457352 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
457373 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
457394 AATGTATCGATACA
1 AATGTATCGATACA
457408 ATCTACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:457557 original size:13 final size:13
Alignment explanation
Indices: 457539--457564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
457529 CATTTTTCTG
457539 TGTATCGATACAT
1 TGTATCGATACAT
457552 TGTATCGATACAT
1 TGTATCGATACAT
457565 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:460592 original size:79 final size:79
Alignment explanation
Indices: 460475--460624 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 79
460465 TTGACTATGG
* *
460475 AAAATCGGTGTTTTGGAAATAAAATCGAGGCTGAAGTATCCCCTTGAAAATAAAGGGGTTGGAGT
1 AAAATCGGTGTTTTAGAAATAAAATCGAGGCTGAAGTATCCCCTCGAAAATAAAGGGGTTGGAGT
460540 ATCCCCGATTGTGA
66 ATCCCCGATTGTGA
* * * * *
460554 AAAATTGGTGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
1 AAAATCGGTGTTTTAGAAATAAAATC-GAGGCTGAAGTATCCCCTCGAAAATAAAGGGGTTGGAG
460618 TATCCCC
65 TATCCCC
460625 AATGAAATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 62 0.98
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
AAAATCGGTGTTTTAGAAATAAAATCGAGGCTGAAGTATCCCCTCGAAAATAAAGGGGTTGGAGT
ATCCCCGATTGTGA
Found at i:460613 original size:28 final size:27
Alignment explanation
Indices: 460580--460651 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
460570 AAATAAAACT
460580 GGGGTTGGAGTATCCCC-TCGAAAATAAC
1 GGGGTTGGAGTATCCCCAT-G-AAATAAC
460608 GGGGTTGGAGTATCCCCAATGAAATAAC
1 GGGGTTGGAGTATCCCC-ATGAAATAAC
*
460636 AGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
460652 TGATTGTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 39 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCATGAAATAAC
Found at i:460695 original size:107 final size:107
Alignment explanation
Indices: 460509--460760 Score: 305
Period size: 107 Copynumber: 2.3 Consensus size: 107
460499 TCGAGGCTGA
*
460509 AGTATCCCC-TTGAAAATAA-AGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAA
1 AGTATCCCCAATG-AAATAACA-GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAA
** *
460572 ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
64 ATAAAACTAAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
*
460616 AGTATCCCCAATGAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAAT
1 AGTATCCCCAATGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAAT
** * * *
460681 AAAA-TCAAGGTTGGAGTATCCTTTTGGAAATAATAGGGTTGG
66 AAAACT-AAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
* *
460723 AGTATCCGCGATTATGAAATAAC-GAGATTGGAGTATCC
1 AGTATCC-CCA--ATGAAATAACAG-GGTTGGAGTATCC
460761 TCGAGATGAA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
106 1 0.01
107 97 0.77
108 5 0.04
109 1 0.01
110 22 0.17
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (107 bp):
AGTATCCCCAATGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAAT
AAAACTAAGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
Found at i:463056 original size:20 final size:20
Alignment explanation
Indices: 463031--463085 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
463021 AAAATGTCTG
* *
463031 AATGTATCGATATATTAAAA
1 AATGTATCGATACAATAAAA
* *
463051 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATAAAA
463071 AATGTATCGATACAA
1 AATGTATCGATACAA
463086 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATAAAA
Found at i:463817 original size:61 final size:61
Alignment explanation
Indices: 463712--464473 Score: 933
Period size: 61 Copynumber: 12.4 Consensus size: 61
463702 AATGAAATGG
* * * * **
463712 GTCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAA-GC
1 GTCCTACTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * * * *
463773 ATCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
463834 ATCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
463896 ATCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGT
