Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 56
Found at i:11598846 original size:54 final size:54
Alignment explanation
Indices: 11598764--11598879 Score: 189
Period size: 54 Copynumber: 2.1 Consensus size: 54
11598754 ATAATAACAG
* *
11598764 GTTCGTAAAACATTTGACAGTGCATTCAT-CTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTT-CTGTGGCTTCTGCTCAGAT
*
11598818 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
11598872 GTTCGTAA
1 GTTCGTAA
11598880 TCATTGAAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 53 0.91
55 5 0.09
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCAGAT
Found at i:11600875 original size:83 final size:83
Alignment explanation
Indices: 11600734--11601164 Score: 713
Period size: 83 Copynumber: 5.2 Consensus size: 83
11600724 TCTACTATGA
* * *
11600734 GCAAATTCATCTTCCAAATTTAATGATTGGTTTTGTCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACAC
11600799 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
* *
11600817 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAATTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACAC
*
11600882 TTCCAGAAGATGATATTG
66 TTCCAGAAGATGCTATTG
* * *
11600900 GCAAATTTATCTTCTGAATTCAATGATTGGTTCTGTTC-AACCAGATTAGATAACTCAAAGAACA
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTG-TCAAACCAGATCAGATAACTCAAAGAACA
11600964 CTTCCAGAAGATGCTATTG
65 CTTCCAGAAGATGCTATTG
*
11600983 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACAC
*
11601048 TTCCAGAAGATGATATTG
66 TTCCAGAAGATGCTATTG
* *
11601066 GCAAATTTATCTTCTGAATTCAATGATTGGTTCTGTTC-AACCAGATCAGATAACTCAAAGAACA
1 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTG-TCAAACCAGATCAGATAACTCAAAGAACA
11601130 CTTCCAGAAGATGCTATTG
65 CTTCCAGAAGATGCTATTG
11601149 GCAAATTCATCTTCTA
1 GCAAATTCATCTTCTA
11601165 GTTAATGTTT
Statistics
Matches: 322, Mismatches: 23, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
82 1 0.00
83 319 0.99
84 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (83 bp):
GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:11603419 original size:17 final size:16
Alignment explanation
Indices: 11603397--11603430 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
11603387 TTCAATTTTC
11603397 TTTTTTCTTCTTCTCTT
1 TTTTTTCTTCTT-TCTT
11603414 TTTTTTCTTCTTTCTT
1 TTTTTTCTTCTTTCTT
11603430 T
1 T
11603431 GTTGGATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTTCTTTCTT
Found at i:11608000 original size:9 final size:9
Alignment explanation
Indices: 11607980--11608022 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
11607970 AATACTTGAA
11607980 AATAAA-AT
1 AATAAATAT
11607988 AATAAATAT
1 AATAAATAT
11607997 AATAAATAT
1 AATAAATAT
*
11608006 TATGAAA-AT
1 AAT-AAATAT
11608015 AATAAATA
1 AATAAATA
11608023 AAAAAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 9 0.30
9 18 0.60
10 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AATAAATAT
Found at i:11608040 original size:27 final size:28
Alignment explanation
Indices: 11607979--11608040 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
11607969 TAATACTTGA
*
11607979 AAATAAAATAATAAATATAATAAATATT
1 AAATAAAATAATAAATATAATAAAAATT
11608007 --ATGAAAATAATAAATA-AA-AAAAATT
1 AAAT-AAAATAATAAATATAATAAAAATT
11608032 GAAATAAAA
1 -AAATAAAA
11608041 GAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
25 6 0.21
26 4 0.14
27 17 0.59
28 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (28 bp):
AAATAAAATAATAAATATAATAAAAATT
Found at i:11610120 original size:3 final size:3
Alignment explanation
Indices: 11610112--11610195 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
11610102 TTATTTATTA
* *
11610112 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT TAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* **
11610158 ACT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11610196 ATTTAAATGA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:11612778 original size:12 final size:10
Alignment explanation
Indices: 11612747--11612780 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
11612737 GCTGTTTAAT
11612747 AGCCGGTCAA
1 AGCCGGTCAA
11612757 AGCCGGTCAA
1 AGCCGGTCAA
11612767 AGTCCTGGTCAA
1 AG-CC-GGTCAA
11612779 AG
1 AG
11612781 GTGGTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 2 0.09
12 8 0.36
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.15
Consensus pattern (10 bp):
AGCCGGTCAA
Found at i:11612995 original size:29 final size:29
Alignment explanation
Indices: 11612811--11612994 Score: 205
Period size: 29 Copynumber: 6.4 Consensus size: 29
11612801 CATTTTACAG
* ** * *
11612811 AAATAGCACCATTTTTAAAATAATTACCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
11612840 AAATAGCA-CCTTTTCGAATTAAATTCCCA
1 AAATAGCACCCTTTTCGAATT-AATTCCCA
* *
11612869 AATTAGCA--CTTTTTGAATTAAATT-CCA
1 AAATAGCACCCTTTTCGAATT-AATTCCCA
** *
11612896 AAATAGCACATTTTTCTGAATAAATTCCCA
1 AAATAGCACCCTTTTC-GAATTAATTCCCA
11612926 AAATAGCACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
*
11612955 AAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
*
11612984 AAATATCACCC
1 AAATAGCACCC
11612995 AGTCAACGGT
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.07
28 23 0.17
29 80 0.60
30 21 0.16
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATAGCACCCTTTTCGAATTAATTCCCA
Found at i:11613012 original size:5 final size:5
Alignment explanation
Indices: 11613002--11613083 Score: 56
Period size: 5 Copynumber: 15.2 Consensus size: 5
11612992 CCCAGTCAAC
* * * *
11613002 GGTCG GGTCG GGTCG GGTCAAC GATCG GGTCG GGTTG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
* *
11613051 GGTCG GGTCT GGTCAAC GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG G
11613084 ACCGATTCAG
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
5 49 0.82
7 11 0.18
ACGTcount: A:0.09, C:0.21, G:0.50, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:11613024 original size:22 final size:22
Alignment explanation
Indices: 11612996--11613083 Score: 149
Period size: 22 Copynumber: 4.0 Consensus size: 22
11612986 ATATCACCCA
11612996 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
* *
11613018 GTCAACGATCGGGTCGGGTTGG
1 GTCAACGGTCGGGTCGGGTCGG
*
11613040 GTCAACGGTCGGGTCGGGTCTG
1 GTCAACGGTCGGGTCGGGTCGG
11613062 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
11613084 ACCGATTCAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.10, C:0.22, G:0.48, T:0.20
Consensus pattern (22 bp):
GTCAACGGTCGGGTCGGGTCGG
Found at i:11615978 original size:23 final size:21
Alignment explanation
Indices: 11615940--11615982 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
11615930 TTAATTATTT
11615940 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
11615961 AAAAACATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
11615982 A
1 A
11615983 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:11616456 original size:24 final size:24
Alignment explanation
Indices: 11616394--11616456 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
11616384 CTATTCTTTC
*
11616394 GCTTCAATCGAGCTCGAATTTCAA
1 GCTTCAATCGAGCTTGAATTTCAA
11616418 GCTTCAATCGAGCTTGAATTTCAA
1 GCTTCAATCGAGCTTGAATTTCAA
*
11616442 GCTTCAATCTAGCTT
1 GCTTCAATCGAGCTT
11616457 CTAAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
GCTTCAATCGAGCTTGAATTTCAA
Found at i:11620497 original size:24 final size:24
Alignment explanation
Indices: 11620468--11620520 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
11620458 TATACCTATG
11620468 GTATCGATACTACTATGTAAAGTA
1 GTATCGATACTACTATGTAAAGTA
11620492 GTATCGATACTACTATGTAAAGTA
1 GTATCGATACTACTATGTAAAGTA
11620516 GTATC
1 GTATC
11620521 AGTACCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (24 bp):
GTATCGATACTACTATGTAAAGTA
Found at i:11620690 original size:108 final size:108
Alignment explanation
Indices: 11620575--11620780 Score: 376
Period size: 108 Copynumber: 1.9 Consensus size: 108
11620565 GAGCAATGTT
11620575 GGTAGTATCGATACTACCAAGTGAGTATCGATACTTCCCTTACCTTTGGTATAAATACCATATGA
1 GGTAGTATCGATACTACCAAGTGAGTATCGATACTTCCCTTACCTTTGGTATAAATACCATATGA
11620640 ACAATATCAGTACTGTTCATTAGGTATCGATACCAAAGGTAAG
66 ACAATATCAGTACTGTTCATTAGGTATCGATACCAAAGGTAAG
* *
11620683 GGTAGTATCGATACTACCTAGTGAGTATCGATACTTCCCTTACCTTTGGTATCAATACCATATGA
1 GGTAGTATCGATACTACCAAGTGAGTATCGATACTTCCCTTACCTTTGGTATAAATACCATATGA
* *
11620748 ACAATATCGGTATTGTTCATTAGGTATCGATAC
66 ACAATATCAGTACTGTTCATTAGGTATCGATAC
11620781 TGTAAGAAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (108 bp):
GGTAGTATCGATACTACCAAGTGAGTATCGATACTTCCCTTACCTTTGGTATAAATACCATATGA
ACAATATCAGTACTGTTCATTAGGTATCGATACCAAAGGTAAG
Found at i:11624123 original size:18 final size:18
Alignment explanation
Indices: 11624100--11624146 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
11624090 ATGTAGAGTA
11624100 GTATCGGTACCCCTTTGG
1 GTATCGGTACCCCTTTGG
11624118 GTATCGGTACCCCTTTGG
1 GTATCGGTACCCCTTTGG
11624136 GTATCGGTACC
1 GTATCGGTACC
11624147 ATTTTTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.32
Consensus pattern (18 bp):
GTATCGGTACCCCTTTGG
Found at i:11624267 original size:20 final size:20
Alignment explanation
Indices: 11624244--11624295 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
11624234 CCATATGAAT
11624244 AGTATCGGTACTGTTCATTA
1 AGTATCGGTACTGTTCATTA
11624264 AGTATCGGTACTGTTCATTA
1 AGTATCGGTACTGTTCATTA
* *
11624284 GGTATCGATACT
1 AGTATCGGTACT
11624296 ATAAGAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
AGTATCGGTACTGTTCATTA
Found at i:11625636 original size:2 final size:2
Alignment explanation
Indices: 11625629--11625664 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11625619 TTTATCCTTT
11625629 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11625665 TATATATCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11625922 original size:1 final size:1
Alignment explanation
Indices: 11625918--11626085 Score: 156
Period size: 1 Copynumber: 168.0 Consensus size: 1
11625908 GAGATATAAC
* * * * * * * * * * *
11625918 AAAAAAATAAAAAAAATAAAAAAAGAGAAAAGAGAAAAGAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
11625983 AAAGAAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
11626048 AAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11626086 GATCTAGAAT
Statistics
Matches: 127, Mismatches: 40, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 127 1.00
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01
Consensus pattern (1 bp):
A
Found at i:11625931 original size:7 final size:7
Alignment explanation
Indices: 11625919--11626085 Score: 189
Period size: 6 Copynumber: 25.6 Consensus size: 7
11625909 AGATATAACA
*
11625919 AAAAAAT
1 AAAAAAG
11625926 AAAAAA-
1 AAAAAAG
*
11625932 AATAAA-
1 AAAAAAG
*
11625938 AAAAGAG
1 AAAAAAG
*
11625945 AAAAGAG
1 AAAAAAG
*
11625952 AAAAGAG
1 AAAAAAG
11625959 AAAAAAG
1 AAAAAAG
11625966 AAAAAAG
1 AAAAAAG
11625973 AAAAAAG
1 AAAAAAG
11625980 AAAAAAG
1 AAAAAAG
11625987 AAAAAAAG
1 -AAAAAAG
11625995 AAAAAAG
1 AAAAAAG
11626002 AAAAAAG
1 AAAAAAG
11626009 AAAAAA-
1 AAAAAAG
11626015 AAAAAA-
1 AAAAAAG
11626021 AAAAAAG
1 AAAAAAG
11626028 -AAAAAG
1 AAAAAAG
11626034 -AAAAAG
1 AAAAAAG
11626040 -AAAAA-
1 AAAAAAG
11626045 AAAAAA-
1 AAAAAAG
11626051 AAAAAA-
1 AAAAAAG
11626057 AAAAAAG
1 AAAAAAG
11626064 -AAAAA-
1 AAAAAAG
11626069 AAAAAA-
1 AAAAAAG
11626075 AAAAAAG
