Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015356.1 Kokia drynarioides strain JFW-HI SEQ_130403, 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: 269632
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 115 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--33 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34 ATATGTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7275 original size:11 final size:11
Alignment explanation
Indices: 7225--7269 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
7215 CTAAAAATTC
7225 AAAAAAAT-TAT
1 AAAAAAATAT-T
*
7236 AAAAACAATTTT
1 AAAAA-AATATT
7248 AAAAAAATATT
1 AAAAAAATATT
7259 AAAAAAATATT
1 AAAAAAATATT
7270 TCAAAACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 21 0.68
12 9 0.29
13 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAAATATT
Found at i:7275 original size:12 final size:12
Alignment explanation
Indices: 7225--7275 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
7215 CTAAAAATTC
*
7225 AAAAAAAT-TAT
1 AAAAAAATATTT
7236 AAAAACAAT-TTT
1 AAAAA-AATATTT
7248 AAAAAAATA-TT
1 AAAAAAATATTT
7259 AAAAAAATATTT
1 AAAAAAATATTT
7271 CAAAA
1 -AAAA
7276 CTTAATTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
11 19 0.54
12 12 0.34
13 4 0.11
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAAATATTT
Found at i:15396 original size:19 final size:19
Alignment explanation
Indices: 15348--15399 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
15338 TGGGTAGCTT
15348 TTAAAATTT-TAAAAAAAAA
1 TTAAAATTTGT-AAAAAAAA
* *
15367 TT-GAATATTGTAAACAAAA
1 TTAAAAT-TTGTAAAAAAAA
15386 TTAAAATTTGTAAA
1 TTAAAATTTGTAAA
15400 TTCTTCTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (19 bp):
TTAAAATTTGTAAAAAAAA
Found at i:17666 original size:2 final size:2
Alignment explanation
Indices: 17659--17684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17649 TTTCCATGCA
17659 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17685 TGGATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20743 original size:30 final size:29
Alignment explanation
Indices: 20709--20804 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
20699 AGTCTAGGGG
20709 TAAAATAGTAATTTTTGAGAGTTTCGAGGT
1 TAAAATAGTAATTTTTG-GAGTTTCGAGGT
** *
20739 TAAAATCAG-AATTTTTGGAGGCTCGAGGGG
1 TAAAAT-AGTAATTTTTGGAGTTTCGA-GGT
* * *
20769 TAATATGGTAGTTTTTGGAAGTTTCGAGGT
1 TAAAATAGTAATTTTTGG-AGTTTCGAGGT
*
20799 CAAAAT
1 TAAAAT
20805 CGGGATTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
29 8 0.16
30 35 0.69
31 8 0.16
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (29 bp):
TAAAATAGTAATTTTTGGAGTTTCGAGGT
Found at i:20814 original size:30 final size:30
Alignment explanation
Indices: 20780--21056 Score: 168
Period size: 30 Copynumber: 9.4 Consensus size: 30
20770 AATATGGTAG
*
20780 TTTTTGGAAGTTTCGAGGTCAAAATCGGGA
1 TTTTTGGAAGTTTCGGGGTCAAAATCGGGA
** *
20810 TTTTTTAAAG-TTCGGGGGT--AAAT-GGTA
1 TTTTTGGAAGTTTC-GGGGTCAAAATCGGGA
** * *
20837 TTTTTTTAAAGTTTTGGGGTCAAAATCGAGA
1 -TTTTTGGAAGTTTCGGGGTCAAAATCGGGA
*
20868 TTTTTGGAAGTTT-GGGGT-AAAAT-GGTAA
1 TTTTTGGAAGTTTCGGGGTCAAAATCGG-GA
* * * **
20896 TTTCTAGAAGTTTCGAGGTCAAAATCAAGA
1 TTTTTGGAAGTTTCGGGGTCAAAATCGGGA
* *
20926 TTTTTGGAAG-TTCAGCGGT-AAAAT-GGTAA
1 TTTTTGGAAGTTTC-GGGGTCAAAATCGG-GA
* * *
20955 TTTTTTGAAGTTTCGAGGTCAAAATCGAGA
1 TTTTTGGAAGTTTCGGGGTCAAAATCGGGA
* *
20985 TTTTTGGAAG-TTCGGGGGTAAAAAT--GCA
1 TTTTTGGAAGTTTC-GGGGTCAAAATCGGGA
* *
21013 TTTTTTGGAAAGTTTGGGGGTCAAAA-CGTGA
1 -TTTTTGG-AAGTTTCGGGGTCAAAATCGGGA
21044 TTTTTGGATAGTT
1 TTTTTGGA-AGTT
21057 CAGGGACCTT
Statistics
Matches: 189, Mismatches: 36, Indels: 44
0.70 0.13 0.16
Matches are distributed among these distances:
27 4 0.02
28 37 0.20
29 47 0.25
30 95 0.50
31 6 0.03
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (30 bp):
TTTTTGGAAGTTTCGGGGTCAAAATCGGGA
Found at i:20871 original size:28 final size:28
Alignment explanation
Indices: 20840--20929 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 28
20830 AATGGTATTT
20840 TTTTAAAGTTTTGGGGTCAAAATCGAGA
1 TTTTAAAGTTTTGGGGTCAAAATCGAGA
* *
20868 TTTTTGGAAG-TTTGGGGT-AAAATGGTA-A
1 -TTTT-AAAGTTTTGGGGTCAAAATCG-AGA
* * *
20896 TTTCTAGAAGTTTCGAGGTCAAAATCAAGA
1 TTT-TA-AAGTTTTGGGGTCAAAATCGAGA
20926 TTTT
1 TTTT
20930 TGGAAGTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
27 3 0.06
28 11 0.23
29 21 0.45
30 12 0.26
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (28 bp):
TTTTAAAGTTTTGGGGTCAAAATCGAGA
Found at i:20969 original size:59 final size:59
Alignment explanation
Indices: 20647--21061 Score: 386
Period size: 58 Copynumber: 7.1 Consensus size: 59
20637 TGGACCTCCG
* * * *
20647 GGGGTAAAAGGGTAA-TTTTTGAAAGTTTTTG-GGTCAAAAAT-G-GAGTTTTAGAAG-TCTA
1 GGGGTAAAATGGTAATTTTTTG-AAG-TTTCGAGGTC-AAAATCGAGATTTTTGGAAGTTC-A
* * * *
20705 GGGGTAAAATAGTAA-TTTTTGAGAGTTTCGAGGTTAAAATC-AGAATTTTTGGAGGCTCGA
1 GGGGTAAAATGGTAATTTTTTGA-AGTTTCGAGGTCAAAATCGAG-ATTTTTGGAAGTTC-A
* * * * ** *
20765 GGGGTAATATGGTAGTTTTTGGAAGTTTCGAGGTCAAAATCGGGATTTTTTAAAGTTCG
1 GGGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCA
* * * * *
20824 GGGGT-AAATGGTATTTTTTTAAAGTTTTGGGGTCAAAATCGAGATTTTTGGAAGTT-T
1 GGGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCA
* * *
20881 GGGGTAAAATGGTAATTTCTAGAAGTTTCGAGGTCAAAATCAAGATTTTTGGAAGTTCA
1 GGGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCA
* *
20940 GCGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCG
1 GGGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCA
* * * *
20999 GGGGTAAAAAT-G-CATTTTTTGGAAAGTTTGGGGGTCAAAA-CGTGATTTTTGGATAGTTCA
1 GGGGT-AAAATGGTAATTTTTT-G-AAGTTTCGAGGTCAAAATCGAGATTTTTGGA-AGTTCA
21059 GGG
1 GGG
21062 ACCTTCTAGG
Statistics
Matches: 295, Mismatches: 48, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
57 15 0.05
58 118 0.40
59 85 0.29
60 70 0.24
61 7 0.02
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTTGAAGTTTCGAGGTCAAAATCGAGATTTTTGGAAGTTCA
Found at i:22876 original size:7 final size:6
Alignment explanation
Indices: 22862--23033 Score: 146
Period size: 6 Copynumber: 29.5 Consensus size: 6
22852 TTCTGGATTC
* * *
22862 TTAAAT TTAAGAT TTAAAT TTAAA- AT-CAT TCTGAAT TTAAA- TTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT TTAAAT
** *
22909 TTAAAT TTAAA- ACAAAT TTAAAT TTAAAAA TT-AAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT
* ** *
22956 TTAAA- ATAAAT TTAAAT TTAAA- ACAAAT TTAAAT TTAAAAA TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT
*
23002 TTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTA
23034 TAAATAAATT
Statistics
Matches: 132, Mismatches: 21, Indels: 26
0.74 0.12 0.15
Matches are distributed among these distances:
4 1 0.01
5 28 0.21
6 84 0.64
7 19 0.14
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:22915 original size:17 final size:17
Alignment explanation
Indices: 22862--23044 Score: 130
Period size: 17 Copynumber: 10.8 Consensus size: 17
22852 TTCTGGATTC
22862 TTAAATTTAAGATTTAAAT
1 TTAAA-TTAA-ATTTAAAT
* * *
22881 TTAAAAT-CATTCTGAAT
1 TTAAATTAAATT-TAAAT
22898 TTAAATTAAATTTAAAT
1 TTAAATTAAATTTAAAT
**
22915 TTAAAACAAATTTAAAT
1 TTAAATTAAATTTAAAT
22932 TT-AA--AAA-TT-AAT
1 TTAAATTAAATTTAAAT
22944 TTAAATTTAAATTTAAA-
1 TTAAA-TTAAATTTAAAT
*
22961 ATAAATTTAAATTTAAA-
1 TTAAA-TTAAATTTAAAT
** *
22978 ACAAATTTAAATTTAAAAA
1 TTAAA-TTAAATTT-AAAT
*
22997 TTAATTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
*
23014 TTAAAATAAATTTAAAT
1 TTAAATTAAATTTAAAT
*
23031 TTATAAATAAATTT
1 TTA-AATTAAATTT
23045 GAAACCAATT
Statistics
Matches: 137, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
12 5 0.04
13 4 0.03
14 3 0.02
16 8 0.06
17 83 0.61
18 27 0.20
19 7 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:22929 original size:58 final size:58
Alignment explanation
Indices: 22895--23044 Score: 273
Period size: 58 Copynumber: 2.6 Consensus size: 58
22885 AATCATTCTG
*
22895 AATTTAAATTAAATTTAAATTTAAAACAAATTTAAATTTAAAAATTAATTTAAATTTA
1 AATTTAAAATAAATTTAAATTTAAAACAAATTTAAATTTAAAAATTAATTTAAATTTA
22953 AATTTAAAATAAATTTAAATTTAAAACAAATTTAAATTTAAAAATTAATTTAAATTTA
1 AATTTAAAATAAATTTAAATTTAAAACAAATTTAAATTTAAAAATTAATTTAAATTTA
*
23011 AATTTAAAATAAATTTAAATTTATAAATAAATTT
1 AATTTAAAATAAATTTAAATTTA-AAACAAATTT
23045 GAAACCAATT
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
58 80 0.90
59 9 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (58 bp):
AATTTAAAATAAATTTAAATTTAAAACAAATTTAAATTTAAAAATTAATTTAAATTTA
Found at i:22948 original size:41 final size:41
Alignment explanation
Indices: 22898--23033 Score: 179
Period size: 41 Copynumber: 3.3 Consensus size: 41
22888 CATTCTGAAT
* *
22898 TTAAATTAAATTTAAATTTAAAACAAATTTAAATTTAAAAA
1 TTAATTTAAATTTAAATTTAAAATAAATTTAAATTTAAAAA
22939 TTAATTTAAATTTAAATTTAAAATAAATTTAAATTTAAAACA
1 TTAATTTAAATTTAAATTTAAAATAAATTTAAATTTAAAA-A
* **
22981 --AATTTAAATTTAAAAATTAATTTAAATTTAAATTT-AAAA
1 TTAATTTAAATTT-AAATTTAAAATAAATTTAAATTTAAAAA
*
23020 TAAATTTAAATTTA
1 TTAATTTAAATTTA
23034 TAAATAAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.01
40 15 0.17
41 69 0.80
42 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (41 bp):
TTAATTTAAATTTAAATTTAAAATAAATTTAAATTTAAAAA
Found at i:30833 original size:147 final size:147
Alignment explanation
Indices: 30636--30928 Score: 559
Period size: 147 Copynumber: 2.0 Consensus size: 147
30626 CCATACTACG
30636 AGATATTATAACCATTCCTCATGTAAATCAACAATAAAGCATGTCAAAAGGCCTGTATCTGTATA
1 AGATATTATAACCATTCCTCATGTAAATCAACAATAAAGCATGTCAAAAGGCCTGTATCTGTATA
* *
30701 AAATTCACCAATAAATTGCCATTACCAGACTAATAATGCATTGGCTACATAGCAAGGAAAAGTTC
66 AAATTCACAAATAAATTGCCATTACCAGACTAATAATGCACTGGCTACATAGCAAGGAAAAGTTC
30766 AAGATTATCAACCAAAA
131 AAGATTATCAACCAAAA
*
30783 AGATGTTATAACCATTCCTCATGTAAATCAACAATAAAGCATGTCAAAAGGCCTGTATCTGTATA
1 AGATATTATAACCATTCCTCATGTAAATCAACAATAAAGCATGTCAAAAGGCCTGTATCTGTATA
30848 AAATTCACAAATAAATTGCCATTACCAGACTAATAATGCACTGGCTACATAGCAAGGAAAAGTTC
66 AAATTCACAAATAAATTGCCATTACCAGACTAATAATGCACTGGCTACATAGCAAGGAAAAGTTC
30913 AAGATTATCAACCAAA
131 AAGATTATCAACCAAA
30929 GGATGTTTGG
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (147 bp):
AGATATTATAACCATTCCTCATGTAAATCAACAATAAAGCATGTCAAAAGGCCTGTATCTGTATA
AAATTCACAAATAAATTGCCATTACCAGACTAATAATGCACTGGCTACATAGCAAGGAAAAGTTC
AAGATTATCAACCAAAA
Found at i:34428 original size:23 final size:23
Alignment explanation
Indices: 34402--34454 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
34392 TACATGGTAA
* *
34402 ATATTAAATGCAAATTTTGGTTG
1 ATATTAAATGCAAACTTTGGTGG
34425 ATATTAAATGCAAACTTTGGTGG
1 ATATTAAATGCAAACTTTGGTGG
34448 ATATTAA
1 ATATTAA
34455 CAACATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
ATATTAAATGCAAACTTTGGTGG
Found at i:43783 original size:3 final size:3
Alignment explanation
Indices: 43777--43816 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
43767 AGTGTTGGGA
*
43777 AAG AAG AAG AAG AAG AA- AGAG AAG AGG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG A
43817 GAACTGTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44773 original size:15 final size:15
Alignment explanation
Indices: 44753--44781 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44743 TTATTAAAAT
44753 TATATATTATTATAG
1 TATATATTATTATAG
44768 TATATATTATTATA
1 TATATATTATTATA
44782 TATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATATTATTATAG
Found at i:49990 original size:22 final size:20
Alignment explanation
Indices: 49965--50019 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
49955 CTACTAAACT
*
