Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 4 of 9
Found at i:446977 original size:50 final size:51
Alignment explanation
Indices: 446918--447050 Score: 189
Period size: 50 Copynumber: 2.6 Consensus size: 51
446908 ATTTGCGTAT
* * * *
446918 TGTATCGATACATTGACTAATGTATCGATACA-TCTGGGTGAAATCC-AGAA
1 TGTATCGATACAATGAATAATGTATCGATACATTC-GGGTAAAAACCAAGAA
*
446968 TGTATCGATACAATGAAGAATGTATCGATACATTCGGGTAAAAACCAAGAA
1 TGTATCGATACAATGAATAATGTATCGATACATTCGGGTAAAAACCAAGAA
*
447019 TGTACCGATACAATGAATAATGTATCGATACA
1 TGTATCGATACAATGAATAATGTATCGATACA
447051 GATAGTAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 38 0.51
51 36 0.49
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (51 bp):
TGTATCGATACAATGAATAATGTATCGATACATTCGGGTAAAAACCAAGAA
Found at i:447989 original size:101 final size:100
Alignment explanation
Indices: 447862--448101 Score: 293
Period size: 101 Copynumber: 2.4 Consensus size: 100
447852 GTGAGACGAA
* ** *** **
447862 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAGGGATGTTGAA-GATGCCAATATGTT
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAATG-TGCCAATATACT
* ** *
447926 GATTTAACGCCAGCGATATTGGACTTAAAGATGATGG
65 GATTTAACGCCAGCAATATTGGACTT-AAGAAAAAGG
447963 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAATGTGCCAATATACTG
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAATGTGCCAATATACTG
* *
448028 ATTTAAGGCCAGTAATATTGGACTTAAGAAAAAGG
66 ATTTAACGCCAGCAATATTGGACTTAAGAAAAAGG
* * * *
448063 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTA
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
448102 GAAAGAGATG
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 42 0.35
101 77 0.64
102 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (100 bp):
TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAATGTGCCAATATACTG
ATTTAACGCCAGCAATATTGGACTTAAGAAAAAGG
Found at i:448084 original size:48 final size:49
Alignment explanation
Indices: 447754--448101 Score: 212
Period size: 52 Copynumber: 6.9 Consensus size: 49
447744 TAAGGATGAG
* * *
447754 AAAGGTGCCGATATGCTGATTCAAGGCCATCGATATTGGGCTTAAAGATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-A
* * ** * * * * * * * *
447804 CGAAGAATATCAATGTCCTGATTCACGACCAGCGACATTAGACTTGAAGTGA
1 -AAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-AA
* * * * * * * * **
447856 GACGAATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAGGGATGTT
1 AAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA---AAGAA
* * * * * *
447909 GAAGATGCCAATATGTTGATTTAACGCCAGCGATATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
* * * * *
447958 GATGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA--A
* * * **
448009 CAAATGTGCCAATATACTGATTTAAGGCCAGTAATATTGGACTT-AAGAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
*
448058 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
448102 GAAAGAGATG
Statistics
Matches: 225, Mismatches: 63, Indels: 20
0.73 0.20 0.06
Matches are distributed among these distances:
48 37 0.16
49 44 0.20
51 42 0.19
52 97 0.43
53 3 0.01
54 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
Found at i:448218 original size:32 final size:32
Alignment explanation
Indices: 448169--448382 Score: 220