1 AAAAAAG
11626082 AAAA
1 AAAA
11626086 GATCTAGAAT
Statistics
Matches: 149, Mismatches: 4, Indels: 14
0.89 0.02 0.08
Matches are distributed among these distances:
6 71 0.48
7 71 0.48
8 7 0.05
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:11625963 original size:30 final size:26
Alignment explanation
Indices: 11625920--11626085 Score: 200
Period size: 28 Copynumber: 6.4 Consensus size: 26
11625910 GATATAACAA
* * *
11625920 AAAAATAAAAA-AAATAAAAAAAGAG
1 AAAAAGAAAAAGAAAAAAAAAAAAAG
*
11625945 AAAAGAGAAAAGAGAAAAAAGAAAAAAG
1 AAAA-AGAAAA-AGAAAAAAAAAAAAAG
11625973 AAAAAAGAAAAAAGAAAAAAAGAAAAAAG
1 -AAAAAG-AAAAAGAAAAAAA-AAAAAAG
11626002 AAAAAAGAAAAA-AAAAAAAAAAAAAG
1 -AAAAAGAAAAAGAAAAAAAAAAAAAG
11626028 AAAAAGAAAAAGAAAAAAAAAAAAA-
1 AAAAAGAAAAAGAAAAAAAAAAAAAG
11626053 AAAAA-AAAAAG-AAAAAAAAAAAA-
1 AAAAAGAAAAAGAAAAAAAAAAAAAG
11626076 AAAAAGAAAA
1 AAAAAGAAAA
11626086 GATCTAGAAT
Statistics
Matches: 128, Mismatches: 5, Indels: 17
0.85 0.03 0.11
Matches are distributed among these distances:
23 17 0.13
24 10 0.08
25 20 0.16
26 25 0.20
27 8 0.06
28 26 0.20
29 22 0.17
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01
Consensus pattern (26 bp):
AAAAAGAAAAAGAAAAAAAAAAAAAG
Found at i:11627574 original size:40 final size:40
Alignment explanation
Indices: 11627529--11627650 Score: 98
Period size: 40 Copynumber: 3.1 Consensus size: 40
11627519 GCTTGAGACA
11627529 ATTTTTACTCGAAACAAGGCATTTCATTTCACTATAGATT
1 ATTTTTACTCGAAACAAGGCATTTCATTTCACTATAGATT
* * *
11627569 ATTTTT-CT-TAAGACAA-G-A-TTCATCTCGCT-TGAGA-T
1 ATTTTTACTCGAA-ACAAGGCATTTCATTTCACTAT-AGATT
* *
11627604 AGTTTTTAGC-CGAAACAAGACATATCATTTCACTATAGATT
1 A-TTTTTA-CTCGAAACAAGGCATTTCATTTCACTATAGATT
*
11627645 GTTTTT
1 ATTTTT
11627651 CTTAAAACAA
Statistics
Matches: 62, Mismatches: 9, Indels: 22
0.67 0.10 0.24
Matches are distributed among these distances:
35 3 0.05
36 17 0.27
37 5 0.08
38 6 0.10
39 7 0.11
40 22 0.35
41 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (40 bp):
ATTTTTACTCGAAACAAGGCATTTCATTTCACTATAGATT
Found at i:11627610 original size:36 final size:36
Alignment explanation
Indices: 11627475--11628314 Score: 247
Period size: 39 Copynumber: 21.9 Consensus size: 36
11627465 AATATGAAAT
* *
11627475 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-A
1 TTTATCTCGCTTGAGATAGTTTTTCTTAAAACAAGA
* * * **
11627510 CTTTGTCTCGCTTGAGACAATTTTTACTCGAAACAAGGCA
1 -TTTATCTCGCTTGAGATAGTTTTT-CTTAAAACAA-G-A
* * *
11627550 TTTCATTTCACTAT-AGATTA-TTTTTCTTAAGACAAGA
1 TTT-ATCTCGCT-TGAGA-TAGTTTTTCTTAAAACAAGA
* **
11627587 TTCATCTCGCTTGAGATAGTTTTTAGC-CGAAACAAGACA
1 TTTATCTCGCTTGAGATAGTTTTT--CTTAAAACAAG--A
* * * * *
11627626 TATCATTTCACTAT-AGATTGTTTTTCTTAAAACAATA
1 T-TTATCTCGCT-TGAGATAGTTTTTCTTAAAACAAGA
* * * *
11627663 TTTTAGCTCGCTTGAGATAGTTTTACTAAAAATATAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
* * * * *
11627702 TTTATCTCACCTGAGATTGTTTTTCTTAAAACCATA
1 TTTATCTCGCTTGAGATAGTTTTTCTTAAAACAAGA
* **
11627738 TTTATCTCGCTTGAGATAGTTTTACTCGAAACAGACGA
1 TTTATCTCGCTTGAGATAGTTTTTCTTAAAACA-A-GA
** *
11627776 TTTTATCTCGCTTGAGATATAGTTTCACTTGAAATAAAAGA
1 -TTTATCTCGCTTGAG--ATAGTTTTTCTT-AAA-ACAAGA
* ** * * *
11627817 TTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAATA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
* * * * *
11627856 TTTTATCTCGTTTGAGATAGTTTTACTCACAACATAATA
1 -TTTATCTCGCTTGAGATAGTTTTTCTTA-AA-ACAAGA
* * ** * *
11627895 TTTTATCTCACTTAAGATAGTTTCACTCGAAATAGAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
** ** * *
11627934 TTTTATCTCGCTTGAGATAACTTCACTCGAAACAGAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
** * *
11627973 TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
* * ** * *
11628012 TTTTATCTTGCTTGACATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
* ** * *
11628051 TTTTATCTCGCTTGAGATACTTTCACTCGAAACATAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
** * *
11628090 TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCT-TAAA-ACAAGA
* * **
11628129 TTTTACCTCGCTTGAGATAATTTCACTTGAAACACAAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCTT-AAA-ACAAGA
* * *
11628168 TTTTATCTCGCTTGAGAT--TTCATTC-GAAACAGAAGA
1 -TTTATCTCGCTTGAGATAGTT-TTTCTTAAA-ACAAGA
* * ** **
11628204 TTTTATTTCGCTTGAGATAGTGTCACTCGAAACATGAGA
1 -TTTATCTCGCTTGAGATAGTTTTTCTTAAAACA--AGA
* ** **
11628243 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGGAGA
1 TTTATCTCGCTTGAGATAGTTTTTCTTAAAACA--AGA
* *
11628281 TTTATCTTGCTTGAGATCGTTTTTCTTAAAACAA
1 TTTATCTCGCTTGAGATAGTTTTTCTTAAAACAA
11628315 ACTACGCCTC
Statistics
Matches: 649, Mismatches: 118, Indels: 74
0.77 0.14 0.09
Matches are distributed among these distances:
35 3 0.00
36 90 0.14
37 44 0.07
38 94 0.14
39 350 0.54
40 33 0.05
41 30 0.05
42 3 0.00
43 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (36 bp):
TTTATCTCGCTTGAGATAGTTTTTCTTAAAACAAGA
Found at i:11627687 original size:76 final size:75
Alignment explanation
Indices: 11627488--11627770 Score: 290
Period size: 76 Copynumber: 3.7 Consensus size: 75
11627478 ATCTCACTTG
* * *
11627488 AGATTGTTTTTCTTAAAACAA-ACTTT-GTCTCGCTTGAGACAATTTTTACTCGAAACAAGGCAT
1 AGATTGTTTTTCTTAAAACAATA-TTTAG-CTCGCTTGAGA-TAGTTTTACTCGAAACAAGACAT
*
11627551 TTCATTTCACTAT
63 ATCATTTCACTAT
* * * * *
11627564 AGATTATTTTTCTTAAGACAAGATTCATCTCGCTTGAGATAGTTTTTAGC-CGAAACAAGACATA
1 AGATTGTTTTTCTTAAAACAATATTTAGCTCGCTTGAGATAG-TTTTA-CTCGAAACAAGACATA
11627628 TCATTTCACTAT
64 TCATTTCACTAT
** * *
11627640 AGATTGTTTTTCTTAAAACAATATTTTAGCTCGCTTGAGATAGTTTTACTAAAAATATA-AGAT-
1 AGATTGTTTTTCTTAAAACAATA-TTTAGCTCGCTTGAGATAGTTTTACTCGAAACA-AGACATA
* * *
11627703 TTATCTCACCT-G
64 TCATTTCA-CTAT
* *
11627715 AGATTGTTTTTCTTAAAACCATATTTATCTCGCTTGAGATAGTTTTACTCGAAACA
1 AGATTGTTTTTCTTAAAACAATATTTAGCTCGCTTGAGATAGTTTTACTCGAAACA
11627771 GACGATTTTA
Statistics
Matches: 174, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
74 29 0.17
75 30 0.17
76 95 0.55
77 20 0.11
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACAATATTTAGCTCGCTTGAGATAGTTTTACTCGAAACAAGACATATC
ATTTCACTAT
Found at i:11627792 original size:39 final size:39
Alignment explanation
Indices: 11627738--11628302 Score: 766
Period size: 39 Copynumber: 14.6 Consensus size: 39
11627728 TAAAACCATA
* *
11627738 TTTATCTCGCTTGAGATAGTTTTACTCGAAACAGACGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* * *
11627777 TTTATCTCGCTTGAGATATAGTTTCACTTGAAATAAAAGAT
1 TTTATCTCGCTTGAG--ATAGTTTCACTCGAAACAGAAGAT
* *
11627818 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGAATAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* * * *
11627857 TTTATCTCGTTTGAGATAGTTTTACTC-ACAACATAATAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGA-AACAGAAGAT
* * *
11627896 TTTATCTCACTTAAGATAGTTTCACTCGAAATAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
**
11627935 TTTATCTCGCTTGAGATAACTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
11627974 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
11628013 TTTATCTTGCTTGACATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
11628052 TTTATCTCGCTTGAGATACTTTCACTCGAAACATAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
11628091 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* * * *
11628130 TTTACCTCGCTTGAGATAATTTCACTTGAAACACAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
*
11628169 TTTATCTCGCTTGAG--A-TTTCATTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
11628205 TTTATTTCGCTTGAGATAGTGTCACTCGAAACATG-AGA-
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACA-GAAGAT
* *
11628243 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGGAGA-
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
* *
11628281 TTTATCTTGCTTGAGATCGTTT
1 TTTATCTCGCTTGAGATAGTTT
11628303 TTCTTAAAAC
Statistics
Matches: 464, Mismatches: 53, Indels: 19
0.87 0.10 0.04
Matches are distributed among these distances:
36 31 0.07
37 2 0.00
38 54 0.12
39 342 0.74
40 2 0.00
41 33 0.07
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
Found at i:11628313 original size:38 final size:38
Alignment explanation
Indices: 11627664--11628302 Score: 399
Period size: 39 Copynumber: 16.6 Consensus size: 38
11627654 AAAACAATAT
* * * * * **
11627664 TTTAGCTCGCTTGAGATAGTTTTACTAAAAATATAAGA
1 TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * ** * * *
11627702 TTTATCTCACCTGAGATTGTTTTTCTTAAAAC--CATA
1 TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * *
11627738 TTTATCTCGCTTGAGATAGTTTTACTCGAAACA-GACGA
1 TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGA-GA
* ** * **
11627776 TTTTATCTCGCTTGAGATATAGTTTCACTTGAAATAAAAGA
1 -TTTATCTCACTTGAG--ATAGTTTCACTCAAAACAGGAGA
* * *
11627817 TTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAATA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
** * * ** *
11627856 TTTTATCTCGTTTGAGATAGTTTTACTCACAACATAATA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * * *
11627895 TTTTATCTCACTTAAGATAGTTTCACTCGAAATAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* ** * *
11627934 TTTTATCTCGCTTGAGATAACTTCACTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * *
11627973 TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
** * * *
11628012 TTTTATCTTGCTTGACATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * * **
11628051 TTTTATCTCGCTTGAGATACTTTCACTCGAAACATAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * *
11628090 TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * * ** **
11628129 TTTTACCTCGCTTGAGATAATTTCACTTGAAACACAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * * *
11628168 TTTTATCTCGCTTGAG--A-TTTCATTCGAAACAGAAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
* * * * *
11628204 TTTTATTTCGCTTGAGATAGTGTCACTCGAAACATGAGA
1 -TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
*
11628243 TTTATCTCACTTGAGATAGTTTCACTCGAAACAGGAGA
1 TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
** *
11628281 TTTATCTTGCTTGAGATCGTTT
1 TTTATCTCACTTGAGATAGTTT
11628303 TTCTTAAAAC
Statistics
Matches: 516, Mismatches: 76, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
36 59 0.11
37 2 0.00
38 80 0.16
39 342 0.66
41 32 0.06
42 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (38 bp):
TTTATCTCACTTGAGATAGTTTCACTCAAAACAGGAGA
Found at i:11628480 original size:42 final size:42
Alignment explanation
Indices: 11628433--11628517 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
11628423 CTTTGAATAA
* *
11628433 GCTTAAATCCTTCGAGCCATC-AGTAAGTCTTTCGAGCATGAT
1 GCTTAAATCCTTCGAGCCATCTA-TAAGTCTTTCAAGCAAGAT
* *
11628475 GCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGAT
1 GCTTAAATCCTTCGAGCCATCTATAAGTCTTTCAAGCAAGAT
11628517 G
1 G
11628518 ATAAGTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
GCTTAAATCCTTCGAGCCATCTATAAGTCTTTCAAGCAAGAT
Found at i:11628794 original size:93 final size:92
Alignment explanation
Indices: 11628570--11628819 Score: 299
Period size: 93 Copynumber: 2.7 Consensus size: 92
11628560 TTTCACGTTT
* * * *
11628570 CCTTTGCTCAATTCACAACACTTCGAATCAAAGATGCCTCACAT-GAGGGACCAACATTTTCAGT
1 CCTTTGCTCGATTCACGACATTTCGAATCAACGATGCCTCAC-TCGAGGGACCAACATTTTCAGT
11628634 AGAGAATTCATGAAAAGAACTTATTCAA
65 AGAGAATTCATGAAAAGAACTTATTCAA
* * * *
11628662 CCTTGGCTCGATTCACGACATTTTGAATCAACGACGCCTCACTCGAGGGACCAACA-TTTCTTGT
1 CCTTTGCTCGATTCACGACATTTCGAATCAACGATGCCTCACTCGAGGGACCAACATTTTC-AGT
* *