49965 AATAATAATTAAAAAATCATAA
1 AATAATTATTAAAAAAT-A-AA
*
49987 AATAATTTTTAAAAAATAAA
1 AATAATTATTAAAAAATAAA
*
50007 AAAAATTATTAAA
1 AATAATTATTAAA
50020 TCTGTTCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.45
21 1 0.03
22 15 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATTATTAAAAAATAAA
Found at i:50008 original size:20 final size:22
Alignment explanation
Indices: 49972--50019 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
49962 ACTAATAATA
*
49972 ATTAAAAAATCATAAAATAATT
1 ATTAAAAAATCATAAAAAAATT
*
49994 TTTAAAAAAT-A-AAAAAAATT
1 ATTAAAAAATCATAAAAAAATT
50014 ATTAAA
1 ATTAAA
50020 TCTGTTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
ATTAAAAAATCATAAAAAAATT
Found at i:50844 original size:12 final size:13
Alignment explanation
Indices: 50827--50858 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50817 AAGTATTGTG
50827 ATAATTATAAT-T
1 ATAATTATAATAT
50839 ATAATT-TAATAT
1 ATAATTATAATAT
50851 ATAATTAT
1 ATAATTAT
50859 TAGTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 13 0.72
13 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATTATAATAT
Found at i:51133 original size:23 final size:23
Alignment explanation
Indices: 51107--51151 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
51097 TTTTATGAAC
*
51107 TTTTTATGTTTTTTAATTTTGATT
1 TTTTTAT-TTTTATAATTTTGATT
51131 TTTTTATTTTTATAATTTTGA
1 TTTTTATTTTTATAATTTTGA
51152 ATTATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (23 bp):
TTTTTATTTTTATAATTTTGATT
Found at i:52072 original size:24 final size:24
Alignment explanation
Indices: 52020--52073 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
52010 TAAAAACTTA
*
52020 TATATAAAAAATAATTTATACAATC
1 TATA-AAAAAATAATTAATACAATC
52045 TATAAAAAAAGTAATTAATACAAT-
1 TATAAAAAAA-TAATTAATACAATC
52069 TATAA
1 TATAA
52074 TATGGTGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
TATAAAAAAATAATTAATACAATC
Found at i:52859 original size:60 final size:59
Alignment explanation
Indices: 52755--52927 Score: 190
Period size: 60 Copynumber: 2.9 Consensus size: 59
52745 AATATTTAAT
* * * * *
52755 AAATTTAGGTACCAAATTGAAT-ATAAAAAAACTTAGGTACCAAATTAGGAAAATA-TGCC
1 AAATTCAGGTACTAAATTGAGTCA-AAAAAAATTTAGGTACCAAATTAAGAAAA-AGTGCC
* * * *
52814 AAGTTCAGGTA-TCAAATTGGGTTAAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAATTCAGGTACT-AAATTGAGTCAAAAAAAA-TTTAGGTACCAAATTAAGAAAAAGTGCC
* *
52874 AAATTCATGTACTAAATTGAGTCAAAAAAAATTTAGGTACTAAATTAAGAAAAA
1 AAATTCAGGTACTAAATTGAGTCAAAAAAAATTTAGGTACCAAATTAAGAAAAA
52928 TTGTCTAATT
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
59 46 0.48
60 49 0.51
61 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (59 bp):
AAATTCAGGTACTAAATTGAGTCAAAAAAAATTTAGGTACCAAATTAAGAAAAAGTGCC
Found at i:56635 original size:15 final size:15
Alignment explanation
Indices: 56614--56652 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
56604 TAATGAAATT
56614 ATAAAAATAAA-AATA
1 ATAAAAATAAACAA-A
*
56629 ATTAAAATAAACAAA
1 ATAAAAATAAACAAA
56644 ATAAAAATA
1 ATAAAAATA
56653 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAATAAACAAA
Found at i:62053 original size:30 final size:29
Alignment explanation
Indices: 62007--62082 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
61997 GTCCGGGGGT
*
62007 AAAATAGTAA-TTTTGGACACTTCGAGG-GC
1 AAAATGGTAATTTTTGGACAC-TC-AGGAGC
*
62036 AAAATGGTAATTTTTGGATACTCAGGAGC
1 AAAATGGTAATTTTTGGACACTCAGGAGC
*
62065 AAAATGATAATTTTTGGA
1 AAAATGGTAATTTTTGGA
62083 TGTTCGGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 3 0.07
29 30 0.71
30 9 0.21
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGACACTCAGGAGC
Found at i:62155 original size:30 final size:30
Alignment explanation
Indices: 62100--62524 Score: 281
Period size: 29 Copynumber: 14.4 Consensus size: 30
62090 GATAAAGCGA
* * *
62100 TAATTTTTGGAAAATTT-GTGATAAAAAATG
1 TAATTTTTGGAAAGTTTAGGGGT-AAAAATG
62130 TAATTTTTGG-AAGTTTAGGGGT-AAAATGG
1 TAATTTTTGGAAAGTTTAGGGGTAAAAAT-G
* * * *
62159 TATTTTTTAG-AAG-TTCGGGGCAAAAATG
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
* * *
62187 TGATTTTTTGGAAAG-TTCGAGGTCAAAAATG
1 T-AATTTTTGGAAAGTTTAGGGGT-AAAAATG
*
62218 -ATATTTTTGG-AAGTTTAGGGGTGAAAATG
1 TA-ATTTTTGGAAAGTTTAGGGGTAAAAATG
* * ** *
62247 AAATTTTTGTG-AAG-TTCGAAGTCAAAATG
1 TAATTTTTG-GAAAGTTTAGGGGTAAAAATG
* * * *
62276 TGA-TTTTGGAAAAGTTTAGGTGTCAAAGTGG
1 TAATTTTTGG-AAAGTTTAGGGGTAAAAAT-G
* * *
62307 TAATTTTTGGAAAATTT-GAGGGTTAAAATA
1 TAATTTTTGGAAAGTTTAG-GGGTAAAAATG
* *
62337 TAATTTTTGGAAAGTTTAGGGGTCAAAATA
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
* *
62367 TAATTTTTGGAAAGTTTA-GGGTCAAAATA
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
* *
62396 TAATTTTTGGAAAGTTTA-GGGTCAAAATA
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
* *
62425 TGATTTTTGGAAAGTTTA-GGGTTAAAATG
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
* *
62454 TAA-TTTTAGAAAGTTTTAAGGGTAAAAATG
1 TAATTTTTGGAAAG-TTTAGGGGTAAAAATG
* * * * * **
62484 TCATTTTAGGAAAATTCA-AGGTAAAAACA
1 TAATTTTTGGAAAGTTTAGGGGTAAAAATG
62513 TAATTTTTGGAA
1 TAATTTTTGGAA
62525 GTTCGAGGAC
Statistics
Matches: 327, Mismatches: 48, Indels: 41
0.79 0.12 0.10
Matches are distributed among these distances:
27 1 0.00
28 27 0.08
29 152 0.46
30 110 0.34
31 31 0.09
32 6 0.02
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
TAATTTTTGGAAAGTTTAGGGGTAAAAATG
Found at i:62166 original size:29 final size:30
Alignment explanation
Indices: 62124--62496 Score: 301
Period size: 29 Copynumber: 12.6 Consensus size: 30
62114 TTTGTGATAA
62124 AAAATGTAATTTTTGG-AAGTTTAGGGGT-
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
* * *
62152 AAAATGGTATTTTTTAG-AAG-TTCGGGG-C
1 AAAAT-GTAATTTTTGGAAAGTTTAGGGGTC
* * *
62180 AAAAATGTGATTTTTTGGAAAG-TTCGAGGTC
1 -AAAATGT-AATTTTTGGAAAGTTTAGGGGTC
*
62211 AAAAATG-ATATTTTTGG-AAGTTTAGGGGTG
1 -AAAATGTA-ATTTTTGGAAAGTTTAGGGGTC
* * **
62241 AAAATGAAATTTTTGTG-AAG-TTCGAAGTC
1 AAAATGTAATTTTTG-GAAAGTTTAGGGGTC
* *
62270 AAAATGTGA-TTTTGGAAAAGTTTAGGTGTC
1 AAAATGTAATTTTTGG-AAAGTTTAGGGGTC
* * *
62300 AAAGTGGTAATTTTTGGAAAATTT-GAGGGTT
1 AAAAT-GTAATTTTTGGAAAGTTTAG-GGGTC
*
62331 AAAATATAATTTTTGGAAAGTTTAGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
*
62361 AAAATATAATTTTTGGAAAGTTTA-GGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
*
62390 AAAATATAATTTTTGGAAAGTTTA-GGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
* * *
62419 AAAATATGATTTTTGGAAAGTTTA-GGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
* * *
62448 AAAATGTAA-TTTTAGAAAGTTTTAAGGGTA
1 AAAATGTAATTTTTGGAAAG-TTTAGGGGTC
* *
62478 AAAATGTCATTTTAGGAAA
1 AAAATGTAATTTTTGGAAA
62497 ATTCAAGGTA
Statistics
Matches: 289, Mismatches: 36, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.00
28 27 0.09
29 129 0.45
30 94 0.33
31 32 0.11
32 6 0.02
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGGTC
Found at i:62254 original size:59 final size:60
Alignment explanation
Indices: 62191--62524 Score: 296
Period size: 59 Copynumber: 5.7 Consensus size: 60
62181 AAAATGTGAT
*
62191 TTTTTGGAAAGTTCGA-GGTCAAAA-ATGATATTTTTGG-AAGTTTAGGGGTGAAAATGA-AA
1 TTTTTGGAAAGTTCGAGGGTCAAAATAT-A-ATTTTTGGAAAGTTTAGGGGTCAAAAT-ATAA
* * * * * *
62250 TTTTTGTG-AAGTTCGA-AGTCAAAATGTGA-TTTTGGAAAAGTTTAGGTGTCAAAGTGGTAA
1 TTTTTG-GAAAGTTCGAGGGTCAAAATATAATTTTTGG-AAAGTTTAGGGGTCAAAAT-ATAA
* * *
62310 TTTTTGGAAAATTTGAGGGTTAAAATATAATTTTTGGAAAGTTTAGGGGTCAAAATATAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATATAATTTTTGGAAAGTTTAGGGGTCAAAATATAA
* *
62370 TTTTTGGAAAGTT-TAGGGTCAAAATATAATTTTTGGAAAGTTTA-GGGTCAAAATATGA
1 TTTTTGGAAAGTTCGAGGGTCAAAATATAATTTTTGGAAAGTTTAGGGGTCAAAATATAA
* * * * * * * *
62428 TTTTTGGAAAGTT-TAGGGTTAAAATGTAA-TTTTAGAAAGTTTTAAGGGTAAAAATGTCA
1 TTTTTGGAAAGTTCGAGGGTCAAAATATAATTTTTGGAAAG-TTTAGGGGTCAAAATATAA
* * * * *
62487 TTTTAGGAAAATTC-AAGGTAAAAACATAATTTTTGGAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATATAATTTTTGGAA
62525 GTTCGAGGAC
Statistics
Matches: 230, Mismatches: 33, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
57 15 0.07
58 45 0.20
59 100 0.43
60 38 0.17
61 26 0.11
62 6 0.03
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (60 bp):
TTTTTGGAAAGTTCGAGGGTCAAAATATAATTTTTGGAAAGTTTAGGGGTCAAAATATAA
Found at i:62506 original size:29 final size:30
Alignment explanation
Indices: 62442--62519 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
62432 TGGAAAGTTT
* * *
62442 AGGGTTAAAATGTAATTTTAGAAAGTTTTA
1 AGGGTAAAAATGTAATTTTAGAAAGATTCA
*
62472 AGGGTAAAAATGTCATTTTAGGAAA-ATTCA
1 AGGGTAAAAATGTAATTTTA-GAAAGATTCA
**
62502 A-GGTAAAAACATAATTTT
1 AGGGTAAAAATGTAATTTT
62520 TGGAAGTTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 14 0.35
30 22 0.55
31 4 0.10
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (30 bp):
AGGGTAAAAATGTAATTTTAGAAAGATTCA
Found at i:64283 original size:6 final size:6
Alignment explanation
Indices: 64266--64364 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
64256 GGACATTTAA
* * * *
64266 TTAAATT TTAAAT TTAAAT TTAAA- ATAAAT TTAAAC TTAAA- ATAAGT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
64313 TTAAAT TTAAA- ATAAAT TTAAAC TTAAA- AT-AAT TTAAAAT TTAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TT-AAAT
64360 TTAAA
1 TTAAA
64365 ATTGGGTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.18
6 42 0.57
7 17 0.23
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:64284 original size:13 final size:13
Alignment explanation
Indices: 64266--64367 Score: 65
Period size: 11 Copynumber: 8.1 Consensus size: 13
64256 GGACATTTAA
*
64266 TTAAATTTTAAAT
1 TTAAATTTAAAAT
64279 TTAAATTTAAAA-
1 TTAAATTTAAAAT
*
64291 -TAAATTT-AAAC
1 TTAAATTTAAAAT
* *
64302 TTAAA-AT-AAGT
1 TTAAATTTAAAAT
64313 TTAAATTTAAAA-
1 TTAAATTTAAAAT
*
64325 -TAAATTTAAACT
1 TTAAATTTAAAAT
*
64337 TAAAATAATTTAAAAT
1 T--TA-AATTTAAAAT
64353 TTAAAATTTAAAAT
1 TT-AAATTTAAAAT
64367 T
1 T
64368 GGGTTTATTA
Statistics
Matches: 69, Mismatches: 10, Indels: 19
0.70 0.10 0.19
Matches are distributed among these distances:
10 3 0.04
11 25 0.36
12 5 0.07
13 13 0.19
14 11 0.16
15 2 0.03
16 10 0.14
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:64294 original size:17 final size:17
Alignment explanation
Indices: 64274--64359 Score: 129
Period size: 17 Copynumber: 5.1 Consensus size: 17
64264 AATTAAATTT
64274 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
64291 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
64308 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
64325 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
64342 T-AATTTAAAATTTAAAA
1 TAAATTT-AAATTTAAAA
64359 T
1 T
64360 TTAAAATTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
16 5 0.08
17 57 0.92
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:64298 original size:34 final size:36
Alignment explanation
Indices: 64266--64366 Score: 125
Period size: 34 Copynumber: 2.7 Consensus size: 36
64256 GGACATTTAA
64266 TTAAATTTTAAATTTAAATTTAAAATAAATTTAAAC
1 TTAAATTTTAAATTTAAATTTAAAATAAATTTAAAC
* *
64302 TTAAA--ATAAGTTTAAATTTAAAATAAATTTAAAC
1 TTAAATTTTAAATTTAAATTTAAAATAAATTTAAAC
64336 TTAAAATAATTTAAAATTTAAAATTTAAAAT
1 TT-AAAT--TTT-AAATTT-AAATTTAAAAT
64367 TGGGTTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
34 29 0.54
35 3 0.06
36 5 0.09
39 1 0.02
40 5 0.09
41 11 0.20
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (36 bp):
TTAAATTTTAAATTTAAATTTAAAATAAATTTAAAC
Found at i:64355 original size:7 final size:7
Alignment explanation
Indices: 64343--64367 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64333 AACTTAAAAT