Period size: 32 Copynumber: 6.7 Consensus size: 32
448159 TAGAAGGAGA
* * *
448169 TGCCACCAACTTATGTGGGCTTTTGAAATGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAGGGT
* *
448201 TGCCATCGACTTGTGTGGGCTTTT-AAAGTAGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAG-GGT
*
448233 TGCCACTGACTTGTGTGGGCTTTT-AAAGGGTT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAGGG-T
* * * *
448265 TGCCACCGATTTGTGTAGGCTTTGGAGAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGA-AAGGGT
* *
448298 TGCCACCGACTTGTGTGGGC-TTTGGAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTTGAAAGGGT
** * * *
448329 TGCCACCGACTTGCATGGG-TTTTGGAGGGGG
1 TGCCACCGACTTGTGTGGGCTTTTGAAAGGGT
448360 TGCCACCGACTTGTGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
448383 AGAAGGTTTC
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
31 52 0.34
32 76 0.50
33 20 0.13
34 4 0.03
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.32
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTTGAAAGGGT
Found at i:448380 original size:62 final size:64
Alignment explanation
Indices: 448233--448388 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 64
448223 TTAAAGTAGT
* * * **
448233 TGCCACTGACTTGTGTGGGCTTTTA-AAGGGTTTGCCACCGATTTGTGTAGGCTTTGGAGAAAGG
1 TGCCACCGACTTGTGTGGGC-TTTAGAAGGGTGTGCCACCGACTTGCATAGGCTTTGGAG-AAGG
*
448297 T
64 G
* * * *
448298 TGCCACCGACTTGTGTGGGCTTTGGAAGGG-GTGCCACCGACTTGCATGGGTTTTGGAG-GGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGTGTGCCACCGACTTGCATAGGCTTTGGAGAAGGG
448360 TGCCACCGACTTGTGTGGGCTTTAGAAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGG
448389 TTTCTCCACT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 30 0.38
64 25 0.32
65 24 0.30
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (64 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGGGTGTGCCACCGACTTGCATAGGCTTTGGAGAAGGG
Found at i:448608 original size:28 final size:28
Alignment explanation
Indices: 448563--448633 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
448553 ATACAGCAAG
448563 TGCCACTGA-TTGTGGACTTCGAAA-AAA
1 TGCCACTGACTTGTGGACTTC-AAAGAAA
**
448590 TGCCACTGACTTGTGGACTTCAAAGACG
1 TGCCACTGACTTGTGGACTTCAAAGAAA
*
448618 TGCCACTGACTAGTGG
1 TGCCACTGACTTGTGG
448634 GCTTTGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (28 bp):
TGCCACTGACTTGTGGACTTCAAAGAAA
Found at i:450006 original size:5 final size:5
Alignment explanation
Indices: 449986--450129 Score: 124
Period size: 5 Copynumber: 29.6 Consensus size: 5
449976 CTTTTTCTTG
*
449986 TTTGT TTT-T ATT-T TTTG- TTT-T TTTGT TTT-T TTTGT TTT-T TTTGT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT
* ** *
450030 TTTGTT TTTGT TTTGT TTTGT TTTTT TTTGT TTTGT TTT-T TTCAT TTCATTT
1 TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TT--TGT
* * *
450082 TTTGT TTTGTT TTTGG TTT-T TTTGT TTTGT TTTGT TTTTT TTTCT TTT
1 TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTT
450130 CATTTCATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
4 26 0.22
5 77 0.66
6 10 0.09
7 3 0.03
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (5 bp):
TTTGT
Found at i:450006 original size:25 final size:23
Alignment explanation
Indices: 449978--450124 Score: 102
