Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
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: 4198033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 16
Found at i:3206820 original size:23 final size:23
Alignment explanation
Indices: 3206753--3206820 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
3206743 AAAATCACCC
3206753 ATTTTTCCAAAATAA-AATCATAATT
1 ATTTTT-CAAAATAATAAT--TAATT
*
3206778 ATTTTTTAAAATAATAATTAATT
1 ATTTTTCAAAATAATAATTAATT
*
3206801 ATTTTATCAAAA-AATGATTA
1 ATTTT-TCAAAATAATAATTA
3206821 TGACACAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 17 0.45
24 12 0.32
25 9 0.24
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (23 bp):
ATTTTTCAAAATAATAATTAATT
Found at i:3215440 original size:21 final size:21
Alignment explanation
Indices: 3215416--3215455 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3215406 CTCATTTTCA
3215416 CTCTCAAT-TCTCTTTTCAATG
1 CTCTCAATGTCT-TTTTCAATG
3215437 CTCTCAATGTCTTTTTCAA
1 CTCTCAATGTCTTTTTCAA
3215456 CTCTCGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (21 bp):
CTCTCAATGTCTTTTTCAATG
Found at i:3225812 original size:19 final size:19
Alignment explanation
Indices: 3225784--3225821 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3225774 AGTGGTTTAA
*
3225784 CTTTTCTTTTCTTTTTCTT
1 CTTTTCTTTTCTTCTTCTT
*
3225803 CTTTTTTTTTCTTCTTCTT
1 CTTTTCTTTTCTTCTTCTT
3225822 TTGAGTGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
CTTTTCTTTTCTTCTTCTT
Found at i:3225813 original size:13 final size:13
Alignment explanation
Indices: 3225787--3225823 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
3225777 GGTTTAACTT
3225787 TTCTTTTCTTTTTC
1 TTCTTTT-TTTTTC
3225801 TTCTTTTTTTTTC
1 TTCTTTTTTTTTC
3225814 TTCTTCTTTT
1 TTCTT-TTTT
3225824 GAGTGCTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:3227912 original size:46 final size:45
Alignment explanation
Indices: 3227767--3228012 Score: 368
Period size: 45 Copynumber: 5.4 Consensus size: 45
3227757 ATTGTCTATG
*
3227767 GCTTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGCTTACGA
1 GCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
3227811 GCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
1 GCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
* *
3227856 GCTTAGGGAATAAATGGTAAGTGTATTGGTAAAAATAAGCTCACGA
1 GCTTATGGAATAAATGGTAAGTGTATTGGT-AAAATAAGCTTACGA
* *
3227902 GCTTATGGAATAAATGGTAAGTATATGGGTAAAATAAGCTTACGA
1 GCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
* * * * *
3227947 GCTTATGTGATTAAATGGAAAGTATTTTGGTAAAATAAGTTTACGA
1 GCTTATG-GAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
*
3227993 GCTTATGGGATAAATGGTAA
1 GCTTATGGAATAAATGGTAA
3228013 AAAATGGAAT
Statistics
Matches: 184, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
44 11 0.06
45 92 0.50
46 81 0.44
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (45 bp):
GCTTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGA
Found at i:3227920 original size:91 final size:90
Alignment explanation
Indices: 3227767--3228012 Score: 359
Period size: 91 Copynumber: 2.7 Consensus size: 90
3227757 ATTGTCTATG
* *
3227767 GCTTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
1 GCTTAGGGAATAAATGGAAAGTGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
* *
3227831 GTGTATTGGTAAAATAAGCTTACGA
66 GTATATGGGTAAAATAAGCTTACGA
* *
3227856 GCTTAGGGAATAAATGGTAAGTGTATTGGTAAAAATAAGCTCACGAGCTTATGGAATAAATGGTA
1 GCTTAGGGAATAAATGGAAAGTGTATTGGT-AAAATAAGCTTACGAGCTTATGGAATAAATGGTA
3227921 AGTATATGGGTAAAATAAGCTTACGA
65 AGTATATGGGTAAAATAAGCTTACGA
* * * * * *
3227947 GCTTATGTGATTAAATGGAAAGTATTTTGGTAAAATAAGTTTACGAGCTTATGGGATAAATGGTA
1 GCTTA-GGGAATAAATGGAAAGTGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTA
3228012 A
65 A
3228013 AAAATGGAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
89 10 0.07
90 17 0.12
91 94 0.67
92 20 0.14
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (90 bp):
GCTTAGGGAATAAATGGAAAGTGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
GTATATGGGTAAAATAAGCTTACGA
Found at i:3230023 original size:12 final size:11
Alignment explanation
Indices: 3230001--3230064 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 11
3229991 TGAAAAAACG
3230001 AAAAA-AAGAA
1 AAAAATAAGAA
3230011 AAAAATGAAGAA
1 AAAAAT-AAGAA
3230023 AAAAATATAGAA
1 AAAAATA-AGAA
3230035 AAAGAA-AAGAA
1 AAA-AATAAGAA
*
3230046 AATAAAAATAGAA
1 AA-AAATA-AGAA
3230059 AAAAAT
1 AAAAAT
3230065 GAGAGATGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
10 5 0.11
11 9 0.20
12 24 0.52
13 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (11 bp):
AAAAATAAGAA
Found at i:3230039 original size:18 final size:17
Alignment explanation
Indices: 3230018--3230064 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
3230008 GAAAAAAATG
3230018 AAGAAAAAAATATAGAAA
1 AAGAAAAAAATATA-AAA
3230036 AAGAAAAGAAA-ATAAAA
1 AAGAAAA-AAATATAAAA
3230053 ATAGAAAAAAAT
1 A-AGAAAAAAAT
3230065 GAGAGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.27
18 16 0.62
19 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAGAAAAAAATATAAAA
Found at i:3230056 original size:24 final size:23
Alignment explanation
Indices: 3230001--3230063 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
3229991 TGAAAAAACG
3230001 AAAAAA-AGAAAAAAATGAAGAAA
1 AAAAAATAGAAAAAAA-GAAGAAA
*
3230024 AAAATATAGAAAAAGAA-AAGAAA
1 AAAAAATAGAAAAA-AAGAAGAAA
3230047 ATAAAAATAGAAAAAAA
1 A-AAAAATAGAAAAAAA
3230064 TGAGAGATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 14 0.40
24 19 0.54
25 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (23 bp):
AAAAAATAGAAAAAAAGAAGAAA
Found at i:3233966 original size:45 final size:45
Alignment explanation
Indices: 3233897--3234230 Score: 508
Period size: 45 Copynumber: 7.4 Consensus size: 45
3233887 GGTATATGGT
** *
3233897 TTATGGAAT-AATGACAAGTGTATTGGTAAAATAATCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
*
3233941 TTATGAAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* *
3233986 TTAGGGAATAAATTGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* *
3234031 TTAGGGAATAAATTGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
*
3234076 TTAGGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* * *
3234121 TTATGGAATAAATGGTAAGTATATAGGTAAAATAAGTTTACGAGC
1 TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
* * *
3234166 TTATGTGATTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATG-GAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
*
3234212 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
3234231 AAATTTTATA
Statistics
Matches: 270, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
44 8 0.03
45 221 0.82
46 41 0.15
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
Found at i:3236213 original size:13 final size:13
Alignment explanation
Indices: 3236195--3236219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3236185 TAAGAGAATA
3236195 AAGAATTAATTGC
1 AAGAATTAATTGC
3236208 AAGAATTAATTG
1 AAGAATTAATTG
3236220 ATGGAGGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (13 bp):
AAGAATTAATTGC
Found at i:3236826 original size:13 final size:13
Alignment explanation
Indices: 3236794--3236833 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3236784 TAAAAAAATG
* *
3236794 AAAAAAGGAGGAA
1 AAAAAATGAAGAA
3236807 AAAAAATGAAGAA
1 AAAAAATGAAGAA
3236820 AAAAAATGAA-AA
1 AAAAAATGAAGAA
3236832 AA
1 AA
3236834 TATAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (13 bp):
AAAAAATGAAGAA
Found at i:3236842 original size:34 final size:34
Alignment explanation
Indices: 3236785--3236868 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 34
3236775 AATATATAAT
* *
3236785 AAAAAAATGAAAAAAGGAGGAAAAA-AAATGAAGA
1 AAAAAAATGAAAAAAGGAAGAAAAAGAAAAGAA-A
*
3236819 AAAAAAATGAAAAAA-TATAGAAAAAGAAAAGAAA
1 AAAAAAATGAAAAAAGGA-AGAAAAAGAAAAGAAA
3236853 ATAAAAAGA-GAAAAAA
1 A-AAAAA-ATGAAAAAA
3236869 ATGAGAGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 1 0.02
34 23 0.53
35 18 0.42
36 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.07
Consensus pattern (34 bp):
AAAAAAATGAAAAAAGGAAGAAAAAGAAAAGAAA
Found at i:3236851 original size:11 final size:10
Alignment explanation
Indices: 3236815--3236869 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
3236805 AAAAAAAATG
3236815 AAGAAAAAAA
1 AAGAAAAAAA
*
3236825 ATGAAAAAATA
1 AAGAAAAAA-A
*
3236836 TAGAAAAAGAA
1 AAGAAAAA-AA
3236847 AAGAAAATAAA
1 AAGAAAA-AAA
3236858 AAGAGAAAAAA
1 AAGA-AAAAAA
3236869 A
1 A
3236870 TGAGAGATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.22
11 24 0.65
12 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:3240756 original size:90 final size:90
Alignment explanation
Indices: 3240603--3240780 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
3240593 CCTAACACAC
* * *
3240603 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
3240668 ATTTAATTAATT-AGAATTTAATAAT
66 ATTTAATTAATTGA-AATTTAATAAT
*
3240693 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
3240758 ATTTAATTAATTGAAATTTAATA
66 ATTTAATTAATTGAAATTTAATA
3240781 TTCGGAATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
90 82 0.99
91 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTTAATAAT
Found at i:3250883 original size:171 final size:172
Alignment explanation
Indices: 3250597--3250940 Score: 681
Period size: 171 Copynumber: 2.0 Consensus size: 172
3250587 GTTACGCCTT
3250597 TGAAAAACAGTGCTTCAGTTTCCATAGAAAAACTTCACGATTTGATAACAATTATCAACACAATC
1 TGAAAAACAGTGCTTCAGTTTCCATAGAAAAACTTCACGATTTGATAACAATTATCAACACAATC
3250662 GTTCTTTTGGGATTTTTAATCCCGAAGCTTTTCTGCATCGGAACAACAATTGTTCCACTACTAAA
66 GTTCTTTTGGGATTTTTAATCCCGAAGCTTTTCTGCATCGGAACAACAATTGTTCCACTACTAAA
3250727 CGCGATCTTCTATCGCACTCCCATAGATCATCCAGTAACAAA
131 CGCGATCTTCTATCGCACTCCCATAGATCATCCAGTAACAAA
3250769 TGAAAAACAGTGCTTCAGTTTCCATAG-AAAACTTCACGATTTGATAACAATTATCAACACAATC
1 TGAAAAACAGTGCTTCAGTTTCCATAGAAAAACTTCACGATTTGATAACAATTATCAACACAATC
3250833 GTTCTTTTGGGATTTTTAATCCCGAAGCTTTTCTGCATCGGAACAACAATTGTTCCACTACTAAA
66 GTTCTTTTGGGATTTTTAATCCCGAAGCTTTTCTGCATCGGAACAACAATTGTTCCACTACTAAA
3250898 CGCGATCTTCTATCGCACTCCCATAGATCATCCAGTAACAAA
131 CGCGATCTTCTATCGCACTCCCATAGATCATCCAGTAACAAA
3250940 T
1 T
3250941 CGATTGATAA
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 145 0.84
172 27 0.16
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (172 bp):
TGAAAAACAGTGCTTCAGTTTCCATAGAAAAACTTCACGATTTGATAACAATTATCAACACAATC
GTTCTTTTGGGATTTTTAATCCCGAAGCTTTTCTGCATCGGAACAACAATTGTTCCACTACTAAA
CGCGATCTTCTATCGCACTCCCATAGATCATCCAGTAACAAA
Found at i:3253471 original size:30 final size:30
Alignment explanation
Indices: 3253391--3253478 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 30
3253381 ATGAATAACA
*
3253391 TATGTTTACATATCTTTA-CTTAGCATTATAT
1 TATGTTTACATATCTTTAGATT--CATTATAT
* * *
3253422 TATGTTTATATGTGTTTTAGATTCATT-TAT
1 TATGTTTACATAT-CTTTAGATTCATTATAT
3253452 TATGTTTACATATCATTTAGATATCAT
1 TATGTTTACATATC-TTTAGAT-TCAT
3253479 GGCAGTATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
30 21 0.46
31 19 0.41
32 4 0.09
33 2 0.04
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (30 bp):
TATGTTTACATATCTTTAGATTCATTATAT
Found at i:3254410 original size:19 final size:19
Alignment explanation
Indices: 3254386--3254422 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3254376 CGGCCAAGAG
3254386 CATGTATATGCATTAAAAT
1 CATGTATATGCATTAAAAT
* *
3254405 CATGTATTTTCATTAAAA
1 CATGTATATGCATTAAAA
3254423 AAATCATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (19 bp):
CATGTATATGCATTAAAAT
Found at i:3257316 original size:2 final size:2
Alignment explanation
Indices: 3257304--3257373 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
3257294 CCATAATAAC
*
3257304 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3257346 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3257374 ACTATATTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3263738 original size:90 final size:91
Alignment explanation
Indices: 3263585--3263766 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 91
3263575 GGGAAATGAT
* *
3263585 GCTTGGCCGAATAAGGAGATAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAAGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
3263649 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * *
3263675 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCACATGCAAGGCACATG
1 GCTTGGCCGAATAAGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
3263740 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
3263766 G
1 G
3263767 GTGTTCTAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 59 0.72
91 23 0.28
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.21
Consensus pattern (91 bp):
GCTTGGCCGAATAAGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:3265617 original size:62 final size:62
Alignment explanation
Indices: 3265541--3265666 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
3265531 TTGAAACAAG
*
3265541 CATCTCACCATGATCTTCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCATGTTCCTCGT
1 CATCTCACCATGATCTTCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGT
3265603 CATCTCACCATGATCTTCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGT
1 CATCTCACCATGATCTTCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGT
3265665 CA
1 CA
3265667 AAAATAGGCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.12, C:0.28, G:0.10, T:0.50
Consensus pattern (62 bp):
CATCTCACCATGATCTTCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGT
Found at i:3268178 original size:90 final size:91
Alignment explanation
Indices: 3268025--3268206 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 91
3268015 GGGAAATGAT
* * *
3268025 GCTTGGTCGAATAGGGAGATAGCTCTTCATCTTGGCACCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATAAACCACATGCAAGGCACATG
*
3268089 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
** * *
3268115 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGTCTAAATGATCCACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATAAACCACATGCAAGGCACATG
* **
3268180 GGGGCTGGTCATATGCAAGCCACATG
66 GGGGCTGGTCACATGCAAAACACATG
3268206 G
1 G
3268207 GTGTTCTAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 57 0.71
91 23 0.29
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:3287611 original size:133 final size:133
Alignment explanation
Indices: 3287370--3287612 Score: 423
Period size: 133 Copynumber: 1.8 Consensus size: 133
3287360 CCTAGCATTC
* *
3287370 CTTGGATGGATGGTGAAGTCAAGGTTGTACCTTTTATTGTTTCGATCTAGGAAAGCAACAAGGAT
1 CTTGGATGGATGGTGAAGTAAAGGTTGTACCTTTGATTGTTTCGATCTAGGAAAGCAACAAGGAT
* * **
3287435 CCTGCACAAATAAGAAAGCTCAAAAAATGGTTAAATGGGAGTAATTGATATAAGTCAACCTAACC
66 CCTGCACAAACAAGAAAGCTAAAAAAATGGTTAAATGAAAGTAATTGATATAAGTCAACCTAACC
3287500 TCA
131 TCA
*
3287503 CTTGGATGGATGGTGAAGTAAAGGTTGTACCTTTGATTGTTTCGATCTAGGAAAGCAACAAGTAT
1 CTTGGATGGATGGTGAAGTAAAGGTTGTACCTTTGATTGTTTCGATCTAGGAAAGCAACAAGGAT
3287568 CCTGCACAAACAAGAAAGCTAAAAAAATGGTTAAATGAAAGTAAT
66 CCTGCACAAACAAGAAAGCTAAAAAAATGGTTAAATGAAAGTAAT
3287613 GAAATGGAAA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 103 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (133 bp):
CTTGGATGGATGGTGAAGTAAAGGTTGTACCTTTGATTGTTTCGATCTAGGAAAGCAACAAGGAT
CCTGCACAAACAAGAAAGCTAAAAAAATGGTTAAATGAAAGTAATTGATATAAGTCAACCTAACC
TCA
Found at i:3291100 original size:14 final size:15
Alignment explanation
Indices: 3291081--3291130 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
3291071 GCCATCTCTA
3291081 TCATTT-TATTTATT
1 TCATTTCTATTTATT
*
3291095 TCATTTCTA-TTCTT
1 TCATTTCTATTTATT
3291109 TCATTTCT-TTCTATT
1 TCATTTCTATT-TATT
3291124 TCATTTC
1 TCATTTC
3291131 CTTTATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (15 bp):
TCATTTCTATTTATT
Found at i:3291430 original size:14 final size:13
Alignment explanation
Indices: 3291413--3291462 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
3291403 GTGCAAAAAG
3291413 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
3291427 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
3291440 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
3291451 AAAGAAAAAGAA
1 AAAGAAAAAGAA
3291463 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:3291459 original size:19 final size:18
Alignment explanation
Indices: 3291407--3291462 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
3291397 ATTGGAGTGC
3291407 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
3291424 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
3291443 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