11628726 AGAGAATTCAT-AATGAAGAGCTTGTTCAA
65 AGAGAATTCATGAA--AAGAACTTATTCAA
* * * * * *
11628755 CCTTTTCTCGATTCACGACATTTCGAATCAGCGATGCCTCACTCGAGAGATCAACGTTTCCAGTA
1 CCTTTGCTCGATTCACGACATTTCGAATCAACGATGCCTCACTCGAGGGACCAACATTTTCAGTA
11628820 AAAAGATCAT
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
91 7 0.05
92 60 0.45
93 63 0.47
94 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (92 bp):
CCTTTGCTCGATTCACGACATTTCGAATCAACGATGCCTCACTCGAGGGACCAACATTTTCAGTA
GAGAATTCATGAAAAGAACTTATTCAA
Found at i:11635089 original size:47 final size:45
Alignment explanation
Indices: 11635019--11635191 Score: 240
Period size: 47 Copynumber: 3.8 Consensus size: 45
11635009 TATAAAATCT
* *
11635019 CTTACCATTTATCCCATAAGCTCGTAAGTTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
11635064 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
11635111 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
11635158 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
11635192 GCATGGTTAC
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
44 23 0.19
45 10 0.08
46 2 0.02
47 84 0.71
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:11638153 original size:31 final size:31
Alignment explanation
Indices: 11638103--11638203 Score: 148
Period size: 31 Copynumber: 3.2 Consensus size: 31
11638093 TTTTAAAACA
11638103 TGCAATACAATCCCCCCAACATTTAGTCCATT
1 TGCAATACAAT-CCCCCAACATTTAGTCCATT
* *
11638135 TGCAATACAATCCCCCAACAGTTAGTCCGTT
1 TGCAATACAATCCCCCAACATTTAGTCCATT
* *
11638166 TGCAATACAATCCCCAAACATTTAATCCATT
1 TGCAATACAATCCCCCAACATTTAGTCCATT
*
11638197 TGTAATA
1 TGCAATA
11638204 TGGTCCCCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 51 0.82
32 11 0.18
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.29
Consensus pattern (31 bp):
TGCAATACAATCCCCCAACATTTAGTCCATT
Found at i:11640217 original size:31 final size:30
Alignment explanation
Indices: 11640175--11640251 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
11640165 AGGTTATGTC
* * *
11640175 GGGGACCATATTGCAAATAGACTAAATATT
1 GGGGACTATATTGCAAACAAACTAAATATT
* *
11640205 GGGGGACTATATTGTAAACAAACTAAATGTT
1 -GGGGACTATATTGCAAACAAACTAAATATT
* *
11640236 GGAGACTGTATTGCAA
1 GGGGACTATATTGCAA
11640252 GTTTTAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (30 bp):
GGGGACTATATTGCAAACAAACTAAATATT
Found at i:11641322 original size:20 final size:20
Alignment explanation
Indices: 11641297--11641336 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11641287 CATGGCATAC
11641297 AAAAAA-CCCAAAACACCCCA
1 AAAAAATCCCAAAA-ACCCCA
*
11641317 AAAAAATTCCAAAAACCCCA
1 AAAAAATCCCAAAAACCCCA
11641337 TACCTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAATCCCAAAAACCCCA
Found at i:11644222 original size:14 final size:14
Alignment explanation
Indices: 11644203--11644232 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11644193 ATTCTCTAAA
11644203 AAATATAATTAATT
1 AAATATAATTAATT
*
11644217 AAATATAATTTATT
1 AAATATAATTAATT
11644231 AA
1 AA
11644233 CGGTTAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATAATTAATT
Found at i:11649669 original size:36 final size:36
Alignment explanation
Indices: 11649627--11649702 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
11649617 TTATTTGTGG
*
11649627 AATAAATATATATTTTATTATATTAAATTTAACTTT
1 AATAAATATATATTTTATTATATTAAATTTAAATTT
11649663 AATAAATATATATTTTATTATATTAAATTTAAATTT
1 AATAAATATATATTTTATTATATTAAATTTAAATTT
11649699 AATA
1 AATA
11649703 TTTACATTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
AATAAATATATATTTTATTATATTAAATTTAAATTT
Found at i:11650210 original size:27 final size:26
Alignment explanation
Indices: 11650172--11650233 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 26
11650162 ATCAAATTTA
11650172 ATAACACTCAAATTTAACTAGTCTCGT
1 ATAA-ACTCAAATTTAACTAGTCTCGT
11650199 ATAATACTCAAATTTAACTAGTCTCGT
1 ATAA-ACTCAAATTTAACTAGTCTCGT
11650226 ATAAACTC
1 ATAAACTC
11650234 CTATTAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (26 bp):
ATAAACTCAAATTTAACTAGTCTCGT
Found at i:11652769 original size:18 final size:18
Alignment explanation
Indices: 11652746--11652781 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11652736 TAAAATATAT
11652746 TTTTATTAGAACTTGTCA
1 TTTTATTAGAACTTGTCA
*
11652764 TTTTATTGGAACTTGTCA
1 TTTTATTAGAACTTGTCA
11652782 CTCCAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (18 bp):
TTTTATTAGAACTTGTCA
Found at i:11655946 original size:18 final size:18
Alignment explanation
Indices: 11655918--11655992 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
11655908 AAATGAACTG
*
11655918 AAAAG-AATAGTACATGA
1 AAAAGAAATAGTACAGGA
*
11655935 AAATGAAATAGTACAGGA
1 AAAAGAAATAGTACAGGA
** *
11655953 AAAAGAAATAACAGAGGA
1 AAAAGAAATAGTACAGGA
*
11655971 AAAA-AGAATAGTACATGA
1 AAAAGA-AATAGTACAGGA
11655989 AAAA
1 AAAA
11655993 AAAAGGAGAG
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
17 5 0.11
18 41 0.89
ACGTcount: A:0.63, C:0.05, G:0.19, T:0.13
Consensus pattern (18 bp):
AAAAGAAATAGTACAGGA
Found at i:11656554 original size:20 final size:19
Alignment explanation
Indices: 11656529--11656566 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11656519 ACCCAATCCG
11656529 TTGACCGTTAACCATTGACT
1 TTGACCGTTAACC-TTGACT
*
11656549 TTGACCGTTGACCTTGAC
1 TTGACCGTTAACCTTGAC
11656567 CCACATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (19 bp):
TTGACCGTTAACCTTGACT
Found at i:11657218 original size:43 final size:43
Alignment explanation
Indices: 11657142--11657264 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 43
11657132 GATGTATTCT
* * * * * * *
11657142 TGATTCTGCATTGGATCATTTACAAAGGGCATAATCTCC-ATCT
1 TGATTCTCCATGGGATCCTCTACGAAGGACATAATC-CCTATCC
* * * * *
11657185 TGGTTCTCCATGGGATCCTCTATGGAGGCCATAATCCCTGTCC
1 TGATTCTCCATGGGATCCTCTACGAAGGACATAATCCCTATCC
*
11657228 TGATTCTGCATGGGATCCTCTACGAAGGACATAATCC
1 TGATTCTCCATGGGATCCTCTACGAAGGACATAATCC
11657265 TTATACAATT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
TGATTCTCCATGGGATCCTCTACGAAGGACATAATCCCTATCC
Found at i:11659540 original size:21 final size:20
Alignment explanation
Indices: 11659516--11659563 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
11659506 TGCACCCTTC
* *
11659516 TTGAGGATGGACTTCTTCAG
1 TTGAGGATAGACTTCTTAAG
* *
11659536 ATTGATGATATACTTCTTAAG
1 -TTGAGGATAGACTTCTTAAG
11659557 TTGAGGA
1 TTGAGGA
11659564 AATCCATTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (20 bp):
TTGAGGATAGACTTCTTAAG
Found at i:11660119 original size:21 final size:20
Alignment explanation
Indices: 11660081--11660119 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11660071 TGGTGTTCTT
*
11660081 TGTTTTTTCTTTTTCGATTA
1 TGTTTTTTCTTTGTCGATTA
*
11660101 TGTTTATTTGTTTGTCGAT
1 TGTTT-TTTCTTTGTCGAT
11660120 AATCGTCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.08, G:0.15, T:0.67
Consensus pattern (20 bp):
TGTTTTTTCTTTGTCGATTA
Found at i:11662734 original size:25 final size:24
Alignment explanation
Indices: 11662675--11662740 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 24
11662665 CAACAGTACA
* *
11662675 ATAAAATCATAA-TAAGTACACTT
1 ATAAAATCATAATTAAGTAAACTC
* * *
11662698 ATCAAATGATAATTTAGTAAATCTC
1 ATAAAATCATAATTAAGTAAA-CTC
*
11662723 ATAAAATCATAATAAAGT
1 ATAAAATCATAATTAAGT
11662741 TTAACTTTCA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 10 0.31
24 6 0.19
25 16 0.50
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.32
Consensus pattern (24 bp):
ATAAAATCATAATTAAGTAAACTC
Found at i:11662961 original size:82 final size:82
Alignment explanation
Indices: 11662807--11663017 Score: 242
Period size: 82 Copynumber: 2.5 Consensus size: 82
11662797 AGTACTGCGT
* * * * * * *
11662807 CCATAGGGCTTACCTTAAGCACACAGAAAAAAGGAAGCCAACCTAAGGATAGGCTTTGGGGCCTG
1 CCATAGGGCTTACCCTAAGCACACAG--CAAAGGGAGCCAACCTAAGGATAGGCATTCGGGCATA
* *** *
11662872 TATCCTTAAGTTTGTAAGT
64 TACCCTTAAGTCCATAAGG
* *
11662891 CTATAGGGCTTACCCTAAGTACACAGCAAAGGGAGCCAACCTAAGGATAGGCATTCGGGCATATA
1 CCATAGGGCTTACCCTAAGCACACAGCAAAGGGAGCCAACCTAAGGATAGGCATTCGGGCATATA
11662956 CCCTTAAGTCCATAAGG
66 CCCTTAAGTCCATAAGG
* **
11662973 CCATAGAGCTTAACCCTAAGCACACAGCAAAAAGAGCCAACCTAA
1 CCATAGGGCTT-ACCCTAAGCACACAGCAAAGGGAGCCAACCTAA
11663018 TGGAGCATAT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
82 54 0.50
83 30 0.28
84 23 0.21
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (82 bp):
CCATAGGGCTTACCCTAAGCACACAGCAAAGGGAGCCAACCTAAGGATAGGCATTCGGGCATATA
CCCTTAAGTCCATAAGG
Found at i:11664639 original size:83 final size:82
Alignment explanation
Indices: 11664483--11664653 Score: 209
Period size: 82 Copynumber: 2.1 Consensus size: 82
11664473 AGATGCTCCA
* * * * *** *
11664483 TTAGGTTGGCTCCGTTTGTTGTGTGCTTAGGGTTAAGCCCTATGGCCTTATGGACTTAAGGGTAC
1 TTAGGTTGGCTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATAC
* *
11664548 ATGTCCAAAAGCCTATCC
66 A-GGCCCAAAGCCTATCC
*
11664566 TTAGGTTGGCTCCCTTTGTTGTGTACTTAGGG-TAATCCCTATAGACTTACAAACTTAAGGATAC
1 TTAGGTTGGCTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATAC
*
11664630 AGGCCCCAAAGCCTATCT
66 AGG-CCCAAAGCCTATCC
11664648 TTAGGT
1 TTAGGT
11664654 CAACTTCCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
81 1 0.01
82 44 0.59
83 30 0.40
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (82 bp):
TTAGGTTGGCTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATAC
AGGCCCAAAGCCTATCC
Found at i:11664664 original size:82 final size:83
Alignment explanation
Indices: 11664492--11664690 Score: 186
Period size: 82 Copynumber: 2.4 Consensus size: 83
11664482 ATTAGGTTGG
* * * * *** * * *
11664492 CTCCGTTTGTTGTGTGCTTAGGGTTAAGCCCTATGGCCTTATGGACTTAAGGGTACATGTCCAAA
1 CTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATACAGGCCCAAA
***
11664557 AGCCTATCCTTAGGTTGG
66 AGCCTATCCTTAGGTCAA
* *
11664575 CTCCCTTTGTTGTGTACTTAGGG-TAATCCCTATAGACTTACAAACTTAAGGATACAGGCCCCAA
1 CTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATACAGGCCCAAA
*
11664639 AGCCTATCTTTAGGTCAA
66 AGCCTATCCTTAGGTCAA
* * * * *
11664657 CTTCCTTTTTCTGTGTGCTTA-AGATAAGCCCTAT
1 CTCCCTTTGT-TGTGTACTTAGGGTTAAGCCCTAT
11664691 GGACGCAGTT
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
82 54 0.58
83 39 0.42
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (83 bp):
CTCCCTTTGTTGTGTACTTAGGGTTAAGCCCTATAGACTTACAAACTTAAGGATACAGGCCCAAA
AGCCTATCCTTAGGTCAA
Found at i:11686571 original size:3 final size:3
Alignment explanation
Indices: 11686563--11686611 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
11686553 TTAATATATT
*
11686563 TAA TAA TAA TAA TAA TAA TGA 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
11686611 T
1 T
11686612 TATTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11687548 original size:21 final size:21
Alignment explanation
Indices: 11687519--11687562 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11687509 TAACTTTTTC
11687519 TTTTATCTTTCATTATTAACT
1 TTTTATCTTTCATTATTAACT
* *
11687540 TTTTCTCTTTCATTTTTAACT
1 TTTTATCTTTCATTATTAACT
11687561 TT
1 TT
11687563 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:11698386 original size:19 final size:20
Alignment explanation
Indices: 11698342--11698387 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
11698332 GTATTATGCC
* *
11698342 TGAAATTAATGTTTGAGTGT
1 TGAAATTAATGTTAGAATGT
11698362 TGAAATTAATGTTAGAATG-
1 TGAAATTAATGTTAGAATGT