Period size: 26 Copynumber: 5.9 Consensus size: 23
449968 TTCTTTTCCT
449978 TTTTCTTGTTTGTTTTTATTTTTTG
1 TTTT-TTGTTTGTTTTT-TTTTTTG
*
450003 TTTTTTTGTTTTTTTTGTTTTTTTTG
1 -TTTTTTG-TTTGTTT-TTTTTTTTG
450029 TTTTGTT-TTTGTTTTGTTTTGTTT-
1 TTTT-TTGTTTGTTTT-TTTT-TTTG
**
450053 TTTTTTGTTTTGTTTTTTTCATTTCA
1 TTTTTTG-TTTGTTTTTTT--TTTTG
450079 TTTTTTGTTTTGTTTTTGGTTTTTT-
1 TTTTTTG-TTTGTTTTT--TTTTTTG
*
450104 TGTTTTGTTTTGTTTTTTTTT
1 TTTTTTG-TTTGTTTTTTTTT
450125 CTTTTCATTT
Statistics
Matches: 104, Mismatches: 5, Indels: 27
0.76 0.04 0.20
Matches are distributed among these distances:
23 7 0.07
24 17 0.16
25 36 0.35
26 40 0.38
27 2 0.02
28 2 0.02
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.83
Consensus pattern (23 bp):
TTTTTTGTTTGTTTTTTTTTTTG
Found at i:450129 original size:20 final size:19
Alignment explanation
Indices: 449977--450129 Score: 141
Period size: 20 Copynumber: 7.7 Consensus size: 19
449967 TTTCTTTTCC
*
449977 TTTTTCTTG-TTTGTTTTT
1 TTTTTTTTGTTTTGTTTTT
*
449995 ATTTTTTGTTTTTTTGTTTTT
1 -TTTTTT-TTGTTTTGTTTTT
*
450016 TTTGTTTT-TTTTGTTTTGT
1 TTTTTTTTGTTTTGTTTT-T
450035 TTTTGTTTTGTTTTGTTTTT
1 TTTT-TTTTGTTTTGTTTTT
450055 TTTTGTTTTGTTTT-TTTCATT
1 TTTT-TTTTGTTTTGTTT--TT
*
450076 TCATTTTTTGTTTTGTTTTT
1 T-TTTTTTTGTTTTGTTTTT
*
450096 GGTTTTTTTGTTTTGTTTTGT
1 -TTTTTTTTGTTTTGTTTT-T
*
450117 TTTTTTTTCTTTT
1 TTTTTTTTGTTTT
450130 CATTTCATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.08
19 14 0.12
20 55 0.48
21 31 0.27
22 5 0.04
ACGTcount: A:0.02, C:0.03, G:0.12, T:0.83
Consensus pattern (19 bp):
TTTTTTTTGTTTTGTTTTT
Found at i:450141 original size:46 final size:45
Alignment explanation
Indices: 449992--450176 Score: 137
Period size: 45 Copynumber: 4.0 Consensus size: 45
449982 CTTGTTTGTT
* *
449992 TTTATTTTTTGTTTTTTTGTTTT-TTTTG-TTTTTTTTGTTTT-G
1 TTTATTTTTGGTTTTTTTGTTTTGTTTTGTTTTTTTTTCTTTTCG
* * * *
450034 TTTTTGTTTTGTTTTGTTTTTTTTTGTTTTGTTTTTTTCATTTCATTTTTTG
1 TTTAT-TTTTGGTTT-TTTTGTTTTGTTTTG-TTTTTT--TTTC--TTTTCG
* *
450086 TTTTGTTTTTGGTTTTTTTGTTTTGTTTTGTTTTTTTTTCTTTTCA
1 -TTTATTTTTGGTTTTTTTGTTTTGTTTTGTTTTTTTTTCTTTTCG
*** *
450132 TTTCATTTTTTAATGTTTT-TTTTGTTTT-TATTTTTTTTCTTTTCG
1 TTT-ATTTTTGGTTTTTTTGTTTTGTTTTGT-TTTTTTTTCTTTTCG
450177 CAAAGGACGC
Statistics
Matches: 114, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
42 4 0.04
43 7 0.06
44 9 0.08
45 31 0.27
46 14 0.12
47 5 0.04
48 4 0.04
49 3 0.03
50 6 0.05
51 18 0.16
52 9 0.08
53 4 0.04
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.81
Consensus pattern (45 bp):
TTTATTTTTGGTTTTTTTGTTTTGTTTTGTTTTTTTTTCTTTTCG
Found at i:450142 original size:1 final size:1
Alignment explanation
Indices: 449990--450129 Score: 73
Period size: 1 Copynumber: 140.0 Consensus size: 1
449980 TTCTTGTTTG
* * * * * * * * *
449990 TTTTTATTTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTGTTTTTGTTTTGTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** ** * * ** * * *
450055 TTTTGTTTTGTTTTTTTCATTTCATTTTTTGTTTTGTTTTTGGTTTTTTTGTTTTGTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
450120 TTTTTCTTTT
1 TTTTTTTTTT
450130 CATTTCATTT
Statistics
Matches: 97, Mismatches: 42, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 97 1.00
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (1 bp):