3291462 A
1 A
3291463 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:3291460 original size:11 final size:11
Alignment explanation
Indices: 3291407--3291462 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
3291397 ATTGGAGTGC
3291407 AAAAAG-AAAG
1 AAAAAGAAAAG
3291417 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
3291431 AAGAAGAAAAG
1 AAAAAGAAAAG
3291442 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
3291455 AAAAAGAA
1 AAAAAGAA
3291463 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:3296715 original size:14 final size:14
Alignment explanation
Indices: 3296696--3296736 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
3296686 ATCTTTTTAT
3296696 TTATTTCATTTCTA
1 TTATTTCATTTCTA
*
3296710 TTATTTCATTTCTT
1 TTATTTCATTTCTA
3296724 TCTATTTCATTTC
1 T-TATTTCATTTC
3296737 CTTTATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTCATTTCTA
Found at i:3296715 original size:18 final size:18
Alignment explanation
Indices: 3296692--3296729 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
3296682 CTCTATCTTT
3296692 TTATTT-ATTTCATTTCTA
1 TTATTTCATTTC-TTTCTA
3296710 TTATTTCATTTCTTTCTA
1 TTATTTCATTTCTTTCTA
3296728 TT
1 TT
3296730 TCATTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTCATTTCTTTCTA
Found at i:3316649 original size:161 final size:159
Alignment explanation
Indices: 3316367--3316688 Score: 594
Period size: 161 Copynumber: 2.0 Consensus size: 159
3316357 AGGAAATGAT
3316367 GAAGTATGGTAATGGAAGTATAATGAAGGTGATGGAGATGTATGAAAGGTAGTAACTGAAATAAG
1 GAAGTATGGTAATGGAAGTATAATGAAGGTGATGGAGATGTATGAAAGGTAGTAACTGAAATAAG
3316432 ACTCAAAGAAGAACATGTTAAAGAACAAAGACCCATACTTTATATTGCTTCTTTAA-GGGTGATA
66 ACTCAAAGAAGAACATGTTAAAGAACAAAGACCCATACTTTATATTGCTTCTTTAAGGGGTGATA
3316496 AACAAGGACTTTGA-CCACTATCTATAAA
131 AACAAGGACTTTGACCCACTATCTATAAA
3316524 GAAGTATGGTAATGGAAGTATAATGAAGGTGATGGAGATGTATATGAAAGGTAGTAACTGAAATA
1 GAAGTATGGTAATGGAAGTATAATGAAGGTGATGGAGATG--TATGAAAGGTAGTAACTGAAATA
3316589 AGACTCAAAGAAGAACCAATGTTAAAGAACAAAGACCCATACTTTATATTGCTTCTTTAAGGGGT
64 AGACTCAAAGAAGAA-C-ATGTTAAAGAACAAAGACCCATACTTTATATTGCTTCTTTAAGGGGT
3316654 GATAAACAAGGACTTTGACCCACTATCTATAAA
127 GATAAACAAGGACTTTGACCCACTATCTATAAA
3316687 GA
1 GA
3316689 GATAGGAACC
Statistics
Matches: 159, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
157 40 0.25
159 38 0.24
160 1 0.01
161 42 0.26
162 22 0.14
163 16 0.10
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (159 bp):
GAAGTATGGTAATGGAAGTATAATGAAGGTGATGGAGATGTATGAAAGGTAGTAACTGAAATAAG
ACTCAAAGAAGAACATGTTAAAGAACAAAGACCCATACTTTATATTGCTTCTTTAAGGGGTGATA
AACAAGGACTTTGACCCACTATCTATAAA
Found at i:3347043 original size:11 final size:11
Alignment explanation
Indices: 3347029--3347084 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
3347019 TCTTTTTGAA
3347029 TTCTTTTTCTT
1 TTCTTTTTCTT
3347040 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
3347053 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
3347066 TGTCTTTTTC-T
1 T-TCTTTTTCTT
3347077 TTCTTTTT
1 TTCTTTTT
3347085 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:3347053 original size:19 final size:18
Alignment explanation
Indices: 3347029--3347084 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
3347019 TCTTTTTGAA
3347029 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
3347047 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
3347066 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
3347084 T
1 T
3347085 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 13 0.38
20 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:3349296 original size:23 final size:25
Alignment explanation
Indices: 3349257--3349307 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
3349247 TCTTTTTCTT
3349257 TTTCTTCCTTTTTGAGTGCTTTCAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
*
3349282 TTTCTT-C-TTTTGAGTGCTTTGAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
3349305 TTT
1 TTT
3349308 TTTTGCTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 18 0.72
24 1 0.04
25 6 0.24
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.59
Consensus pattern (25 bp):
TTTCTTCCTTTTTGAGTGCTTTCAA
Found at i:3355254 original size:13 final size:13
Alignment explanation
Indices: 3355232--3355261 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3355222 ACTAAACACC
3355232 TTTC-ACATACCT
1 TTTCAACATACCT
3355244 TTTCAACATACCT
1 TTTCAACATACCT
3355257 TTTCA
1 TTTCA
3355262 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:3356533 original size:23 final size:24
Alignment explanation
Indices: 3356476--3356535 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
3356466 ACTTTTCTTT
*
3356476 CTTTCTTTTTCTTCTTTTCGAGTG
1 CTTTCATTTTCTTCTTTTCGAGTG
*
3356500 CTTTCAATTTCTTCTTTT-GAGTG
1 CTTTCATTTTCTTCTTTTCGAGTG
**
3356523 CTTTTGTTTTCTT
1 CTTTCATTTTCTT
3356536 TGCTGGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.07, C:0.18, G:0.12, T:0.63
Consensus pattern (24 bp):
CTTTCATTTTCTTCTTTTCGAGTG
Found at i:3363173 original size:13 final size:13
Alignment explanation
Indices: 3363155--3363180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3363145 ACTATCTGTT
3363155 CATCACCATTTTC
1 CATCACCATTTTC
3363168 CATCACCATTTTC
1 CATCACCATTTTC
3363181 ACGCCTATAA
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:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CATCACCATTTTC
Found at i:3367935 original size:34 final size:32
Alignment explanation
Indices: 3367878--3367949 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
3367868 TTTGGCTTTC
*
3367878 TTTC-TTTTTGAATTTCTTTTTCTTTTCT-TCT
1 TTTCTTTTTTGAATTTCTTCTTCTTTT-TGTCT
3367909 TTTCTTTTTCTGAATTTTCTTCTTCTTTTTGTCT
1 TTTCTTTTT-TGAA-TTTCTTCTTCTTTTTGTCT
3367943 TTTCTTT
1 TTTCTTT
3367950 CTTTTTGCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 4 0.11
32 4 0.11
33 5 0.14
34 23 0.64
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.74
Consensus pattern (32 bp):
TTTCTTTTTTGAATTTCTTCTTCTTTTTGTCT
Found at i:3370132 original size:16 final size:18
Alignment explanation
Indices: 3370096--3370134 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
3370086 TTTTATTACT
3370096 ATTTCA-CTTCTTTATTC
1 ATTTCATCTTCTTTATTC
3370113 -TTTCATCTT-TTT-TTC
1 ATTTCATCTTCTTTATTC
3370128 ATTTCAT
1 ATTTCAT
3370135 TACCTTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.15
16 14 0.70
17 3 0.15
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTCATCTTCTTTATTC
Found at i:3370182 original size:17 final size:17
Alignment explanation
Indices: 3370160--3370193 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3370150 TATCCTACCC
3370160 CTATACCATAACCATTT
1 CTATACCATAACCATTT
*
3370177 CTATACCCTAACCATTT
1 CTATACCATAACCATTT
3370194 TTTTAAGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (17 bp):
CTATACCATAACCATTT
Found at i:3383933 original size:24 final size:25
Alignment explanation
Indices: 3383887--3383941 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
3383877 ATAGTTATGC
*
3383887 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
3383911 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
3383936 CA-TTGA
1 CACTTGA
3383942 GGCTCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:3384963 original size:6 final size:6
Alignment explanation
Indices: 3384948--3384976 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3384938 GGATAACTAA
3384948 GAAA-G GAAATG GAAATG GAAATG GAAATG
1 GAAATG GAAATG GAAATG GAAATG GAAATG
3384977 AAAAGGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAATG
Found at i:3388565 original size:16 final size:16
Alignment explanation
Indices: 3388531--3388580 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3388521 ATAAGGTAAT
3388531 AGAATAAGAATAGATGAA
1 AGAATAAGAA-A-ATGAA
3388549 AGAATAAGAAAATGAA
1 AGAATAAGAAAATGAA
* * *
3388565 ATAGTAAGAAACTGAA
1 AGAATAAGAAAATGAA
3388581 GATAACTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.62
17 1 0.03
18 10 0.34
ACGTcount: A:0.62, C:0.02, G:0.20, T:0.16
Consensus pattern (16 bp):
AGAATAAGAAAATGAA
Found at i:3390612 original size:11 final size:11
Alignment explanation
Indices: 3390596--3390641 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
3390586 TTGCTATTTT
3390596 AAAAAAAACAA
1 AAAAAAAACAA
3390607 AAAAAAAAC--
1 AAAAAAAACAA
**
3390616 AAAAAAGCCAA
1 AAAAAAAACAA
3390627 AAAAAAAACAA
1 AAAAAAAACAA
3390638 AAAA
1 AAAA
3390642 GCTAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 7 0.24
11 22 0.76
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:3390621 original size:20 final size:20
Alignment explanation
Indices: 3390596--3390641 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3390586 TTGCTATTTT
3390596 AAAAAAAACAAAAAAAAAAC
1 AAAAAAAACAAAAAAAAAAC
**
3390616 AAAAAAGCCAAAAAAAAAAC
1 AAAAAAAACAAAAAAAAAAC
3390636 AAAAAA
1 AAAAAA
3390642 GCTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAAAC
Found at i:3390648 original size:19 final size:20
Alignment explanation
Indices: 3390604--3390648 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
3390594 TTAAAAAAAA
3390604 CAAAAAAAAAACAAAAAAGC
1 CAAAAAAAAAACAAAAAAGC
3390624 CAAAAAAAAAACAAAAAAGC
1 CAAAAAAAAAACAAAAAAGC
*
3390644 TAAAA
1 CAAAA
3390649 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.02
Consensus pattern (20 bp):
CAAAAAAAAAACAAAAAAGC
Found at i:3398805 original size:8 final size:8
Alignment explanation
Indices: 3398778--3398854 Score: 57
Period size: 8 Copynumber: 8.6 Consensus size: 8
3398768 TTTTTTGAAA
3398778 TTTTGTCTT
1 TTTTGT-TT
3398787 TTTTGGCTTT
1 TTTT-G-TTT
3398797 TTTTGTTT
1 TTTTGTTT
*
3398805 TTTT-ATT
1 TTTTGTTT
3398812 TTTTGCCTTTT
1 TTTTG---TTT
3398823 TTTTGTTT
1 TTTTGTTT
3398831 TTTTGCCTTTT
1 TTTTG---TTT
3398842 TTTTGTTT
1 TTTTGTTT
3398850 TTTTG
1 TTTTG
3398855 AAAAAAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
7 6 0.11
8 23 0.40
9 5 0.09
10 7 0.12
11 16 0.28
ACGTcount: A:0.01, C:0.08, G:0.12, T:0.79
Consensus pattern (8 bp):
TTTTGTTT
Found at i:3398806 original size:25 final size:26
Alignment explanation
Indices: 3398778--3398832 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
3398768 TTTTTTGAAA
* *
3398778 TTTTGTCTTTTTTGGC-TTTTTTTGT
1 TTTTGTATTTTTTGCCTTTTTTTTGT
*
3398803 TTTTTTATTTTTTGCCTTTTTTTTGT
1 TTTTGTATTTTTTGCCTTTTTTTTGT
3398829 TTTT
1 TTTT
3398833 TTGCCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80
Consensus pattern (26 bp):
TTTTGTATTTTTTGCCTTTTTTTTGT
Found at i:3398824 original size:19 final size:19
Alignment explanation
Indices: 3398810--3398854 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
3398800 TGTTTTTTTA
3398810 TTTTTTGCCTTTTTTTTGT
1 TTTTTTGCCTTTTTTTTGT
3398829 TTTTTTGCCTTTTTTTTGT
1 TTTTTTGCCTTTTTTTTGT
3398848 TTTTTTG
1 TTTTTTG
3398855 AAAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTTTGCCTTTTTTTTGT
Found at i:3398833 original size:25 final size:25
Alignment explanation
Indices: 3398785--3398834 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
3398775 AAATTTTGTC
*
3398785 TTTTTTGGCTTTTTTTGTTTTTTTA
1 TTTTTTGCCTTTTTTTGTTTTTTTA
3398810 TTTTTTGCCTTTTTTTTGTTTTTTT
1 TTTTTTGCC-TTTTTTTGTTTTTTT
3398835 GCCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (25 bp):
TTTTTTGCCTTTTTTTGTTTTTTTA
Found at i:3398850 original size:9 final size:9
Alignment explanation
Indices: 3398778--3398853 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
3398768 TTTTTTGAAA
3398778 TTTTGTCTTT
1 TTTTGT-TTT
* *
3398788 TTTGGCTTT
1 TTTTGTTTT
3398797 TTTTG-TTT
1 TTTTGTTTT
*
3398805 TTTTATTTT
1 TTTTGTTTT
***
3398814 TTGCCTTTT
1 TTTTGTTTT
3398823 TTTTG-TTT
1 TTTTGTTTT
3398831 TTTTGCCTTTT
1 TTTTG--TTTT
3398842 TTTTGTTTT
1 TTTTGTTTT
3398851 TTT
1 TTT
3398854 GAAAAAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
8 15 0.29
9 25 0.48
10 4 0.08
11 8 0.15
ACGTcount: A:0.01, C:0.08, G:0.11, T:0.80
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:3403821 original size:13 final size:13
Alignment explanation
Indices: 3403803--3403833 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3403793 AAATTTTGGC
*
3403803 TTTTTTGGCTTTT
1 TTTTTTGCCTTTT
3403816 TTTTTTGCCTTTT
1 TTTTTTGCCTTTT
3403829 TTTTT
1 TTTTT
3403834 GAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (13 bp):
TTTTTTGCCTTTT
Found at i:3408483 original size:74 final size:71
Alignment explanation
Indices: 3408354--3408493 Score: 172
Period size: 74 Copynumber: 1.9 Consensus size: 71
3408344 TAAGTTCATC
* * * * ** *
3408354 CATTCATGCATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGGGAAGAATTTCAGC
1 CATTCATGAACATTCATCCAAGAAGACAAATAAACATGTTCACACAAGGGAGGAAGAA-TTCAGC
3408419 CAAGATA
65 CAAGATA
* *
3408426 CATTCATGAACATTCATCCATAGAAGACAAATCAAACATGTTCACACATGGGAGGAAGGATTCAG
1 CATTCATGAACATTCATCCA-AGAAGACAAAT-AAACATGTTCACACAAGGGAGGAAGAATTCAG
3408491 CCA
64 CCA
3408494 TGAATATACA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 17 0.30
73 18 0.32
74 22 0.39
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (71 bp):
CATTCATGAACATTCATCCAAGAAGACAAATAAACATGTTCACACAAGGGAGGAAGAATTCAGCC
AAGATA
Found at i:3409252 original size:22 final size:22
Alignment explanation
Indices: 3409223--3409284 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
3409213 ATTTGTTTTT
*
3409223 CAAAAAAAAAA-ACAAAAAAAA
1 CAAAAAAAAAACAAAAAAAAAA
*
3409244 CAAAAAAAAAACAAAAACAAAA
1 CAAAAAAAAAACAAAAAAAAAA
* *
3409266 CAAAAAAAAAGCCAAAAAA
1 CAAAAAAAAAACAAAAAAA
3409285 GCCAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 11 0.31
22 24 0.69
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAAACAAAAAAAAAA
Found at i:3409284 original size:1 final size:1
Alignment explanation
Indices: 3409224--3409275 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
3409214 TTTGTTTTTC
* * * * *
3409224 AAAAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAACAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3409276 GCCAAAAAAG
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:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3409284 original size:11 final size:11
Alignment explanation
Indices: 3409223--3409275 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
3409213 ATTTGTTTTT
3409223 CAAAAAAAAAA
1 CAAAAAAAAAA
*
3409234 -ACAAAAAAAA
1 CAAAAAAAAAA
3409244 CAAAAAAAAAA
1 CAAAAAAAAAA
*
3409255 CAAAAACAAAA
1 CAAAAAAAAAA
3409266 CAAAAAAAAA
1 CAAAAAAAAA
3409276 GCCAAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:3417291 original size:24 final size:25
Alignment explanation
Indices: 3417256--3417310 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
3417246 ACTTGGAGCC
*
3417256 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
3417280 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
3417304 TCAAGTG
1 TCAAGTG
3417311 GCATAACTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Found at i:3425113 original size:14 final size:13
Alignment explanation
Indices: 3425096--3425145 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
3425086 GTGCAAAAAG
3425096 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
3425110 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
3425123 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
3425134 AAAGAAAAAGAA
1 AAAGAAAAAGAA
3425146 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:3425142 original size:19 final size:18
Alignment explanation
Indices: 3425090--3425145 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
3425080 ATTGGAGTGC
3425090 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
3425107 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
3425126 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
3425145 A
1 A
3425146 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:3425143 original size:11 final size:11
Alignment explanation
Indices: 3425090--3425145 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
3425080 ATTGGAGTGC
3425090 AAAAAG-AAAG
1 AAAAAGAAAAG
3425100 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
3425114 AAGAAGAAAAG
1 AAAAAGAAAAG
3425125 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
3425138 AAAAAGAA
1 AAAAAGAA
3425146 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:3435462 original size:11 final size:11
Alignment explanation
Indices: 3435446--3435476 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3435436 CCTTGTACTC
3435446 TGTGAGCTGTT
1 TGTGAGCTGTT
*
3435457 TGTGAGCTATT
1 TGTGAGCTGTT
3435468 TGTGAGCTG
1 TGTGAGCTG
3435477 CATAGGACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.35, T:0.42
Consensus pattern (11 bp):
TGTGAGCTGTT
Found at i:3437350 original size:14 final size:14