1 GTCCTACTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
463957 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAAGTTATGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
464019 ATCCTACTCTTTGAGGACT-AAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
464079 GTCCTACTCATTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
464140 GTCCTACTCTTTGAGGACTGAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAACGGC
1 GTCCTACTCTTTGAGGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
464202 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGT
1 GTCCTACTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * *
464263 GTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTAGTGTGGGCTTTAAAAAGAAAAAGC
1 GTCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * * **
464325 GTCCTACTCCTTGAGGACTAAAAAATGCTATCAACTTGTGTGGGCTTTAAAAGAAAAAAAC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
464386 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTATGGACTTTAAAAAGAGAAGGC
1 GTCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
464448 GTTCT-CTCTTTGAGGACTGAAAAGTG
1 GTCCTACTCTTTGAGGACTGAAAAGTG
464474 AAAGGAGAAA
Statistics
Matches: 611, Mismatches: 78, Indels: 25
0.86 0.11 0.04
Matches are distributed among these distances:
60 65 0.11
61 293 0.48
62 251 0.41
63 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (61 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:463954 original size:123 final size:123
Alignment explanation
Indices: 463712--464473 Score: 941
Period size: 123 Copynumber: 6.2 Consensus size: 123
463702 AATGAAATGG
* * * * **
463712 GTCCTGCTCTTTGGGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAA-GCAT
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCAT
* * * * * *
463775 CTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
65 CCTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* *
463834 ATCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
463899 CTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGT
66 CTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* * *
463957 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAAGTTATGTGGGCTTTAAAAGGAAAAGACATC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
464022 CTACTCTTTGAGGACTA-AAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGC
66 CTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* *
464079 GTCCTACTCATTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
464143 CTACTCTTTGAGGACTGAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAACGGC
66 CTACTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* * * **
464202 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
464266 TTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTAGTGTGGGCTTTAAAAAGAAAAA-GC
66 CTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* * * * * ** *
464325 GTCCTACTCCTTGAGGACTA-AAAAATGCTATCAACTTGTGTGGGCTTTAAAAGAAAAAAACGTC
1 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
464389 CTACTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTATGGACTTTAAAA-AGAGAAGGC
66 CTACTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAAGGC
*
464448 GTTCT-CTCTTTGAGGACT-GAAAAGTG
1 GTCCTACTCTTTGAGGACTAGAAAAGTG
464474 AAAGGAGAAA
Statistics
Matches: 561, Mismatches: 68, Indels: 22
0.86 0.10 0.03
Matches are distributed among these distances:
121 58 0.10
122 101 0.18
123 393 0.70
124 9 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (123 bp):
GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTACTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
Found at i:464308 original size:306 final size:304
Alignment explanation
Indices: 463713--464470 Score: 1040
Period size: 306 Copynumber: 2.5 Consensus size: 304
463703 ATGAAATGGG
* * * ** * *
463713 TCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAAGCATCTT
1 TCCTACTCTTTGAGGACTA-AAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCGTCCT
* * * * * *
463778 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCCACTC
63 ACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTC
*
463843 TTTGAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTT
128 TTTGAGGACTGA-AAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTT
463907 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTACTCTTTGAG
192 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTACTCTTTGAG
* *
463972 GACTAGAAAAGTGCCACCAAGTTATGTGGGCTTT-AAAAGGAAAAGACA
257 GACTAGAAAAGTGCCACCAAGCTATGTGGGCTTTAAAAAGAAAAAG-CA
*
464020 TCCTACTCTTTGAGGACTAAAGGTGTCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTA
1 TCCTACTCTTTGAGGACTAAAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCTA
*
464085 CTCATTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCT
64 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCT
* * *
464150 TTGAGGACTGAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAACGGCGTCCTGCTCTTTG
129 TTGAGGACTGAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTG
* *
464215 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAAAGGTGTCTTGCTCTTTGAGG
194 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAAGGTGTCCTACTCTTTGAGG
*
464279 ACTAGAAAAGTGCCACC-AGCTAGTGTGGGCTTTAAAAAGAAAAAGCG
258 ACTAGAAAAGTGCCACCAAGCTA-TGTGGGCTTTAAAAAGAAAAAGCA
* ** * * *
464326 TCCTACTCCTTGAGGACTAAAAAATGCTATCAACTTGTGTGGGCTTTAAAAGAAAAAAACGTCCT
1 TCCTACTCTTTGAGGACT-AAAGGTGC-ACCAACTTGTGTGGGCTTTAAAAG-GAAAAGCGTCCT
* * * * * *
464391 ACTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTATGGACTTTAAAAAGAGAAGGCGTTCT-CT
63 ACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACT
464455 CTTTGAGGACTGAAAA
127 CTTTGAGGACTGAAAA
464471 GTGAAAGGAG
Statistics
Matches: 403, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
305 8 0.02
306 258 0.64
307 92 0.23
308 45 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (304 bp):
TCCTACTCTTTGAGGACTAAAGGTGCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTACT
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTT
GAGGACTGAAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAG
GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTACTCTTTGAGGACT
AGAAAAGTGCCACCAAGCTATGTGGGCTTTAAAAAGAAAAAGCA
Found at i:467952 original size:33 final size:33
Alignment explanation
Indices: 467896--467959 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
467886 AAATTCCCAG
*
467896 ATGTATCGATACAAAGATCAATGTATTGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
**
467929 ATGTATCGATACATTGAAT-AATGTATCGATA
1 ATGTATCGATACAAAG-ATCAATGTATCGATA
467960 TATTTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:468057 original size:21 final size:19
Alignment explanation
Indices: 467993--468063 Score: 97
Period size: 19 Copynumber: 3.6 Consensus size: 19
467983 AGCGATACAT
*
467993 TGTATCGATACAACACTTA
1 TGTATCGATACAGCACTTA
468012 TGTATCGATACAGCACTTA
1 TGTATCGATACAGCACTTA
* *
468031 TGTATCGATACAGTTACTGTT
1 TGTATCGATACAG-CACT-TA
468052 TGTATCGATACA
1 TGTATCGATACA
468064 AATTGTTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 31 0.66
20 3 0.06
21 13 0.28
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAGCACTTA
Found at i:468976 original size:101 final size:97
Alignment explanation
Indices: 468810--469234 Score: 352
Period size: 101 Copynumber: 4.4 Consensus size: 97
468800 CGAAGAATGA
* * * * * * **
468810 CAATGTGCTAATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
468873 GGCTAACGACATTGGACTTAGGAATATTAAAGATGC
66 GGCCAACGACATTGGTCTTA--AAGA-TAAAG-TGC
* * *
468909 CAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * *
468974 GGCCAGCGACATTGGTTTTAAAGACAATGTGC
66 GGCCAACGACATTGGTCTTAAAGATAAAGTGC
* ** * *
469006 CAATATGCTAATTCAAGGTTAGCGATATTAGACTTAAAGATGGTTGAGGTGCCGATGTGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATT
* * *
469071 CAAGGCCAACAACATCGGTCTTAAAGATGAAGGTGC
63 CAAGGCCAACGACATTGGTCTTAAAGAT-AAAGTGC