11698381 TGAAATT
1 TGAAATT
11698388 GGATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (20 bp):
TGAAATTAATGTTAGAATGT
Found at i:11704084 original size:45 final size:45
Alignment explanation
Indices: 11704033--11704124 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
11704023 AAATATGAGG
11704033 ATTCATTAATGGTAAAATTATCATTTATCATTAAATGAATTTTAA
1 ATTCATTAATGGTAAAATTATCATTTATCATTAAATGAATTTTAA
*
11704078 ATTCATTAATGGTAAAATTGTCATTTATCATTAAATGAATTTTAA
1 ATTCATTAATGGTAAAATTATCATTTATCATTAAATGAATTTTAA
11704123 AT
1 AT
11704125 GACAAATTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (45 bp):
ATTCATTAATGGTAAAATTATCATTTATCATTAAATGAATTTTAA
Found at i:11707358 original size:23 final size:19
Alignment explanation
Indices: 11707324--11707377 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
11707314 TAATCATTCA
11707324 AAAATTT-ATAAATAAATT
1 AAAATTTAATAAATAAATT
11707342 AAAATTTAATAAATAAATT
1 AAAATTTAATAAATAAATT
11707361 AAAATTTAATAAATAAA
1 AAAATTTAATAAATAAA
11707378 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 7 0.20
19 28 0.80
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTAATAAATAAATT
Found at i:11707382 original size:23 final size:22
Alignment explanation
Indices: 11707331--11707386 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 22
11707321 TCAAAAATTT
11707331 ATAAATAAATTAAAATTTAATAA
1 ATAAA-AAATTAAAATTTAATAA
11707354 AT---AAATTAAAATTTAATAA
1 ATAAAAAATTAAAATTTAATAA
*
11707373 ATAAAAAAATAAAA
1 ATAAAAAATTAAAA
11707387 AAATATTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 19 0.66
22 8 0.28
23 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAAAAAATTAAAATTTAATAA
Found at i:11715364 original size:18 final size:18
Alignment explanation
Indices: 11715341--11715375 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11715331 TAAACATAAG
11715341 GTCAAACTAAAATAACAA
1 GTCAAACTAAAATAACAA
11715359 GTCAAACTAAAATAACA
1 GTCAAACTAAAATAACA
11715376 GAAAGCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (18 bp):
GTCAAACTAAAATAACAA
Found at i:11715895 original size:23 final size:22
Alignment explanation
Indices: 11715867--11715913 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11715857 AACCCTAAAC
*
11715867 AAGCCCAAAAATTGTATCTCCTA
1 AAGCCC-AAAATCGTATCTCCTA
* *
11715890 AAGCCCATAATCGTATCTTCTA
1 AAGCCCAAAATCGTATCTCCTA
11715912 AA
1 AA
11715914 TTCGCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
AAGCCCAAAATCGTATCTCCTA
Found at i:11723438 original size:297 final size:298
Alignment explanation
Indices: 11722903--11723496 Score: 1127
Period size: 297 Copynumber: 2.0 Consensus size: 298
11722893 ACGCACAATT
* *
11722903 CCAGGCAGGAACAGAGAGCAAAGGATAGAAAAACAAAAAATATAGCTCTCTCCATATAATTCAAG
1 CCAGGCAGGAACACAGAGCAAAGGAGAGAAAAACAAAAAATATAGCTCTCTCCATATAATTCAAG
11722968 AGAAATATACGGCTCCTCAAAGGAAATCTAGATACTGCCGAAGCAAGAATAATCAGAAGAAGGTG
66 AGAAATATACGGCTCCTCAAAGGAAATCTAGATACTGCCGAAGCAAGAATAATCAGAAGAAGGTG
* *
11723033 CGCGGGGAAGATTTGATTGAACTTGAAGGCAGATCCTTATCTGATTCTGACTTTCAAGCAAGATG
131 CGCGAGGAAGATTTGATTGAACTTGAAGGCAGATCCCTATCTGATTCTGACTTTCAAGCAAGATG
11723098 GCAGAGACAAAAGAAGGAAGCCAAAGAAACTTTACAGATCGGGAAAGAATTGGGTATAGTGTCTA
196 GCAGAGACAAAAGAAGGAAGCCAAAGAAACTTTACAGATCGGGAAAGAATTGGGTATAGTGTCTA
11723163 AAGGATCAGAAGTGGTTTTGGTTTCGGAAAATTATAGA
261 AAGGATCAGAAGTGGTTTTGGTTTCGGAAAATTATAGA
11723201 CCAGGCAGGAACACAGAGCAAAGGAGAGAAAAAC-AAAAATATAGCTCTCTCCATATAATTCAAG
1 CCAGGCAGGAACACAGAGCAAAGGAGAGAAAAACAAAAAATATAGCTCTCTCCATATAATTCAAG
11723265 AGAAATATACGGCTCCTCAAAGGAAATCTAGATACTGCCGAAGCAAGAATAATCAGAAGAAGGTG
66 AGAAATATACGGCTCCTCAAAGGAAATCTAGATACTGCCGAAGCAAGAATAATCAGAAGAAGGTG
*
11723330 CGCGAGGAAGATTTGATTGAACTTGAAGGCAGATCCCTATCTGATTCTGACTTTCAAGCAAGGTG
131 CGCGAGGAAGATTTGATTGAACTTGAAGGCAGATCCCTATCTGATTCTGACTTTCAAGCAAGATG
*
11723395 GCAGAGACAAAAGAAGGAAGCCAAAGAAACTTTACAGATCGGGAAAGAATTGGGTATATTGTCTA
196 GCAGAGACAAAAGAAGGAAGCCAAAGAAACTTTACAGATCGGGAAAGAATTGGGTATAGTGTCTA
11723460 AAGGATCAGAAGTGGTTTTGGTTTCGGAAAATTATAG
261 AAGGATCAGAAGTGGTTTTGGTTTCGGAAAATTATAG
11723497 CAGTGGAAAA
Statistics
Matches: 290, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
297 258 0.89
298 32 0.11
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (298 bp):
CCAGGCAGGAACACAGAGCAAAGGAGAGAAAAACAAAAAATATAGCTCTCTCCATATAATTCAAG
AGAAATATACGGCTCCTCAAAGGAAATCTAGATACTGCCGAAGCAAGAATAATCAGAAGAAGGTG
CGCGAGGAAGATTTGATTGAACTTGAAGGCAGATCCCTATCTGATTCTGACTTTCAAGCAAGATG
GCAGAGACAAAAGAAGGAAGCCAAAGAAACTTTACAGATCGGGAAAGAATTGGGTATAGTGTCTA
AAGGATCAGAAGTGGTTTTGGTTTCGGAAAATTATAGA
Found at i:11726709 original size:33 final size:34
Alignment explanation
Indices: 11726672--11726742 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
11726662 CAATATTATT
* * *
11726672 TATTATAAAAATTTAATA-TTATTATTTTTGAAA
1 TATTAGAAAAATTTAATATTTATTATTATTAAAA
* * *
11726705 TATTAGAATAATTTATTATTTTTTATTATTAAAA
1 TATTAGAAAAATTTAATATTTATTATTATTAAAA
11726739 TATT
1 TATT
11726743 TTTTTTTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (34 bp):
TATTAGAAAAATTTAATATTTATTATTATTAAAA
Found at i:11726734 original size:26 final size:28
Alignment explanation
Indices: 11726685--11726740 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
11726675 TATAAAAATT
*
11726685 TAATATTATTATTTTTGAAATATTAGAA
1 TAATATTATTATTTTTGAAATATTAAAA
* *
11726713 TAAT-TTATTATTTTT-TATTATTAAAA
1 TAATATTATTATTTTTGAAATATTAAAA
11726739 TA
1 TA
11726741 TTTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 11 0.44
28 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
TAATATTATTATTTTTGAAATATTAAAA
Found at i:11726827 original size:15 final size:15
Alignment explanation
Indices: 11726809--11726841 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11726799 AATATTATAA
*
11726809 ATTATATTAATTAAT
1 ATTATATTAATAAAT
11726824 ATTATATTAATAAAT
1 ATTATATTAATAAAT
11726839 ATT
1 ATT
11726842 TTTTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATATTAATAAAT
Found at i:11727333 original size:202 final size:202
Alignment explanation
Indices: 11726987--11727375 Score: 636
Period size: 202 Copynumber: 1.9 Consensus size: 202
11726977 AGCAACAGGT
* * * *
11726987 GATTGGTTTACGTAAAACTAGAATGACGAATTTAATAATTATGGCGAAGAACGTATAGAAGATGT
1 GATTGGTTTACGTAAAACTAGAATGACAAATTTAACAATGATGGCAAAGAACGTATAGAAGATGT
* * *
11727052 TCAGGAACCATGACACTCTTTGGTGCATAAATTTTAAAGAGAAATACCTCAAAAAGTCGAATTTT
66 TCAGGAACCACGACACTCTTTGGTGCAGAAATTTTAAAGAGAAATACCTCAAAAAGTCAAATTTT
*
11727117 ATGGAAGTGGGTAACCAAGCT-AGAAACTCGTTCACTTGAAAAGGAATTTTGAGCACATGAAATG
131 ATGGAAGTGGGTAACCAAGCTGA-AAACTCGTCCACTTGAAAAGGAATTTTGAGCACATGAAATG
11727181 ATGTGAGC
195 ATGTGAGC
* *
11727189 GATTGGTTTACGTAAAACTAGAATGATAAATTTAGCAATGATGGCAAAGAACGTATAGAAGATGT
1 GATTGGTTTACGTAAAACTAGAATGACAAATTTAACAATGATGGCAAAGAACGTATAGAAGATGT
* * * *
11727254 TCAGGAACTACGACACTCTTTGGTGTAGAAATTTTAAAGAGAAATACCTGAAACAGTCAAATTTT
66 TCAGGAACCACGACACTCTTTGGTGCAGAAATTTTAAAGAGAAATACCTCAAAAAGTCAAATTTT
11727319 ATGGAAGTGGGTAACCAAGCTGAAAACTCGTCCACTTGAAAAGGAATTTTGAGCACA
131 ATGGAAGTGGGTAACCAAGCTGAAAACTCGTCCACTTGAAAAGGAATTTTGAGCACA
11727376 CTAAATATGG
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
202 171 0.99
203 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (202 bp):
GATTGGTTTACGTAAAACTAGAATGACAAATTTAACAATGATGGCAAAGAACGTATAGAAGATGT
TCAGGAACCACGACACTCTTTGGTGCAGAAATTTTAAAGAGAAATACCTCAAAAAGTCAAATTTT
ATGGAAGTGGGTAACCAAGCTGAAAACTCGTCCACTTGAAAAGGAATTTTGAGCACATGAAATGA
TGTGAGC
Found at i:11728807 original size:65 final size:66
Alignment explanation
Indices: 11728609--11728816 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 66
11728599 TGCACTAAGA
* * *
11728609 GTGCACCGATGCATAAAATGCATTCGATGTTTCAA-AATAGCATGAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCATGAGTGCATCGATGCATGGATT
11728672 G
66 G
* * * *
11728673 GTGCATCGATGCATCAAATGCATTCAATGTTTTC-ATAAAACTC-TGAGTGCATCAATGCAT--A
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAATAATAC-CATGAGTGCATCGATGCATGGA
*
11728734 TTAT
64 TT-G
* * * *
11728738 GTGCATCGATGCATGAAATGCATTTGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TAATACCATGAGTGCATCGATGCATGGAT
11728801 TG
65 TG
*
11728803 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
11728817 CACTTTGAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
63 3 0.03
64 43 0.37
65 67 0.57
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (66 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATAATACCATGAGTGCATCGATGCATGGATT
G
Found at i:11731509 original size:23 final size:22
Alignment explanation
Indices: 11731479--11731560 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
11731469 GCATGGCCTT
11731479 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
11731501 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
11731523 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
11731546 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
11731561 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:11731571 original size:44 final size:44
Alignment explanation
Indices: 11731483--11731580 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
11731473 GGCCTTGTGC
* *
11731483 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
*
11731527 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATAGTGT
11731571 ATCGATGCAC
1 ATCGATGCAC
11731581 TAAGCACAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
Found at i:11735673 original size:117 final size:118
Alignment explanation
Indices: 11735453--11735674 Score: 261
Period size: 117 Copynumber: 1.9 Consensus size: 118
11735443 CTTTCAAATC
* * *
11735453 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATTCTTCTTCAAGAGTT
1 AAAATTTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAACAGTT
* *
11735518 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
* * * * * *
11735571 AAAA-TTTCTTTTTCAA-AGTTTTCAGATTTTAGTTTTGAAAGCTCTAACTCCTTTTTCAACATT
1 AAAATTTTCTTTTTCAATA-CTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAACAGT
* * * **
11735634 TCATTTTGCTTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
65 TCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
11735675 ATCATTTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
116 1 0.01
117 77 0.90
118 8 0.09
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAACAGTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:11737044 original size:64 final size:64
Alignment explanation
Indices: 11736976--11737155 Score: 226
Period size: 65 Copynumber: 2.8 Consensus size: 64
11736966 TTGAACCCTT
*
11736976 AGTGCATCGGTGCACTGAG-AGTGCATCGATGCATAAAATGCATTCGATGTTTCA-AAATAGC-C
1 AGTGCATCGATGCA-TGAGTAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-A-CTC
11737038 TG
63 TG
*
11737040 AGTGCATCGATGCATG-GCTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCT
1 AGTGCATCGATGCATGAG-TAGTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACTCT
11737104 G
64 G
* * *
11737105 AGTGCATCGATGCAT-AGTATGTGCATTGATGCATGAAATTCATTCGATGTT
1 AGTGCATCGATGCATGAGTA-GTGCATCGATGCATAAAATGCATTCGATGTT
11737156 CAATTTATTC
Statistics
Matches: 104, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 47 0.45
65 51 0.49
66 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
AGTGCATCGATGCATGAGTAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACTCTG
Found at i:11737958 original size:184 final size:184