Alignment explanation
Indices: 3437330--3437368 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
3437320 CTTTTTATTT
3437330 ATTTCATTTCTATTC
1 ATTTCATTTCT-TTC
3437345 -TTTCATTTCTTTC
1 ATTTCATTTCTTTC
3437358 TATTTCATTTC
1 -ATTTCATTTC
3437369 CTTTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTCATTTCTTTC
Found at i:3437682 original size:13 final size:13
Alignment explanation
Indices: 3437664--3437701 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3437654 GAAAAAGACA
3437664 AAAAGAAGAAGAG
1 AAAAGAAGAAGAG
*
3437677 AAAAGAAGAAAAG
1 AAAAGAAGAAGAG
*
3437690 AAAAGAAAAAGA
1 AAAAGAAGAAGA
3437702 ATTCAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAGAG
Found at i:3437715 original size:21 final size:20
Alignment explanation
Indices: 3437644--3437714 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
3437634 AATTGGAGTG
3437644 CAAAAAG-AAAGAAAAAG-A
1 CAAAAAGAAAAGAAAAAGAA
3437662 CAAAAAGAAGAAGAGAAAAGAA
1 CAAAAAGAA-AAGA-AAAAGAA
*
3437684 -GAAAAGAAAAGAAAAAGAA
1 CAAAAAGAAAAGAAAAAGAA
3437703 TTCAAAAAGAAA
1 --CAAAAAGAAA
3437715 GCAAAGCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
18 7 0.16
19 8 0.18
20 8 0.18
21 12 0.27
22 9 0.20
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (20 bp):
CAAAAAGAAAAGAAAAAGAA
Found at i:3441959 original size:14 final size:14
Alignment explanation
Indices: 3441939--3441977 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
3441929 CTTTTTATTT
3441939 ATTTCATTTCTATTC
1 ATTTCATTTCT-TTC
3441954 -TTTCATTTCTTTC
1 ATTTCATTTCTTTC
3441967 TATTTCATTTC
1 -ATTTCATTTC
3441978 CTTTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTCATTTCTTTC
Found at i:3445852 original size:24 final size:21
Alignment explanation
Indices: 3445818--3445860 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
3445808 TCCACAATAT
*
3445818 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
3445840 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
3445861 AGAATGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:3447018 original size:15 final size:16
Alignment explanation
Indices: 3446998--3447034 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
3446988 GATTAGAATA
3446998 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
3447013 AAATAAACGAAAGATG
1 AAATAAACAAAAGATG
3447029 AAATAA
1 AAATAA
3447035 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:3451693 original size:15 final size:16
Alignment explanation
Indices: 3451673--3451714 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3451663 GATTAGAATA
3451673 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
**
3451688 AAATAAACGGAAGATG
1 AAATAAACAAAAGATG
3451704 AAATAAGACAA
1 AAATAA-ACAA
3451715 TAAAGAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 6 0.29
17 2 0.10
ACGTcount: A:0.67, C:0.07, G:0.14, T:0.12
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:3460288 original size:24 final size:21
Alignment explanation
Indices: 3460254--3460296 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
3460244 TCAATAATAT
*
3460254 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
3460276 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
3460297 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:3464748 original size:73 final size:72
Alignment explanation
Indices: 3464613--3464769 Score: 174
Period size: 73 Copynumber: 2.1 Consensus size: 72
3464603 TAAGTTCATC
* * * * **
3464613 CATTCATGCATATTCATGCAAGAAGCCAAATAGTCATGTTCACACAAGGGGGAAGAATTTCAGC-
1 CATTCATGAACATTCATCCAAGAAGACAAATAAACATGTTCACACAAGGGGGAAGAATTTCAGCA
3464677 CAAGATA
66 CAAGATA
* *
3464684 CATTCATGAACATTCATCCATAGAAGACAAATCAAACATGTTCACACATGGGAGGAAGGA-TTCA
1 CATTCATGAACATTCATCCA-AGAAGACAAAT-AAACATGTTCACACAAGGG-GGAAGAATTTCA
*
3464748 GCGATGAAGATA
63 GC-A-CAAGATA
3464760 CATTCATGAA
1 CATTCATGAA
3464770 GATTTATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
71 17 0.24
72 10 0.14
73 22 0.31
74 6 0.08
76 16 0.23
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (72 bp):
CATTCATGAACATTCATCCAAGAAGACAAATAAACATGTTCACACAAGGGGGAAGAATTTCAGCA
CAAGATA
Found at i:3470432 original size:25 final size:24
Alignment explanation
Indices: 3470379--3470428 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3470369 AAACAAAGTG
*
3470379 AAGCACTCAAAAGAAAGAAAAATC
1 AAGCACTCAAAAAAAAGAAAAATC
*
3470403 CAGCACTCAAAAAAGAAG-AAAATC
1 AAGCACTCAAAAAA-AAGAAAAATC
3470427 AA
1 AA
3470429 AGCAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.08
Consensus pattern (24 bp):
AAGCACTCAAAAAAAAGAAAAATC
Found at i:3476440 original size:22 final size:21
Alignment explanation
Indices: 3476414--3476455 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3476404 GGCTACAAAA
*
3476414 TTGATGGTCTTGATGGATGAAG
1 TTGATGATCTTGAT-GATGAAG
*
3476436 TTGATGATGTTGATGATGAA
1 TTGATGATCTTGATGATGAA
3476456 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.38
Consensus pattern (21 bp):
TTGATGATCTTGATGATGAAG
Found at i:3479966 original size:16 final size:17
Alignment explanation
Indices: 3479927--3479970 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
3479917 AGAATTTTTT
*
3479927 TTTTCTTTTCTGATTTTC
1 TTTTCTTTT-TGATCTTC
3479945 -TTTCTTTTTG-TCTTC
1 TTTTCTTTTTGATCTTC
3479960 TTTTCTTTTTG
1 TTTTCTTTTTG
3479971 CACTCCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 12 0.50
17 8 0.33
ACGTcount: A:0.02, C:0.16, G:0.07, T:0.75
Consensus pattern (17 bp):
TTTTCTTTTTGATCTTC
Found at i:3484012 original size:90 final size:90
Alignment explanation
Indices: 3483859--3484121 Score: 409
Period size: 90 Copynumber: 2.9 Consensus size: 90
3483849 GGGAAATGAT
* * *
3483859 GCTTGGCCGAATAGGGAGATAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGAACCACATGCAAGGCACATG
3483924 GGGCTGTTCACATGCAAAACACATG
66 GGGCTGTTCACATGCAAAACACATG
* *
3483949 GCTTGGCCAAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGAACCACATACAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGAACCACATGCAAGGCACATG
* *
3484014 GTGTTGTTCACATGCAAAACACATG
66 GGGCTGTTCACATGCAAAACACATG
* * *
3484039 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCACCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGAACCACATGCAAGGCACAT-
* *
3484104 GGGGCTGGTCATATGCAA
65 GGGGCTGTTCACATGCAA
3484122 GGAACATGGG
Statistics
Matches: 156, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 142 0.91
91 14 0.09
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (90 bp):
GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGAACCACATGCAAGGCACATG
GGGCTGTTCACATGCAAAACACATG
Found at i:3493634 original size:553 final size:554
Alignment explanation
Indices: 3485847--3498205 Score: 22576
Period size: 554 Copynumber: 22.3 Consensus size: 554
3485837 AGATATTGTT
*
3485847 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAATAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
3485912 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3485977 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
* *
3486042 AGCAACACGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATTTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
3486107 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3486172 TTTGTTTGGAATGGTGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3486237 TGGACTGCTCCTAGTGTAGGATTTCCTTTCGAGTTGTCTTTCAATTTTCATGGCCACATTCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
* * *
3486302 TTTCTTCAATCTCTACATAATACTGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCATAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3486367 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
*
3486401 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCAACTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* * *
3486466 GATCTGTATTTTCTTTCGTTTCTTCTTCTTGTATTATTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* *
3486531 TCAGAATATGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3486596 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3486661 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTTGCTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3486726 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTACTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3486791 TGGACTGCTCCTATTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3486856 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3486921 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3486955 TCTCGGAATATCATCTTGGGATGTTTGTGATTGTAGGCTCCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3487020 GATCTGAATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* *
3487085 TCAGAATATGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
* *
3487150 ACCAATATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* * *
3487215 TTTTGCTTTTCTTTACCCTTGCTAGATTCGCACATTTGTGTAGTTTTTGGTACTTCTGTACGATC
261 -TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATC
3487280 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
325 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
3487345 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACC
390 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACC
*
3487410 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAATGTTAGCAATATCAAGATTTAGGCCAGA
455 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
3487475 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
520 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3487510 TCTCGGAATATCATCTTGGGATGTTTGTGATTGTAGGCTCCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3487575 GATCTGAATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3487640 TCAGAATCTGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3487705 AGCAACATGTGCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3487770 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTTGCTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3487835 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3487900 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATACACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3487965 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3488030 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
3488064 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3488129 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGACTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3488194 TCAGAACCTGATACAATATCTCCATTGTCATGCACCATCATGGTATTTCGATTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3488259 AGCAACATGTCCTTTTCCAAAACACTTGAAATATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
3488324 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
* * *
3488389 CTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGATGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3488454 TGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATACACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3488519 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3488584 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3488618 TCTCTGAATATCATCTTGGGATGTTTGTGA--ATAGGAACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* **
3488681 GATCTGCATTTTCTTCCATTTCTTCTTCTTGTATTGTACCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3488746 TCAGAATCTGATACAATATCTCCATTATCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3488811 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTAATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3488876 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTTGCTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3488941 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3489006 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATATTCATGGCCACATGTACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
* * *
3489071 TTTCTTCAATCTCTACATAATACTGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCATAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3489136 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3489170 TCTATGAATATCATCTTGGGATGTTTGTGATTGTAGGCAACTCTTTGCAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3489235 GATCTGTATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3489300 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3489365 AGCAACATGTGCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3489430 TTTGTTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3489495 TTTGTTTGGAATGGAGTTTTCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3489560 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATATTCATGGCCACATGTACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
* * *
3489625 TTTCTTCAATCTCTACATAATACTGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCATAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3489690 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3489724 TCTATGAATATCATCTTGGGATGTTTGTGATTGTAGGCAACTCTTTGCAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3489789 GATCTGTATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* *
3489854 TCAGAATATGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3489919 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3489984 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTTGGTACTTCTACACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3490049 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
3490114 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3490179 TTTCTTCAGTCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3490244 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
3490278 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* *
3490343 GATCTGAATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTTAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3490408 TCAGAATCTGATACAATATCTCCATTGTCAAGCACTATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3490473 AGCAACATGTGCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3490538 TTTGTTTTTCTTTACCCTTGCTAGATTCTCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3490603 TTTGTTTGGAATGGAGTTTTCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
3490668 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3490733 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3490798 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
3490832 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* *
3490897 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCATCAAAAATAGACTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3490962 TCAGAACCTGATACAATATCTCCATTGTCATGCACCATCATGGTATTTCGATTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3491027 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3491092 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTTGTGTAGTTTTTGGTACTTCTGCACGATC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCA-TTTGTGTAGTTTTAGGTACTTCTGCACGATC
*
3491157 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTACTTCCATTTGGTGGCCGAAT
325 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
*
3491222 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCATATGCACC
390 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACC
3491287 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
455 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
3491352 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
520 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3491387 TCTCGGAATATAATCTTGGGATGTTTGTGATTGTAGGCTCCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* * *
3491452 GATCTGAATTTTCTTCCGTTTCTTCTTCTTGTATTGCTTCAGGTTCCTCGTCAAAAATATGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* *
3491517 TCAGAATATGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
* *
3491582 ACCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATATCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3491647 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTACTTTTTGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3491712 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3491777 TGGACTGCTCCTAGTGTAGGATTTCCTTTTAAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3491842 TTTCTTCAATCTCTACAAAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3491907 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3491941 TCTCGGAATATCATCTTGGGATGTTTGTGATTGTAGGCTCCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3492006 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGACTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3492071 TCAGAACCTGATACAATATCTCCATTGTCATGCACCATCATGGTATTTCGATTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3492136 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3492201 TTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