T
Found at i:450160 original size:20 final size:20
Alignment explanation
Indices: 449986--450174 Score: 138
Period size: 20 Copynumber: 9.2 Consensus size: 20
449976 CTTTTTCTTG
*
449986 TTTGTTTTTATTTT-TTGTTTT
1 TTTGTTTTT-TTTTGTT-TTGT
450007 TTTG-TTTTTTTTGTTTT-T
1 TTTGTTTTTTTTTGTTTTGT
450025 TTTGTTTTGTTTTTGTTTTGT
1 TTTGTTTT-TTTTTGTTTTGT
450046 TTTGTTTTTTTTTGTTTTGTTTT
1 TTTGTTTTTTTTTGTTTTG---T
*
450069 TTTCATTTCATTTTTTGTTTTGT
1 TTT-GTTT--TTTTTTGTTTTGT
*
450092 TTT-TGGTTTTTTTGTTTTGT
1 TTTGT-TTTTTTTTGTTTTGT
* *
450112 TTTGTTTTTTTTTCTTTTCAT
1 TTTGTTTTTTTTTGTTTT-GT
** **
450133 TTCATTTTTTAATGTTTT-T
1 TTTGTTTTTTTTTGTTTTGT
*
450152 TTTGTTTTTATTTT-TTTTCT
1 TTTGTTTTT-TTTTGTTTTGT
450172 TTT
1 TTT
450175 CGCAAAGGAC
Statistics
Matches: 139, Mismatches: 14, Indels: 31
0.76 0.08 0.17
Matches are distributed among these distances:
18 5 0.04
19 21 0.15
20 60 0.43
21 29 0.21
22 1 0.01
23 8 0.06
24 3 0.02
26 12 0.09
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (20 bp):
TTTGTTTTTTTTTGTTTTGT
Found at i:456606 original size:20 final size:19
Alignment explanation
Indices: 456574--456612 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
456564 AGGTCAAAAC
456574 CCTTAAATATATCGATACA
1 CCTTAAATATATCGATACA
*
456593 CCTTCAAATGTATCGATACA
1 CCTT-AAATATATCGATACA
456613 TTGTATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (19 bp):
CCTTAAATATATCGATACA
Found at i:456619 original size:13 final size:13
Alignment explanation
Indices: 456601--456626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
456591 CACCTTCAAA
456601 TGTATCGATACAT
1 TGTATCGATACAT
456614 TGTATCGATACAT
1 TGTATCGATACAT
456627 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:456725 original size:19 final size:21
Alignment explanation
Indices: 456696--456749 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
456686 CCTTAACTGT
*
456696 TTGTATAGATACAT-A-CAAGA
1 TTGTATCGATACATGACCAA-A
456716 -TGTATCGATACATGACCAAA
1 TTGTATCGATACATGACCAAA
456736 TTGTATCGATACAT
1 TTGTATCGATACAT
456750 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 16 0.53
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACATGACCAAA
Found at i:462828 original size:13 final size:13
Alignment explanation
Indices: 462810--462847 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
462800 CAGCTTTCTC
*
462810 TGTATCGATACAT
1 TGTATCGATACAG
462823 TGTATCGATACAG
1 TGTATCGATACAG
462836 TGTATCGATACA
1 TGTATCGATACA
462848 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:464734 original size:23 final size:24
Alignment explanation
Indices: 464703--464751 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
464693 GATTAAAGAA
464703 AATTGTTTT-ATTAAAGGGGAGAG
1 AATTGTTTTGATTAAAGGGGAGAG
* *
464726 AATTTTTTTGATTAAGGGGGAGAG
1 AATTGTTTTGATTAAAGGGGAGAG
464750 AA
1 AA
464752 AAGGAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (24 bp):
AATTGTTTTGATTAAAGGGGAGAG
Found at i:471606 original size:13 final size:13
Alignment explanation
Indices: 471588--471643 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
471578 TTATGCTTTA
471588 TATCGATACATTG
1 TATCGATACATTG
471601 TATCGATACA-TG
1 TATCGATACATTG
471613 -ATC---A-A-TG
1 TATCGATACATTG
*
471620 TATCGATAGATTG