* * *
469107 CAATATGCCGATTCAAGGCCAGCGATACTAGGC-T-----T----GTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * *
469162 GGTCAGCGACATTGGTTTTAAAGACAAGGTGC
66 GGCCAACGACATTGGTCTTAAAGATAAAGTGC
* * *
469194 CAATATGTTGATTCAAGGCCAGTGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTA-AAGA
469235 AGACGCCACC
Statistics
Matches: 262, Mismatches: 51, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
87 34 0.13
88 39 0.15
95 1 0.00
97 38 0.15
98 4 0.02
99 38 0.15
100 42 0.16
101 66 0.25
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (97 bp):
CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAACGACATTGGTCTTAAAGATAAAGTGC
Found at i:469043 original size:48 final size:49
Alignment explanation
Indices: 468906--469234 Score: 243
Period size: 48 Copynumber: 6.9 Consensus size: 49
468896 ATATTAAAGA
* * *
468906 TGCCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGG
* * ** *
468955 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA-CAATG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGG
* ** * **
469003 TGCCAATATGCTAATTCAAGGTTAGCGATATTAGACTTAAAGATGGTTGAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA---TCAAGG
* * * * * * * *
469055 TGCCGATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGG
* *
469104 TGCCAATATGCCGATTCAAGGCCAGCGATACTAGG-C-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGATCAAGG
* * * **
469143 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTTTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGG
* *
469191 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
469235 AGACGCCACC
Statistics
Matches: 211, Mismatches: 52, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
38 3 0.01
39 27 0.13
40 1 0.00
43 1 0.00
48 72 0.34
49 70 0.33
50 3 0.01
52 34 0.16
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGG
Found at i:469337 original size:30 final size:30
Alignment explanation
Indices: 469251--469346 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
469241 CACCAACTTG
**
469251 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACT
** * *
469280 TGTTTGCTTTTG-AA-GTTTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACT
*
469308 TGTGGGCTTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACT
469338 TGTGGGCTT
1 TGTGGGCTT
469347 AAAAGGAGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
27 4 0.08
28 17 0.32
29 12 0.23
30 20 0.38
ACGTcount: A:0.16, C:0.16, G:0.31, T:0.38
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGTTGCCACTGACT
Found at i:469374 original size:33 final size:33
Alignment explanation
Indices: 469327--469936 Score: 393
Period size: 33 Copynumber: 19.6 Consensus size: 33
469317 TTGAAAGGGG
* * *
469327 TGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
469360 TGCCATGGAGTTGTGGACTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
** *
469387 TGCCACATAGTTGTGGGCTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * *
469414 TGCCACTGAGTTGTGGACTTAAAGGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
469447 GTGCCACGGAGTTGT-GAGCTTAAAA-G-G---G-
1 -TGCCACGGAGTTGTGGA-CTTAAAAGGAGAAAGA
**
469475 TGCCACGGAGTCATGGACTT-AAA--AG--AG-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * * * *
469502 TGCCACGGAGCTGTGGACTGAAAAAGAAAAATA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*** *
469535 GTGCCGTAGAGTTGTGGGCTTAAAA-G-G---G-
1 -TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * *
469563 TGCCACGAAGTCGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
469596 GTGCCACGGAGTTGTGGACTTAAAATGGA-AAAGA
1 -TGCCACGGAGTTGTGGACTTAAAA-GGAGAAAGA
* *
469630 TGTCACGGAGTTGTGGGCTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* * *
469657 TGCCACAGAGTTGTGGACGTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
*
469690 GTGCCACGGAGTTGTGGACTTAAAA-GAAACAAGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
* * *
469724 TGCCATGGAGTTGCGAACTTAAAAGG-GAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAG-AAAGA