* * * *
3492266 CTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGATGGTCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3492331 TGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATACACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3492396 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3492461 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* **
3492495 TCTCTGAATATCATCTTGGGATGTTTGTGATTATAGTAACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
* *
3492560 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCATCAAAAATAGACTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3492625 TCAGAACCTGATACAATATCTCCATTGTCATGCACCATCATGGTATTTCGATTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3492690 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3492755 TTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
* * *
3492820 CTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGATGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3492885 TGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATACACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3492950 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3493015 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
*
3493049 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCTCCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3493114 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGACTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3493179 TCAGAACCTGATACAATATCTCCATTGTCATGCACCATCATGGTATTTCGATTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3493244 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
3493309 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTT-GGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3493373 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
3493438 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3493503 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
*
3493568 AAGAATCTTGCCATTGTTTCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3493602 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCAACTCTTTGCAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3493667 GATCTGTATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
* * *
3493732 TCAGAATATGATACAATATCTCCATCGACAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3493797 AGCAACATGTCCTTTTCC-AAACACTTGAAACATTTGATCTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
* *
3493861 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTATGTAGTTTTTGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3493926 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3493991 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATATTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3494056 TTTCTTCAATCTCTACATAATGTTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3494121 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* **
3494155 TCTCTGAATATCATCTTGGGATGTTTGTGATTATAGTAACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
3494220 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3494285 TCAGAATCTGATACAATATCTCCATCGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
* *
3494350 AGCACCATGTGCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3494415 TTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3494480 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCACTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3494545 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATATTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3494610 TTTCTTCAATCTCTACATAATGTTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3494675 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
3494709 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
3494774 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3494839 TCAGAATCTGATACAATATCTCCATCT-TCAAGCACCATCATGGTATTTCGGTTGGGACATTGAC
131 TCAGAATCTGATACAATATCTCCAT-TGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGAC
* *
3494903 TAGCACCATGTGCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTG
195 TAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTG
**
3494968 GTTTGCTTTTCTTTACCCTTGCTAGATTCGCTTATTTGTGTAGTTTTAGGTACTTCTGCACGATC
260 GTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATC
3495033 CTTTG-TTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTT-TTGCTTCCATTTGGTGGCCGAAT
325 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
*
3495096 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACGTGCACC
390 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACC
3495161 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
455 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
3495226 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
520 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3495261 TCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGCACCCCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3495326 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGTCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3495391 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3495456 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
3495521 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
* *
3495586 CTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCAAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3495651 TGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
* * *
3495716 TTTCTTCAATCTCTACATAAAGGTTAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3495781 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* *
3495815 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGAACCTCTTTGAAACAAGCATCTCACAAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3495880 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3495945 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3496010 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTGTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
3496075 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3496140 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
3496205 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3496270 TTTCTTCAATCTGTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
3496335 AAGAATCTTGCCATTGTTG-TCTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCT-TCTCTATCTTCAA
* * *
3496369 TCTCTAAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCAC
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
3496434 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3496499 TCAGAATCTGATACAATATCTCCATTGTCAAGCTCCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
3496564 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3496629 TTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
3496694 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
* *
3496759 TGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTTTCTTTCAATTTTCATGG-CACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3496823 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
*
3496888 AAGAATCTTGCCATTATTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3496922 TCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGCACCCCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3496987 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGTCTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
*
3497052 TCAGAATCTGATAGAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
*
3497117 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGTTGG
196 AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
*
3497182 TTTGCTTTTCTTTACCCATGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
261 TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
* *
3497247 CTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCAAATT
326 TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
*
3497312 TGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
391 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
*
3497377 TTTCTTCAATCTCTACATAAAGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
456 TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
*
3497442 AAGAATCTTCCCATTGTTGCTTCTCTATCTTCAA
521 AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
*
3497476 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGAACCTCTTTGAAACAAGCATCTCACCAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
*
3497541 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTTCCTCGTCAAAAATAGGCTC
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG-TTCCTCGTCAAAAATAGGCTC
3497606 ATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGAC
130 ATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGAC
*
3497671 TAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTTTCTTGATCTTTCAAAAGTGCTG
195 TAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTG
* *
3497736 GTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCATGATC
260 GTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATC
3497801 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
325 CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
* *
3497866 TTGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTTTCTTTCAATTTTCATGG-CACATGCACC
390 TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACC
* *
3497930 ATTTCTTCAATCTCTGCATAATGCTGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGA
455 ATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGA
3497995 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
520 TAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
* * *
3498030 TCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGCACCCCTTTGAAACAAGCATCT---CAT
1 TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
3498092 GATCTGCATTTTCTTCCGTTTCTTC-TCTTGTATTG-TTCAGGTTCCTCGTCAAAAAT---CTCA
66 GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
3498152 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
131 TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
3498206 AGTTCAACAA
Statistics
Matches: 11457, Mismatches: 334, Indels: 37
0.97 0.03 0.00
Matches are distributed among these distances:
545 58 0.01
548 15 0.00
549 5 0.00
550 10 0.00
551 29 0.00
552 1119 0.10
553 1494 0.13
554 7325 0.64
555 1402 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (554 bp):
TCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGCACCTCTTTGAAACAAGCATCTCACCAT
GATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCA
TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACT
AGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
TTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCACGATCC
TTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
TTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGAT
AAGAATCTTGCCATTGTTGCTTCTCTATCTTCAA
Found at i:3498395 original size:249 final size:250
Alignment explanation
Indices: 3497957--3498457 Score: 877
Period size: 249 Copynumber: 2.0 Consensus size: 250
3497947 ATAATGCTGA
3497957 AGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
*
3498022 ATCTTCAATCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGCACCCCTTTGAAACAAGCAT
66 ATCTTCAATCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGAACCCCTTTGAAACAAGCAT
3498087 CTCATGATCTGCATTTTCTTCCGTTTCTTCTCTTGTATTGTTCAGGTTCCTCGTCAAAAAT-CTC
131 CTCATGATCTGCATTTTCTTCCGTTTCTTCTCTTGTATTGTTCAGGTTCCTCGTCAAAAATGCTC
3498151 ATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
196 ATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
*
3498206 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTT-CCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
* *
3498270 ATCTTCAATCTCTGAATATCATCTTGGGATG-TTGTGATTATAGGAACCTCTTTGAAACAAGCAT
66 ATCTTCAATCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGAACCCCTTTGAAACAAGCAT
3498334 CTCACCATGATCTGCATTTTCTTCCG-TT-TTCTTCTTGTATTGTTCAGGTTCCTCGTCAAAAAT
131 CT---CATGATCTGCATTTTCTTCCGTTTCTTC-TCTTGTATTGTTCAGGTTCCTCGTCAAAAAT
3498397 AGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
192 --GCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
3498458 GGACATTGAC
Statistics
Matches: 241, Mismatches: 4, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
247 33 0.14
248 49 0.20
249 80 0.33
250 21 0.09
252 58 0.24
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (250 bp):
AGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
ATCTTCAATCTCTGAATATCATCTTGGAATGTTTGTGATTATAGGAACCCCTTTGAAACAAGCAT
CTCATGATCTGCATTTTCTTCCGTTTCTTCTCTTGTATTGTTCAGGTTCCTCGTCAAAAATGCTC
ATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
Found at i:3498526 original size:797 final size:791
Alignment explanation
Indices: 3497403--3498990 Score: 2872
Period size: 797 Copynumber: 2.0 Consensus size: 791
3497393 ATAAAGCTGA
3497403 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTCCCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTCCCATTGTTGCTTCTCT
*
3497468 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTGTAGGAACCTCTTTGAAACAAGCAT
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGAACCTCTTTGAAACAAGCAT
3497533 CTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTTCCTCGTCAAAA
131 CTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTTCCTCGTCAAAA
3497598 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
196 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
*
3497663 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTTTCTTGATCTTTCAA
261 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
3497728 AAGTGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
326 AAGTGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
*
3497793 GCATGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
391 GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
*
3497858 GGCCGAATTTGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTTTCTTTCAATTTTCATGG-CA
456 GGCCGAATTTGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
*
3497922 CATGCACCATTTCTTCAATCTCTGCATAATGCTGAAGTTCAACAAGGTTAGAAATATCAAGATTT
521 CATGCACCATTTCTTCAATCTCTACATAA---TGAAGTTCAACAAGGTTAGAAATATCAAGATTT
3497987 AGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGAAT
583 AGGCCAGATAAGAATCTTGCCA-T-TTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGG-AT
*
3498052 GTTTGTGATTATAGGCACCCCTTTGAAACAAGCATC-TCATGATCTGCATTTTCTTCCGTTTCTT
645 GTTTGTGATTATAGGCA--CCTTTGAAACAAGCATCACCATGATCTGCA--TT-TT-C-TTT-TT
*
3498116 CTCTTGTATTG-TTCAGGTTCCTCGTCAAAA-ATCTCATCAGAATCTGATACAATATCTCCATTG
702 -TCTTGTATTGTTTCAGGTTCCTCGTCAAAATAGCTCATCAGAATCTGATACAATATCTCCATT-
3498179 TCAAGCACCATCATGGTATTTCGGTTG
765 TCAAGCACCATCATGGTATTTCGGTTG
3498206 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTT-CCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTCCCATTGTTGCTTCTCT
3498270 ATCTTCAATCTCTGAATATCATCTTGGGATG-TTGTGATTATAGGAACCTCTTTGAAACAAGCAT
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGAACCTCTTTGAAACAAGCAT
3498334 CTCACCATGATCTGCATTTTCTTCCG-TT-TTCTTCTTGTATTGTT-CAGG-TTCCTCGTCAAAA
131 CTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTTCCTCGTCAAAA
3498395 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
196 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
3498460 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
261 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
*
3498525 AAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
326 AAGTGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
3498590 GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
391 GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
*
3498655 GGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
456 GGCCGAATTTGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
3498720 CATGCACCATTTCTTCAATCTCTACATAATGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGG
521 CATGCACCATTTCTTCAATCTCTACATAATGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGG
3498785 CCAGATAAGAATCTTGCCATTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGATGTTTGT
586 CCAGATAAGAATCTTGCCATTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGATGTTTGT
3498850 GATTATAGGCACCTTTGAAACAAGCATCACCATGATCTGCATTTTCTTTTTTCTTGTATTGTTTC
651 GATTATAGGCACCTTTGAAACAAGCATCACCATGATCTGCATTTTCTTTTTTCTTGTATTGTTTC
*
3498915 AGGTTCCTCGTCAAAATAGGTCATCAGAATCTGATACAATATCTCCATTTCAAGCACCATCATGG