64343 AATTTAA
1 AATTTAA
64350 AATTTAA
1 AATTTAA
64357 AATTTAA
1 AATTTAA
64364 AATT
1 AATT
64368 GGGTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:65210 original size:209 final size:209
Alignment explanation
Indices: 64755--65544 Score: 1109
Period size: 209 Copynumber: 3.8 Consensus size: 209
64745 TCTTGATCTT
* * * * * *
64755 CTTCTTTGTATCTCATTAGGAAGACGGATTTGGTTCACTTCTCT-TCATCTCGTCAGGAAGATGA
1 CTTCTCTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCTCTAT-ATCTCATCAGGAAGGTAA
* * ** * * *
64819 CCACTTTATTGCTTCGACCTACTTCTTTGTATCTCATCAGGAAGATAGGGGTTTTGAAGCTTCGC
65 CCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGG-TTCGAAGTTTCGC
** * * *
64884 TCACATTGAGC-TTGGTTTCTTTGATTTGGTCTACTTCTCAGTATCTCATTAGGAAGATGACCAC
128 TCACATCAAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATTTCATCAGGAAGATGACCAC
* *
64948 CTTGTTGTTTTGATCCA
193 ATCGTTGTTTTGATCCA
*
64965 CTTCTCTGTATCTCATTAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAAC
1 CTTCTCTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAAC
* *
65030 TGCTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCA
66 CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCA
* * * * **
65095 CATCGAGCTTTGGTTTCATTGATTTGGTCTTCTTCTTAGTATTTCAACAATAAGATGACCACATC
131 CATCAAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATTTCATCAGGAAGATGACCACATC
65160 GTTGTTTTGATCCA
196 GTTGTTTTGATCCA
* * *
65174 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTATATCTCATTAGGAAGGTAAC
1 CTTCTCTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAAC
* * *
65239 CGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGCTCC
66 CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCA
* *
65304 CATCAAACTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATATT-ATCAGGAAGATGACCGCAT
131 CATCAAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTAT-TTCATCAGGAAGATGACCACAT
*
65368 CATTGTTTTGATCCA
195 CGTTGTTTTGATCCA
* * * * *
65383 CTTCTCTGTATATCTTCGGGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAAT
1 CTTCTCTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAAC
* *
65448 CGCTTTATTGCTTCGACCTGCTTCTCAGTATTTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCC
66 CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCA
*
65513 CATCAAGCTTTGGTTTCAATGATTTGGTCTAC
131 CATCAAGCTTTGGTTTCATTGATTTGGTCTAC
65545 CACATCGTTG
Statistics
Matches: 523, Mismatches: 54, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
208 21 0.04
209 401 0.77
210 100 0.19
211 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (209 bp):
CTTCTCTGTATCTCATCAGGAAGACGGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAAC
CGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCA
CATCAAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATTTCATCAGGAAGATGACCACATC
GTTGTTTTGATCCA
Found at i:65682 original size:182 final size:181
Alignment explanation
Indices: 65365--65711 Score: 552
Period size: 182 Copynumber: 1.9 Consensus size: 181
65355 AAGATGACCG
* * * *
65365 CATCATTGTTTTGATCCACTTCTCTGTATATCTTCGGGAAGACGGATCTGGTTCACTTCTCTGTA
1 CATCATTGTTTTGATCCACTTCTCTGTATATCATCAGGAAGACAGATCTGGTTCACTTCTCCGTA
* * * * *
65430 TCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCTGCTTCTCAGTATTTCATCAGGAAGCTGG
66 TCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAG
* *
65495 GGTTCGAAGTTTCGCTCCCATCAAGCTTTGGTTTCAATGATTTGGTCTACCA
131 GGTTCGAAGTTTCACTCCAATCAAGCTTT-GTTTCAATGATTTGGTCTACCA
* *
65547 CATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACAGATCTGGTTCACTTCTCCGTA
1 CATCATTGTTTTGATCCACTTCTCTGTATATCATCAGGAAGACAGATCTGGTTCACTTCTCCGTA
65612 TCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTTG-TTCTCAGTATCTCATCAGGAAGCTA
66 TCTCATCAAGAAGGTAACCACTTTATTGCTTCGACC-TGCTTCTCAGTATCTCATCAGGAAGCTA
65676 GGGTTCGAAGTTTCACTCCAATCAAGCTTTGTTTCA
130 GGGTTCGAAGTTTCACTCCAATCAAGCTTTGTTTCA
65712 TTGAGTTGAT
Statistics
Matches: 151, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
181 6 0.04
182 143 0.95
183 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (181 bp):
CATCATTGTTTTGATCCACTTCTCTGTATATCATCAGGAAGACAGATCTGGTTCACTTCTCCGTA
TCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAG
GGTTCGAAGTTTCACTCCAATCAAGCTTTGTTTCAATGATTTGGTCTACCA
Found at i:65877 original size:391 final size:390
Alignment explanation
Indices: 65152--65899 Score: 1130
Period size: 391 Copynumber: 1.9 Consensus size: 390
65142 CAATAAGATG
*
65152 ACCACATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTC
1 ACCACATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGAATCTGGTTCACTTCTC
* * * *
65217 TATATCTCATTAGGAAGGTAACCGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAG
66 CATATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAG
* * * * *
65282 CTAGGGTTCGAAGTTTCGCTCCCATCAAACTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATA
131 CTAGGGTTCGAAGTTTCACTCCAATCAAACTTTGGTTTCATTGAGTTGATATACTTCTCAGTATA
* *
65347 TTATCAGGAAGATGACCGCATCATTGTTTTGATCCACTTCTCTGTATATCTTCGGGAAGACGGAT
196 TTATCAGGAAGATGACCGCATCATTGTTTTGATCCACTTCTCTGTATATCTTCAGGAAGACGAAT
* ** *
65412 CTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAATCGCTTTATTGCTTCGACCTGCTTCTCAGT
261 CTGGTTCACTTCTCTGTATCTCATCAAGAAGACAACCGCTTTATTGCTTCGACCTGCTTCTCAGT
*
65477 ATTTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCCCATCAAGCTTTGGTTTCAATGATTTGGTC
326 ATCTCATCAGGAAGCT-GGGTTCGAAGTTTCGCTCCCATCAAGCTTTGGTTTCAATGATTTGGTC
65542 T
390 T
65543 ACCACATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGAC-AGATCTGGTTCACTTCT
1 ACCACATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGA-ATCTGGTTCACTTCT
*
65607 CCGTATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACCTTG-TTCTCAGTATCTCATCAGGA
65 CCATATCTCATCAAGAAGGTAACCACTTTATTGCTTCGA-CTTGCTTCTCAGTATCTCATCAGGA
*
65671 AGCTAGGGTTCGAAGTTTCACTCCAATCAAGCTTT-GTTTCATTGAGTTGATATACTTCTCTA-T
129 AGCTAGGGTTCGAAGTTTCACTCCAATCAAACTTTGGTTTCATTGAGTTGATATACTTCTC-AGT
* * * *
65734 ATCTTATCAGGAAGATGATCGCATCACTTGTTTTGATCCGCTTCTCTGTATCT-TATCAGGAAGA
193 ATATTATCAGGAAGATGACCGCATCA-TTGTTTTGATCCACTTCTCTGTATATCT-TCAGGAAGA
* * * * *
65798 CGAATTTGG-TCTACTTCTTTGTATCTTATCAAGAAGACGACCGCTTTATTGCTTCGACTTGCTT
256 CGAATCTGGTTC-ACTTCTCTGTATCTCATCAAGAAGACAACCGCTTTATTGCTTCGACCTGCTT
*
65862 CTTAGTATCTCATCAGGAAGCTGGGTTCGAAGTTTCGC
320 CTCAGTATCTCATCAGGAAGCTGGGTTCGAAGTTTCGC
65900 ACACATTGAG
Statistics
Matches: 322, Mismatches: 29, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
390 67 0.21
391 251 0.78
392 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (390 bp):
ACCACATCGTTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGAATCTGGTTCACTTCTC
CATATCTCATCAAGAAGGTAACCACTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAG
CTAGGGTTCGAAGTTTCACTCCAATCAAACTTTGGTTTCATTGAGTTGATATACTTCTCAGTATA
TTATCAGGAAGATGACCGCATCATTGTTTTGATCCACTTCTCTGTATATCTTCAGGAAGACGAAT
CTGGTTCACTTCTCTGTATCTCATCAAGAAGACAACCGCTTTATTGCTTCGACCTGCTTCTCAGT
ATCTCATCAGGAAGCTGGGTTCGAAGTTTCGCTCCCATCAAGCTTTGGTTTCAATGATTTGGTCT
Found at i:66262 original size:208 final size:208
Alignment explanation
Indices: 65566--66249 Score: 921
Period size: 207 Copynumber: 3.3 Consensus size: 208
65556 TTTGATCCAC
* * ***
65566 TTCTCTGTATCTCATCAGGAAGAC-AGATCTGGT-TCACTTCTCCGTATCTCATCAAGAAGGTAA
1 TTCTCTGTATCTCATCAGGAAGACGA-ATTTGGTCT-ACTTCTCTGTATCTCATCAAGAAGACGA
* *
65629 CCACTTTATTGCTTCGACCTTG-TTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCACT
64 CCACTTTATTGCTTCGACC-TGCTTCTCAGTATCTCATCAGGAAG-TTGGGTTCGAAGTTTCGCT
** * * * * * *
65693 C-CAATCAAGCTTTGTTTCATTGAGTTGATATACTTCTCTA-TATCTTATCAGGAAGATGATCGC
127 CAC-ATTGAGCTTTGTTTCATTGATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGACCAC
* * *
65756 ATCACTTGTTTTGATCCGC
190 ATCACTTGTTTTAATTCGT
* * *
65775 TTCTCTGTATCTTATCAGGAAGACGAATTTGGTCTACTTCTTTGTATCTTATCAAGAAGACGACC
1 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGACGACC
* * * * *
65840 GCTTTATTGCTTCGACTTGCTTCTTAGTATCTCATCAGGAAGCTGGGTTCGAAGTTTCGCACACA
66 ACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTCGCTCACA
* *
65905 TTGAGCTTTGCTTC-TCGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACT
131 TTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACT
65969 TGTTTTAATTCGT
196 TGTTTTAATTCGT
* * * *
65982 TGCTTTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTTTGTATCTCATCAACAAGACGACC
1 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGACGACC
* * **
66047 ACTTTATTGCTTCGACCTGCTTCTCAGTATTTCATCAGGAAGTTGAGTTTTAAGTTTCGCTCACA
66 ACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTCGCTCACA
*
66112 TTGAGCCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACT
131 TTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACT
66177 TGTTTTAATTCGT
196 TGTTTTAATTCGT
* *
66190 TTCTTTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGA
1 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGA
66250 TGATAGCTTT
Statistics
Matches: 420, Mismatches: 49, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
206 1 0.00
207 179 0.43
208 148 0.35
209 90 0.21
210 2 0.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (208 bp):
TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGACGACC
ACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAAGTTTCGCTCACA
TTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACT
TGTTTTAATTCGT
Found at i:66358 original size:39 final size:39
Alignment explanation
Indices: 66316--66453 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 39
66306 TAGATGGCTG
* * *
66316 TGATTTGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGG
1 TGATCTGCCCCAAGCTCAGGGTAAAAGATTGGCTGATGA
* * * * * *
66355 TGATCTGCCTCAAGCTCGGGGTAAAAGATCGGATGGTTA
1 TGATCTGCCCCAAGCTCAGGGTAAAAGATTGGCTGATGA
** * * *
66394 CAATCTGCCCCAAACTCGGGGTAAAAGATTTGCTGATGA
1 TGATCTGCCCCAAGCTCAGGGTAAAAGATTGGCTGATGA
66433 TGATCTGCCCCAAGCTCAGGG
1 TGATCTGCCCCAAGCTCAGGG
66454 CAAGAGATCG
Statistics
Matches: 77, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TGATCTGCCCCAAGCTCAGGGTAAAAGATTGGCTGATGA
Found at i:66416 original size:78 final size:78
Alignment explanation
Indices: 66321--66465 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 78
66311 GGCTGTGATT
* * * * * *
66321 TGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAAAGATCG
1 TGCCCCAAACTCAGGGTAAAAGATTGGCTGATGATGATCTGCCCCAAGCTCAGGGCAAAAGATCG
66386 GATGGTTACAATC
66 GATGGTTACAATC
* * *
66399 TGCCCCAAACTCGGGGTAAAAGATTTGCTGATGATGATCTGCCCCAAGCTCAGGGCAAGAGATCG
1 TGCCCCAAACTCAGGGTAAAAGATTGGCTGATGATGATCTGCCCCAAGCTCAGGGCAAAAGATCG
66464 GA
66 GA
66466 ATCTTCAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (78 bp):
TGCCCCAAACTCAGGGTAAAAGATTGGCTGATGATGATCTGCCCCAAGCTCAGGGCAAAAGATCG
GATGGTTACAATC
Found at i:66854 original size:50 final size:50
Alignment explanation
Indices: 66790--67290 Score: 485
Period size: 50 Copynumber: 10.0 Consensus size: 50
66780 ATCGAATTTT
* ** * *
66790 CCGTTACGACCTCAATCC-TTCCAATCGCATCTTCTTAGGTACCGGGTTCA
1 CCGTTACGGCCTCAA-CCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * * * * * **
66840 CCGTTGCGGTCTCAACTTTTCCCTTTACATCTTTTTAAGGTATCGAATTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTT-AGGTACCGGGTTCG
* * *
66891 CCGTTACGGCCTCAATCC-TCCCCTGTCATC-TCTTCAT-GGTACTGGGTTCG
1 CCGTTACGGCCTCAA-CCTTTCCCT-TCA-CATCTTCTTAGGTACCGGGTTCG
* * * * *
66941 CCGTTACGGCCTCAACCTTTCCCATCATATCTTCTAAGGTATCGGATTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * *
66991 CCGTTACGGCCTCAATCTTTCCCTTCACATCTTCTTAGGTATCGGGTTCA