Alignment explanation
Indices: 11737590--11737946 Score: 561
Period size: 184 Copynumber: 1.9 Consensus size: 184
11737580 TGAACATTAT
* * * **
11737590 ATAATAATACAAATCAGTTATCAAATATCCTACCAGAGCATCATAACATAACTAAATACATGCTG
1 ATAATAATACAAACCAATTATCAAATATCCTACCAGAGCATCATAACATAACTAAACACATGCCA
* *
11737655 ACTAGTAATATCAAAAGAACATCTAGAGATACCATACTGTTACTGATAAGGCAACCCTTGATAGA
66 ACTAGTAATATCAAAAGAACATCTAGAGATACCATACTGTTACAGATAAGGCAACCCTTGACAGA
*
11737720 TGATATCAATTGCACTCCTCAATCCGAAAGTACGCTAAAACCTACATGTGAAAC
131 TGATATCAATTACACTCCTCAATCCGAAAGTACGCTAAAACCTACATGTGAAAC
* *
11737774 ATAATAATACAAACCAATTATCAAATATCCTACCAGAGCATCATAACATAACTAAGCACCTGCCA
1 ATAATAATACAAACCAATTATCAAATATCCTACCAGAGCATCATAACATAACTAAACACATGCCA
**
11737839 ACTAGTAATATCAAAAGAACATCTAGAGATGTCATACTGTTACAGATAAGGCAACCCTTGACAGA
66 ACTAGTAATATCAAAAGAACATCTAGAGATACCATACTGTTACAGATAAGGCAACCCTTGACAGA
** * * *
11737904 TGATATCTGTTACACTCCTCACTCTGAAAGTACGCTGAAACCT
131 TGATATCAATTACACTCCTCAATCCGAAAGTACGCTAAAACCT
11737947 GTGTGTGAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
184 156 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (184 bp):
ATAATAATACAAACCAATTATCAAATATCCTACCAGAGCATCATAACATAACTAAACACATGCCA
ACTAGTAATATCAAAAGAACATCTAGAGATACCATACTGTTACAGATAAGGCAACCCTTGACAGA
TGATATCAATTACACTCCTCAATCCGAAAGTACGCTAAAACCTACATGTGAAAC
Found at i:11740050 original size:30 final size:30
Alignment explanation
Indices: 11739994--11740050 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
11739984 GAAAATTACC
**
11739994 ACTTTGGTCCCTAAACTTTCCCAATTTTAT
1 ACTTTGGTCCCTAAACTTTCAAAATTTTAT
*
11740024 ACTTTGGTCACC-AAACTTTTAAAATTT
1 ACTTTGGTC-CCTAAACTTTCAAAATTT
11740051 ACGTTTTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
ACTTTGGTCCCTAAACTTTCAAAATTTTAT
Found at i:11741702 original size:29 final size:29
Alignment explanation
Indices: 11741660--11741721 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
11741650 ACCCACAGAG
* **
11741660 AGCATATTGTTTTCATTAGAGTTTTTAGT
1 AGCATATTGTTTTCATTAAAAATTTTAGT
11741689 AGCATATTGTTTTCATTAAAAATTTTAGT
1 AGCATATTGTTTTCATTAAAAATTTTAGT
11741718 AGCA
1 AGCA
11741722 AAATGTATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.47
Consensus pattern (29 bp):
AGCATATTGTTTTCATTAAAAATTTTAGT
Found at i:11744600 original size:49 final size:49
Alignment explanation
Indices: 11744475--11744750 Score: 383
Period size: 49 Copynumber: 5.6 Consensus size: 49
11744465 CTTTTATGCG
* * *
11744475 AAATGCACTGTTATGTATTTAACTTGCATTAGTGGCACCTTTCTGCAAAA
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGC-CAA
* * * * * *
11744525 AAACGCAACGTTATACCTTTATCTTGCATTAGTGACACCTTTCTGCCAA
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
11744574 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
* *
11744623 AAATGCACCGTTATGCATTTAATTTGCATTAGTGGCACCTTTTTGCCAA
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
* * * *
11744672 AAATGCATCGTTATACATTTAATTTGCTTTAGTGGCACCTTTCTGCC-A
1 AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
* *
11744720 AAATGCACCGTTATGCATTTAATTTTCATTA
1 AAATGCACCGTTATGCATTTAACTTGCATTA
11744751 TAAAGCACTT
Statistics
Matches: 201, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 28 0.14
49 135 0.67
50 38 0.19
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (49 bp):
AAATGCACCGTTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
Found at i:11750903 original size:24 final size:24
Alignment explanation
Indices: 11750875--11750920 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11750865 TAAAAACTCA
* *
11750875 AATCATTCATTAAAACAAACACTT
1 AATCATCCATAAAAACAAACACTT
*
11750899 AATCATCCATAAAAACATACAC
1 AATCATCCATAAAAACAAACAC
11750921 CAAATAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (24 bp):
AATCATCCATAAAAACAAACACTT
Found at i:11762038 original size:2 final size:2
Alignment explanation
Indices: 11762031--11762063 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11762021 ATTATGGTAG
11762031 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 A
11762064 GAGAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11762769 original size:19 final size:20
Alignment explanation
Indices: 11762745--11762817 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
11762735 ATCTAATTTT
11762745 GGTATCGATACC-ATATAGG
1 GGTATCGATACCTATATAGG
* *
11762764 GGTATCGGTACCATAGTATAGT
1 GGTATCGATACC-TA-TATAGG
* *
11762786 GGTATCGATACCTATGGTAAG
1 GGTATCGATACCTAT-ATAGG
11762807 GGTATCGATAC
1 GGTATCGATAC
11762818 TGGACCACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.25
20 1 0.02
21 16 0.36
22 16 0.36
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCTATATAGG
Found at i:11762789 original size:22 final size:22
Alignment explanation
Indices: 11762745--11762817 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 22
11762735 ATCTAATTTT
*
11762745 GGTATCGATACC-ATA-TA-GG
1 GGTATCGATACCTATAGTATAG
*
11762764 GGTATCGGTACC-ATAGTATAG
1 GGTATCGATACCTATAGTATAG
*
11762785 TGGTATCGATACCTATGGTA-AG
1 -GGTATCGATACCTATAGTATAG
11762807 GGTATCGATAC
1 GGTATCGATAC
11762818 TGGACCACAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 14 0.30
20 2 0.04
21 12 0.26
22 13 0.28
23 5 0.11
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (22 bp):
GGTATCGATACCTATAGTATAG
Found at i:11762814 original size:96 final size:92
Alignment explanation
Indices: 11762672--11762912 Score: 265
Period size: 96 Copynumber: 2.5 Consensus size: 92
11762662 GCTTCAATCA
*
11762672 GTATCGGTACCTAATGAAGTGGTATCGATA-CATGGTGAGGGTATCGATACGGGTA-AACATCAA
1 GTATCGGTACCTAGT-AAGTGGTATCGATACCATGGT-AGGGTATCGATACGGG-ACAACATCAA
11762735 ATCTAATTTTGGTATCGATACCAT-ATA-GGG
63 ATCTAATTTTGGTATCGATA-C-TGATAGGGG
* * *
11762765 GTATCGGTACCATAGTATAGTGGTATCGATACCTATGGTAAGGGTATCGATACTGGACCACATCG
1 GTATCGGTACC-TAGTA-AGTGGTATCGATACC-ATGGT-AGGGTATCGATACGGGACAACATCA
*
11762830 AATCTAATTTTGGTATTGATACTGATAGGGG
62 AATCTAATTTTGGTATCGATACTGATAGGGG
* * * *
11762861 GTATCGATACCGTAGTAGGGTAGTATCGATACCATAGTAGGTGTATCGATAC
1 GTATCGGTACC-TAGTA-AGTGGTATCGATACCATGGTAGG-GTATCGATAC
11762913 TGAAAGGCCA
Statistics
Matches: 128, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
93 12 0.09
94 20 0.16
95 20 0.16
96 76 0.59
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (92 bp):
GTATCGGTACCTAGTAAGTGGTATCGATACCATGGTAGGGTATCGATACGGGACAACATCAAATC
TAATTTTGGTATCGATACTGATAGGGG
Found at i:11762869 original size:19 final size:19
Alignment explanation
Indices: 11762841--11762915 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
11762831 ATCTAATTTT
*
11762841 GGTATTGATACTGATAGGG
1 GGTATCGATACTGATAGGG
*
11762860 GGTATCGATACCGTAGTAGGG
1 GGTATCGATACTG-A-TAGGG
* *
11762881 TAGTATCGATAC-CATAGTAGG
1 -GGTATCGATACTGATAG--GG
*
11762902 TGTATCGATACTGA
1 GGTATCGATACTGA
11762916 AAGGCCAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 14 0.32
20 12 0.27
21 8 0.18
22 10 0.23
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (19 bp):
GGTATCGATACTGATAGGG
Found at i:11762908 original size:20 final size:22
Alignment explanation
Indices: 11762861--11762912 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
11762851 CTGATAGGGG
*
11762861 GTATCGATACCGTAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
11762883 GTATCGATACCATAGTA-GGT-
1 GTATCGATACCATAGTAGGGTA
11762903 GTATCGATAC
1 GTATCGATAC
11762913 TGAAAGGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 10 0.34
21 3 0.10
22 16 0.55
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:11763472 original size:45 final size:45
Alignment explanation
Indices: 11763423--11763663 Score: 297
Period size: 45 Copynumber: 5.4 Consensus size: 45
11763413 AAAGGATGCC
* * * *
11763423 AGAGTTAAAATGCATAGGGGTGCATTATCAACAGAAAAATATACT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
11763468 AGAGTTGAAACGCATATGGGTACATTATCAACAGAAAAGTATATT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
11763513 AGAGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATACT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
11763558 ATG-GTTGAGATGTATATGGGTACATTATCAACATAAAAGTATACC
1 A-GAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * **
11763603 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
11763647 AGAGTTTAAAATGCATA
1 AGAG-TTGAAATGCATA
11763664 ATGATGTATT
Statistics
Matches: 171, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 5 0.03
45 165 0.96
46 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (45 bp):
AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:11769722 original size:22 final size:20
Alignment explanation
Indices: 11769674--11769745 Score: 119
Period size: 22 Copynumber: 3.5 Consensus size: 20
11769664 ATCTAATTTT
11769674 GGTATCGATACCATA-TAGG
1 GGTATCGATACCATAGTAGG
11769693 GGTATCGATACCATAGTAGG
1 GGTATCGATACCATAGTAGG
11769713 GTAGTATCGATACCATAGTAGG
1 G--GTATCGATACCATAGTAGG
11769735 GGTATCGATAC
1 GGTATCGATAC
11769746 TGAAAGGCTA
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
19 15 0.30
20 15 0.30
22 20 0.40
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:11770185 original size:45 final size:45
Alignment explanation
Indices: 11770121--11770398 Score: 335
Period size: 45 Copynumber: 6.2 Consensus size: 45
11770111 ATAAAAGAAT
* *** * *
11770121 AATGCATATGGGTGAATTATTGGCATG-AAAGGATGCTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATACTAGAGTTGA
*
11770166 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTAGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
11770211 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* * * * *
11770256 AATGTATATGGGTACATTATGAACAGAAAAATATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* * * * * *
11770301 GATGCATATGGGTACATTATCAACATAAAAGTATACCATAGTTTA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
** *
11770346 AATGCATATGGGTGCATTATCAACAGAAAAG-ATGTTAGAGTTTAA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAG-TTGA
11770391 AATGCATA
1 AATGCATA
11770399 ATGATGTATT
Statistics
Matches: 203, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
44 6 0.03
45 197 0.97
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
Found at i:11770196 original size:79 final size:79
Alignment explanation
Indices: 11770048--11770196 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 79
11770038 ATTTAATATT
* * * * * * *
11770048 TATGGGTGCATTATTGGCATGAAAGGATTCCATAACTGAAATATATATGGGTACATTGTCAGCAT
1 TATGGGTGAATTATTGGCATGAAAGGATGCCAGAACTGAAATACATATGGGTACATTATCAACAG
11770113 AAAAGAATAATGCA
66 AAAAGAATAATGCA
* ** * *
11770127 TATGGGTGAATTATTGGCATGAAAGGATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAG
1 TATGGGTGAATTATTGGCATGAAAGGATGCCAGAACTGAAATACATATGGGTACATTATCAACAG
11770192 AAAAG
66 AAAAG
11770197 TATACTAGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 58 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (79 bp):
TATGGGTGAATTATTGGCATGAAAGGATGCCAGAACTGAAATACATATGGGTACATTATCAACAG
AAAAGAATAATGCA
Found at i:11772714 original size:34 final size:34
Alignment explanation
Indices: 11772659--11772930 Score: 241
Period size: 34 Copynumber: 7.9 Consensus size: 34
11772649 ATGTGGCATC
* *
11772659 CTTTCATGCCAATAATACACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
11772693 CTTTTATCCCAATAATGCACCCATGTGCA-T-TT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
11772725 -TTTCATGCCAATAATACACCCATATGCA-T-TT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
11772756 -TTTCATGCCAATAATACACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* * ** *
11772789 ATTTTGTGCTGATAATGCACCCATATACATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
**
11772823 CTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGTAT
1 CTTTTATGCCAATAATGCACCCATATGCA--T----TA---T-T
* *
11772867 GCTTTCATGCCAATAATGCACCCATATGCCTTATT
1 -CTTTTATGCCAATAATGCACCCATATGCATTATT
*
11772902 CTTTTATGCCGATAATGCACCCATATGCA
1 CTTTTATGCCAATAATGCACCCATATGCA
11772931 ATTCAGCTAT
Statistics
Matches: 200, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
31 55 0.28
32 3 0.01
33 3 0.01
34 104 0.52
35 1 0.00
36 2 0.01
39 2 0.01
40 2 0.01
43 2 0.01
44 1 0.00
45 25 0.12
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:11772739 original size:31 final size:31
Alignment explanation
Indices: 11772660--11772785 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
11772650 TGTGGCATCC
11772660 TTTCATGCCAATAATACACCCATATGCATTATT
1 TTTCATGCCAATAATACACCCATATGCA-T-TT
* * * *
11772693 CTTTTATCCCAATAATGCACCCATGTGCATTT
1 -TTTCATGCCAATAATACACCCATATGCATTT
11772725 TTTCATGCCAATAATACACCCATATGCATTT
1 TTTCATGCCAATAATACACCCATATGCATTT
11772756 TTTCATGCCAATAATACACCCATATGCATT
1 TTTCATGCCAATAATACACCCATATGCATT
11772786 ATTATTTTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
31 57 0.68
32 2 0.02
33 1 0.01
34 24 0.29
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (31 bp):
TTTCATGCCAATAATACACCCATATGCATTT
Found at i:11772804 original size:65 final size:66
Alignment explanation
Indices: 11772660--11772854 Score: 236
Period size: 65 Copynumber: 3.0 Consensus size: 66
11772650 TGTGGCATCC
* *
11772660 TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATCCCAATAATGCACCCATGTGCA-TT
1 TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCAATAATGCACCCATATGCATTT
11772724 T
66 T
* *
11772725 TTTCATGCCAATAATACACCCATATGCA-T-TT-TTTCATGCCAATAATACACCCATATGCATTA
1 TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCAATAATGCACCCATATGCATT-
11772787 TT
65 TT
** ** * * **
11772789 ATTTTGTGCTGATAATGCACCCATATACATTATTCTTTTATGCTGATAATGCACCCATATGCATT
1 -TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCAATAATGCACCCATATGCATT
11772854 T
65 T
11772855 CAGCTATGGT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
62 24 0.22
63 3 0.03
64 3 0.03
65 50 0.45
66 1 0.01
67 3 0.03
68 26 0.24
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.38
Consensus pattern (66 bp):
TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCAATAATGCACCCATATGCATTT
T
Found at i:11772856 original size:96 final size:94
Alignment explanation
Indices: 11772660--11772854 Score: 246
Period size: 96 Copynumber: 2.0 Consensus size: 94
11772650 TGTGGCATCC
* * *
11772660 TTTCATGCCAATAATACACCCATATGCATTATTCTTTTATCCCAATAATGCACCCATGTGCATTT
1 TTTCATGCCAATAATACACCCATATGCATTATTATTTTATCCCAATAATGCACCCATATACATTT
11772725 TTTCATGCCAATAATACACCCATATGCATTT
66 TTTCATGCCAATAATACACCCATATGCA--T
* * **
11772756 TTTCATGCCAATAATACACCCATATGCATTATTATTTTGTGCTGATAATGCACCCATATACATTA
1 TTTCATGCCAATAATACACCCATATGCATTATTATTTTATCCCAATAATGCACCCATATACA-T-
* ** *
11772821 TTCTTTTATGCTGATAATGCACCCATATGCAT
64 TT-TTTCATGCCAATAATACACCCATATGCAT
11772853 TT
1 TT
11772855 CAGCTATGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 55 0.65
97 4 0.05
98 2 0.02
99 24 0.28
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.38
Consensus pattern (94 bp):
TTTCATGCCAATAATACACCCATATGCATTATTATTTTATCCCAATAATGCACCCATATACATTT
TTTCATGCCAATAATACACCCATATGCAT
Found at i:11772936 original size:79 final size:79
Alignment explanation
Indices: 11772800--11773008 Score: 328
Period size: 79 Copynumber: 2.6 Consensus size: 79
11772790 TTTTGTGCTG
* * * *
11772800 ATAATGCACCCATATACATTATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGGT
1 ATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCAATTCAGCTATGGC
** *
11772865 ATGCTTTCATGCCA
66 ATAATTTCATGCAA
*
11772879 ATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAATTCAGCTATGGC
1 ATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCAATTCAGCTATGGC
11772944 ATAATTTCATGCAA
66 ATAATTTCATGCAA
* *
11772958 ATAATGCACCCATATGCATTATTCTTTCATGCCAATAATGCACCCATATGC
1 ATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGC
11773009 CTTATTCTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 119 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCAATTCAGCTATGGC
ATAATTTCATGCAA
Found at i:11772985 original size:113 final size:113
Alignment explanation
Indices: 11772868--11773090 Score: 446
Period size: 113 Copynumber: 2.0 Consensus size: 113
11772858 CTATGGTATG
11772868 CTTTCATGCCAATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAAT
1 CTTTCATGCCAATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAAT
11772933 TCAGCTATGGCATAATTTCATGCAAATAATGCACCCATATGCATTATT
66 TCAGCTATGGCATAATTTCATGCAAATAATGCACCCATATGCATTATT
11772981 CTTTCATGCCAATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAAT
1 CTTTCATGCCAATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAAT
11773046 TCAGCTATGGCATAATTTCATGCAAATAATGCACCCATATGCATT
66 TCAGCTATGGCATAATTTCATGCAAATAATGCACCCATATGCATT
11773091 TCAGCTATGA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (113 bp):
CTTTCATGCCAATAATGCACCCATATGCCTTATTCTTTTATGCCGATAATGCACCCATATGCAAT
TCAGCTATGGCATAATTTCATGCAAATAATGCACCCATATGCATTATT
Found at i:11772986 original size:34 final size:34
Alignment explanation
Indices: 11772948--11773043 Score: 156
Period size: 34 Copynumber: 2.8 Consensus size: 34
11772938 TATGGCATAA
*
11772948 TTTCATGCAAATAATGCACCCATATGCATTATTC
1 TTTCATGCCAATAATGCACCCATATGCATTATTC
*
11772982 TTTCATGCCAATAATGCACCCATATGCCTTATTC
1 TTTCATGCCAATAATGCACCCATATGCATTATTC
* *
11773016 TTTTATGCCGATAATGCACCCATATGCA
1 TTTCATGCCAATAATGCACCCATATGCA
11773044 ATTCAGCTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (34 bp):
TTTCATGCCAATAATGCACCCATATGCATTATTC
Found at i:11773077 original size:45 final size:45
Alignment explanation
Indices: 11773026--11773131 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 45
11773016 TTTTATGCCG
* *
11773026 ATAATGCACCCATATGCAATTCAGCTATGGCATAATTTCATGCAA
1 ATAATGCACCCATATGCAATTCAGCTATGACATAAGTTCATGCAA
* ** *
11773071 ATAATGCACCCATATGCATTTCAGCTATGACATCCGTTCATGCCA
1 ATAATGCACCCATATGCAATTCAGCTATGACATAAGTTCATGCAA
11773116 ATAATGCACCCATATG
1 ATAATGCACCCATATG
11773132 TATTATTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (45 bp):
ATAATGCACCCATATGCAATTCAGCTATGACATAAGTTCATGCAA
Found at i:11776523 original size:20 final size:22
Alignment explanation
Indices: 11776498--11776537 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11776488 ATTGCCATCG
11776498 TTCCA-TTT-CCACATCATTTA
1 TTCCATTTTGCCACATCATTTA
11776518 TTCCATTTTGCCACATCATT
1 TTCCATTTTGCCACATCATT
11776538 ATCATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.45
Consensus pattern (22 bp):
TTCCATTTTGCCACATCATTTA
Found at i:11780641 original size:20 final size:20
Alignment explanation
Indices: 11780616--11780653 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11780606 ATTGAGAAGG
11780616 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
11780636 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
11780654 CCATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:11786502 original size:14 final size:14
Alignment explanation
Indices: 11786475--11786543 Score: 79
Period size: 14 Copynumber: 4.9 Consensus size: 14
11786465 GTATATTATA
11786475 AGAAGAAGAAAAAAC
1 AGAAGAA-AAAAAAC
*
11786490 ATAAGAAAAAAAAC
1 AGAAGAAAAAAAAC
*
11786504 AGAAGAAAAAAAAT
1 AGAAGAAAAAAAAC
*
11786518 AGAA-AAAGAAAAC
1 AGAAGAAAAAAAAC
11786531 -GAAGAAGAAAAAA
1 AGAAGAA-AAAAAA
11786544 ATGAAAACGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
12 3 0.07
13 9 0.20
14 28 0.61
15 6 0.13
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (14 bp):
AGAAGAAAAAAAAC
Found at i:11786507 original size:26 final size:28
Alignment explanation
Indices: 11786477--11786568 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 28
11786467 ATATTATAAG
*
11786477 AAGAAGAAAAAACATA-AGAAAA-AAAAC
1 AAGAAGAAAAAAAATAGA-AAAAGAAAAC
11786504 -AGAAGAAAAAAAATAGAAAAAGAAAAC
1 AAGAAGAAAAAAAATAGAAAAAGAAAAC
* *
11786531 GAAGAAG-AAAAAAAT-GAAAACGAGAAAG
1 -AAGAAGAAAAAAAATAGAAAAAGA-AAAC
11786559 AA-AAGAAAAA
1 AAGAAGAAAAA
11786569 GAGAAAAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
26 21 0.38
27 19 0.34
28 11 0.20
29 5 0.09
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (28 bp):
AAGAAGAAAAAAAATAGAAAAAGAAAAC
Found at i:11786529 original size:29 final size:28
Alignment explanation
Indices: 11786474--11786544 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
11786464 TGTATATTAT
*
11786474 AAGAAGAAGAAAAAACATAAGAAAAAAA-A
1 AAGAAGAA-AAAAAACAGAA-AAAAAAACA
* * *
11786503 CAGAAGAAAAAAAATAGAAAAAGAAAACG
1 AAGAAGAAAAAAAACAGAAAAA-AAAACA
11786532 AAGAAGAAAAAAA
1 AAGAAGAAAAAAA
11786545 TGAAAACGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.09
28 13 0.37
29 19 0.54
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.03
Consensus pattern (28 bp):
AAGAAGAAAAAAAACAGAAAAAAAAACA
Found at i:11786543 original size:20 final size:21
Alignment explanation
Indices: 11786520--11786562 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11786510 AAAAAAATAG
11786520 AAAAA-GAAAACGA-AGAAGAA
1 AAAAATGAAAACGAGA-AAGAA
11786540 AAAAATGAAAACGAGAAAGAA
1 AAAAATGAAAACGAGAAAGAA
11786561 AA
1 AA
11786563 GAAAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 15 0.71
22 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (21 bp):
AAAAATGAAAACGAGAAAGAA
Found at i:11786556 original size:17 final size:17
Alignment explanation
Indices: 11786536--11786581 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
11786526 AAAACGAAGA
*
11786536 AGAAAAAAATGAAAACG
1 AGAAAAAAATGAAAAAG
11786553 AGAAAGAAAA-GAAAAAG
1 AGAAA-AAAATGAAAAAG
11786570 AGAAAAAAATGA
1 AGAAAAAAATGA
11786582 GAGATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (17 bp):
AGAAAAAAATGAAAAAG
Found at i:11786556 original size:29 final size:26
Alignment explanation
Indices: 11786474--11786568 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 26
11786464 TGTATATTAT
11786474 AAGAAGAAGAAAAAACATAAGAAAAA-A
1 AAGAAGAAGAAAAAA-AT-AGAAAAAGA
*
11786501 AA-CAGAAGAAAAAAAATAGAAAAAGAA
1 AAGAAGAAG-AAAAAAATAGAAAAAG-A
11786528 AACGAAGAAGAAAAAAAT-GAAAACGAGA
1 AA-GAAGAAGAAAAAAATAGAAAA--AGA
11786556 AAGAA-AAGAAAAA
1 AAGAAGAAGAAAAA
11786569 GAGAAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
25 7 0.12
26 15 0.25
27 19 0.32
28 11 0.19
29 7 0.12
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (26 bp):
AAGAAGAAGAAAAAAATAGAAAAAGA
Found at i:11786576 original size:26 final size:26
Alignment explanation
Indices: 11786511--11786576 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
11786501 AACAGAAGAA
11786511 AAAAAATAGAAAAA-GA-AAACGAAGAAG
1 AAAAAA-AGAAAAACGAGAAA-GAA-AAG
11786538 AAAAAAATG-AAAACGAGAAAGAAAAG
1 AAAAAAA-GAAAAACGAGAAAGAAAAG
*
11786564 AAAAAGAGAAAAA
1 AAAAAAAGAAAAA
11786577 AATGAGAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 18 0.53
27 12 0.35
28 3 0.09
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (26 bp):
AAAAAAAGAAAAACGAGAAAGAAAAG
Found at i:11790746 original size:49 final size:46
Alignment explanation