716 AGGTTCCTCGTCAAAATAGCTCATCAGAATCTGATACAATATCTCCATTTCAAGCACCATCATGG
3498980 TATTTCGGTTG
781 TATTTCGGTTG
3498991 GGACATTGAC
Statistics
Matches: 771, Mismatches: 10, Indels: 26
0.96 0.01 0.03
Matches are distributed among these distances:
784 10 0.01
785 48 0.06
786 33 0.04
787 1 0.00
788 2 0.00
789 2 0.00
790 17 0.02
791 11 0.01
792 19 0.02
793 37 0.05
794 1 0.00
795 55 0.07
797 330 0.43
798 34 0.04
799 16 0.02
800 2 0.00
801 58 0.08
802 47 0.06
803 48 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (791 bp):
AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTCCCATTGTTGCTTCTCT
ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGAACCTCTTTGAAACAAGCAT
CTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTTCCTCGTCAAAA
ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
AAGTGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
GGCCGAATTTGGACTGCTCCTAGTGTAGGAATTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
CATGCACCATTTCTTCAATCTCTACATAATGAAGTTCAACAAGGTTAGAAATATCAAGATTTAGG
CCAGATAAGAATCTTGCCATTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGATGTTTGT
GATTATAGGCACCTTTGAAACAAGCATCACCATGATCTGCATTTTCTTTTTTCTTGTATTGTTTC
AGGTTCCTCGTCAAAATAGCTCATCAGAATCTGATACAATATCTCCATTTCAAGCACCATCATGG
TATTTCGGTTG
Found at i:3499818 original size:530 final size:541
Alignment explanation
Indices: 3498206--3500939 Score: 4492
Period size: 530 Copynumber: 5.1 Consensus size: 541
3498196 ATTTCGGTTG
3498206 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTT-CCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
*
3498270 ATCTTCAATCTCTGAATATCATCTTGGGATG-TTGTGATTATAGGAACCTCTTTGAAACAAGCAT
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCA-C-CTTTGAAACAAGCAT
3498334 CTCACCATGATCTGCATTTTCTTCCGTTTTCTTCTTGTATTG-TTCAGGTTCCTCGTCAAAAATA
129 CTCACCATGATCTGCATTTTCTT-CGTTTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATA
3498398 GGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACA
193 GG-TCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACA
3498463 TTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAG
257 TTGAC-A-CAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAG
3498528 TGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCA
320 TGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCG-CCA-TTGTGTAGTTTTAGGTACTTCTGCA
3498593 CGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGC
383 CGATCC-TTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGC
3498658 CGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACAT
447 CGAATTTGGACTG--CCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACAT
3498723 GCACCATTTCTTCAATCTCTACATAA---TGA
510 GCACCATTTCTTCAATCTCTACATAATGCTGA
*
3498752 AGTTCAACAAGGTTAGAAATATCAAGATTTAGGCCAGATAAGAATCTTGCCA-T-TTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
3498815 ATCTTCAATCTCTGAATATCATCTT-GGATGTTTGTGATTATAGGCACCTTTGAAACAAGCA--T
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTTTGAAACAAGCATCT
3498877 CACCATGATCTGCA--TT-TTC-TTTT-TTCTTGTATTGTTTCAGGTTCCTCGTC-AAAATAGGT
131 CACCATGATCTGCATTTTCTTCGTTTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGT
3498936 CATCAGAATCTGATACAATATCTCCATT-TCAAGCACCATCATGGTATTTCGGTTGGGACATTGA
196 CATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGA
*
3499000 CTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGTT
261 C-A-CAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCT
3499065 GGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCATTGTGTAGTTTTAGGTACTTCTGCACGAT-C
324 GGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCATTGTGTAGTTTTAGGTACTTCTGCACGATCC
*
3499129 TTTTTTGGAAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCG-ATT
389 TTGTTTGG-AATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATT
3499193 TGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
453 TGGACTG--CCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCA
3499258 -TTCTTCAATCT-TACATAATGCTGA
516 TTTCTTCAATCTCTACATAATGCTGA
3499282 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTG-TGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
3499346 ATCTTCAATCT-TGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTGAAACAAGCATC
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCT-TTGAAACAAGCATC
3499410 TCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTG-TTCAGGTTCCTCGTCAAAAAT
130 TCACCATGATCTGCATTTTCTT-CG-TT-TTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAAT
3499474 AGG-C-TCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACA
192 AGGTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACA
*
3499537 CTGAC-CAACATGTCCTTTTCCAAAACAC-TGAAACATTTG-TGTCTC-TGATCTTTCAAAAGTG
257 TTGACACAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTG
3499598 CTGGTTTGC-TTTC-TTACCCTTGCTAGATTCG-CATTGTGTAGTTTTAGGTACTTCTGCACGAT
322 CTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCATTGTGTAGTTTTAGGTACTTCTGCACGAT
3499660 CCTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTA-TGCTTCCATTTGGTGGCCGAAT
387 CCTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAAT
3499724 TTGGACTG-CTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTC-TGGCCACATGCACCAT
452 TTGGACTGCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCAT
3499787 TTCTTCAATCTCTACATAATGCTGA
517 TTCTTCAATCTCTACATAATGCTGA
3499812 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATC-TGCCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
3499876 ATC-TC-ATCTCT-AA-ATCATCTTGGG-TGTTTGTG---ATAGGCACCTTTGAAAACAAGCATC
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTTTG-AAACAAGCATC
* **
3499933 TCACCATGATCTGCATTTTCTT-GTTTTCTTCTTGTATTGTTTCAGGTT-CTCGTCAAAAAAATC
130 TCACCATGATCTGCATTTTCTTCGTTTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGG
*
3499996 TCATCAGAAT-TGATAC-ATA-ATCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTG
195 TCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTG
3500058 ACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGC
260 AC-A-CAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGC
3500123 TGGTTTGC-TTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTAC-T-TGCACGA
323 TGGTTTGCTTTTCTTTACCCTTGCTAGATTCG-CCA-TTGTGTAGTTTTAGGTACTTCTGCACGA
*
3500185 TCCTTTTTTGGAA-GGAGTTTGCTTTC-GAAAGTAATAGGTTA-TGCTTCCA-TTGGT-G--GAA
386 TCCTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAA
3500243 -TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCAC
451 TTTGGACTG--CCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCAC
3500307 CATTTCTTCAATCTCTACATAA-GCTG-
514 CATTTCTTCAATCTCTACATAATGCTGA
3500333 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTT-CCATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
*
3500397 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGA-TATAGGAACCTTTG-AACAAGCATCT
66 ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTTTGAAACAAGCATCT
*
3500460 CACCATGATCTGCA-TTTCTTCGTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGC
131 CACCATGATCTGCATTTTCTTCGTTTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGG-
3500524 TCATCAGAATCTGATACAATATCTCCA-TGTCAAGCACCATCATGGTATTTCGGTTGGGACATTG
195 TCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTG
3500588 ACTAGC-ACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGC
260 AC-A-CAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGC
3500652 TGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATT-TGTAGTTTTAGGTACTTCTGCACGAT
323 TGGTTTGCTTTTCTTTACCCTTGCTAGATTCG-CCATTGTGTAGTTTTAGGTACTTCTGCACGAT
3500716 CCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGT-ATAGGTTATTGCTTCCATTTGGTGGCCGAA
387 CC-TTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAA
3500780 TTTGGACTGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCCACATGCAC
451 TTTGGACTG-CCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGG-CCACATGCAC
3500845 CATTTCTTCAA--TC-A-ATAATGCTGA
514 CATTTCTTCAATCTCTACATAATGCTGA
*
3500869 A-TTCAACAAGGTTAGCAATATCAAGATTTAGG-CAGA-AAGAATCTTGCAATTGTTGCTTCTCT
1 AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
3500931 ATCTTCAAT
66 ATCTTCAAT
3500940 AGGTACTTCT
Statistics
Matches: 2089, Mismatches: 22, Indels: 166
0.92 0.01 0.07
Matches are distributed among these distances:
518 43 0.02
519 37 0.02
520 20 0.01
521 96 0.05
522 61 0.03
523 95 0.05
524 54 0.03
525 48 0.02
526 85 0.04
527 33 0.02
528 87 0.04
529 211 0.10
530 274 0.13
531 106 0.05
532 109 0.05
533 180 0.09
534 85 0.04
535 80 0.04
536 30 0.01
537 62 0.03
538 55 0.03
539 2 0.00
540 28 0.01
541 69 0.03
542 19 0.01
543 14 0.01
544 6 0.00
545 49 0.02
546 48 0.02
547 3 0.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (541 bp):
AGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCT
ATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTTTGAAACAAGCATCT
CACCATGATCTGCATTTTCTTCGTTTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGT
CATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGA
CACAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG
TTTGCTTTTCTTTACCCTTGCTAGATTCGCCATTGTGTAGTTTTAGGTACTTCTGCACGATCCTT
GTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATTTGG
ACTGCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCATTTCT
TCAATCTCTACATAATGCTGA
Found at i:3501336 original size:789 final size:778
Alignment explanation
Indices: 3500170--3501739 Score: 2788
Period size: 791 Copynumber: 2.0 Consensus size: 778
3500160 TGTGTAGTTT
*
3500170 TAGGTACTTGCACGATCCTTTTTTGGAAGGAGTTTGCTTTCGAAAGTAATAGGTTATGCTTCCAT
1 TAGGTACTTGCACGATCCTTGTTTGGAAGGAGTTTGCTTTCGAAAGTAATAGGTTATGCTTCCAT
3500235 TGGTGGAATTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
66 TGGTGGAATTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
3500300 CATGCACCATTTCTTCAATCTCTACATAAGCTGAGTTCAACAAGGTTAGCAATATCAAGATTTAG
131 CATGCACCATTTCTTCAATCTCTACATAAGCTGAGTTCAACAAGGTTAGCAATATCAAGATTTAG
3500365 GCCAGATAAGAATCTTCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGTT
196 GCCAGATAAGAATCTTCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGTT
3500430 TGTGATATAGGAACCTTTGAACAAGCATCTCACCATGATCTGCATTTCTTCGTCTTCTTCTTGTA
261 TGTGATATAGGAACCTTTGAACAAGCATCTCACCATGATCTGCATTTCTTCGTCTTCTTCTTGTA
*
3500495 TTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCA-TGTCAAGC
326 TTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGC
3500559 ACCATCATGGTATTTCGGTTGGGACATTGACTAGC-ACATGTCCTTTTCCAAAACACTTGAAACA
391 ACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACA
3500623 TTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCA
456 TTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCA
3500688 TTTGTAGT-TTTAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGT-A
521 TTTGT-GTATTTAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAA
3500751 TAGGTTATTGCTTCCATTTGGTGGCCGAATTTGGACTG-TCCTAGTGTAGGATTTCCTTTTGAGT
585 TAGGTTATTGCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
3500815 TGTCTTTCAATTTTCATGGCCCACATGCACCATTTCTTCAA-TC-A-ATAATGCTGAA-TTCAAC
650 TGTCTTTCAATTTTCATGG-CCACATGCACCATTTCTTCAACTCTACATAATGCTGAAGTTCAAC
3500876 AAGGTTAGCAATATCAAGATTTAGG-CAGA-AAGAATCTTGCAATTGTTGCTTCTCTATCTTCAA
714 AAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCAATTGTTGCTTCTCTATCTTCAA
3500939 TAGGTACTTCTGCACGATCCTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCT
1 TAGGTAC-T-TGCACGATCCTTGTTTGGAA-GGAGTTTGCTTTC-GAAAGTAATAGGTTA-TGCT
3501004 TCCATTTGGTGGCCAAATTTGGACTG-TCCTAGTGTAGGATTTCC-TTTGAGTTGTCTTTCAATT
61 TCCA-TTGGTGG---AA-TTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATT
3501067 TTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAAA
121 TTCATGGCCACATGCACCATTTCTTCAATCTCTACATAA-GCTG-AGTTCAACAAGGTTAGC-AA
3501132 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATAT
183 TATCAAGATTTAGGCCAGATAAGAATCTT-CCATTGTTGCTTCTCTATCTTCAATCTCTGAATAT
3501197 CATCTTGGGATGTTTGTGATTATAGGAACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
247 CATCTTGGGATGTTTGTGA-TATAGGAA-C-CTTTG-AACAAGCATCTCACCATGATCTGCA-TT
3501262 TCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
307 TCTT-CG--TCTTCTTCTTGTATTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
3501327 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
369 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
3501392 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
434 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
3501457 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTAGGTACTTCTGCACGATCCTTTGTTTGGAAT
499 TTACCCTTGCTAGATTCGCCCATTTGTGTA-TTTAGGTACTTCTGCACGATCCTTTGTTTGGAAT
3501522 GGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATTTGGACTGCTCCT
563 GGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGGCCGAATTTGGACTGCTCCT
3501587 AGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCATTTCTTCAATCT
628 AGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACATGCACCATTTCTTCAA-CT
*
3501652 CTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCC
692 CTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCA
3501717 ATTGTTGCTTCTCTATCTTCAA
757 ATTGTTGCTTCTCTATCTTCAA
3501739 T
1 T
3501740 CTCTGAAATA
Statistics
Matches: 763, Mismatches: 3, Indels: 39
0.95 0.00 0.05
Matches are distributed among these distances:
769 7 0.01
770 1 0.00
771 19 0.02
772 13 0.02
773 15 0.02
774 8 0.01
775 7 0.01
777 58 0.08
778 24 0.03
779 25 0.03
780 31 0.04
781 54 0.07
782 8 0.01
783 1 0.00
784 5 0.01
785 25 0.03
786 6 0.01
787 2 0.00
789 68 0.09
790 45 0.06
791 99 0.13
792 54 0.07
793 60 0.08
794 45 0.06
795 2 0.00
796 1 0.00
797 11 0.01
798 31 0.04
799 4 0.01
800 34 0.04
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (778 bp):
TAGGTACTTGCACGATCCTTGTTTGGAAGGAGTTTGCTTTCGAAAGTAATAGGTTATGCTTCCAT
TGGTGGAATTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
CATGCACCATTTCTTCAATCTCTACATAAGCTGAGTTCAACAAGGTTAGCAATATCAAGATTTAG
GCCAGATAAGAATCTTCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGTT
TGTGATATAGGAACCTTTGAACAAGCATCTCACCATGATCTGCATTTCTTCGTCTTCTTCTTGTA
TTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGC
ACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACA
TTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCA
TTTGTGTATTTAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAAT
AGGTTATTGCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTT
GTCTTTCAATTTTCATGGCCACATGCACCATTTCTTCAACTCTACATAATGCTGAAGTTCAACAA
GGTTAGCAATATCAAGATTTAGGCCAGATAAGAATCTTGCAATTGTTGCTTCTCTATCTTCAA
Found at i:3503032 original size:554 final size:554
Alignment explanation
Indices: 3500939--3504908 Score: 7094
Period size: 554 Copynumber: 7.2 Consensus size: 554
3500929 CTATCTTCAA
3500939 TAGGTACTTCTGCACGATCC-TTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3501003 TTCCATTTGGTGGCCAAATTTGGACTG-TCCTAGTGTAGGATTTCC-TTTGAGTTGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
3501066 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC-A
* *
3501131 ATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATA
195 ATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATA
*
3501196 TCATCTTGGGATGTTTGTGATTATAGGAACCTCTTTGAAACAAGCATCTCACCATGATCTGCATT
260 TCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATT
*
3501261 TTCTTCCGTTTCTTCTTCTTGTATTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTG
325 TTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTG
3501326 ATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGT
390 ATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGT
3501391 CCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTC
455 CCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTC
3501456 TTTACCCTTGCTAGATTCGCCCATTTGTGTAG-TT
520 TTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
3501490 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
3501555 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
3501620 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
*
3501685 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAATA
196 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCT-AAATA
3501750 TCATCTT-GGATGTTTGTGATTATAGGCA-CTCTTTGAAACAAGCATCTCACCATGATCTGCATT
260 TCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCA-T
*
3501813 TTTCTTTC--TTCTTCTTCTTGTATTGTTTCAGGTT-CTCGTCAAAAATAGGCTCATCAGAATCT
324 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCT
*
3501875 GATACAATATCTCCATTGTCAAGCACCATAATGGTATTTCGGTTGGGACATTGACTAGCAACATG
389 GATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATG
3501940 TCCTTTTCC-AAACACTTGAAACA-TTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTT
454 TCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTT
3502003 CTTTACCCTTGCTAGATTC-CCCA-TT-TGTAGTTT
519 CTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
3502036 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3502101 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGAATTCC-TTTGAGTT-TCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
3502164 TTTCATGG-CACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
* *
3502228 -ATCAAGATTTAGGCCAGATAAG-ATCTTGCTC-TTGCCATTGTTGCTTCTCTCTTCAATCTCT-
196 TATCAAGATTTAGGCCAGATAAGAATCTTGC-CATTG---TTGTTTC-TCTATCTTCAATCTCTA
* * *
3502289 GA-ATCATCTTGGGATGTTTGTGATTAGAGGAACCTCTTTGAAACAAGCATCTCACCATGATCTG
256 AATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTG
*
3502353 CA------T---TTTCTTCTTCTTGTATTGTTCCAGGTTCCTCGTCAAAAATAGGCTCATCAGAA
321 CATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAA
3502409 TCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAAC
386 TCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAAC
*
3502474 ATGTCCATTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCT
451 ATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCT
** *
3502539 TTTCTTTACCCTTTTTAGATTCGACCATTTGTGTAGTTT
516 TTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
3502578 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
* *
3502643 TTCCATTTGGTAGTCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
3502708 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
* * *
3502773 TATCAAGATTTAGGCCATATAAGAATCTTGCCATTGTTGTTTCTCTATCATCATTCTCTAAATAT
196 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATAT
*
3502838 CATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
261 CATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
3502903 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
326 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
3502968 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
391 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
*
3503033 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGATTTTCT
456 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
3503098 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
521 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
* *
3503132 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTAGATTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3503197 TTCTATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
*
3503262 TTTCATGGCCACATGCACCATTTCTTCAATCTGTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
* *
3503327 TATCAAGATTTAGGCCAGATAAGAATATTGCCATTGTTATTTCTCTATCTTCAATCTCTAAATAT
196 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATAT
*
3503392 CATCTTGGGATGTTTGTGATTATAGGCACTTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
261 CATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
3503457 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
326 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
*
3503522 TACAATATCTCCATTGTCAAGCTCCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
391 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
*
3503587 ATTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
456 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
*
3503652 TTACCCTTGCTAGATTCGCCGATTTGTGTAGTTT
521 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
* *
3503686 TAGGTATTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3503751 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGATGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
*
3503816 TTTCATGCCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
* * * *
3503881 TATCAAGATTTAGGCCATATAAGAATCTTGCAATTGTTGCTTCTCTATCTTCAATCTCTGAATAT
196 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATAT
*
3503946 CGTCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
261 CATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
3504011 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
326 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
*
3504076 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTACCAACATGTC
391 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
3504141 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
456 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
** *
3504206 TTACCCTTTTTAGATTCGACCATTTGTGTAGTTT
521 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
3504240 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3504305 TTCCATTTGGTAGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
3504370 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
131 TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
* * *
3504435 TATCAAGATTTAGGCCATATAAGAATCTTGCCATTGTTGTTTCTCTATCATCATTCTCTAAATAT
196 TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATAT
*
3504500 CATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
261 CATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
3504565 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
326 TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
3504630 TACAATATCTCCATTG-CAAGCACCATCATGGTATTTCGGTTGGGACA-TGACTAGC-A-ATGTC
391 TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
*
3504691 CTTTTCCAAAACAC-TGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGATTTTCT
456 CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
3504755 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
521 TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
* *
3504789 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTAGATTTCGGAAAGTAATAGGTTATTGC
1 TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
*
3504854 TTCTATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTT
66 TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTT
3504909 CTATCTTCAA
Statistics
Matches: 3284, Mismatches: 98, Indels: 76
0.95 0.03 0.02
Matches are distributed among these distances:
536 25 0.01
537 101 0.03
538 14 0.00
539 57 0.02
540 3 0.00
541 12 0.00
542 147 0.04
543 97 0.03
544 79 0.02
545 145 0.04
546 136 0.04
547 14 0.00
548 59 0.02
549 210 0.06
550 120 0.04
551 47 0.01
552 110 0.03
553 138 0.04
554 1770 0.54
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (554 bp):
TAGGTACTTCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGC
TTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAAT
TTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAA
TATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTCTCTATCTTCAATCTCTAAATAT
CATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTT
TCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGA
TACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTC
CTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTTGCTTTTCT
TTACCCTTGCTAGATTCGCCCATTTGTGTAGTTT
Found at i:3505306 original size:435 final size:430
Alignment explanation
Indices: 3504478--3505342 Score: 1568
Period size: 435 Copynumber: 2.0 Consensus size: 430
3504468 TTGTTGTTTC
*
3504478 TCTATCATCATTCTCTAAATATCATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAG
1 TCTATCATCAATCTCTAAATATCATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAG
3504543 CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
66 CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
3504608 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGCAAGCACCATCATGGTATTTCGGTTGG
131 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGCAAGCACCATCATGGTATTTCGGTTGG
*
3504673 GACATGACTAGCAATGTCCTTTTCCAAAACACTGAAACATTTGATGTCTCTTGATCTTTCAAAAG
196 GACATGACTAGCAATGTCATTTTCCAAAACACTGAAACATTTGATGTCTCTTGATCTTTCAAAAG
3504738 TGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCA
261 TGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCA
* *
3504803 CGATCCTTTGTTTGGAATGGAGTTAGATTTCGGAAAGTAATAGGTTATTGCTTCTATTTGGTGGC
326 CGATCCTTTGTTTGGAATGGAGTTAGATTTCAGAAAGTAATAGGTTATTGCTTCCATTTGGTGGC
3504868 CGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
391 CGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
* * *
3504908 TCTATCTTCAATCTCTAAATATCATCTTGGGATGTTTGTGATTATAGGCACTTCTTTGAAACAAG
1 TCTATCATCAATCTCTAAATATCATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAG
3504973 CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
66 CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
*
3505038 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCTCCATCATGGTATTTCGGTTG
131 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTG-CAAGCACCATCATGGTATTTCGGTTG
3505103 GGACATTGACTAGCAACATGTCATTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
195 GGACA-TGACTAGC-A-ATGTCATTTTCCAAAACAC-TGAAACATTTGATGTCTCTTGATCTTTC
* * *
3505168 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCGATTTGTGTAGTTTTAGGTATTT
256 AAAAGTGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTT
* *
3505233 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
321 CTGCACGATCCTTTGTTTGGAATGGAGTTAGATTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
3505298 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
386 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
3505343 GTCTTTCAAT
Statistics
Matches: 417, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
430 164 0.39
431 30 0.07
432 8 0.02
433 1 0.00
434 18 0.04
435 196 0.47
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (430 bp):
TCTATCATCAATCTCTAAATATCATCTTGGGATATTTGTGATTATAGGCACCTCTTTGAAACAAG
CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGCAAGCACCATCATGGTATTTCGGTTGG
GACATGACTAGCAATGTCATTTTCCAAAACACTGAAACATTTGATGTCTCTTGATCTTTCAAAAG
TGCTGGTTTGATTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGCA
CGATCCTTTGTTTGGAATGGAGTTAGATTTCAGAAAGTAATAGGTTATTGCTTCCATTTGGTGGC
CGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGT
Found at i:3506262 original size:551 final size:552
Alignment explanation
Indices: 3504908--3507706 Score: 4711
Period size: 550 Copynumber: 5.1 Consensus size: 552
3504898 CCTTTTGAGT
* *
3504908 TCTATCTTCAATCTCTAAATATCATCTTGGGATGTTTGTGATTATAGGCACTTCTTTGAAACAAG
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
3504973 CATCTCACCATGATCTGCATTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
66 CATCTCACCATGA-CTGCA-TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
*
3505038 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCTCCATCATGGTATTTCGGTTG
129 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
*
3505103 GGACATTGACTAGCAACATGTCATTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
194 GGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
* *
3505168 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCGATTTGTGTAGTTTTAGGTATTT
259 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTT
3505233 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
324 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
*
3505298 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAG-TGTCTTTCAATTTTCATGCC
389 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGC
*
3505362 CACATGCACCATTTATTCAATCTCTACATAA---TGAAGTTCAACAAGGTTAGCAATATCAAGAT
454 CACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGAT
* *
3505424 TTAGGCCATATAAGAATCTTGCAATTGTTGCTTC
519 TTAGGCCAGATAAGAATCTTGCCATTGTTGCTTC
*
3505458 TCTATCTTCAATCTCTGAATATCGTCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
*
3505523 CATCTCACCATGATCTGCCTTTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
66 CATCTCACCATGA-CTG-CATTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAA
3505588 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
129 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
*
3505653 GGACATTGACTACCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
194 GGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
* *
3505718 AAAAGTGTTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTTGGTACTT
259 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTT
3505783 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
324 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
* *
3505848 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGATGTCTTTCAATTTTCATGCC
389 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGC
3505913 CACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGAT
454 CACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGAT
*
3505978 TTAGGCCAGATAAGAATCTTGCAATTGTTGCTTC
519 TTAGGCCAGATAAGAATCTTGCCATTGTTGCTTC
*
3506012 TCTATCTTCAATCTCTGAATATCGTCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
* *
3506077 CATCTCACCATGA-TGCATTTCTTTCGTTTCTTCTTCTTGTATTGTTTCGGGTTCCTCGTCAAAA
66 CATCTCACCATGACTGCATTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAA
*
3506141 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGAACCATCATGGTATTTCGGTTGGG
131 ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
* *
3506206 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGCCTCTTGATCCTTCAA
196 ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
* *
3506271 AAGTGCTGGTTTGCTTTTCTTTACGCTTGCTAGATTCACCCATTTGTGTAGTTTTAGGTACTTCT
261 AAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
*
3506336 GCACGATCC--TGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGT
326 GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGGT
*
3506399 GGCCGAATTTGGACTGGTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
391 GGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
3506464 CATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAAG-AATATCAAGATT
456 CATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTT-AGCAATATCAAGATT
3506528 TAGGCCAGATAAGAATCTTGCCATTGTTGCTTC
520 TAGGCCAGATAAGAATCTTGCCATTGTTGCTTC
3506561 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATATGG-ACCTCTTTGAAACAA
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATA-GGCACCTCTTTGAAACAA
* *
3506625 GCATCTCACCATGATCTGCTTTTCTTCCG-TT-TTCTTCTCT-TA----TT---GTTCCTGGTCA
65 GCATCTCACCATGA-CTGCATTTCTTCCGTTTCTTCTTCT-TGTATTGTTTCAGGTTCCTCGTCA
* *
3506680 AAAATAGGCTCATAAGAATCTGATACAATATCTCCATTGTCAAGCACCATAATGGTATTTCGGTT
128 AAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTT
3506745 GGGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTT
193 GGGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTT
3506810 CAAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACT
258 CAAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACT
*
3506875 TCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTT
323 TCTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTT
3506940 GGTGGCCGAA--TGGACTGCTCCTAGTGTAGGATTTCC-TTTGAGTTGTCTTTCAATTTTCATGG
388 GGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGG
3507002 CCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGA
453 CCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGA
*
3507067 TTTAGGCCAGATAAGAATCTTGCCATTGTTGTTTC
518 TTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTC
3507102 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
*
3507167 CATCTCACCATGATCTGCATTTC-T---TTT-TTCTTCTTGTATTGGTTTTAGGTTCCTCGTCAA
66 CATCTCACCATGA-CTGCATTTCTTCCGTTTCTTCTTCTTGTATT-GTTTCAGGTTCCTCGTCAA
3507227 AAATAGG--CATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
129 AAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTG
* *
3507290 GGACATTGACTAG-AACATGTCGTTTTCAAAAACACTTGAAACATTTGATGTCTC-TGATCTTTC
194 GGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTC
3507353 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAG-TTTAGGTACTT
259 AAAAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTT
*
3507417 CTGCACGAT-CTTTGTTTGGAATGGAGTTTGC-TTC-GTAA--AATAGGTTATTGCTTCCATTTG
324 CTGCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTG
3507477 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGA-----TTTTGAGTTGTCTTTCAA-TTTCATGGC
389 GTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGC
**
3507536 CACATGCACCA-TTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAATAA-AT-AAG-T
454 CACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGAT
3507597 TTAGGCCAGATAAGAATC-TGCCATTGTTGCTTCTC
519 TTAGGCCAGATAAGAATCTTGCCATTGTTGC-T-TC
* *
3507632 TCTATCTTCAA--TCTGAATATCATC-TGGGATGTTTGTGATTATATG-A--TC-TTGAAAC-AC
1 TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
3507689 CATCTCACCATGATCTGC
66 CATCTCACCATGA-CTGC
3507707 TTTTACGATC
Statistics
Matches: 2166, Mismatches: 54, Indels: 86
0.94 0.02 0.04
Matches are distributed among these distances:
522 19 0.01
523 7 0.00
524 2 0.00
526 1 0.00
527 20 0.01
528 24 0.01
529 20 0.01
530 16 0.01
531 2 0.00
532 42 0.02
533 20 0.01
534 17 0.01
536 31 0.01
537 1 0.00
538 35 0.02
539 3 0.00