*
469757 TGCCACAGAGTTGTGGACTTAAAAGG-GAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAG-AAAGA
* *
469790 TGCCATGGAGTTGTAGACTTAAAAGGA-ACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
469823 TGCCACGGAGTTGTGGACTTAAAAGG-GAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAG-AAAGA
* * *
469856 TGCCATGGAGTTATGGGCTTAAAA-G-G---G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
* *
469883 TGCCACAGAGTTGTAGACTTAAAAGGA-ACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAGA-AAGA
469916 TGCCACGGAGTTGTGGACTTA
1 TGCCACGGAGTTGTGGACTTA
469937 CATGGGTGCC
Statistics
Matches: 456, Mismatches: 73, Indels: 96
0.73 0.12 0.15
Matches are distributed among these distances:
26 4 0.01
27 132 0.29
28 12 0.03
29 1 0.00
30 1 0.00
31 2 0.00
32 9 0.02
33 199 0.44
34 93 0.20
35 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAGAAAGA
Found at i:469398 original size:27 final size:27
Alignment explanation
Indices: 469367--469682 Score: 145
Period size: 27 Copynumber: 10.7 Consensus size: 27
469357 AGATGCCATG
469367 GAGTTGTGGACTTAAAAGGGTGCCACAT
1 GAGTTGTGGACTTAAAAGGGTGCCAC-T
*
469395 -AGTTGTGGGCTTAAAAGGGTGCCACT
1 GAGTTGTGGACTTAAAAGGGTGCCACT
* *
469421 GAGTTGTGGACTTAAAGGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTT-------AAAAGGGTGCCACT
*
469455 GAGTTGT-GAGCTTAAAAGGGTGCCACG
1 GAGTTGTGGA-CTTAAAAGGGTGCCACT
** * *
469482 GAGTCATGGACTTAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAGGGTGCCACT
* * * *
469509 GAGCTGTGGACTGAAAAAGAAAAATAGTGCC-GT
1 GAGTTGTGGACT-TAAAAG------GGTGCCACT
*
469542 AGAGTTGTGGGCTTAAAAGGGTGCCAC-
1 -GAGTTGTGGACTTAAAAGGGTGCCACT
* *
469569 GAAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACG
1 G-AGTTGTGGACTTAAAA-G-----G-GTGCCACT
* *
469604 GAGTTGTGGACTTAAAATGGAAAAGATGTCACG
1 GAGTTGTGGACTTAAAA-GG----G-TGCCACT
* *
469637 GAGTTGTGGGCTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCCACT
*
469664 GAGTTGTGGACGTAAAAGG
1 GAGTTGTGGACTTAAAAGG
469683 AAAAAGAGTG
Statistics
Matches: 227, Mismatches: 29, Indels: 65
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.01
27 119 0.52
28 9 0.04
29 1 0.00
32 4 0.02
33 30 0.13
34 61 0.27
35 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGGTGCCACT
Found at i:469460 original size:61 final size:59
Alignment explanation
Indices: 469380--469849 Score: 236
Period size: 61 Copynumber: 7.6 Consensus size: 59
469370 TTGTGGACTT
* ** *
469380 AAAAGGGTGCCACATAGTTGTGGGCTTAAAAGGGTGCCACTGAGTTGTGGACTTAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACTGAGTTGTGGACTTAAA-GG
* **
469440 AAAAAGAGTGCCACGGAGTTGT-GAGCTTAAAAGGGTGCCACGGAGTCATGGACTT-----
1 -AAAAGAGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACTGAGTTGTGGACTTAAAGG
* * * * *
469495 AAAAGAGTGCCACGGAGCTGTGGACTGAAAAAGAAAAATAGTGCC-GTAGAGTTGTGGGCTT---
1 AAAAGAGTGCCACGGAGTTGTGGACT-TAAAAG------GGTGCCACT-GAGTTGTGGACTTAAA
469556 --
58 GG
* * * *
469556 AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACTGAGTTGTGGACTT-AAA
469621 TGG
58 -GG
* * * *
469624 AAAAGA-TGTCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACGTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACTGAGTTGTGGAC-TTAAAGG
* * *
469683 AAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAACAAGATGCCA-TGGAGTTGCGAACTTAAA
1 -AAAAGAGTGCCACGGAGTTGTGGACTTAAAAG------GGTGCCACT-GAGTTGTGGACTT-AA
469747 AGGG
57 A-GG
* *
469751 AAAAGA-TGCCACAGAGTTGTGGACTTAAAAGGGAAAAGATGCCA-TGGAGTTGTAGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAA-GG----G-TGCCACT-GAGTTGTGGACTT-AAA
469814 GG
58 GG
469816 AACAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AA-AAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
469850 AAAAGATGCC
Statistics
Matches: 325, Mismatches: 45, Indels: 78
0.73 0.10 0.17
Matches are distributed among these distances:
54 22 0.07
55 7 0.02
59 2 0.01
60 36 0.11
61 127 0.39
65 6 0.02
66 73 0.22
67 45 0.14