Indices: 11790635--11790748 Score: 131
Period size: 46 Copynumber: 2.4 Consensus size: 46
11790625 GTAACCATGC
11790635 AAATAAGCTTATGAGCTTACAGAATAATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTACAGAATAATGGCAAGTATATTGAAAAA
* * * * **
11790681 AAATAAGCTTACGAGCTTACGGAATTTTAAATGGTAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTACAGAA---T-AATGGCAAGTATATTGAAAAA
11790730 AAATAAGCTTATGAGCTTA
1 AAATAAGCTTATGAGCTTA
11790749 TGGGATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
46 22 0.39
49 21 0.37
50 14 0.25
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTACAGAATAATGGCAAGTATATTGAAAAA
Found at i:11801173 original size:41 final size:41
Alignment explanation
Indices: 11801104--11801185 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
11801094 GAATCTATTA
* *
11801104 CGACGTTTGTATAAAAACACTGCAAAATTACTACTCTGTTG
1 CGACATTTGGATAAAAACACTGCAAAATTACTACTCTGTTG
* *
11801145 CGACATTTGGATAAAAATACTG-AGAAATTACTACTTTGTTG
1 CGACATTTGGATAAAAACACTGCA-AAATTACTACTCTGTTG
11801186 AAAAAACGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (41 bp):
CGACATTTGGATAAAAACACTGCAAAATTACTACTCTGTTG
Found at i:11803228 original size:61 final size:64
Alignment explanation
Indices: 11803146--11803266 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 64
11803136 GTTAATCAAG
** * *
11803146 ATATGACACATAAGGTTATGCCCACCACCTATAC-TAG-GT-TTACACTCTAGTGCTAAACTGA
1 ATATGACACATAAGGCCATGCCCACCACCTACACTTAGTGTCTTACACACTAGTGCTAAACTGA
* *
11803207 ATATGACACATAAGGCCATGCCCTCCACTTACACTTAGTGTCCTTACACACTAGTGCTAA
1 ATATGACACATAAGGCCATGCCCACCACCTACACTTAGTGT-CTTACACACTAGTGCTAA
11803267 TATAAACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 29 0.58
62 3 0.06
63 2 0.04
65 16 0.32
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (64 bp):
ATATGACACATAAGGCCATGCCCACCACCTACACTTAGTGTCTTACACACTAGTGCTAAACTGA
Found at i:11808979 original size:19 final size:19
Alignment explanation
Indices: 11808930--11808981 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
11808920 TTTTGCTAAG
11808930 TATAGTTTAATAC-ATTAAT
1 TATA-TTTAATACTATTAAT
* *
11808949 AAT-TATTCATACTATTAAT
1 TATAT-TTAATACTATTAAT
11808968 TATATTTAATACTA
1 TATATTTAATACTA
11808982 ACTATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 1 0.04
18 6 0.23
19 18 0.69
20 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATTTAATACTATTAAT
Found at i:11825740 original size:226 final size:226
Alignment explanation
Indices: 11825346--11825799 Score: 872
Period size: 226 Copynumber: 2.0 Consensus size: 226
11825336 AAATTGTTAA
*
11825346 TTAGTTTTTACAAATTTTAAGATTATATTTGATTCAATCATTAGAATATATAAAATTATTTTTTA
1 TTAGTTTTTACAAATTTTAAGATTATATTTGATTCAATCATTAGAATATATAAAATTATTTTTAA
11825411 AATTTAAAATGTCAATTTTTACTCCTTACTCTATTGAACTTTAAGTCCTATAGTGGAAATATTTT
66 AATTTAAAATGTCAATTTTTACTCCTTACTCTATTGAACTTTAAGTCCTATAGTGGAAATATTTT
11825476 TGAAATAATTTTTACTATGGGTTTCGAACTTTAATCGAGTCAAAAATAATTTTCACGCATAGTAG
131 TGAAATAATTTTTACTATGGGTTTCGAACTTTAATCGAGTCAAAAATAATTTTCACGCATAGTAG
*
11825541 TACCGATACTACTAGAACAGTGTTAATACTG
196 TACCGATACTACTAGAACAGTGTCAATACTG
11825572 TTAGTTTTTACAAATTTTAAGATTATATTTGATTCAATCATTAGAATATATAAAATTATTTTTAA
1 TTAGTTTTTACAAATTTTAAGATTATATTTGATTCAATCATTAGAATATATAAAATTATTTTTAA
11825637 AATTTAAAATGTCAATTTTTACTCCTTACTCTATTGAACTTTAAGTCCTATAGTGGAAATATTTT
66 AATTTAAAATGTCAATTTTTACTCCTTACTCTATTGAACTTTAAGTCCTATAGTGGAAATATTTT
*
11825702 TGAAATAATTTTTACTATGGGTTTCGAACTTTAATCGAGTCAAAAATGATTTTCACGCATAGTAG
131 TGAAATAATTTTTACTATGGGTTTCGAACTTTAATCGAGTCAAAAATAATTTTCACGCATAGTAG
*
11825767 TACCGATACTACTAGAACAGTGTCAATATTG
196 TACCGATACTACTAGAACAGTGTCAATACTG
11825798 TT
1 TT
11825800 CAAGAAGTAT
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
226 224 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (226 bp):
TTAGTTTTTACAAATTTTAAGATTATATTTGATTCAATCATTAGAATATATAAAATTATTTTTAA
AATTTAAAATGTCAATTTTTACTCCTTACTCTATTGAACTTTAAGTCCTATAGTGGAAATATTTT
TGAAATAATTTTTACTATGGGTTTCGAACTTTAATCGAGTCAAAAATAATTTTCACGCATAGTAG
TACCGATACTACTAGAACAGTGTCAATACTG
Found at i:11825969 original size:21 final size:21
Alignment explanation
Indices: 11825900--11825976 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 21
11825890 GAATACTAAA
*
11825900 ATGGTACCGATAC-CATA--T
1 ATGGTACCGATACTCTTAGTT
* *
11825918 ACGGTATCGATACTACTTAGTGT
1 ATGGTACCGATACT-CTTAGT-T
*
11825941 AGTAGTACCGATACTCTTAGTT
1 A-TGGTACCGATACTCTTAGTT
*
11825963 ATGGTACCAATACT
1 ATGGTACCGATACT
11825977 ACAGATTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
18 11 0.24
20 3 0.07
21 11 0.24
22 2 0.04
23 8 0.18
24 10 0.22
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (21 bp):
ATGGTACCGATACTCTTAGTT
Found at i:11827920 original size:45 final size:45
Alignment explanation
Indices: 11827853--11828007 Score: 238
Period size: 45 Copynumber: 3.4 Consensus size: 45
11827843 ACATTTTTAT
* * * *
11827853 TTATGACATCATTTCATACCGATAATGCACCCATATGTATTTTAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGTATTTCAA
* *
11827898 TTATAGCATCCTTTCATGCCGATAATACACCCATATGTATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGTATTTCAA
* *
11827943 TTATGGCATCCTTTTATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGTATTTCAA
11827988 TTATGGCATCCTTTCATGCC
1 TTATGGCATCCTTTCATGCC
11828008 TTTTATGTAC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 99 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCCATATGTATTTCAA
Found at i:11828248 original size:68 final size:68
Alignment explanation
Indices: 11828157--11828640 Score: 392
Period size: 68 Copynumber: 6.7 Consensus size: 68
11828147 TATTTAACCG
* *
11828157 TTCATCTAACTGGCATAATTGACACCTTTTTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
11828222 CCT
66 CCT
* * * * **
11828225 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGAACAGTTAGGACATTAATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG-C-CTCA-A----AGG
***
11828290 CAACGGTATTTAACT
59 C-AC----TTAGCCT
* *
11828305 GTTCATTTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
1 T-TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
11828370 GCCT
65 GCCT
* * * * * **
11828374 ATCATCTAACTGGAATAATTAACACCTTTCTGTCAAATACACAGTTAGGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC-TCAA------AGG
* * *
11828439 CAACGGTATCTAACCA
59 C-AC-TTAGC---C-T
* * * * *
11828455 TTCATTTAACTGTCATAATTGACACATTTCTGTCAAATGCATAGTTAGGCCTCAGAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
11828520 CCT
66 CCT
* * * * * * *
11828523 TTCATATAAATGGCATAATTGGCACCTTTTTGCCAATTGCACAGCTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
11828588 CCT
66 CCT
* * *
11828591 TTCATCTAACTGGCATAATTGACACCTTTCTATTATATGCACAGTTAGGC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGC
11828641 TATTAATCTT
Statistics
Matches: 321, Mismatches: 69, Indels: 52
0.73 0.16 0.12
Matches are distributed among these distances:
68 188 0.59
69 9 0.03
70 2 0.01
71 1 0.00
72 3 0.01
73 4 0.01
74 4 0.01
75 4 0.01
76 4 0.01
77 3 0.01
78 1 0.00
79 2 0.01
80 8 0.02
81 88 0.27
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:11828566 original size:149 final size:149
Alignment explanation
Indices: 11828060--11828573 Score: 724
Period size: 149 Copynumber: 3.4 Consensus size: 149
11828050 TTCTTTTACC
* * * * * *
11828060 CAAAGACATTTAGCCTTTCCA-CTAACTTGCATAATTGAAACTTTTCTGTCAAATGCACAGCTAT
1 CAAAGGCACTTAGCCTTT-CATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
* * *
11828124 GCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTT
65 GCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATTTAACTGGCATAATTGACACCTTTCTG
11828189 TCAAATGCACAGTTAGGCCT
130 TCAAATGCACAGTTAGGCCT
* * *
11828209 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGAACAGTTAGG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG
* * *
11828274 ACATTAATATTTTACTCAACGGTATTTAACTGTTCATTTAACTGGCATAATTGACACCTTTCTGT
66 CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATTTAACTGGCATAATTGACACCTTTCTGT
11828339 CAAATGCACAGTTAGGCCT
131 CAAATGCACAGTTAGGCCT
* * * * *
11828358 CAAAGGCACTTAGCCTATCATCTAACTGGAATAATTAACACCTTTCTGTCAAATACACAGTTAGG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG
* * * *
11828423 CCATTAATCTTTTACTCAACGGTATCTAACCATTCATTTAACTGTCATAATTGACACATTTCTGT
66 CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATTTAACTGGCATAATTGACACCTTTCTGT
*
11828488 CAAATGCATAGTTAGGCCT
131 CAAATGCACAGTTAGGCCT
* * * * * * *
11828507 CAGAGGCACTTAGCCTTTCATATAAATGGCATAATTGGCACCTTTTTGCCAATTGCACAGCTAGG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG
11828572 CC
66 CC
11828574 TCAAAGGCAC
Statistics
Matches: 324, Mismatches: 40, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
148 2 0.01
149 322 0.99
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (149 bp):
CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG
CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATTTAACTGGCATAATTGACACCTTTCTGT
CAAATGCACAGTTAGGCCT
Found at i:11828975 original size:55 final size:53
Alignment explanation
Indices: 11828862--11829075 Score: 223
Period size: 55 Copynumber: 3.9 Consensus size: 53
11828852 TCCCATACGG
* * *
11828862 AAATTCATATACTTAGTATGGATTTCTTAGTTCGCACACATAGTGCCC-ACAT
1 AAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACATAGTGCCCAACAT
* * * *
11828914 GGAAATTTATACACTTAGTATGAATTTATTAGCTTTGCACACAAAGTTCCCAAACAT
1 --AAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACATAGTGCCC-AACAT
* * **
11828971 AAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGG
1 AAATTCATACACTTAGTATGAATTTCTT-AGTTTGCACACATAGTGCCCA-ACAT
* *
11829026 AAATTCATACACTTAGTATGAATTTTTTAAGTTTTAGCACACTTAGTGCC
1 AAATTCATACACTTAGTATGAATTTCTT-AG-TTT-GCACACATAGTGCC
11829076 ATTTGGTAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
54 27 0.20
55 87 0.65
56 5 0.04
57 15 0.11
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (53 bp):
AAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACATAGTGCCCAACAT
Found at i:11833435 original size:45 final size:45
Alignment explanation
Indices: 11833373--11833617 Score: 364
Period size: 45 Copynumber: 5.4 Consensus size: 45
11833363 ACATTTTTAT
11833373 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
*
11833418 TTATAGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
* * **** *
11833463 TTATGGTATTCTTTCATATATATAATGCACCCATTTGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
*
11833508 TTATGGCATTCTTTCATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
* ** *
11833553 TTATGACATTGTTTCATGCCGATAATGTACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
*
11833598 TTATGGCATCATTTCATGCC
1 TTATGGCATCCTTTCATGCC
11833618 TTTTACCATT
Statistics
Matches: 179, Mismatches: 21, Indels: 0
0.89 0.10 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
Found at i:11834004 original size:68 final size:68
Alignment explanation
Indices: 11833913--11834247 Score: 357
Period size: 68 Copynumber: 4.7 Consensus size: 68
11833903 TATTTAACCG
* *
11833913 TTCATCTAACTGGCATAATTGACAACTTTCTGTCAAATGCACAATTAGGCCTCAATGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
11833978 CCT
66 CCT
* * * * **
11833981 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGTTATGCCATTAATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCC-TCAA------AGG
* *
11834046 CAACTGTATCTAACCA
59 C-ACT-TA---G-CCT
* *
11834062 TTCA-CATAACTGGAATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