540 27 0.01
541 226 0.10
542 297 0.14
543 41 0.02
544 128 0.06
545 2 0.00
546 18 0.01
549 291 0.13
550 428 0.20
551 304 0.14
552 2 0.00
554 142 0.07
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (552 bp):
TCTATCTTCAATCTCTGAATATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAG
CATCTCACCATGACTGCATTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAA
ATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGGTATTTCGGTTGGG
ACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCTCTTGATCTTTCAA
AAGTGCTGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGTTTTAGGTACTTCT
GCACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGGT
GGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCA
CATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTT
AGGCCAGATAAGAATCTTGCCATTGTTGCTTC
Found at i:3510364 original size:540 final size:552
Alignment explanation
Indices: 3507711--3510365 Score: 4677
Period size: 543 Copynumber: 4.9 Consensus size: 552
3507701 ATCTGCTTTT
3507711 ACGATCC-TTG-TTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
1 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
3507774 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
66 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
3507839 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
131 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
3507904 GCCAGATAAGAATCTTGCCATTGTTG-TTCTCTATCTTCAATCTCTG-A-AT-ATCTTGGGATGT
196 GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
3507965 TTGTGATTATAGGCA-CTCTTTGAAAC-A--ATCTCACCATGATCTGCATTTTCTTCCGTTTTCT
261 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCG-TTTCT
3508026 TCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCC
325 TCTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATA-AATATCTCC
3508091 ATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAAC
389 ATTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAAC
3508156 ACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAG
454 ACTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAG
3508221 ATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
519 ATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
3508255 ACGAT-CTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGG-T-TTGCTTCCATTTGGTGG
1 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
3508317 CCGAATTTGGACTGCTCCTA--GTAGGA-TTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
66 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
3508379 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGA-TTAG
131 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
*
3508443 GCCAGATAAGAATCTTGCCATTG-TGCTTCTCTATCTTCAATCTCTGAATATCGTCTTGGGATG-
196 GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
3508506 TT-TGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
261 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
3508570 CTTC-T-TATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCA
326 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATA-AATATCTCCA
3508633 TTGTCAAGCACCATCATGGTA-TTCGGTTGGG--ATTGACTAGCAACATGT-CTTTTCCAAAACA
390 TTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACA
3508694 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTG--GGTTTGCTTTTCTTTACCCTTGCTAG
455 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG-TTGCTTTTCTTTACCCTTGCTAG
3508757 ATTCG-CCATTTGTGTAGTTTTAGGTACTTCTGC
519 ATTCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
3508790 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
1 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
3508855 -CGAATTTGGACTG-TCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
66 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
3508918 TGCACCATTTCTT-AA--TCTACATAATGCTGAAGTTCAACAAGGTTAG-AATATCAAGATTTAG
131 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
3508979 GCCAGATAAGAATCTTGCCATTG-TGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
196 GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
3509043 TTGTGATTATAGG-ACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
261 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
3509107 CTTCTTGTATTG-TTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCA
326 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATA-AATATCTCCA
3509171 TTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGC-ACATGTCCTTTTCCAAAACA
390 TTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACA
3509235 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAGA
455 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAGA
*
3509300 TTCGCCCATTTGTGTAGTTTTAGGTACTTCAGC
520 TTCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
3509333 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTT--ATTTGGTGG
1 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
3509396 -CGAATTTGGACTGCTCCTAGTGTAGGATTTCC-TTTGAGTTGTCTTTCAATTTTCATGGCCACA
66 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
*
3509459 TGCACCA-TTCTTCAATCTCTACATAATGCTAAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
131 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
3509523 GCCAGATAAGAATCTT-CCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATC-TGGGATGT
196 GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
*
3509586 TTGTGATTATAGGCAAC-C-TTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
261 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
3509649 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCA
326 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATA-AATATCTCCA
*
3509714 TTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAG--A-ATGT-CATTTCC-AAACA
390 TTGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACA
3509774 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTC-TTACCCTTGCTAGA
455 CTTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAGA
*
3509838 TTCG-CCA-TTGTGTAGTTTTAGGTATTTCTGC
520 TTCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
*
3509869 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
1 ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
* *
3509934 CCGAA-TTGGACTGCTCCTAGTGTAGGATTTCC-TTTGAGATGTCTTTCAATTTTCATGCCCACA
66 CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
3509997 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
131 TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
* * *
3510062 GCCAGATAAGAATCTTGCAATTGTTGCTTCTCTATCTTCAATCTCTGAATATCGTCTTGGGATTT
196 GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
3510127 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
261 TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
3510192 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGG-TCATCAGAATCTGAT-AATATCTCCAT
326 CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATAAATATCTCCAT
3510255 TGTCAAGCACCATCATGGTATTTCGGTTGGGACA-TGACTA-CAACATGTCCTTTTCC-AAACAC
391 TGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACAC
3510317 TTGAAA-ATTTGATGTCTC-TGATCTTTCAAAAGTG-TGGTTTGCTTTTCTT
456 TTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGG-TTGCTTTTCTT
3510366 CCTCGTCAAA
Statistics
Matches: 2043, Mismatches: 17, Indels: 105
0.94 0.01 0.05
Matches are distributed among these distances:
535 45 0.02
536 244 0.12
537 124 0.06
538 218 0.11
539 251 0.12
540 244 0.12
541 266 0.13
542 150 0.07
543 366 0.18
544 102 0.05
545 33 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (552 bp):
ACGATCCTTTGTTTGGAATGGAGTTTGCTTTCGGAAAGTAATAGGTTATTGCTTCCATTTGGTGG
CCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCAATTTTCATGGCCACA
TGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGCAATATCAAGATTTAG
GCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAATATCATCTTGGGATGT
TTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCATTTTCTTCCGTTTCTT
CTTCTTGTATTGTTTCAGGTTCCTCGTCAAAAATAGGCTCATCAGAATCTGATAAATATCTCCAT
TGTCAAGCACCATCATGGTATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACAC
TTGAAACATTTGATGTCTCTTGATCTTTCAAAAGTGCTGGTTGCTTTTCTTTACCCTTGCTAGAT
TCGCCCATTTGTGTAGTTTTAGGTACTTCTGC
Found at i:3512192 original size:553 final size:554
Alignment explanation
Indices: 3510364--3512468 Score: 3791
Period size: 553 Copynumber: 3.8 Consensus size: 554
3510354 TTTGCTTTTC
*
3510364 TTCCTCGTCAAAAATAGGCTCATAAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
1 TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
* * *
3510429 TATTTCGGTTGGGACATTGACTAGCAACATGTCCATTTCCAAAACACTTGAAACATTTGATGTCC
66 TATTTCGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
* * *
3510494 CTTGATCTTTCAAAAGTGTTGGTTTGCTTTTCTTTACCCTTGCTAGATTCACCTATTTGTGTAGT
131 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
* * * *
3510559 TTTAGGTACTTTTGCACGATCCTTTGTTTGGAATGGAGTTTTCTTTCAGAAAGTAATAGGTTATT
196 TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
*
3510624 GCTTCCATTTAGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTG-CTTTCA
261 GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
*
3510688 ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACTTAATGCTGAAGTTCAACAAGGTTAGC
326 ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
* *
3510753 AATATTAAGATTTAGGACAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAT
391 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAT
* *
3510818 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTAAAACAAGTATCTCACCATGATCTGCAT
456 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
**
3510883 TTTCTTCAATTTCTTCTTCTTGTATTGTTTCAGG
521 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
3510917 TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
1 TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
*
3510982 TATTTCGGTTGGGACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
66 TATTTCGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
* *
3511047 CTTGATCTTTCAAAAGTGATGGTTTGCTTTTCTTTACCCTTGCTAGATTCGCCCATTTGTGTAGT
131 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
* * * * *
3511112 TTTAGGTACTTCTGCACGATCCTTTGTTTGTAATGGAGTTTACTTTCGGAAAGTAATAGGTTATT
196 TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
3511177 GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
261 GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
*
3511242 ATTTTCATGGCCACATGCACCATTTCTTCAATATCTACATAATGCTGAAGTTCAACAAGGTTAGC
326 ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
*
3511307 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCCTCAATCTCTGAAT
391 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAT
3511372 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
456 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
3511437 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
521 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
*
3511471 TTCCTCGTCAAAAATAGGCTCATCATAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
1 TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
* *
3511536 TATTTTGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAATACTTGAAACATTTGATGTCT
66 TATTTCGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
3511601 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
131 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
*
3511666 TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATATGTTATT
196 TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
* *
3511731 GCTTCCATTTTGTGGTCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
261 GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
*
3511796 ATTTTCATGGCCACATGCACCATTTCTTTAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
326 ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
3511861 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCT-AAT
391 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAT
3511925 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
456 ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
3511990 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
521 TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
*
3512024 TTCCTCGTCAAAAATAGGCTCATCATAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
1 TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
*
3512089 TATTTTGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
66 TATTTCGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
3512154 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
131 CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
*
3512219 TTTAGATACTTCTGAACGATCCTTTGTTTGGATTGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
196 TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
* *
3512284 GCTTCCATTTGGTGGTCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTTA
261 GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
* * *
3512349 ATTTTCATTGCCAAATGCACCATTTCTTCAATCTCTACATAATTCTGAAGTTCAACAAGGTTAGC
326 ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
*
3512414 AATATCAAGATTTAGGCCAGATAAGAATATTGCCATTGTTGCTTCTCTATCTTCA
391 AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCA
3512469 TCCACATTGG
Statistics
Matches: 1504, Mismatches: 47, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
553 844 0.56
554 660 0.44
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (554 bp):
TTCCTCGTCAAAAATAGGCTCATCAGAATCTGATACAATATCTCCATTGTCAAGCACCATCATGG
TATTTCGGTTGGCACATTGACTAGCAACATGTCCTTTTCCAAAACACTTGAAACATTTGATGTCT
CTTGATCTTTCAAAAGTGATGGTTTGATTTTCTTTACCCTTGCTAGATTCACCCATTTGTGTAGT
TTTAGATACTTCTGAACGATCCTTTGTTTGGAATGGAGTTTGCTTTCAGAAAGTAATAGGTTATT
GCTTCCATTTGGTGGCCGAATTTGGACTGCTCCTAGTGTAGGATTTCCTTTTGAGTTGTCTTTCA
ATTTTCATGGCCACATGCACCATTTCTTCAATCTCTACATAATGCTGAAGTTCAACAAGGTTAGC
AATATCAAGATTTAGGCCAGATAAGAATCTTGCCATTGTTGCTTCTCTATCTTCAATCTCTGAAT
ATCATCTTGGGATGTTTGTGATTATAGGCACCTCTTTGAAACAAGCATCTCACCATGATCTGCAT
TTTCTTCCGTTTCTTCTTCTTGTATTGTTTCAGG
Found at i:3513568 original size:24 final size:23
Alignment explanation
Indices: 3513540--3513599 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
3513530 ACTTTTCTTT
*
3513540 CTTTCTTTTTCTTCTTTTTGAGTG
1 CTTTCATTTTCTTC-TTTTGAGTG
*
3513564 CTTTCAATTTCTTCTTTTGAGTG
1 CTTTCATTTTCTTCTTTTGAGTG
*
3513587 CTTTGATTTTCTT
1 CTTTCATTTTCTT
3513600 TGCTGGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.08, C:0.17, G:0.12, T:0.63
Consensus pattern (23 bp):
CTTTCATTTTCTTCTTTTGAGTG
Found at i:3514432 original size:89 final size:90
Alignment explanation
Indices: 3514326--3514596 Score: 409
Period size: 90 Copynumber: 3.0 Consensus size: 90
3514316 GGGAAATGAT
*
3514326 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCT-AATAAACCACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
3514390 GGGCTGTTCATATGCAAAACACTTG
66 GGGCTGTTCATATGCAAAACACATG
* * *
3514415 GCTTGGCCAAATAGGGAGAGATCTCTTTATCTTGGCGCCTAAATAAACAACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* *
3514480 GGGTTGTTCACATGCAAAACACATG
66 GGGCTGTTCATATGCAAAACACATG
* * *
3514505 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
* **
3514570 GGGGCTGGTCATATGCAAGGCACATG
65 GGGGCTGTTCATATGCAAAACACATG
3514596 G
1 G
3514597 GTGTTCTAGG
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
89 37 0.23
90 103 0.64
91 22 0.14
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (90 bp):
GCTTGGCCGAATAGGGAGAGATCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGCTGTTCATATGCAAAACACATG
Found at i:3516748 original size:34 final size:35
Alignment explanation
Indices: 3516682--3516782 Score: 136
Period size: 34 Copynumber: 2.9 Consensus size: 35
3516672 GATACAATCT
3516682 GTCCATCACCATTATCACGCCTATATCA-CACCATA
1 GTCCATCACCATTATCACG-CTATATCATCACCATA
*
3516717 GTCCATCA-CATTATGACGCTATATCATCACCATA
1 GTCCATCACCATTATCACGCTATATCATCACCATA
* * *
3516751 TTCCATCACCA-TATCACCCTATATTATCACCA
1 GTCCATCACCATTATCACGCTATATCATCACCA
3516783 ACTTATAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.14
34 41 0.69
35 10 0.17
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.29
Consensus pattern (35 bp):
GTCCATCACCATTATCACGCTATATCATCACCATA
Found at i:3517774 original size:156 final size:151
Alignment explanation
Indices: 3517495--3517801 Score: 569
Period size: 156 Copynumber: 2.0 Consensus size: 151
3517485 TCTATACCCT
3517495 AACCATATTGTTTTAAACTTACGCACAAACTAAGAAATTGCTCAATCTGAGTTAGTTCTTTAAAG
1 AACCATATTGTTTTAAACTTACGCACAAACTAAGAAATTGCTCAATCTGAGTTAGTTCTTTAAAG
3517560 GACCCACAAGAAATTAAGCGGTAAAAGGCAAACGAGAGGGTGAGATCAGAAAGGGGATCAGAAAA
66 GACCCACAAGAAATTAAGCGGTAAAAGGCAAACGAGAGGGTGAGATCAGAAAGGGGATCAGAAAA
3517625 ATCCAAGAACATATCCCCGAG
131 ATCCAAGAACATATCCCCGAG