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * * * * *
67041 CCGTTACGGTCTCAACCTTTCCCTTTACATATTCAT-GGTACCGAGCTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * *
67090 CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACTGGGTTAG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * **
67140 TCGTTACGGCCTCAACCTTTCCCTTCGCATCTTCTTAGGTATTGGGTTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
* * * * * *
67190 TCGTTGCGGTCTTAACCTTTCCCTTTACATC-T-TTATGGTATCGGGTTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTA-GGTACCGGGTTCG
* * *
67239 CCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
1 CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
67289 CC
1 CC
67291 TTTCCCATCA
Statistics
Matches: 365, Mismatches: 74, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.01
49 89 0.24
50 233 0.64
51 31 0.08
52 8 0.02
53 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.35
Consensus pattern (50 bp):
CCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACCGGGTTCG
Found at i:67110 original size:99 final size:98
Alignment explanation
Indices: 66770--67290 Score: 437
Period size: 99 Copynumber: 5.2 Consensus size: 98
66760 TTCTTTTTTG
* * ** * ** *
66770 TCTTCATGGTATCGAATTTTCCGTTACGACCTCAATCC-TTCCAATCGCATCTTCTTAGGTACCG
1 TCTTCAAGGTATCGAGTTCGCCGTTACGGCCTCAA-CCTTTCCCTTCACATCTTCTTAGGTA-CG
* * * *
66834 GGTTCACCGTTGCGGTCTCAACTTTTCCCTTTACA
64 GGTTCACCGTTACGGCCTCAACCTTTCCCTTCACA
* * * *
66869 TCTTTTTAAGGTATCGAATTCGCCGTTACGGCCTCAATCC-TCCCCTGTCATC-TCTTCAT-GGT
1 TC--TTCAAGGTATCGAGTTCGCCGTTACGGCCTCAA-CCTTTCCCT-TCA-CATCTTCTTAGGT
* * *
66931 ACTGGGTTCGCCGTTACGGCCTCAACCTTTCCCATCATA
61 AC-GGGTTCACCGTTACGGCCTCAACCTTTCCCTTCACA
*
66970 TCTTCTAAGGTATCG-GATTCGCCGTTACGGCCTCAATCTTTCCCTTCACATCTTCTTAGGTATC
1 TCTTC-AAGGTATCGAG-TTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTA-C
* *
67034 GGGTTCACCGTTACGGTCTCAACCTTTCCCTTTACA
63 GGGTTCACCGTTACGGCCTCAACCTTTCCCTTCACA
* * * * *
67070 TATTCATGGTACCGAGCTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACTGG
1 TCTTCAAGGTATCGAGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTAC-GG
* *
67135 GTT-AGTCGTTACGGCCTCAACCTTTCCCTTCGCA
65 GTTCA-CCGTTACGGCCTCAACCTTTCCCTTCACA
* * * * * * * *
67169 TCTTCTTAGGTATTGGGTTCGTCGTTGCGGTCTTAACCTTTCCCTTTACATC-T-TTATGGTATC
1 TCTTC-AAGGTATCGAGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTA-GGTA-C
* * * *
67232 GGGTTCGCCGTTGCAGCCTCAACCTTTCCCATCACA
63 GGGTTCACCGTTACGGCCTCAACCTTTCCCTTCACA
* * *
67268 TCTTCTTAGGTACCGGGTTCGCC
1 TCTTC-AAGGTATCGAGTTCGCC
67291 TTTCCCATCA
Statistics
Matches: 345, Mismatches: 59, Indels: 36
0.78 0.13 0.08
Matches are distributed among these distances:
98 6 0.02
99 151 0.44
100 109 0.32
101 70 0.20
102 8 0.02
103 1 0.00
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.35
Consensus pattern (98 bp):
TCTTCAAGGTATCGAGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCTTAGGTACGGG
TTCACCGTTACGGCCTCAACCTTTCCCTTCACA
Found at i:67113 original size:149 final size:148
Alignment explanation
Indices: 66790--67290 Score: 603
Period size: 149 Copynumber: 3.4 Consensus size: 148
66780 ATCGAATTTT
* * * * * *
66790 CCGTTACGACCTCAATCC-TTCCAATCGCATCTTCTTAGGTACCGGGTTCACCGTTGCGGTCTCA
1 CCGTTACGGCCTCAA-CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCTCA
* * ** * * *
66854 ACTTTTCCCTTTACATCTTTTTAAGGTATCGAATTCGCCGTTACGGCCTCAATCC-TCCCCTGT-
65 AC-TTTCCCTTCACATCTTCTT-AGGTATCGGGTTCGCCGTTACGGTCTCAA-CCTTTCCCTTTA
*
66917 CATCTCTTCATGGTACTGGGTTCG
127 CA--TCTTCATGGTACCGGGTTCG
* * * *
66941 CCGTTACGGCCTCAACCTTTCCCATCATATCTTCTAAGGTATCGGATTCGCCGTTACGGCCTCAA
1 CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCTCAA
*
67006 TCTTTCCCTTCACATCTTCTTAGGTATCGGGTTCACCGTTACGGTCTCAACCTTTCCCTTTACAT
66 -CTTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCGTTACGGTCTCAACCTTTCCCTTTACAT
* * *
67071 ATTCATGGTACCGAGCTCG
130 CTTCATGGTACCGGGTTCG
* * *
67090 CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACTGGGTTAGTCGTTACGGCCTCAA
1 CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCTCAA
* * * * *
67155 CCTTTCCCTTCGCATCTTCTTAGGTATTGGGTTCGTCGTTGCGGTCTTAACCTTTCCCTTTACAT
66 -CTTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCGTTACGGTCTCAACCTTTCCCTTTACAT
* *
67220 CTTTATGGTATCGGGTTCG
130 CTTCATGGTACCGGGTTCG
* *
67239 CCGTTGCAGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCC
1 CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCC
67291 TTTCCCATCA
Statistics
Matches: 300, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
149 195 0.65
150 33 0.11
151 71 0.24
152 1 0.00
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.35
Consensus pattern (148 bp):
CCGTTACGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGTTCGCCGTTACGGCCTCAA
CTTTCCCTTCACATCTTCTTAGGTATCGGGTTCGCCGTTACGGTCTCAACCTTTCCCTTTACATC
TTCATGGTACCGGGTTCG
Found at i:67300 original size:35 final size:35
Alignment explanation
Indices: 67254--67323 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
67244 GCAGCCTCAA
67254 CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
1 CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
*
67289 CCTTTCCCATCACATCTTCTTAGGTACTGGGTTCG
1 CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
67324 TCATTACAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.14, C:0.33, G:0.17, T:0.36
Consensus pattern (35 bp):
CCTTTCCCATCACATCTTCTTAGGTACCGGGTTCG
Found at i:68264 original size:12 final size:11
Alignment explanation
Indices: 68246--68297 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
68236 TTCTTTTTCC
68246 TTTTTCTTGTT
1 TTTTTCTTGTT
68257 TTTCTTCTTGTT
1 TTT-TTCTTGTT
*
68269 TTTTTCTT-CT
1 TTTTTCTTGTT
68279 TTTTTCTT-TT
1 TTTTTCTTGTT
68289 TTCTTTCTT
1 TT-TTTCTT
68298 CATTGAATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 12 0.32
11 14 0.38
12 11 0.30
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTCTTGTT
Found at i:68285 original size:21 final size:21
Alignment explanation
Indices: 68233--68298 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
68223 TCGACCTCTC
*
68233 CTTTTCTT-TTTCCTTTTTCTT
1 CTTTTCTTCTTT-TTTTTTCTT
*
68254 GTTTTTCTTCTTGTTTTTTTCTT
1 -CTTTTCTTCTT-TTTTTTTCTT
68277 CTTTT-TTCTTTTTTCTTTCTT
1 CTTTTCTTCTTTTTT-TTTCTT
68298 C
1 C
68299 ATTGAATCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.11
21 12 0.32
22 11 0.29
23 10 0.26
24 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (21 bp):
CTTTTCTTCTTTTTTTTTCTT
Found at i:68287 original size:7 final size:7
Alignment explanation
Indices: 68234--68294 Score: 52
Period size: 7 Copynumber: 8.1 Consensus size: 7
68224 CGACCTCTCC
68234 TTTTC-T
1 TTTTCTT
*
68240 TTTTCCT
1 TTTTCTT
68247 TTTTCTTGT
1 TTTTC-T-T
68256 TTTTCTT
1 TTTTCTT
*
68263 CTTGTTTTT
1 -TT-TTCTT
68272 TTCTTCTT
1 TT-TTCTT
68280 TTTTCTT
1 TTTTCTT
68287 TTTTCTT
1 TTTTCTT
68294 T
1 T
68295 CTTCATTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
6 5 0.11
7 20 0.43
8 11 0.24
9 10 0.22
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:72002 original size:18 final size:18
Alignment explanation
Indices: 71979--72015 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71969 TTTGTGATCA
71979 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
71997 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
72015 A
1 A
72016 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:74674 original size:29 final size:29
Alignment explanation
Indices: 74632--74688 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
74622 TAAGTTAAAA
74632 GGGAGTGTCCTTTAAGAATGAAAGGTTAT
1 GGGAGTGTCCTTTAAGAATGAAAGGTTAT
74661 GGGAGTGTCCTTTAAGAATGAAAGGTTA
1 GGGAGTGTCCTTTAAGAATGAAAGGTTA
74689 AGATTTAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.30
Consensus pattern (29 bp):
GGGAGTGTCCTTTAAGAATGAAAGGTTAT
Found at i:79829 original size:29 final size:29
Alignment explanation
Indices: 79797--79895 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
79787 CAAAAATACG
*
79797 ATTTTTGGATGTCCGGAGGCAAAATGGTA
1 ATTTTTAGATGTCCGGAGGCAAAATGGTA
** *
79826 ATTTTTAGA-CACTCGGGGGCAAAATGGTA
1 ATTTTTAGATGTC-CGGAGGCAAAATGGTA
* *
79855 ATTTTTAGACGAT-CGGGGGCAAAATGGTA
1 ATTTTTAGATG-TCCGGAGGCAAAATGGTA
*
79884 ATTTTTTGATGT
1 ATTTTTAGATGT
79896 TCGAGTGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (29 bp):
ATTTTTAGATGTCCGGAGGCAAAATGGTA
Found at i:79930 original size:30 final size:29
Alignment explanation
Indices: 79875--79951 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
79865 GATCGGGGGC
* *
79875 AAAATGGTAATTTTTTG-ATGTTCGA-GTGT
1 AAAA-GGTAATTTTTGGAAAGTTCGAGGT-T
*
79904 AAAGCGGTAATTTTTGGAAAGTTCGAGGTT
1 AAA-AGGTAATTTTTGGAAAGTTCGAGGTT
*
79934 AAAATGTAATTTTTGGAA
1 AAAAGGTAATTTTTGGAA
79952 GTTTAGGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 27 0.68
30 11 0.28
31 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.39
Consensus pattern (29 bp):
AAAAGGTAATTTTTGGAAAGTTCGAGGTT
Found at i:79946 original size:28 final size:29
Alignment explanation
Indices: 79910--80368 Score: 121
Period size: 30 Copynumber: 15.6 Consensus size: 29
79900 GTGTAAAGCG
*
79910 GTAATTTTTGGAAAGTTCGA-GGTTAAAAT
1 GTAA-TTTTGGAAAGTTCGAGGGGTAAAAT
*
79939 GTAATTTTTGG-AAGTT-TAGGGGTAAAAT
1 GTAA-TTTTGGAAAGTTCGAGGGGTAAAAT
**
79967 GATAATTTT-GAAAGTTCGAGGGCAAAAAAT
1 G-TAATTTTGGAAAGTTCGAGGG-GTAAAAT
* * * *
79997 GTGATTTTTGGAAAGTT-AAAGGTTATAAAT
1 GT-AATTTTGGAAAGTTCGAGGGGTA-AAAT
*
80027 G-ATATTTTTGAAAGTTC-AGGGGTAAAAT
1 GTA-ATTTTGGAAAGTTCGAGGGGTAAAAT
* *
80055 AGTAATTTTTTG-AAGTTTG-GGGGTAAAAAT
1 -GTAA-TTTTGGAAAGTTCGAGGGGT-AAAAT
* * * * *
80085 GTGATTTTTAGAAAATT--TGGGATCAAAAAT
1 GT-AATTTTGGAAAGTTCGAGGGGT--AAAAT
* * * *
80115 GATATTTTTAG-AAGTTTGGGGGGTAAAAAT
1 G-TAATTTTGGAAAGTTCGAGGGGT-AAAAT
** *
80145 AAAATTTTTGTG-AAGTTC--GGGGT-CAAT
1 GTAA-TTTTG-GAAAGTTCGAGGGGTAAAAT
* *
80172 GTGATTTTGGAAAAGTT-TAGGGGTCAAAAT
1 GTAATTTTGG-AAAGTTCGAGGGGT-AAAAT
* *
80202 GGTAATTTTGGAAAATTCG-GGGGCCAAAAT
1 -GTAATTTTGGAAAGTTCGAGGGG-TAAAAT
* ** * *
80232 ATAATTTTTGGAAAGTTTAAAGGTTAAAAT
1 GTAA-TTTTGGAAAGTTCGAGGGGTAAAAT
* * * *
80262 ATAATTTTTAGAAAGTT-TAGGGTTAAAAT
1 GTAA-TTTTGGAAAGTTCGAGGGGTAAAAT
* * * **
80291 GCAAATTTGAAAAGTTTTAGGGGTAAAAAT
1 GTAATTTTGGAAAGTTCGAGGGGT-AAAAT
* * ** *
80321 GTCATTTTGGGAAAATTCGA-GGAAAAAAC
1 GTAATTTT-GGAAAGTTCGAGGGGTAAAAT
*
80350 GTGATTTTTGGAAAGTTCG
1 GT-AATTTTGGAAAGTTCG
80369 GGGACCTTCT
Statistics
Matches: 326, Mismatches: 65, Indels: 78
0.70 0.14 0.17
Matches are distributed among these distances:
25 1 0.00
26 5 0.02
27 11 0.03
28 42 0.13
29 105 0.32
30 126 0.39
31 36 0.11
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
GTAATTTTGGAAAGTTCGAGGGGTAAAAT
Found at i:79964 original size:58 final size:58
Alignment explanation
Indices: 79911--80362 Score: 229
Period size: 59 Copynumber: 7.7 Consensus size: 58
79901 TGTAAAGCGG
*
79911 TAATTTTTGGAAAGTTCGA-GGTTAAAATGTAATTTTTGGAAGTTTAGGGGTAAAATGA
1 TAATTTTT-GAAAGTTCGAGGGATAAAATGTAATTTTTGGAAGTTTAGGGGTAAAATGA
* * * * *
79969 TAA-TTTTGAAAGTTCGAGGGCAAAAAATGTGATTTTTGGAAAGTTAAAGGTTATAAATGA
1 TAATTTTTGAAAGTTCGAGGG-ATAAAATGTAATTTTTGG-AAGTTTAGGGGTA-AAATGA
* * *
80029 T-ATTTTTGAAAGTTC-AGGGGTAAAATAGTAATTTTTTGAAGTTTGGGGGTAAAAATG-
1 TAATTTTTGAAAGTTCGAGGGATAAAAT-GTAATTTTTGGAAGTTTAGGGGT-AAAATGA
* * * * *
80086 TGATTTTTAGAAAATT--TGGGATCAAAAATG-ATATTTTTAGAAGTTTGGGGGGTAAAAAT-A
1 TAATTTTT-GAAAGTTCGAGGGAT--AAAATGTA-ATTTTTGGAAGTTT-AGGGGT-AAAATGA
* * * * *
80146 AAATTTTTGTGAAGTTCG-GGG-T-CAATGTGA-TTTTGGAAAAGTTTAGGGGTCAAAATGG
1 TAATTTTTG-AAAGTTCGAGGGATAAAATGTAATTTTTGG--AAGTTTAGGGGT-AAAATGA