68 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (59 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACTGAGTTGTGGACTTAAAGG
Found at i:469991 original size:31 final size:30
Alignment explanation
Indices: 469955--470031 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
469945 CCACGGAGTT
*
469955 GTGGACTTGGAAGAAAAGGATGCCAC-AAGTC
1 GTGGACTT-G-AGAAAAGAATGCCACTAAGTC
*
469986 GTGGACTT-AGAAAA-AATGCCACTGAGTC
1 GTGGACTTGAGAAAAGAATGCCACTAAGTC
470014 GTGGACTTTGAGAAAAGA
1 GTGGAC-TTGAGAAAAGA
470032 GATTTGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 7 0.17
28 16 0.40
29 2 0.05
30 6 0.15
31 9 0.22
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.19
Consensus pattern (30 bp):
GTGGACTTGAGAAAAGAATGCCACTAAGTC
Found at i:478273 original size:13 final size:13
Alignment explanation
Indices: 478251--478308 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
478241 GGCAGTAGCT
*
478251 TTGTAGCGATACA
1 TTGTATCGATACA
478264 TTGTATCGATACAATA
1 TTGTATCGATAC---A
478280 CTTATGTATCGATACA
1 --T-TGTATCGATACA
478296 TTGTATCGATACA
1 TTGTATCGATACA
478309 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:478289 original size:19 final size:18
Alignment explanation
Indices: 478265--478327 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
478255 AGCGATACAT
478265 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
478284 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
478297 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
478316 TGTATCGATACA
1 TGTATCGATACA
478328 GTTGCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:478298 original size:32 final size:32
Alignment explanation
Indices: 478252--478327 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
478242 GCAGTAGCTT
* *
478252 TGTAGCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
478284 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
478316 TGTATCGATACA
1 TGTATCGATACA
478328 GTTGCTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:479274 original size:1 final size:1
Alignment explanation
Indices: 479268--479319 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
479258 CTTTTCTCTC
* * * * *
479268 TTTTTTTTTCTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
479320 AAAAGGAGGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:479279 original size:10 final size:11
Alignment explanation
Indices: 479266--479318 Score: 67
Period size: 10 Copynumber: 5.1 Consensus size: 11
479256 TTCTTTTCTC
479266 TCTTT-TTTTT
1 TCTTTGTTTTT
479276 TCTTTGTTTTT
1 TCTTTGTTTTT
479287 T-TTTGTTTTT
1 TCTTTGTTTTT
*
479297 TTTTTGTTTTT
1 TCTTTGTTTTT
*
479308 TGTTT-TTTTT
1 TCTTTGTTTTT
479318 T
1 T
479319 TAAAAGGAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 21 0.52
11 19 0.47
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.89
Consensus pattern (11 bp):
TCTTTGTTTTT
Found at i:479285 original size:14 final size:14
Alignment explanation
Indices: 479254--479318 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
479244 AAACAGGTTC
* * *
479254 TTTTCTTTTCTCTC
1 TTTTTTTTTCTTTG
479268 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
*
479282 TTTTTTTTTGTTT-
1 TTTTTTTTTCTTTG
*
479295 TTTTTTTGTTTTTTG
1 TTTTTTT-TTCTTTG
479310 TTTTTTTTT
1 TTTTTTTTT
479319 TAAAAGGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
13 7 0.16
14 30 0.68
15 7 0.16
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:479285 original size:28 final size:28
Alignment explanation
Indices: 479254--479318 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
479244 AAACAGGTTC
*
479254 TTTTCTTTTCTCTCTTTTTTT-TTCTTTG
1 TTTTTTTTTCT-TCTTTTTTTGTTCTTTG
* * *
479282 TTTTTTTTTGTTTTTTTTTTGTTTTTTG
1 TTTTTTTTTCTTCTTTTTTTGTTCTTTG
479310 TTTTTTTTT
1 TTTTTTTTT
479319 TAAAAGGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (28 bp):
TTTTTTTTTCTTCTTTTTTTGTTCTTTG
Found at i:479289 original size:18 final size:18
Alignment explanation
Indices: 479268--479319 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