3517646 AACCATATTGTTTTAAACTTACGCACAAACTAAGAAACTTGCTCAATCTTGAGTTAGTTCTTTAA
1 AACCATATTGTTTTAAACTTACGCACAAACTAAGAAA-TTGCTCAATC-TGAGTTAGTTCTTTAA
3517711 AGGACCCACAAGAGAGAATTAAGCGGTAAAAGGCAAACGAGAGGGTGAGATCAGAAAGGGGATCA
64 AGGACCCAC-A-AGA-AATTAAGCGGTAAAAGGCAAACGAGAGGGTGAGATCAGAAAGGGGATCA
3517776 GAAAAATCCAAGAACATATCCCCGAG
126 GAAAAATCCAAGAACATATCCCCGAG
3517802 TGCAAACACG
Statistics
Matches: 151, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
151 37 0.25
152 10 0.07
153 25 0.17
154 1 0.01
155 3 0.02
156 75 0.50
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (151 bp):
AACCATATTGTTTTAAACTTACGCACAAACTAAGAAATTGCTCAATCTGAGTTAGTTCTTTAAAG
GACCCACAAGAAATTAAGCGGTAAAAGGCAAACGAGAGGGTGAGATCAGAAAGGGGATCAGAAAA
ATCCAAGAACATATCCCCGAG
Found at i:3520574 original size:16 final size:16
Alignment explanation
Indices: 3520555--3520597 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
3520545 AAAGAGTATC
3520555 ATTTTCAAAATCATGT
1 ATTTTCAAAATCATGT
3520571 ATTTCATCAAAAATCATGT
1 ATTT--TC-AAAATCATGT
3520590 A-TTTCAAA
1 ATTTTCAAA
3520598 GGGGTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 3 0.12
16 6 0.25
18 4 0.17
19 11 0.46
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTTTCAAAATCATGT
Found at i:3520941 original size:9 final size:9
Alignment explanation
Indices: 3520927--3520970 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
3520917 CAATCTGTCC
3520927 ATCACCATT
1 ATCACCATT
3520936 ATCACCTATAT
1 ATCACC-AT-T
*
3520947 CATCACCAGT
1 -ATCACCATT
3520957 ATCACCATT
1 ATCACCATT
3520966 ATCAC
1 ATCAC
3520971 GCCTATATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 19 0.63
10 3 0.10
11 2 0.07
12 6 0.20
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (9 bp):
ATCACCATT
Found at i:3520953 original size:12 final size:11
Alignment explanation
Indices: 3520926--3521003 Score: 51
Period size: 12 Copynumber: 7.2 Consensus size: 11
3520916 ACAATCTGTC
3520926 CATCACCAT-T
1 CATCACCATAT
3520936 -ATCACCTATAT
1 CATCACC-ATAT
*
3520947 CATCACCA-GT
1 CATCACCATAT
3520957 -ATCACCATTAT
1 CATCACCA-TAT
*
3520968 CA-CGCCTATAT
1 CATCACC-ATAT
3520979 CATCACCATATT
1 CATCACCATA-T
3520991 CCATC-CCATAT
1 -CATCACCATAT
3521002 CA
1 CA
3521004 CGCTATATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
9 13 0.24
10 5 0.09
11 15 0.28
12 17 0.31
13 4 0.07
ACGTcount: A:0.32, C:0.36, G:0.03, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:3520961 original size:30 final size:31
Alignment explanation
Indices: 3520927--3520986 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
3520917 CAATCTGTCC
3520927 ATCACCATTATCA-CCTATATCATCACCAGT
1 ATCACCATTATCACCCTATATCATCACCAGT
3520957 ATCACCATTATCACGCCTATATCATCACCA
1 ATCACCATTATCAC-CCTATATCATCACCA
3520987 TATTCCATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 13 0.46
32 15 0.54
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.28
Consensus pattern (31 bp):
ATCACCATTATCACCCTATATCATCACCAGT
Found at i:3530055 original size:16 final size:16
Alignment explanation
Indices: 3530036--3530075 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3530026 CTTTATTATC
3530036 TTATTTTATCTTTCAT
1 TTATTTTATCTTTCAT
**
3530052 TTA-TTTATCTTTTGT
1 TTATTTTATCTTTCAT
3530067 TTATTTTAT
1 TTATTTTAT
3530076 TCTAATCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTATCTTTCAT
Found at i:3532754 original size:46 final size:46
Alignment explanation
Indices: 3532664--3532754 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
3532654 CACACTCCAA
* * * * *
3532664 TTTGCCTTTTCATCGCGACTAGGAGGTTGGTTAGAGTCATTTATCG
1 TTTGCCTTTTCATCGCGACTAGGAGGCTCGATAGAGACACTTATCG
*
3532710 TTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAG-GACACTTATC
1 TTTGCCTTTTCATCGCGACTAGGA-GGCTCGATAGAGACACTTATC
3532755 CATCTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 31 0.82
47 7 0.18
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (46 bp):
TTTGCCTTTTCATCGCGACTAGGAGGCTCGATAGAGACACTTATCG
Found at i:3532861 original size:16 final size:16
Alignment explanation
Indices: 3532842--3532881 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
3532832 CTTTATTATC
3532842 TTATTTTATCTTTCAT
1 TTATTTTATCTTTCAT
**
3532858 TTA-TTTATCTTTTGT
1 TTATTTTATCTTTCAT
3532873 TTATTTTAT
1 TTATTTTAT
3532882 TCTAATCGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTATCTTTCAT
Found at i:3533259 original size:11 final size:10
Alignment explanation
Indices: 3533232--3533258 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3533222 TTTTTTTTTC
3533232 AAAAAAACAA
1 AAAAAAACAA
3533242 AAAAAAACAA
1 AAAAAAACAA
3533252 AAAAAAA
1 AAAAAAA
3533259 AGCCAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:3537191 original size:33 final size:33
Alignment explanation
Indices: 3537112--3537215 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
3537102 ATACAATCTG
* *
3537112 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
3537148 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
3537181 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
3537214 TC
1 TC
3537216 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:3541613 original size:33 final size:33
Alignment explanation
Indices: 3541534--3541637 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
3541524 ATACAATCTG
* *
3541534 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
3541570 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
3541603 TCCATTACCATTTCAACACCATTAA-ATCATCCT
1 TCCATCACCATATC-ACGCCAATAACATCATCCT
3541636 TC
1 TC
3541638 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 23 0.38
34 8 0.13
35 17 0.28
36 12 0.20
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:3550811 original size:22 final size:21
Alignment explanation
Indices: 3550785--3550825 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3550775 GCTGCGGAAT
*
3550785 TGATGGTTTTGATGGATGAAGA
1 TGATGGTGTTGAT-GATGAAGA
3550807 TGATGGTGTTGATGATGAA
1 TGATGGTGTTGATGATGAA
3550826 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
TGATGGTGTTGATGATGAAGA
Found at i:3552434 original size:11 final size:11
Alignment explanation
Indices: 3552418--3552444 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3552408 ATGCCTTGAT
3552418 GATGATTGAAG
1 GATGATTGAAG
3552429 GATGATTGAAG
1 GATGATTGAAG
3552440 GATGA
1 GATGA
3552445 ATAGATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (11 bp):
GATGATTGAAG
Found at i:3552560 original size:36 final size:36
Alignment explanation
Indices: 3552470--3552580 Score: 138
Period size: 35 Copynumber: 3.1 Consensus size: 36
3552460 TTGGTGGTTA
* * * *
3552470 TATAGGTGTGA-AATGGTGATAGAAGT-TGATGATAA
1 TATAGGCGTGACAATGGTGATGGAA-TATGGTGATAT
*
3552505 TATAGGCGTG-CAATGGTGATGGAATATGGTGATGT
1 TATAGGCGTGACAATGGTGATGGAATATGGTGATAT
*
3552540 TATAGGCGTGACAATGGTGATGGAAGATGGTGATAT
1 TATAGGCGTGACAATGGTGATGGAATATGGTGATAT
3552576 TATAG
1 TATAG
3552581 TTGATACATG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 37 0.56
36 28 0.42
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.31
Consensus pattern (36 bp):
TATAGGCGTGACAATGGTGATGGAATATGGTGATAT
Found at i:3553847 original size:11 final size:11
Alignment explanation
Indices: 3553831--3553877 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
3553821 TATTTTTTTC
3553831 AAAAAAACAAA
1 AAAAAAACAAA
3553842 AAAAAAACAAA
1 AAAAAAACAAA
*
3553853 AAAAAAGGCAAA
1 AAAAAA-ACAAA
3553865 AAAACAAA-AAA
1 AAAA-AAACAAA
3553876 AA
1 AA
3553878 GCCAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 22 0.69
12 8 0.25
13 2 0.06
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:3553856 original size:20 final size:20
Alignment explanation
Indices: 3553830--3553877 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3553820 CTATTTTTTT
*
3553830 CAAAAAAACA-AAAAAAAAA
1 CAAAAAAAAAGAAAAAAAAA
**
3553849 CAAAAAAAAAGGCAAAAAAA
1 CAAAAAAAAAGAAAAAAAAA
3553869 CAAAAAAAA
1 CAAAAAAAA
3553878 GCCAAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAGAAAAAAAAA
Found at i:3553878 original size:19 final size:20
Alignment explanation
Indices: 3553842--3553886 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
3553832 AAAAAACAAA
*
3553842 AAAAAAACAAAAAAAAAGGC
1 AAAAAAACAAAAAAAAAGCC
3553862 AAAAAAAC-AAAAAAAAGCC
1 AAAAAAACAAAAAAAAAGCC
3553881 AAAAAA
1 AAAAAA
3553887 CCCAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAAAGCC
Found at i:3553885 original size:20 final size:21
Alignment explanation
Indices: 3553841--3553886 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
3553831 AAAAAAACAA
*
3553841 AAAAAAAACAAAAAAAAAGGC
1 AAAAAAAACAAAAAAAAAGCC
3553862 -AAAAAAAC-AAAAAAAAGCC
1 AAAAAAAACAAAAAAAAAGCC
3553881 AAAAAA
1 AAAAAA
3553887 CCCAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.83, C:0.11, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAAAAAGCC
Found at i:3562677 original size:13 final size:13
Alignment explanation
Indices: 3562659--3562716 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
3562649 TAGGCGTGCA
3562659 ATGGTGATGGAAT
1 ATGGTGATGGAAT
**
3562672 ATGGTGATGTTAT
1 ATGGTGATGGAAT
3562685 A-GGTG-T-GACA-
1 ATGGTGATGGA-AT
*
3562695 ATGGTGATGGAAG
1 ATGGTGATGGAAT
3562708 ATGGTGATG
1 ATGGTGATG
3562717 TTATAGGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
10 1 0.03
11 6 0.17
12 6 0.17
13 23 0.64
ACGTcount: A:0.28, C:0.02, G:0.40, T:0.31
Consensus pattern (13 bp):
ATGGTGATGGAAT
Found at i:3562701 original size:36 final size:35
Alignment explanation
Indices: 3562647--3562724 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 35
3562637 TTTATGATAA
* *
3562647 TATAGGCGTGCAATGGTGATGGAATATGGTGATGT
1 TATAGGTGTGCAATGGTGATGGAAGATGGTGATGT
3562682 TATAGGTGTGACAATGGTGATGGAAGATGGTGATGT
1 TATAGGTGTG-CAATGGTGATGGAAGATGGTGATGT
3562718 TATAGGT
1 TATAGGT
3562725 AGTATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.22
36 31 0.77
ACGTcount: A:0.27, C:0.04, G:0.37, T:0.32
Consensus pattern (35 bp):
TATAGGTGTGCAATGGTGATGGAAGATGGTGATGT
Found at i:3568845 original size:19 final size:19
Alignment explanation
Indices: 3568783--3568846 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
3568773 TTTTTTTTCA
*
3568783 AAAAAAAACAAAAAAA-CA
1 AAAAAAAACAAAAAAAGCC
*
3568801 AAAAAAAAGGCAAAAAAAGGGC
1 AAAAAAAA--CAAAAAAA-GCC
*
3568823 -AAAAATACAAAAAAAGCC
1 AAAAAAAACAAAAAAAGCC
3568841 AAAAAA
1 AAAAAA
3568847 GCCAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 10 0.27
19 13 0.35
20 8 0.22
21 6 0.16
ACGTcount: A:0.78, C:0.11, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAGCC
Found at i:3568852 original size:19 final size:19
Alignment explanation
Indices: 3568803--3568853 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
3568793 AAAAAACAAA
*
3568803 AAAAAAGGCAAAAAAAGGGC
1 AAAAAA-GCAAAAAAAGGCC
3568823 AAAAATA-CAAAAAAA-GCC
1 AAAAA-AGCAAAAAAAGGCC
3568841 AAAAAAGCCAAAA
1 AAAAAAG-CAAAA
3568854 TTTCAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.04
18 7 0.26
19 13 0.48
20 5 0.19
21 1 0.04
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAGCAAAAAAAGGCC
Found at i:3570943 original size:14 final size:14
Alignment explanation
Indices: 3570924--3570952 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3570914 CTAATCAAGG
3570924 AACAACCATTCTCC
1 AACAACCATTCTCC
3570938 AACAACCATTCTCC
1 AACAACCATTCTCC
3570952 A
1 A
3570953 TCATCATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (14 bp):
AACAACCATTCTCC
Found at i:3578674 original size:13 final size:11
Alignment explanation
Indices: 3578633--3578717 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
3578623 ACAATTTGTC
3578633 CATCACCATTAT
1 CATCACCA-TAT
*
3578645 CA-CGCCTATAT
1 CATCACC-ATAT
3578656 CATCACCATAGT
1 CATCACCATA-T
3578668 CCATCACCATTAT
1 -CATCACCA-TAT
*
3578681 CA-CGCCTATAT
1 CATCACC-ATAT
3578692 CATCACCATATT
1 CATCACCATA-T
3578704 CCATCACCATAT
1 -CATCACCATAT
3578716 CA
1 CA
3578718 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:3578677 original size:36 final size:36
Alignment explanation
Indices: 3578630--3578734 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
3578620 GATACAATTT
3578630 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
3578666 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
3578702 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
3578735 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:3579507 original size:35 final size:35
Alignment explanation
Indices: 3579428--3579533 Score: 149
Period size: 35 Copynumber: 3.0 Consensus size: 35
3579418 ACTACCTAAG
*
3579428 CATCACCATCTTCCATCACCATTTTCACGCCTATAA
1 CATCACCATCTTCCATCACCA-TTTCACGCCTATAT
* *
3579464 CATCACCATCTTCCATTACCATTGCACGCCTATAT
1 CATCACCATCTTCCATCACCATTTCACGCCTATAT
* * *
3579499 CATTACCATCTTCTATCACCATTTCACGACTATAT
1 CATCACCATCTTCCATCACCATTTCACGCCTATAT
3579534 AACCACCAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 42 0.68
36 20 0.32
ACGTcount: A:0.27, C:0.36, G:0.04, T:0.33
Consensus pattern (35 bp):
CATCACCATCTTCCATCACCATTTCACGCCTATAT
Found at i:3586915 original size:11 final size:10
Alignment explanation
Indices: 3586864--3586915 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
3586854 TTTTGAATTC
*
3586864 TTTTCTTTTC
1 TTTTCTTTTT
3586874 TTTTCTTCTTT
1 TTTTCTT-TTT
*
3586885 TCTTCTTCTTT
1 TTTTCTT-TTT
*
3586896 TTGTCTTTTT
1 TTTTCTTTTT
*
3586906 CTTTCTTTTT
1 TTTTCTTTTT
3586916 GCACTCCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:3586916 original size:18 final size:18
Alignment explanation
Indices: 3586862--3586916 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
3586852 CTTTTTGAAT
3586862 TCTTTTCTTTTCTTTTCT-
1 TCTTTTCTTTTCTTTT-TG
3586880 TCTTTTCTTCTTCTTTTTG
1 TCTTTTCTT-TTCTTTTTG
3586899 TCTTTT-TCTTTCTTTTTG
1 TCTTTTCT-TTTCTTTTTG
3586917 CACTCCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (18 bp):
TCTTTTCTTTTCTTTTTG
Found at i:3590471 original size:11 final size:11
Alignment explanation
Indices: 3590457--3590512 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
3590447 TCTTTTTGAA
3590457 TTCTTTTTCTT
1 TTCTTTTTCTT
3590468 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
3590481 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
3590494 TGTCTTTTTC-T
1 T-TCTTTTTCTT
3590505 TTCTTTTT
1 TTCTTTTT
3590513 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:3590481 original size:19 final size:18
Alignment explanation
Indices: 3590457--3590512 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
3590447 TCTTTTTGAA
3590457 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
3590475 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
3590494 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
3590512 T
1 T
3590513 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 13 0.38
20 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:3594063 original size:11 final size:11
Alignment explanation
Indices: 3594049--3594104 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
3594039 TCTTTTTGAA
3594049 TTCTTTTTCTT
1 TTCTTTTTCTT
3594060 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
3594073 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
3594086 TGTCTTTTTC-T
1 T-TCTTTTTCTT
3594097 TTCTTTTT
1 TTCTTTTT
3594105 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:3594073 original size:19 final size:18
Alignment explanation
Indices: 3594049--3594104 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
3594039 TCTTTTTGAA
3594049 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
3594067 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
3594086 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
3594104 T
1 T
3594105 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 13 0.38
20 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:3594406 original size:9 final size:10
Alignment explanation
Indices: 3594386--3594435 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
3594376 TAAAGGGAAT
3594386 GAAATAGAAA
1 GAAATAGAAA
3594396 GAAAT-GAAA
1 GAAATAGAAA
3594405 G-AATAGAAA
1 GAAATAGAAA
3594414 TGAAAT-GAAA
1 -GAAATAGAAA
* *
3594424 TAAATAAAAA
1 GAAATAGAAA
3594434 GA
1 GA
3594436 TAGAGATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.09
9 13 0.39
10 14 0.42
11 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (10 bp):
GAAATAGAAA
Found at i:3595101 original size:16 final size:16
Alignment explanation
Indices: 3595080--3595111 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3595070 TCTTCCACCA
3595080 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
*
3595096 ATGTTAGCATGCAAAT
1 ATGTTAGAATGCAAAT
3595112 GAGCTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Done.