* * * ** * * *
80204 TAATTTTGGAAAATTCGGGGGCCAAAATATAATTTTTGGAAAGTTTAAAGGTTAAAAT-A
1 TAATTTTTGAAAGTTCGAGGGATAAAATGTAATTTTTGG-AAGTTT-AGGGGTAAAATGA
* * * * *
80263 TAATTTTTAGAAAGTT-TAGGGTTAAAATGCAA-ATTTGAAAAGTTTTAGGGGTAAAAATG-
1 TAATTTTT-GAAAGTTCGAGGGATAAAATGTAATTTTTG-GAAG-TTTAGGGGT-AAAATGA
* * * * * *
80322 TCATTTTGGGAAAATTCGA-GGAAAAAACGTGATTTTTGGAA
1 TAATTTT-TGAAAGTTCGAGGGATAAAATGTAATTTTTGGAA
80363 AGTTCGGGGA
Statistics
Matches: 298, Mismatches: 62, Indels: 67
0.70 0.15 0.16
Matches are distributed among these distances:
56 15 0.05
57 28 0.09
58 74 0.25
59 93 0.31
60 75 0.25
61 13 0.04
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
TAATTTTTGAAAGTTCGAGGGATAAAATGTAATTTTTGGAAGTTTAGGGGTAAAATGA
Found at i:79966 original size:87 final size:89
Alignment explanation
Indices: 79870--80071 Score: 225
Period size: 87 Copynumber: 2.3 Consensus size: 89
79860 TAGACGATCG
* * * * ** **
79870 GGGGCAAAATGGTAATTTTTTGATGTTCGAGTG-TAAAGCGGTAATTTTTGGAAAGTTCGAGGTT
1 GGGGTAAAATGGTAATTTTTTGAAGTTCGAGGGCAAAAAAGGTAATTTTTGGAAAGTTAAAGGTT
* *
79934 A-AAATG-TAATTTTTGGAAGTTTA
66 ATAAATGAT-ATTTTTGAAAGTTCA
* * *
79957 GGGGTAAAATGATAA--TTTTGAAAGTTCGAGGGCAAAAAATGTGATTTTTGGAAAGTTAAAGGT
1 GGGGTAAAATGGTAATTTTTTG-AAGTTCGAGGGCAAAAAAGGTAATTTTTGGAAAGTTAAAGGT
80020 TATAAATGATATTTTTGAAAGTTCA
65 TATAAATGATATTTTTGAAAGTTCA
*
80045 GGGGTAAAATAGTAATTTTTTGAAGTT
1 GGGGTAAAATGGTAATTTTTTGAAGTT
80072 TGGGGGTAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
85 5 0.05
86 9 0.10
87 38 0.40
88 31 0.33
89 6 0.06
90 5 0.05
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (89 bp):
GGGGTAAAATGGTAATTTTTTGAAGTTCGAGGGCAAAAAAGGTAATTTTTGGAAAGTTAAAGGTT
ATAAATGATATTTTTGAAAGTTCA
Found at i:80054 original size:88 final size:86
Alignment explanation
Indices: 79913--80098 Score: 225
Period size: 88 Copynumber: 2.1 Consensus size: 86
79903 TAAAGCGGTA
** * *
79913 ATTTTTGGAAAGTTCGAGGTTAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAT-GATAA-TTTT
1 ATTTTTGGAAAGTTAAAGGTTAAAATGTAATTTTTGAAAGTTCAGGGGTAAAATAG-TAATTTTT
79976 GAAAGTTCGAGGGCAAAAAATGTG
65 G-AAGTTCG-GGGCAAAAAATGTG
80000 ATTTTTGGAAAGTTAAAGGTTATAAATG-ATATTTTTGAAAGTTCAGGGGTAAAATAGTAATTTT
1 ATTTTTGGAAAGTTAAAGGTTA-AAATGTA-ATTTTTGAAAGTTCAGGGGTAAAATAGTAA-TTT
* **
80064 TTGAAGTTTGGGGGTAAAAATGTG
63 TTGAAGTTCGGGGCAAAAAATGTG
*
80088 ATTTTTAGAAA
1 ATTTTTGGAAA
80099 ATTTGGGATC
Statistics
Matches: 86, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
87 21 0.24
88 53 0.62
89 7 0.08
90 5 0.06
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (86 bp):
ATTTTTGGAAAGTTAAAGGTTAAAATGTAATTTTTGAAAGTTCAGGGGTAAAATAGTAATTTTTG
AAGTTCGGGGCAAAAAATGTG
Found at i:81279 original size:22 final size:22
Alignment explanation
Indices: 81245--81286 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
81235 AAAAATATGC
*
81245 TTTAAGATTGTTA-TATTTTCT
1 TTTAAAATTGTTATTATTTTCT
81266 TTTAAAATATGTTATTATTTT
1 TTTAAAAT-TGTTATTATTTT
81287 TTACATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTAAAATTGTTATTATTTTCT
Found at i:82229 original size:34 final size:34
Alignment explanation
Indices: 82191--82255 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
82181 AAATTTTAAA
82191 TTTAAATTCAAAATAAACTTAAACTCAAAATAAG
1 TTTAAATTCAAAATAAACTTAAACTCAAAATAAG
* * *
82225 TTTAAATTTAAAATAAATTTAAACTTAAAAT
1 TTTAAATTCAAAATAAACTTAAACTCAAAAT
82256 TTAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (34 bp):
TTTAAATTCAAAATAAACTTAAACTCAAAATAAG
Found at i:82252 original size:17 final size:17
Alignment explanation
Indices: 82187--82255 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 17
82177 AATTAAATTT
82187 TAAATTTAAA-TTCAAAA
1 TAAATTTAAACTT-AAAA
* *
82204 TAAACTTAAACTCAAAA
1 TAAATTTAAACTTAAAA
* *
82221 TAAGTTTAAATTTAAAA
1 TAAATTTAAACTTAAAA
82238 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
82255 T
1 T
82256 TTAATTTTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 42 0.98
18 1 0.02
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:84796 original size:11 final size:11
Alignment explanation
Indices: 84780--84821 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
84770 TTTTTTTCAC
84780 TGTTGTTTTGT
1 TGTTGTTTTGT
84791 TGTTG-TTTGT
1 TGTTGTTTTGT
** *
84801 TGTCATTTTGA
1 TGTTGTTTTGT
84812 TGTTGTTTTG
1 TGTTGTTTTG
84822 CTATTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.05, C:0.02, G:0.26, T:0.67
Consensus pattern (11 bp):
TGTTGTTTTGT
Found at i:85497 original size:22 final size:22
Alignment explanation
Indices: 85460--85509 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
85450 TTTCTTGTTG
*
85460 TTTTA-TACTATTTTGCTACCA
1 TTTTATTACTATATTGCTACCA
*
85481 TTTTATTACTATATTGCTACTA
1 TTTTATTACTATATTGCTACCA
85503 TTTTATT
1 TTTTATT
85510 GTTATTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTATTACTATATTGCTACCA
Found at i:88798 original size:9 final size:9
Alignment explanation
Indices: 88766--88797 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
88756 CTCACTATCA
88766 TCTTCATCG
1 TCTTCATCG
88775 TCTTCATCG
1 TCTTCATCG
*
88784 TCTTCGTCG
1 TCTTCATCG
88793 TCTTC
1 TCTTC
88798 GAATGATCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.06, C:0.34, G:0.12, T:0.47
Consensus pattern (9 bp):
TCTTCATCG
Found at i:89751 original size:18 final size:18
Alignment explanation
Indices: 89728--89771 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
89718 TCTCTCTCTC
* *
89728 TATATATATGTGTGTCTG
1 TATATATATATGTGTATG
*
89746 TATATAGATATGTGTATG
1 TATATATATATGTGTATG
*
89764 TATGTATA
1 TATATATA
89772 ATTCTATGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (18 bp):
TATATATATATGTGTATG
Found at i:99216 original size:25 final size:24
Alignment explanation
Indices: 99158--99217 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
99148 AGAATATTGT
*
99158 TTAAAATGTATTATTTATTTTCAA
1 TTAAAATATATTATTTATTTTCAA
* *
99182 ATAAGA-ATATTATATTATTTATC-A
1 TTAAAATATATTAT-TTATTT-TCAA
99206 TTAAAATATATT
1 TTAAAATATATT
99218 TTACGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 6 0.21
24 15 0.54
25 7 0.25
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (24 bp):
TTAAAATATATTATTTATTTTCAA
Found at i:100275 original size:64 final size:64
Alignment explanation
Indices: 100196--100319 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
100186 TTATATTTAT
*
100196 ATATTTAAAAATAAAAAATATTATTTTATCGGTAGAGCGTTTTGAAGTGGCGGCACTAGGTTAC
1 ATATTTAAAAATAAAAAATATTATTTTATCAGTAGAGCGTTTTGAAGTGGCGGCACTAGGTTAC
*
100260 ATATTTAAAAATAAAAAATATTATTTTATCAGTAGAGCGTTTTGAAGTGGTGGCACTAGG
1 ATATTTAAAAATAAAAAATATTATTTTATCAGTAGAGCGTTTTGAAGTGGCGGCACTAGG
100320 GGTTTTTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (64 bp):
ATATTTAAAAATAAAAAATATTATTTTATCAGTAGAGCGTTTTGAAGTGGCGGCACTAGGTTAC
Found at i:100484 original size:19 final size:19
Alignment explanation
Indices: 100462--100499 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
100452 TATACCGTGC
*
100462 GTGTGTGTTTATTTTATTT
1 GTGTGTGTTAATTTTATTT
100481 GTGTGTGTTAATTTTATTT
1 GTGTGTGTTAATTTTATTT
100500 TGATTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (19 bp):
GTGTGTGTTAATTTTATTT
Found at i:100628 original size:20 final size:20
Alignment explanation
Indices: 100587--100642 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
100577 AAATAAACGG
*
100587 GAAAGAAAGAAAGAGA-GAAA
1 GAAAG-AAGAAGGAGAGGAAA
*
100607 GAAGGAAGAAGGAGAGGAAA
1 GAAAGAAGAAGGAGAGGAAA
100627 GAAAGAAGAAGGAGAG
1 GAAAGAAGAAGGAGAG
100643 AAAAATAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (20 bp):
GAAAGAAGAAGGAGAGGAAA
Found at i:104880 original size:45 final size:45
Alignment explanation
Indices: 104757--104893 Score: 186
Period size: 45 Copynumber: 3.0 Consensus size: 45
104747 TGGAGGAGTA
*
104757 GAGTATTACGGTGGCTCGTCAAACTGAA-TCTGATATCCTTGGCTA
1 GAGTATTACGGTGGCTCGTCAAACT-AAGTCTGATATCCTTGGCTT
* *
104802 GAGTATTATGGTGGCTCGTCAAACTGAGTCTGATATCCTTGGCTT
1 GAGTATTACGGTGGCTCGTCAAACTAAGTCTGATATCCTTGGCTT
* * * * *
104847 GAGTATTGCGGTGGCTCGTTAAAGTAAGGCTGATATACTTGGCTT
1 GAGTATTACGGTGGCTCGTCAAACTAAGTCTGATATCCTTGGCTT
104892 GA
1 GA
104894 TAAGCTAGGG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 80 0.99
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (45 bp):
GAGTATTACGGTGGCTCGTCAAACTAAGTCTGATATCCTTGGCTT
Found at i:106842 original size:16 final size:16
Alignment explanation
Indices: 106821--106869 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
106811 TGATGGAGAT
106821 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
106837 ATTATTTTTAT-ATT-
1 ATTATTTTGATAATTA
*
106851 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
106866 ATTA
1 ATTA
106870 GTTAGGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 7 0.26
14 4 0.15
15 4 0.15
16 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:107537 original size:17 final size:17
Alignment explanation
Indices: 107515--107550 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
107505 TACTTACTAC
107515 TACTAACAAAATAAAAT
1 TACTAACAAAATAAAAT
*
107532 TACTAACAAAATTAAAT
1 TACTAACAAAATAAAAT
107549 TA
1 TA
107551 AAGTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (17 bp):
TACTAACAAAATAAAAT
Found at i:123652 original size:12 final size:11
Alignment explanation
Indices: 123611--123648 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
123601 AAAACTTTTG
123611 ATTTTAAA-TT
1 ATTTTAAATTT
*
123621 AGGTTTAAATTT
1 A-TTTTAAATTT
123633 ATTTTAAATTT
1 ATTTTAAATTT
123644 ATTTT
1 ATTTT
123649 TAAAACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 20 0.83
12 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:125518 original size:29 final size:28
Alignment explanation
Indices: 125475--125663 Score: 94
Period size: 28 Copynumber: 6.5 Consensus size: 28
125465 CTAAACTTCA
125475 CAAAAATTACA-TTTTGCCCTTGAACTTT
1 CAAAAATTACATTTTTGCCCTT-AACTTT
* * ** *
125503 CGAAAATTCCATTTTTGATCTTAATTTT
1 CAAAAATTACATTTTTGCCCTTAACTTT
* *
125531 CCAAAAATAACATTTTTACCCCTTAACTTT
1 -CAAAAATTACATTTTT-GCCCTTAACTTT
* * ** **
125561 CCAAAATTCCA-TTTTAACCTTGATTTTT
1 CAAAAATTACATTTTTGCCCTT-AACTTT
** **
125589 CCAAAAAATTACATTTTACCCCCAAACTTT
1 -C-AAAAATTACATTTTTGCCCTTAACTTT
* * * *
125619 CCAAAATTCCATTTTTGACCTTGAATTTTT
1 CAAAAATTACATTTTTGCCCTT-AA-CTTT
*
125649 TAAAAATTACATTTT
1 CAAAAATTACATTTT
125664 ACCCCCAAAC
Statistics
Matches: 113, Mismatches: 39, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
27 4 0.04
28 36 0.32
29 33 0.29
30 35 0.31
31 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (28 bp):
CAAAAATTACATTTTTGCCCTTAACTTT
Found at i:125559 original size:58 final size:58
Alignment explanation
Indices: 125475--125682 Score: 251
Period size: 58 Copynumber: 3.6 Consensus size: 58
125465 CTAAACTTCA
* * *
125475 CAAAAATTACATTTT-GCCCTTGAACTTTCGAAAATTCCATTTTTGATCTT-AATTTTC
1 CAAAAATTACATTTTACCCCTT-AACTTTCCAAAATTCCATTTTTGACCTTGAATTTTC
* * *
125532 CAAAAATAACATTTTTACCCCTTAACTTTCCAAAATTCCA-TTTTAACCTTGATTTTTC
1 CAAAAATTACA-TTTTACCCCTTAACTTTCCAAAATTCCATTTTTGACCTTGAATTTTC
** *
125590 CAAAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTTGAATTTTT
1 C-AAAAATTACATTTTACCCCTTAACTTTCCAAAATTCCATTTTTGACCTTGAATTTTC
* ** *
125649 TAAAAATTACATTTTACCCCCAAACCTTCCAAAA
1 CAAAAATTACATTTTACCCCTTAACTTTCCAAAA
125683 ATTACTATTT
Statistics
Matches: 132, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
57 18 0.14
58 85 0.64
59 29 0.22
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (58 bp):
CAAAAATTACATTTTACCCCTTAACTTTCCAAAATTCCATTTTTGACCTTGAATTTTC