479258 CTTTTCTCTC
*
479268 TTTTTT-TTTCTTTGTTT-
1 TTTTTTGTTT-TTTTTTTG
479285 TTTTTTGTTTTTTTTTTG
1 TTTTTTGTTTTTTTTTTG
479303 TTTTTTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
479320 AAAAGGAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (18 bp):
TTTTTTGTTTTTTTTTTG
Found at i:479297 original size:21 final size:22
Alignment explanation
Indices: 479271--479319 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
479261 TTCTCTCTTT
479271 TTTTTTCTTTGTTTTTT-TTTG
1 TTTTTTCTTTGTTTTTTGTTTG
* *
479292 TTTTTTTTTTGTTTTTTGTTTT
1 TTTTTTCTTTGTTTTTTGTTTG
479314 TTTTTT
1 TTTTTT
479320 AAAAGGAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (22 bp):
TTTTTTCTTTGTTTTTTGTTTG
Found at i:479319 original size:11 final size:11
Alignment explanation
Indices: 479270--479319 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
479260 TTTCTCTCTT
479270 TTTTTTTCTTTG
1 TTTTTTT-TTTG
479282 -TTTTTTTTTG
1 TTTTTTTTTTG
479292 TTTTTTTTTTG
1 TTTTTTTTTTG
479303 TTTTTTGTTTT-
1 TTTTTT-TTTTG
479314 TTTTTT
1 TTTTTT
479320 AAAAGGAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.11
11 28 0.78
12 4 0.11
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:491818 original size:79 final size:79
Alignment explanation
Indices: 491678--491933 Score: 273
Period size: 79 Copynumber: 3.2 Consensus size: 79
491668 TGGGGATGAC
* * * * * * * *
491678 AACGGGGCTAGAGTATCCCCTAACTATGGAAAATCAGTGTTCTGGAAATAAAA-TCAAGGTTGGA
1 AACGGGGTTAGAATATCCCC-GATTATGAAAAATCGGTGTTTTGGAAATAAAACT-GAGGTTGGA
491742 GTATCCCCTTGAAAAT
64 GTATCCCCTTGAAAAT
* *
491758 AACGGGGTTAGAATATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACTGGGGTTGGAGT
1 AACGGGGTTAGAATATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAACTGAGGTTGGAGT
*
491823 ATCCCCGATG-AAAT
66 ATCCCC-TTGAAAAT
* * * * * * *
491837 AACGAGTTTAGAATATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGA
1 AACGGGGTTAGAATATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAACTGAGGTTGGAGT
**
491902 ATCCCCTCAAAAAT
66 ATCCCCTTGAAAAT
* *
491916 AATGGGGTTAGAGTATCC
1 AACGGGGTTAGAATATCC
491934 TCGAGATGAA
Statistics
Matches: 145, Mismatches: 28, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
79 124 0.86
80 21 0.14
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
AACGGGGTTAGAATATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAACTGAGGTTGGAGT
ATCCCCTTGAAAAT
Found at i:494450 original size:62 final size:61
Alignment explanation
Indices: 494275--494791 Score: 597
Period size: 61 Copynumber: 8.4 Consensus size: 61
494265 AATGAAATGG
* * * * **
494275 GTCCTGCTCCTTGGGGACTAAAAAGTGCCACCAACTTGTATGGGCTTTGCAAGGAGAAA-GC
1 GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * * * * *
494336 ATCCTGCTCTTTGAGGACTAGAAGGTACCACCAACTTATGTGGGCTTAAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
494397 GTCCTATTCTTTGAGGACTATAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGT
1 GTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
494459 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGT
1 GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
494520 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAGAC
1 GTCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * *
494582 GTCCTACTCTTTGAGGACT-GAAGGTGCCACTAGCTTGTATGGGCTTTAAAAGGAAATGGC
1 GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
494642 ATCTTACTCCTTGAGGACTGAAAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
494703 ATCCTGCTTTTTGAGGACTAAAAAAGTGCCACCAACTTGCGTGGGCTTTAAAAGGAGAAGGC
1 GTCCTACTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
494765 GTCTTGCTCTTTGAGGACTGAAAAGTG
1 GTCCTACTCTTTGAGGACTAAAAAGTG
494792 AAAGAAGAAA
Statistics
Matches: 385, Mismatches: 66, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
60 51 0.13
61 175 0.45
62 159 0.41
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
GTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Done.