1 TTCATC-TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTA
11834126 GCCT
65 GCCT
* * * * *
11834130 TTCATCTAACTGGTATAATTGACACCTTTCTGCCAATTACACAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
11834195 CCT
66 CCT
* * *
11834198 TTCATCTAACTGGCTTAATTGACACCTTTCTGTCAAATGAACATTTAGGC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGC
11834248 TATTAATCTT
Statistics
Matches: 220, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
68 151 0.69
69 4 0.02
72 2 0.01
73 3 0.01
74 2 0.01
75 1 0.00
76 3 0.01
77 2 0.01
80 4 0.02
81 48 0.22
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAAGGCACTTAG
CCT
Found at i:11834161 original size:149 final size:149
Alignment explanation
Indices: 11833666--11834161 Score: 755
Period size: 149 Copynumber: 3.3 Consensus size: 149
11833656 TTCTTTTACC
* * * * **
11833666 CAAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGACACTTTTCTATCAAATGCACAACTATG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTATG
*
11833731 CCATTAATCTTTTACTCAACGGTATTTAACCGTTTATCTAACTGGCATAATTGACACCATTTCTG
66 CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACC-TTTCTG
11833796 TCAAATGCACAGTTAGGCCT
130 TCAAATGCACAGTTAGGCCT
** *
11833816 CAAAGGCACTTAGCCTTTCATCTAACTAACATAATTGACACCTTT-TAGTCAAATGTACAGTT-T
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCT-GTCAAATGCACAGTTAT
* *
11833879 GGTCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAACTTTCT
65 -GCCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT
*
11833944 GTCAAATGCACAATTAGGCCT
129 GTCAAATGCACAGTTAGGCCT
* *
11833965 CAATGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGTTATG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTATG
* * * *
11834030 CCATTAATCTTTTACTCAACTGTATCTAACCATTCA-CATAACTGGAATAATTGACACCTTTCTG
66 CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATC-TAACTGGCATAATTGACACCTTTCTG
11834094 TCAAATGCACAGTTAGGCCT
130 TCAAATGCACAGTTAGGCCT
*
11834114 CAAAGGCACTTAGCCTTTCATCTAACTGGTATAATTGACACCTTTCTG
1 CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTG
11834162 CCAATTACAC
Statistics
Matches: 315, Mismatches: 26, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
148 1 0.00
149 204 0.65
150 110 0.35
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (149 bp):
CAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTATG
CCATTAATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGT
CAAATGCACAGTTAGGCCT
Found at i:11839035 original size:15 final size:17
Alignment explanation
Indices: 11839015--11839048 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
11839005 ATTTTATTAA
11839015 TTTTTTC-TAT-TATTT
1 TTTTTTCATATATATTT
11839030 TTTTTTCATATATATTT
1 TTTTTTCATATATATTT
11839047 TT
1 TT
11839049 AATCTAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTCATATATATTT
Found at i:11842021 original size:24 final size:24
Alignment explanation
Indices: 11841941--11842021 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
11841931 ATAAAGAACA
* *
11841941 AAAAAGAAAAGGAGCAAAA--AAGC
1 AAAAAGAAAAGGA-AAAAATGAAAC
11841964 AAAAA-ACAAA-GAAAAAATAGAAAC
1 AAAAAGA-AAAGGAAAAAAT-GAAAC
* * *
11841988 AAGAACAAAAGGAAAAAATGAATC
1 AAAAAGAAAAGGAAAAAATGAAAC
11842012 AAAAAGAAAA
1 AAAAAGAAAA
11842022 AGGGACAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.09
22 3 0.07
23 8 0.17
24 22 0.48
25 9 0.20
ACGTcount: A:0.74, C:0.07, G:0.15, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAGGAAAAAATGAAAC
Found at i:11842654 original size:22 final size:22
Alignment explanation
Indices: 11842626--11842677 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
11842616 GCTGCCCCAT
*
11842626 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAATGC
11842648 CAAACCTTTGAACATCAAATGC
1 CAAACCTTTGAACATCAAATGC
11842670 CAAACCTT
1 CAAACCTT
11842678 CGACCAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAATGC
Found at i:11843577 original size:37 final size:37
Alignment explanation
Indices: 11843533--11843604 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
11843523 TCACTAGAAG
* *
11843533 ATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
*
11843570 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
11843605 TAAACATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (37 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:11843667 original size:36 final size:37
Alignment explanation
Indices: 11843620--11843706 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
11843610 ATTAAAAACA
** *
11843620 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
**
11843656 TTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
*
11843693 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
11843707 TAAACATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAG
Found at i:11843789 original size:37 final size:38
Alignment explanation
Indices: 11843722--11843809 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 38
11843712 ATTAAAAACA
** *
11843722 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAG-
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
* *
11843758 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGT
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
*
11843796 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
11843810 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 12 0.27
37 19 0.43
38 13 0.30
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (38 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
Found at i:11843872 original size:103 final size:103
Alignment explanation
Indices: 11843533--11844116 Score: 1014
Period size: 103 Copynumber: 5.7 Consensus size: 103
11843523 TCACTAGAAG
* *
11843533 ATTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTC
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
11843597 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
66 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
*
11843635 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAG-TTTCTC
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
11843699 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
66 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
*
11843737 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTTCTC
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
*
11843802 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
11843840 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
*
11843905 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
*
11843943 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTGTCCCTTGAGACAGTTTTCTC
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
*
11844008 TTGAAACATAAACATTAAAAATATTTCCCTTGAAATGA
66 TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
* * * * * *
11844046 ATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGGGACAGTTTCCT-
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
11844109 TTGAAACA
66 TTGAAACA
11844117 AATTTTATCT
Statistics
Matches: 464, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
101 8 0.02
102 180 0.39
103 276 0.59
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (103 bp):
ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCTC
TTGAAACATAAACATTAAAAACATTTCCCTTGAAATGA
Found at i:11843892 original size:37 final size:38
Alignment explanation
Indices: 11843825--11843912 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 38
11843815 ATTGAAAACA
** *
11843825 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAG-
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
*
11843861 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGT
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
*
11843899 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
11843913 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
36 12 0.27
37 20 0.44
38 13 0.29
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (38 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
Found at i:11843995 original size:37 final size:38
Alignment explanation
Indices: 11843928--11844015 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 38
11843918 ATTGAAAACA
** *
11843928 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAG-
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
* *
11843964 TTTCCCTTGAAACAAAATTTTGTGTCCCTTGAGACAGT
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
*
11844002 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
11844016 TAAACATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 12 0.27
37 19 0.43
38 13 0.30
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (38 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGT
Found at i:11844085 original size:36 final size:36
Alignment explanation
Indices: 11844031--11844258 Score: 186
Period size: 36 Copynumber: 6.4 Consensus size: 36
11844021 ATTAAAAATA
* ** *
11844031 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
11844067 TTTCTCTTGAAACAAATTTTGTCTCTCTTGGGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
11844103 TTTC-CTTTGAAACAAATTTTATCTCTCTTAAGATAG
1 TTTCTC-TTGAAACAAATTTTGTCTCTCTTGAGACAG
*
11844139 TTTC-CTCTGAATTA-AAATTTT-T-T-T-TTGA-ATATG
1 TTTCTCT-TGAA--ACAAATTTTGTCTCTCTTGAGACA-G
* *
11844172 TTAT-TCTTGAAACTAAGTTTTGTCTCCCTTGAGACAG
1 TT-TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
11844209 TTTCTGTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
11844246 TTTCTCTCGAAAC
1 TTTCTCTTGAAAC
11844259 GACACAATTT
Statistics
Matches: 158, Mismatches: 19, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.01
32 3 0.02
33 16 0.10
34 5 0.03
35 4 0.03
36 72 0.46
37 54 0.34
38 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:11846470 original size:14 final size:16
Alignment explanation
Indices: 11846451--11846483 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11846441 ATTTTATTAA
11846451 TTTTTTC-TAT-TATT
1 TTTTTTCATATATATT
11846465 TTTTTTCATATATATT
1 TTTTTTCATATATATT
11846481 TTT
1 TTT
11846484 AATCTAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTCATATATATT
Found at i:11851640 original size:18 final size:18
Alignment explanation
Indices: 11851595--11851640 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11851585 CTTGAAATGA
*
11851595 ACCCTAAACCTTAAACCTG
1 ACCC-AAACCTTAAACCCG
*
11851614 ACTCAAACCTTAAACCCG
1 ACCCAAACCTTAAACCCG
*
11851632 ACCCGAACC
1 ACCCAAACC
11851641 CGACCCGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (18 bp):
ACCCAAACCTTAAACCCG
Found at i:11851676 original size:33 final size:33
Alignment explanation
Indices: 11851632--11851780 Score: 133
Period size: 33 Copynumber: 4.5 Consensus size: 33
11851622 CTTAAACCCG
11851632 ACCCGAACCCGACCCGAATATCACACTTAAAAAA
1 ACCCG-ACCCGACCCGAATATCACACTTAAAAAA
* *
11851666 ACCCGACCCGACCCAAATATCAAACTTAAAAAA
1 ACCCGACCCGACCCGAATATCACACTTAAAAAA
* * * * **
11851699 ATCTGACTCGATCCCGAA-ATTTA-A-AAAAAAAA
1 ACCCGACCCGA-CCCGAATA-TCACACTTAAAAAA
* * * *
11851731 ACCTGACCCGACCCAAATATCTCTCTTAAAAAA
1 ACCCGACCCGACCCGAATATCACACTTAAAAAA
*
11851764 ACCCGACCCAACCCGAA
1 ACCCGACCCGACCCGAA
11851781 CCCGAATTTT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
31 6 0.07
32 16 0.18
33 56 0.62
34 12 0.13
ACGTcount: A:0.44, C:0.33, G:0.08, T:0.15
Consensus pattern (33 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAA
Done.