Found at i:125620 original size:30 final size:29
Alignment explanation
Indices: 125528--125747 Score: 119
Period size: 30 Copynumber: 7.5 Consensus size: 29
125518 TGATCTTAAT
* **
125528 TTTCCAAAAATAACATTTTTACCCCTTAAC
1 TTTCCAAAAATTACA-TTTTACCCCCAAAC
* * *** **
125558 TTTCC-AAAATTCCATTTTAACCTTGATT
1 TTTCCAAAAATTACATTTTACCCCCAAAC
125586 TTTCCAAAAAATTACATTTTACCCCCAAAC
1 TTTCC-AAAAATTACATTTTACCCCCAAAC
* *** *
125616 TTTCC-AAAATTCCATTTTTGA-CCTTGAAT
1 TTTCCAAAAATTACA-TTTT-ACCCCCAAAC
**
125645 TTTTTAAAAATTACATTTTACCCCCAAAC
1 TTTCCAAAAATTACATTTTACCCCCAAAC
* *
125674 CTTCCAAAAATTACTATTTTACCCCCGAA-
1 TTTCCAAAAATTAC-ATTTTACCCCCAAAC
* *
125703 TGTCTAAAAA-TACCATTTTGTGA-CCCCAAAC
1 TTTCCAAAAATTA-CA-TTT-T-ACCCCCAAAC
*
125734 CTTCCAAAAATTAC
1 TTTCCAAAAATTAC
125748 CATTATACTC
Statistics
Matches: 140, Mismatches: 37, Indels: 25
0.69 0.18 0.12
Matches are distributed among these distances:
28 26 0.19
29 48 0.34
30 55 0.39
31 9 0.06
32 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTCCAAAAATTACATTTTACCCCCAAAC
Found at i:125683 original size:29 final size:29
Alignment explanation
Indices: 125587--125747 Score: 100
Period size: 29 Copynumber: 5.4 Consensus size: 29
125577 ACCTTGATTT
*
125587 TTCCAAAAAATTACATTTTACCCCCAAACT
1 TTCC-AAAAATTACATTTTACCCCCAAACC
* *** **
125617 TTCC-AAAATTCCATTTTTGA-CCTTGAATT
1 TTCCAAAAATTACA-TTTT-ACCCCCAAACC
**
125646 TTTTAAAAATTACATTTTACCCCCAAACC
1 TTCCAAAAATTACATTTTACCCCCAAACC
*
125675 TTCCAAAAATTACTATTTTACCCCCGAA--
1 TTCCAAAAATTAC-ATTTTACCCCCAAACC
*
125703 TGTCTAAAAA-TACCATTTTGTGA-CCCCAAACC
1 T-TCCAAAAATTA-CA-TTT-T-ACCCCCAAACC
125735 TTCCAAAAATTAC
1 TTCCAAAAATTAC
125748 CATTATACTC
Statistics
Matches: 99, Mismatches: 19, Indels: 25
0.69 0.13 0.17
Matches are distributed among these distances:
28 13 0.13
29 41 0.41
30 33 0.33
31 9 0.09
32 3 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTACCCCCAAACC
Found at i:125713 original size:116 final size:116
Alignment explanation
Indices: 125476--125712 Score: 262
Period size: 116 Copynumber: 2.0 Consensus size: 116
125466 TAAACTTCAC
* *** * *
125476 AAAAATTACATTTTGCCCTTGAACTTTCGAAAATTCCATTTTTGATCTTAATTTTCCAAAAATAA
1 AAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTTAATTTTCCAAAAATAA
** * ** * *
125541 CATTTTTACCCCTTAACTTTCCAAAATTCCATTTTAACCTTGATTTTTCCA
66 CATTTTTACCCCCAAACCTTCCAAAATTCCATTTTAACCCCGATATGTCCA
** *
125592 AAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTTGAATTTTTTAAAAATT
1 AAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTT-AATTTTCCAAAAATA
* * *
125657 ACA-TTTTACCCCCAAACCTTCCAAAAATTACTATTTTACCCCCGA-ATGTCTA
65 ACATTTTTACCCCCAAACCTTCC-AAAATT-CCATTTTAACCCCGATATGTCCA
125709 AAAA
1 AAAA
125713 TACCATTTTG
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
116 59 0.60
117 29 0.29
118 11 0.11
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (116 bp):
AAAAATTACATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTTAATTTTCCAAAAATAA
CATTTTTACCCCCAAACCTTCCAAAATTCCATTTTAACCCCGATATGTCCA
Found at i:125739 original size:60 final size:59
Alignment explanation
Indices: 125592--125812 Score: 213
Period size: 60 Copynumber: 3.8 Consensus size: 59
125582 GATTTTTCCA
* * ** * *
125592 AAAAATTACA-TTTTACCCCCAAACTTTCC-AAAATT-CCATTTTTGA-CCTTGAATTTTTT
1 AAAAATTACATTTTTAACCCCAAACCTTCCAAAAATTACCA-TTTT-ACCCCCGAA-TGTCT
* *
125650 AAAAATTACA-TTTTACCCCCAAACCTTCCAAAAATTACTATTTTACCCCCGAATGTCT
1 AAAAATTACATTTTTAACCCCAAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* * * *
125708 AAAAA-TACCATTTTGTGACCCCAAACCTTCCAAAAATTACCATTATACTCCCGGATGTCT
1 AAAAATTA-CATTTT-TAACCCCAAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
* *
125768 AAAAATTATATTTTTAACCTCGAAA-CTTCCAAAAATTACCATTTT
1 AAAAATTACATTTTTAACC-CCAAACCTTCCAAAAATTACCATTTT
125813 TTTCCCGAAG
Statistics
Matches: 139, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.01
58 39 0.28
59 41 0.29
60 55 0.40
61 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (59 bp):
AAAAATTACATTTTTAACCCCAAACCTTCCAAAAATTACCATTTTACCCCCGAATGTCT
Found at i:132828 original size:43 final size:43
Alignment explanation
Indices: 132781--133139 Score: 337
Period size: 43 Copynumber: 8.3 Consensus size: 43
132771 TTTTTCAAAA
* * *
132781 AAACGCCGCTAAATAACATTGTCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
132824 AAACGCTGCTAAAGAACATGGTCTTTAGTGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
*** *
132867 AAATGCCGCTAACGCTAAAGAACATGGTCTTTAGCAATGC-TTTCCAAC
1 AAA---CGC---CGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
*
132915 AAATGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTT-CCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * * **
132957 AAACGCCACTAAAGATCGTGGTCTTTAGCGGCGCTTTTTCCTT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * ** * *
133000 AAACGCCGCGAAAGAAAAT-GTCTTTAACAACACTTTTCCCTC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * **
133042 AAACACCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCTTC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* ** * *
133085 AAACGCCACTAAAGAACATAATCTTTAGCGGCGCTTTTACCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
*
133128 AAACGCTGCTAA
1 AAACGCCGCTAA
133140 CGTTAACAGA
Statistics
Matches: 254, Mismatches: 53, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
42 95 0.37
43 122 0.48
45 2 0.01
46 3 0.01
48 9 0.04
49 23 0.09
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:133523 original size:41 final size:41
Alignment explanation
Indices: 133462--133545 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
133452 TGTATATAAA
* * *
133462 TTAGCGGCGTTTTCCCATAAACGTCGCTATTGCT-TAACCT
1 TTAGCAGCGTTTTCCCATAAACATCGCTAATGCTCTAACCT
*
133502 TTAGCAGCGTTTTTCCCATAAACATCGCTAATGCTCTTACCT
1 TTAGCAGCG-TTTTCCCATAAACATCGCTAATGCTCTAACCT
133544 TT
1 TT
133546 TACGGCGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 8 0.21
41 23 0.61
42 7 0.18
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (41 bp):
TTAGCAGCGTTTTCCCATAAACATCGCTAATGCTCTAACCT
Found at i:133789 original size:6 final size:6
Alignment explanation
Indices: 133778--133872 Score: 67
Period size: 6 Copynumber: 16.7 Consensus size: 6
133768 GGCCTAACAT
* * * *
133778 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * *
133823 ACTTAA AATTTA AATTT- -ATTATA AATTT- GAGTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA
133869 AATT
1 AATT
133873 AATGTCCAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
4 3 0.04
5 15 0.22
6 46 0.69
7 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:133848 original size:17 final size:17
Alignment explanation
Indices: 133778--133872 Score: 95
Period size: 17 Copynumber: 5.6 Consensus size: 17
133768 GGCCTAACAT
*
133778 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
* *
133795 AAATTAAATTTATTTTA
1 AATTTAAATTTATTATA
*
133812 AGTTTAAATTTACTTA-A
1 AATTTAAATTTA-TTATA
133829 AATTTAAATTTATTATA
1 AATTTAAATTTATTATA
* * *
133846 AATTTGAGTTAAATT-TA
1 AATTTAAATT-TATTATA
133863 AATTTAAATT
1 AATTTAAATT
133873 AATGTCCAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.05
17 57 0.88
18 5 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:134576 original size:3 final size:3
Alignment explanation
Indices: 134561--134675 Score: 77
Period size: 3 Copynumber: 36.0 Consensus size: 3
134551 AAGGTTCTAT
* * * * **
134561 TAA TAA TAT TAA TAA TGA TAT TAG TAA TAA GTAA TGG TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA
*** *
134608 CCT TAA TAA TTAT TAA TGAA ATAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA T-AA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
134656 TAA TAA TTAA TAA TTAA TAA
1 TAA TAA -TAA TAA -TAA TAA
134676 CCAAAAAAGG
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
3 67 0.78
4 18 0.21
5 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:135816 original size:30 final size:29
Alignment explanation
Indices: 135762--136226 Score: 269
Period size: 30 Copynumber: 15.4 Consensus size: 29
135752 CCCATTTTTG
* *
135762 AAATTACATTTTTACCCTAAAACTTCCAA
1 AAATTCCATTTTTACCCCAAAACTTCCAA
135791 AAATTCCATTTTTAACCCCAAAACTTCCAAA
1 AAATTCCATTTTT-ACCCCAAAACTTCC-AA
* * ** * *
135822 AAATTACAATTTTACCCTTAAACTATTCGA
1 AAATTCCATTTTTACCCCAAAACT-TCCAA
* *** * *
135852 AAATCCCATTTTTGACCTTGAAACTTCTAG
1 AAATTCCATTTTT-ACCCCAAAACTTCCAA
*
135882 AAATTACATTTTTACCCTC-AAACTTCCAA
1 AAATTCCATTTTTACCC-CAAAACTTCCAA
*
135911 AAATTCCATTTTTAACCCAAAAACTTCCAAA
1 AAATTCCATTTTT-ACCCCAAAACTTCC-AA
* ** * *
135942 AAATTACATTTTTACCCTTAAACTATTCGA
1 AAATTCCATTTTTACCCCAAAACT-TCCAA
*** * *
135972 AAATTCCATTTTTGACCTTGAAACTTCTAG
1 AAATTCCATTTTT-ACCCCAAAACTTCCAA
*
136002 AAATTACATTTTTACCCCTGAACAACTTCCAA
1 AAATTCCATTTTTACCCC--AA-AACTTCCAA
* *
136034 AAATTCCATTTTTGACCTCGAAACTTCCAAA
1 AAATTCCATTTTT-ACCCCAAAACTTCC-AA
* * * *
136065 AAATTACATTTTTACTCCC-GATCTTCAAA
1 AAATTCCATTTTTAC-CCCAAAACTTCCAA
*** *
136094 AAATTCCATTTTTGACCTTGAAACTTCAAAAAA
1 AAATTCCATTTTT-ACCCCAAAACTTC---CAA
* *
136127 AAATACCA-TTTTACCCCCAAA-TGTCCAA
1 AAATTCCATTTTTACCCCAAAACT-TCCAA
* *
136155 AATTTCCATTTTTTAACCCCAAAACTTTCAA
1 AAATTCCA-TTTTT-ACCCCAAAACTTCCAA
* *
136186 AAATTACC-CTTTTACACCC-GAA-TGTCCAA
1 AAATT-CCATTTTTAC-CCCAAAACT-TCCAA
136215 AAATTCCATTTT
1 AAATTCCATTTT
136227 GATCCCGATT
Statistics
Matches: 336, Mismatches: 70, Indels: 60
0.72 0.15 0.13
Matches are distributed among these distances:
28 11 0.03
29 69 0.21
30 125 0.37
31 91 0.27
32 26 0.08
33 14 0.04
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATTCCATTTTTACCCCAAAACTTCCAA
Found at i:135835 original size:60 final size:61
Alignment explanation
Indices: 135762--136226 Score: 416
Period size: 60 Copynumber: 7.7 Consensus size: 61
135752 CCCATTTTTG
* * * *
135762 AAATTACATTTTTACCCTAAAACT-TCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAA
1 AAATTACATTTTTACCCTCAAACTATCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
* * * * * * * *
135822 AAATTACAATTTTACCCTTAAACTATTCGAAAATCCCATTTTTGACCTTGAAACTT-CTAG
1 AAATTACATTTTTACCCTCAAACTATCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
* *
135882 AAATTACATTTTTACCCTCAAACT-TCCAAAAATTCCATTTTTAACC-CAAAAACTTCCAAA
1 AAATTACATTTTTACCCTCAAACTATCCAAAAATTCCATTTTTGACCTC-GAAACTTCCAAA
* * * * * *
135942 AAATTACATTTTTACCCTTAAACTATTCGAAAATTCCATTTTTGACCTTGAAACTT-CTAG
1 AAATTACATTTTTACCCTCAAACTATCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
*
136002 AAATTACATTTTTACCCCTGAACAACT-TCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
1 AAATTACATTTTTA-CCCT-CA-AACTATCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
* * * * *
136065 AAATTACATTTTTACTCC-CGATCT-TCAAAAAATTCCATTTTTGACCTTGAAACTTCAAAAA
1 AAATTACATTTTTAC-CCTCAAACTATCCAAAAATTCCATTTTTGACCTCGAAACTTC-CAAA
* * * * * * * *
136126 AAAATACCA-TTTTACCCCCAAA-TGTCCAAAATTTCCATTTTTTAACCCCAAAACTTTC-AA
1 AAATTA-CATTTTTACCCTCAAACTATCCAAAAATTCCA-TTTTTGACCTCGAAACTTCCAAA
** * *
136186 AAATTACCCTTTTACACC-CGAA-TGTCCAAAAATTCCATTTT
1 AAATTACATTTTTAC-CCTCAAACTATCCAAAAATTCCATTTT
136227 GATCCCGATT
Statistics
Matches: 332, Mismatches: 56, Indels: 35
0.78 0.13 0.08
Matches are distributed among these distances:
59 29 0.09
60 153 0.46
61 82 0.25
62 46 0.14
63 22 0.07
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (61 bp):
AAATTACATTTTTACCCTCAAACTATCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAA
Found at i:135974 original size:120 final size:120
Alignment explanation
Indices: 135761--136192 Score: 570
Period size: 120 Copynumber: 3.6 Consensus size: 120
135751 TCCCATTTTT
135761 GAAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAAAT
1 GAAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAAAT
* *
135826 TACAATTTTACCCTTAAACTATTCGAAAATCCCATTTTTGACCTTGAAACTTCTA
66 TACATTTTTACCCTTAAACTATTCGAAAATTCCATTTTTGACCTTGAAACTTCTA
* *
135881 GAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCAAAAACTTCCAAAAAAT
1 GAAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAAAT
135946 TACATTTTTACCCTTAAACTATTCGAAAATTCCATTTTTGACCTTGAAACTTCTA
66 TACATTTTTACCCTTAAACTATTCGAAAATTCCATTTTTGACCTTGAAACTTCTA
* * *
136001 GAAATTACATTTTTACCCCTGAACAACTTCCAAAAATTCCATTTTTGACCTCGAAACTTCCAAAA
1 GAAATTACATTTTTA-CCCT-AA-AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAA
** * * *
136066 AATTACATTTTTACTCC--CGA-TCTTCAAAAAATTCCATTTTTGACCTTGAAACTTCAAAA
63 AATTACATTTTTAC-CCTTAAACTATTC-GAAAATTCCATTTTTGACCTTGAAACTTC--TA
* * ** * *
136125 AAAAATACCA-TTTTACCCCCAAA-TGTCCAAAATTTCCATTTTTTAACCCCAAAACTTTC-AAA
1 GAAATTA-CATTTTTACCCTAAAACT-TCCAAAAATTCCA-TTTTTAACCCCAAAACTTCCAAAA
136187 AATTAC
63 AATTAC
136193 CCTTTTACAC
Statistics
Matches: 279, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
120 132 0.47
121 31 0.11
122 47 0.17
123 54 0.19
124 13 0.05
125 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (120 bp):
GAAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAAAT
TACATTTTTACCCTTAAACTATTCGAAAATTCCATTTTTGACCTTGAAACTTCTA
Found at i:136217 original size:29 final size:28
Alignment explanation
Indices: 136124--136277 Score: 98
Period size: 29 Copynumber: 5.2 Consensus size: 28
136114 AAACTTCAAA
* *
136124 AAAAAATACCATTTTACCCCCAAATGTCC
1 AAAAATTACCATTTTA-CCCCGAATGTCC
* * *
136153 -AAAATTTCCATTTTTTAACCCCAAAACT-TTC
1 AAAAATTACCA--TTTT-ACCCC-GAA-TGTCC
*
136184 AAAAATTACCCTTTTACACCCGAATGTCC
1 AAAAATTACCATTTTAC-CCCGAATGTCC
* * *
136213 AAAAATT-CCATTTTGATCCCGATTTTCC
1 AAAAATTACCATTTT-ACCCCGAATGTCC
* *
136241 TAAAAATTAGCATTTTACCCCTAGATGTCC
1 -AAAAATTACCATTTTACCCCGA-ATGTCC
136271 AAAAATT
1 AAAAATT
136278 TCGTTTTTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
28 24 0.25
29 33 0.34
30 25 0.26
31 6 0.06
32 9 0.09
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAATTACCATTTTACCCCGAATGTCC
Found at i:140381 original size:96 final size:96
Alignment explanation
Indices: 140197--140388 Score: 248
Period size: 96 Copynumber: 2.0 Consensus size: 96
140187 TTTTTGCGAA
**
140197 AAGGATATTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCACAATATTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
* *
140262 GAATCGAAGATAAGGAAACATTGCCTTGATT
66 GAATCGAAGATAAAGAAACATTGCCTCGATT
* * *
140293 AAGGGTATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATTTTC
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATA-TTTC
*
140357 -GAAACTCGAAG-TAAA-AGAATATTGCCTCGATT
65 AG-AA-TCGAAGATAAAGA-AACATTGCCTCGATT
140389 TTAAAGCTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
95 3 0.04
96 75 0.89
97 6 0.07
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCA
GAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:140741 original size:30 final size:30
Alignment explanation
Indices: 140676--140964 Score: 287
Period size: 30 Copynumber: 9.8 Consensus size: 30
140666 ATTTGAGGTT
* *
140676 TAAAAATGGAA-TTTTAGACA--TTCAAGGG
1 TAAAAATGGAATTTTTGGA-AGTTTCGAGGG
*
140704 T-AAAATGGTAA-TTTTGGGAGTTTCGAGGG
1 TAAAAATGG-AATTTTTGGAAGTTTCGAGGG
140733 TAAAAATGGAATTTTTGGAAGTTTCG-GGG
1 TAAAAATGGAATTTTTGGAAGTTTCGAGGG
** *
140762 TCAAAAATTAAATTTTTGGAAG-ATCGAGGG
1 T-AAAAATGGAATTTTTGGAAGTTTCGAGGG
* **
140792 TAAAAATGGAATTTTTAGAAGTTTCGAGAT
1 TAAAAATGGAATTTTTGGAAGTTTCGAGGG
* *
140822 TAAAAATGGGATTTTTGG-AGGTTCGAGGG
1 TAAAAATGGAATTTTTGGAAGTTTCGAGGG
140851 TAAAAATGGAATTTTTGGAAGTTTCG-GGG
1 TAAAAATGGAATTTTTGGAAGTTTCGAGGG
*
140880 TCAAAAAT-GAGATTTTTGGAAGTTTTG-GGG
1 T-AAAAATGGA-ATTTTTGGAAGTTTCGAGGG
*
140910 TTAAAAATGGGATTTTTGGAAG-TTCGAGGG
1 -TAAAAATGGAATTTTTGGAAGTTTCGAGGG
***
140940 TAAAAACAAAATTTTTGGACAGTTT
1 TAAAAATGGAATTTTTGGA-AGTTT
140965 AGGGACCTCC
Statistics
Matches: 218, Mismatches: 27, Indels: 29
0.80 0.10 0.11
Matches are distributed among these distances:
27 8 0.04
28 8 0.04
29 83 0.38
30 115 0.53
31 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (30 bp):
TAAAAATGGAATTTTTGGAAGTTTCGAGGG
Found at i:140793 original size:59 final size:59
Alignment explanation
Indices: 140715--140963 Score: 297
Period size: 59 Copynumber: 4.2 Consensus size: 59
140705 AAAATGGTAA
* *
140715 TTTTGGGAGTTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATTAAAT
1 TTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* * * * * **
140775 TTTTGGAAGATCGAGGGTAAAAATGGAATTTTTAGAAGTTTCGAGATTAAAAATGGGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* *
140834 TTTTGGAGGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGAGAT
1 TTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
* * **
140893 TTTTGGAAGTTTTG-GGGTTAAAAATGGGATTTTTGGAAG-TTCGAGGGT-AAAAACAAAAT
1 TTTTGGAAG-TTCGAGGG-TAAAAATGGAATTTTTGGAAGTTTCG-GGGTCAAAAATGAAAT
140952 TTTTGGACAGTT
1 TTTTGGA-AGTT
140964 TAGGGACCTC
Statistics
Matches: 163, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
59 126 0.77
60 37 0.23
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (59 bp):
TTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAAAATGAAAT
Found at i:140817 original size:89 final size:89
Alignment explanation
Indices: 140700--140958 Score: 307
Period size: 89 Copynumber: 2.9 Consensus size: 89
140690 TAGACATTCA
* *
140700 AGGGT-AAAATGGTAA-TTTTGGGAGTTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCG-GGG
1 AGGGTAAAAATGG-AATTTTTGGAAGTTTCGAGGGTAAAAATGGGATTTTTGGAAG-TTCGAGGG
*
140762 TCAAAAATTAAATTTTTGGAAG-ATCG
64 T-AAAAATAAAATTTTTGGAAGTATCG
* ** *
140788 AGGGTAAAAATGGAATTTTTAGAAGTTTCGAGATTAAAAATGGGATTTTTGGAGGTTCGAGGGTA
1 AGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGGGATTTTTGGAAGTTCGAGGGTA
** *
140853 AAAATGGAATTTTTGGAAGTTTCG
66 AAAATAAAATTTTTGGAAGTATCG
*
140877 -GGGTCAAAAAT-GAGATTTTTGGAAGTTTTG-GGGTTAAAAATGGGATTTTTGGAAGTTCGAGG
1 AGGGT-AAAAATGGA-ATTTTTGGAAGTTTCGAGGG-TAAAAATGGGATTTTTGGAAGTTCGAGG
*
140939 GTAAAAACAAAATTTTTGGA
63 GTAAAAATAAAATTTTTGGA
140959 CAGTTTAGGG
Statistics
Matches: 147, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
88 36 0.24
89 111 0.76
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (89 bp):
AGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGGTAAAAATGGGATTTTTGGAAGTTCGAGGGTA
AAAATAAAATTTTTGGAAGTATCG
Found at i:143910 original size:9 final size:9
Alignment explanation
Indices: 143871--143929 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
143861 TAAAACTTTA
143871 AAAAATATAT
1 AAAAAT-TAT
143881 AAAAAGTTAT
1 AAAAA-TTAT
143891 --AAATT-T
1 AAAAATTAT
143897 AAAAATTAT
1 AAAAATTAT
*
143906 AAAAATCAT
1 AAAAATTAT
*
143915 AAAAATCAT
1 AAAAATTAT
143924 AAAAAT
1 AAAAAT
143930 AGCATATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 8 0.18
9 24 0.55
10 8 0.18
11 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:145692 original size:18 final size:18
Alignment explanation
Indices: 145669--145713 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
145659 ATGATGCTAC
*
145669 TAATCTTTCAACTTGATT
1 TAATCTTTCAACTTAATT
*
145687 TAATC-TTCATCTTAATT
1 TAATCTTTCAACTTAATT
*
145704 TACTCTTTCA
1 TAATCTTTCA
145714 TTTTGAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATCTTTCAACTTAATT
Found at i:146572 original size:3 final size:3
Alignment explanation
Indices: 146564--146595 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
146554 GCAAATTCAA
146564 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
146596 ATTTAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:147098 original size:3 final size:3
Alignment explanation
Indices: 147090--147141 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
147080 TATCAAATCA
* * * * *
147090 TTC TTC TTC TTC TTC TTC TTC CTC CTC CTC CTC CTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
147138 TTC T
1 TTC T
147142 AAAAAATATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (3 bp):
TTC
Found at i:154971 original size:22 final size:21
Alignment explanation
Indices: 154923--154965 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
154913 AATTTCTCAC
*
154923 TTTTAAATTGATAAAAAATAAT
1 TTTTAAATT-ATAAAAAAAAAT
154945 TTTTAAATT-TAAAAAAAAAT
1 TTTTAAATTATAAAAAAAAAT
154965 T
1 T
154966 AATTTAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAATTATAAAAAAAAAT
Found at i:159607 original size:3 final size:3
Alignment explanation
Indices: 159599--159659 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
159589 GAAGACTAGG
159599 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
159647 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
159660 GTATTGAGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:160479 original size:43 final size:43
Alignment explanation
Indices: 160421--160543 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
160411 ACGCTGTTAT
* * *
160421 AGAACATGGTCTTTAGCGGTGCTTTTCCAACAAACGCCACTAA
1 AGAACGTGGTATTTAGCGGCGCTTTTCCAACAAACGCCACTAA
* *
160464 AGAACGTGGTATTTAGTGGCGCTTTTCCAACAAACGCCGCTAA
1 AGAACGTGGTATTTAGCGGCGCTTTTCCAACAAACGCCACTAA
* *
160507 AGAATGTGATATTTAGCGGCGCTTTTTCC-ACAAACGC
1 AGAACGTGGTATTTAGCGGCGC-TTTTCCAACAAACGC
160544 AGCTATAGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 65 0.92
44 6 0.08
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
AGAACGTGGTATTTAGCGGCGCTTTTCCAACAAACGCCACTAA
Found at i:160570 original size:43 final size:43
Alignment explanation
Indices: 160409--160628 Score: 164
Period size: 43 Copynumber: 5.1 Consensus size: 43
160399 TTATGCGGAA
* * *
160409 AAACGCTGTTATAGAACATGGTCTTTAGCGGTGC-TTTTCCAAC
1 AAACGCAGCTATAGAACATGGTCTTTAGCGGCGCTTTTTCC-AC
* * * *
160452 AAACGCCA-CTAAAGAACGTGGTATTTAGTGGCGC-TTTTCCAAC
1 AAACG-CAGCTATAGAACATGGTCTTTAGCGGCGCTTTTTCC-AC
* * ** * *
160495 AAACGCCGCTAAAGAATGTGATATTTAGCGGCGCTTTTTCCAC
1 AAACGCAGCTATAGAACATGGTCTTTAGCGGCGCTTTTTCCAC
* *
160538 AAACGCAGCTATAGAACATGTTCTTTAACGGCG-TTTTTACCAC
1 AAACGCAGCTATAGAACATGGTCTTTAGCGGCGCTTTTT-CCAC
* * *
160581 GAACACCGCTGCTATAGAACA-GTTCTTTAGCGGTG-TTTTTCTCAC
1 -AA-A-CGCAGCTATAGAACATGGTCTTTAGCGGCGCTTTTTC-CAC
160626 AAA
1 AAA
160629 TGCCGACAAC
Statistics
Matches: 148, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
42 6 0.04
43 95 0.64
44 12 0.08
45 21 0.14
46 14 0.09
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
AAACGCAGCTATAGAACATGGTCTTTAGCGGCGCTTTTTCCAC
Found at i:161034 original size:66 final size:66
Alignment explanation
Indices: 160918--161042 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 66
160908 TCATATTTTG
* *
160918 AAGTTGTAGCTATAGTTCGTCATACTTTCTTTGAGACTCTACTTCCCTCGCTGCTGCCTTGGCTT
1 AAGTTGTAGCTATAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTACTGCCTTGGCTT
160983 C
66 C
* * * *
160984 AAGTTGTAGCTGA-AGTTCATCATATTTTCTTTGAGTCTCTGCTTCTCTCGCTACTGCCT
1 AAGTTGTAGCT-ATAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTACTGCCT
161043 CCGCTTTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
AAGTTGTAGCTATAGTTCATCATACTTTCTTTGAGACTCTACTTCCCTCGCTACTGCCTTGGCTT
C
Found at i:176945 original size:24 final size:23
Alignment explanation
Indices: 176913--176963 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
176903 ATATTTAATC
*
176913 TTTATATTTTA-ATTTTTAATATAA
1 TTTAGATTTTATATTTTT-ATA-AA
176937 TTTAGATTTTATATTTTTATAAA
1 TTTAGATTTTATATTTTTATAAA
176960 TTTA
1 TTTA
176964 TTAATTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 13 0.52
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTAGATTTTATATTTTTATAAA
Found at i:177478 original size:12 final size:12
Alignment explanation
Indices: 177461--177490 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
177451 TATTTTATAC
*
177461 ATTTAAATAATT
1 ATTTAAAAAATT
177473 ATTTAAAAAATT
1 ATTTAAAAAATT
177485 ATTTAA
1 ATTTAA
177491 GTATCTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTAAAAAATT
Found at i:180553 original size:39 final size:39
Alignment explanation
Indices: 180389--180541 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
180379 AAGTTCTCGA
* * * *
180389 ATTACTGAACTGGCAGTGACATTGGAAACACTGCGATAC
1 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
180428 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
1 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
180467 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
1 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
* * * *
180506 ATTATTGAACTGGCAATGACACTGTAAACACTGCAA
1 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAA
180542 TATCATATTG
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (39 bp):
ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
Found at i:180565 original size:39 final size:39
Alignment explanation
Indices: 180389--180575 Score: 178
Period size: 39 Copynumber: 4.8 Consensus size: 39
180379 AAGTTCTCGA
* * * * * *
180389 ATTACTGAACTGGCAGTGACATTGGAAACACTGCGATAC
1 ATTATTGAACTGACAGTGACACTGTAAACACTGCAACAC
* * * *
180428 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
1 ATTATTGAACTGACAGTGACACTGTAAACACTGCAACAC
* * * *
180467 ATTACTGAACCGGCAGTGACACTGGAAACACTGCAACAC
1 ATTATTGAACTGACAGTGACACTGTAAACACTGCAACAC
* * *
180506 ATTATTGAACTGGCAATGACACTGTAAACACTGCAATATC
1 ATTATTGAACTGACAGTGACACTGTAAACACTGCAACA-C
* **
180546 A-TATTGAATTGATGGTGACACTGTAAACAC
1 ATTATTGAACTGACAGTGACACTGTAAACAC
180576 CGTGCAACTA
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
39 131 0.98
40 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (39 bp):
ATTATTGAACTGACAGTGACACTGTAAACACTGCAACAC
Found at i:181276 original size:83 final size:83
Alignment explanation
Indices: 181137--181303 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 83
181127 AACCATTTTC
* *
181137 AAAATTGATAGAATGCATAGATGGTATGGATACATAATTTAGTATCGATACCTAACACAAAAATA
1 AAAATCGACAGAATGCATAGATGGTATGGATACATAATTTAGTATCGATACCTAACACAAAAATA
181202 TCAATACCTATTTCCTCA
66 TCAATACCTATTTCCTCA
* *
181220 AAAATCGACAGAATGCATAGATGGTATGGATACTTAATTTAGTATTGATACCTAACACAAAAATA
1 AAAATCGACAGAATGCATAGATGGTATGGATACATAATTTAGTATCGATACCTAACACAAAAATA
** *
181285 TTGATACTTATTTCCTCA
66 TCAATACCTATTTCCTCA
181303 A
1 A
181304 TATCGATATC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (83 bp):
AAAATCGACAGAATGCATAGATGGTATGGATACATAATTTAGTATCGATACCTAACACAAAAATA
TCAATACCTATTTCCTCA
Found at i:184300 original size:15 final size:16
Alignment explanation
Indices: 184263--184304 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
184253 TGGTAGGATT
*
184263 GAAATAAAATTGAAAG
1 GAAAAAAAATTGAAAG
*
184279 GATAAAAAATTGAAAG
1 GAAAAAAAATTGAAAG
*
184295 AAAAAAAAAT
1 GAAAAAAAAT
184305 AAAAAAGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (16 bp):
GAAAAAAAATTGAAAG
Found at i:190109 original size:3 final size:3
Alignment explanation
Indices: 190101--190130 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
190091 CAATCCCTCC
190101 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
190131 ACCTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:197198 original size:27 final size:25
Alignment explanation
Indices: 197168--197226 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
197158 AGGACGGTTG
197168 TTTATATTAAATATATATTTTTTTATA
1 TTTATATTAAA-A-ATATTTTTTTATA
* *
197195 TTTAATTATTGAAAATATTTTTTTATT
1 TTT-A-TATTAAAAATATTTTTTTATA
197222 TTTAT
1 TTTAT
197227 TTATTGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
25 1 0.04
26 1 0.04
27 18 0.64
28 2 0.07
29 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTATATTAAAAATATTTTTTTATA
Found at i:197242 original size:27 final size:27
Alignment explanation
Indices: 197182--197234 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
197172 TATTAAATAT
197182 ATATTTTTTTATATTTAATTATTGAAA
1 ATATTTTTTTATATTTAATTATTGAAA
* *
197209 ATATTTTTTTATTTTTATTTATTGAA
1 ATATTTTTTTATATTTAATTATTGAA
197235 TGTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (27 bp):
ATATTTTTTTATATTTAATTATTGAAA
Found at i:197250 original size:26 final size:27
Alignment explanation
Indices: 197186--197252 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
197176 AAATATATAT
197186 TTTTTTAT-A-TTTAATTATTGAAAATA
1 TTTTTTATAATTTTAATTATTG-AAATA
* * *
197212 TTTTTT-TATTTTTATTTATTG-AATG
1 TTTTTTATAATTTTAATTATTGAAATA
197237 TTTTTTATAATTTTAA
1 TTTTTTATAATTTTAA
197253 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 10 0.30
26 13 0.39
27 10 0.30
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTTTTATAATTTTAATTATTGAAATA
Found at i:197403 original size:23 final size:23
Alignment explanation
Indices: 197377--197422 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
197367 CGAAAAAATA
*
197377 AAATA-ACCCTATAATTCTGAAAC
1 AAATACACCCTA-AATTCTCAAAC
*
197400 AAATACATCCTAAATTCTCAAAC
1 AAATACACCCTAAATTCTCAAAC
197423 CCTATGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATACACCCTAAATTCTCAAAC
Found at i:197925 original size:29 final size:28
Alignment explanation
Indices: 197893--197948 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
197883 AATTTTAAAA
* *
197893 AATATTTTTTATAATTTTATACTTTTTTT
1 AATAATTTTAATAATTTTATA-TTTTTTT
* *
197922 AATAATTTTAATGATTTTCTATTTTTT
1 AATAATTTTAATAATTTTATATTTTTT
197949 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (28 bp):
AATAATTTTAATAATTTTATATTTTTTT
Found at i:204676 original size:29 final size:29
Alignment explanation
Indices: 204643--204707 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
204633 CAAAAATGCG
* *
204643 ATTTTTGAATGCTT-GGGGGTAAAATGATA
1 ATTTTTGAA-GCTTCAGGGGTAAAACGATA
* *
204672 ATTTTTGGAGGTTCAGGGGTAAAACGATA
1 ATTTTTGAAGCTTCAGGGGTAAAACGATA
204701 ATTTTTG
1 ATTTTTG
204708 GACACTCGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 3 0.10
29 28 0.90
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (29 bp):
ATTTTTGAAGCTTCAGGGGTAAAACGATA
Found at i:204731 original size:29 final size:28
Alignment explanation
Indices: 204659--205172 Score: 248
Period size: 29 Copynumber: 17.8 Consensus size: 28
204649 GAATGCTTGG
**
204659 GGGTAAAATGATAATTTTTGGAGGTTC-A
1 GGGTAAAATG-TAATTTTTGGAAATTCGA
* * *
204687 GGGGTAAAACGATAATTTTTGGACACTCGA
1 -GGGTAAAATG-TAATTTTTGGAAATTCGA
* * * *
204717 GGGCAAAAATGTAATTTTTTGACATCCGA
1 GGG-TAAAATGTAATTTTTGGAAATTCGA
* * * *
204746 GAGTAAAATGGTAATTTCTGAAAACTCGA
1 GGGTAAAAT-GTAATTTTTGGAAATTCGA
* * *
204775 GGATAAAAATGTAATTTTTGGAGATTCAA
1 GGGT-AAAATGTAATTTTTGGAAATTCGA
* *
204804 GGGTAACATGGTAATTTTTTGAAAGTTC-A
1 GGGTAAAAT-GTAATTTTTGGAAA-TTCGA
* * *
204833 GGGTTAAAATGTAATTTTTAGACATCCGA
1 GGG-TAAAATGTAATTTTTGGAAATTCGA
204862 GGGTAAAATGATAATTTTTGGAAAGTTCGA
1 GGGTAAAATG-TAATTTTTGGAAA-TTCGA
* *
204892 -GGTCAAAAATGGAA-TTTT-GACA-TCTG-
1 GGGT--AAAATGTAATTTTTGGAAATTC-GA
* *
204918 GGGT-AAATGGTAAATTTTAGAAAGTTC-A
1 GGGTAAAAT-GTAATTTTTGGAAA-TTCGA
* * * *
204946 GGGTTAAAATGGAATCTTTAGAAATT-TA
1 GGG-TAAAATGTAATTTTTGGAAATTCGA
*
204974 GGGGTAAAATAGTAATTTTTAGAAAGTTC-A
1 -GGGTAAAAT-GTAATTTTTGGAAA-TTCGA
** * * * **
205004 ATGTCAAAATGGAATTTCTAGAAATTTTA
1 GGGT-AAAATGTAATTTTTGGAAATTCGA
*
205033 GGGTAAAATGGTAA-TTTTGGAAAGTT-TA
1 GGGTAAAAT-GTAATTTTTGGAAA-TTCGA
* * *
205061 GGGTTAAAAATGGAATTTTTGAAAATT-TA
1 GGG-T-AAAATGTAATTTTTGGAAATTCGA
*
205090 GGGTAAAATAGTAATTTTTGAAAATTC-A
1 GGGTAAAAT-GTAATTTTTGGAAATTCGA
* *
205118 AGGTAAAAAATGTAATTTTTGGAAATTTGAA
1 GGGT--AAAATGTAATTTTTGGAAATTCG-A
*
205149 GGGTCAAAATATAATTTTTGGAAA
1 GGGT-AAAATGTAATTTTTGGAAA
205173 AGTTTGGGGA
Statistics
Matches: 382, Mismatches: 63, Indels: 79
0.73 0.12 0.15
Matches are distributed among these distances:
24 4 0.01
25 3 0.01
26 6 0.02
27 12 0.03
28 72 0.19
29 202 0.53
30 73 0.19
31 10 0.03
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (28 bp):
GGGTAAAATGTAATTTTTGGAAATTCGA
Found at i:206944 original size:17 final size:18
Alignment explanation
Indices: 206922--206981 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
206912 TTGACATTTT
*
206922 AATTTAAATTT-AGGATA
1 AATTTAAATTTAAGAATA
206939 AATTTAAATTTAAGAATA
1 AATTTAAATTTAAGAATA
* *
206957 AATTTTAACTTAA-AATA
1 AATTTAAATTTAAGAATA
*
206974 AATCTAAA
1 AATTTAAA
206982 ACAAAATGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 21 0.57
18 16 0.43
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTTAAATTTAAGAATA
Found at i:208161 original size:89 final size:89
Alignment explanation
Indices: 208028--208207 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
208018 CGGATTAGGC
*
208028 ATATAATAATAGATAACCTGATACACCAAGTAAAAAAAATCTTAACGCTAATGCAAAATTAAAAA
1 ATATAATAATAGATAACCTGATACACCAAGTAAAAAAAAACTTAACGCTAATGCAAAATTAAAAA
208093 ATGGAAAATAATAAAAAAATATAA
66 ATGGAAAATAATAAAAAAATATAA
*
208117 ATATAATAATAGATAACCTGATACACCAAGTAAAAAAAAACTTAACGCTAATGCCAAATTAAAAA
1 ATATAATAATAGATAACCTGATACACCAAGTAAAAAAAAACTTAACGCTAATGCAAAATTAAAAA
208182 ATGGAAAATAATAAAAAAATATAA
66 ATGGAAAATAATAAAAAAATATAA
208206 AT
1 AT
208208 GATGGTCGAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (89 bp):
ATATAATAATAGATAACCTGATACACCAAGTAAAAAAAAACTTAACGCTAATGCAAAATTAAAAA
ATGGAAAATAATAAAAAAATATAA
Found at i:212739 original size:9 final size:11
Alignment explanation
Indices: 212714--212739 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
212704 TCGAGCATTT
212714 GTGTGTGCAAG
1 GTGTGTGCAAG
212725 GTGTGTGCAAG
1 GTGTGTGCAAG
212736 GTGT
1 GTGT
212740 CTTATCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.46, T:0.31
Consensus pattern (11 bp):
GTGTGTGCAAG
Found at i:223296 original size:2 final size:2
Alignment explanation
Indices: 223289--223329 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
223279 TCATGTTAAA
223289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223330 AAATCAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:231717 original size:2 final size:2
Alignment explanation
Indices: 231710--231737 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
231700 TCCTACTTTC
231710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
231738 TGAAGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:239097 original size:2 final size:2
Alignment explanation
Indices: 239090--239127 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
239080 ATTTGACTAA
* *
239090 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
239128 TTAGTTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:240672 original size:2 final size:2
Alignment explanation
Indices: 240665--240695 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
240655 ATCATAATTA
240665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
240696 ATTGTAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:242437 original size:19 final size:19
Alignment explanation
Indices: 242413--242449 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
242403 TCTGTTAAGT
242413 TTAGTTACTGGCAGTTGAG
1 TTAGTTACTGGCAGTTGAG
* *
242432 TTAGTTATTGTCAGTTGA
1 TTAGTTACTGGCAGTTGA
242450 AGGCTGTTGC
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:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (19 bp):
TTAGTTACTGGCAGTTGAG
Done.