1 TATCGATACATTG
471633 TATCGATACAT
1 TATCGATACAT
471644 AAAACTAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
11 4 0.11
12 3 0.08
13 22 0.61
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:471712 original size:13 final size:13
Alignment explanation
Indices: 471694--471718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471684 CATGGCACAT
471694 TGTATCGATACAA
1 TGTATCGATACAA
471707 TGTATCGATACA
1 TGTATCGATACA
471719 TGAATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:471716 original size:33 final size:33
Alignment explanation
Indices: 471674--471738 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
471664 TACCACTATT
* *
471674 TGTATCGATACATGGCA-CATTGTATCGATACAA
1 TGTATCGATACAT-GAATAATTGTATCGATACAA
471707 TGTATCGATACATGAATAATTGTATCGATACA
1 TGTATCGATACATGAATAATTGTATCGATACA
471739 TTGTCCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAATAATTGTATCGATACAA
Found at i:480080 original size:21 final size:21
Alignment explanation
Indices: 480032--480090 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
480022 GTAATTTTTC
*
480032 ATATCAATAAATGTTTTAGAG
1 ATATAAATAAATGTTTTAGAG
480053 ATATAAATAAATGTTTTCA-AG
1 ATATAAATAAATGTTTT-AGAG
* *
480074 CTTTAAATAAATGTTTT
1 ATATAAATAAATGTTTT
480091 TAAGTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (21 bp):
ATATAAATAAATGTTTTAGAG
Found at i:480223 original size:20 final size:21
Alignment explanation
Indices: 480200--480252 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
480190 CACATCCAGA
* *
480200 TGTATCGATACATTACGC-TT
1 TGTATCGATACATTACACAAT
*
480220 TGTATTGATACA-TACACAAT
1 TGTATCGATACATTACACAAT
480240 TGTATCGATACAT
1 TGTATCGATACAT
480253 GAAATTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTACACAAT
Found at i:483516 original size:13 final size:13
Alignment explanation
Indices: 483498--483522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
483488 TAGCTAATTA
483498 TGTATCGATACAT
1 TGTATCGATACAT
483511 TGTATCGATACA
1 TGTATCGATACA
483523 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:484242 original size:49 final size:49
Alignment explanation
Indices: 484132--484355 Score: 317
Period size: 49 Copynumber: 4.6 Consensus size: 49
484122 TCACTGTGCA
* * * *
484132 GATTCAAGGCCTGCCACACTGGACTTAAAGATGAA-GTGCCAATGTGCT
1 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* *
484180 AATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
* * * *
484229 GATTCAAGACCAGCTATATTGGACTTAAAAGGTG-AGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCT
*
484278 GATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
484327 GATTCAAGGCCAGCTATATTGGACTTAAA
1 GATTCAAGGCCAGCTACATTGGACTTAAA
484356 AGGGTTGCCA
Statistics
Matches: 156, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
48 36 0.23
49 113 0.72
50 7 0.04
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (49 bp):
GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
Found at i:484303 original size:98 final size:98
Alignment explanation
Indices: 484151--484358 Score: 355
Period size: 98 Copynumber: 2.1 Consensus size: 98
484141 CCTGCCACAC
* * *
484151 TGGACTT-AAAGATGAAGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGGTGAA
1 TGGACTTAAAAGGTGAAGTGCCAATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGATGAA
484215 GGTGCCAATATGCTGATTCAAGACCAGCTATAT
66 GGTGCCAATATGCTGATTCAAGACCAGCTATAT
* *
484248 TGGACTTAAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAA
1 TGGACTTAAAAGGTGAAGTGCCAATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGATGAA
*
484313 GGTGCCAATATGCTGATTCAAGGCCAGCTATAT
66 GGTGCCAATATGCTGATTCAAGACCAGCTATAT
484346 TGGACTTAAAAGG
1 TGGACTTAAAAGG
484359 GTTGCCACCA
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 7 0.07
98 97 0.93
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (98 bp):
TGGACTTAAAAGGTGAAGTGCCAATGTGCTAATTCAAGGCCAGCTACATTAGACTTAAAGATGAA
GGTGCCAATATGCTGATTCAAGACCAGCTATAT
Found at i:484539 original size:34 final size:33
Alignment explanation
Indices: 484425--485095 Score: 788
Period size: 34 Copynumber: 20.2 Consensus size: 33
484415 ACTTACAAGG
* *
484425 GTGCCACTAAATTGTGGACTTAAAAGGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTT-AAA-GGAAAAAGA
* * *
484460 GTGCCACGGAGTTGTGGGCTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
*
484492 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTA-AAGGAAAAAGA
* *
484526 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGG
1 GTGCCACGAAGTTGTGGACTT-AAAGGAAAAAGA
* * *
484560 GTGCCACGGAGTTGTGGACTTAAATGGAACAAGG
1 GTGCCACGAAGTTGTGGACTTAAA-GGAAAAAGA
484594 GTGCCAC-AGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGA-AGTTGTGGACTTA-AAGGAAAAAGA
* *
484628 GTGCCACGAAGTTGTGGGCTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
*
484660 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTA-AAGGAAAAAGA
* * *
484694 GTGCCACGAAGTTGTGGGCTTAAATGAAAAAGG
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
* * *
484727 GTGCCACGGAGTTGTGGACTTAAATGGAACAAGG
1 GTGCCACGAAGTTGTGGACTTAAA-GGAAAAAGA
484761 GTGCCAC-AGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGA-AGTTGTGGACTTA-AAGGAAAAAGA
* *
484795 GTGCCACGAAGTTATGG-CTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
*
484826 GTGCCACGGAGTTGTGGACTTAGAA-GAAAAAGA
1 GTGCCACGAAGTTGTGGACTTA-AAGGAAAAAGA
* *
484859 GTGCCACGAAGTTGTGGGCTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
* *
484891 GTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTA-AAGGAAAAAGA
* *
484925 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGG
1 GTGCCACGAAGTTGTGGACTT-AAAGGAAAAAGA
* *
484959 GTGCCACGGAGTTGTGGACTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
*
484991 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTA-AAGGAAAAAGA
* * *
485025 GTGCCATGAAGTTGTGGGCTTAAATGAAAAAG-
1 GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
* *
485057 GTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTT-AAAGGAAAAAGA
485091 -TGCCA
1 GTGCCA
485096 TAGAGTTATG
Statistics
Matches: 555, Mismatches: 57, Indels: 50
0.84 0.09 0.08
Matches are distributed among these distances:
31 15 0.03
32 121 0.22
33 152 0.27
34 242 0.44
35 25 0.05
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.19
Consensus pattern (33 bp):
GTGCCACGAAGTTGTGGACTTAAAGGAAAAAGA
Found at i:484539 original size:66 final size:65
Alignment explanation
Indices: 484436--485179 Score: 804
Period size: 66 Copynumber: 11.2 Consensus size: 65
484426 TGCCACTAAA
* * *
484436 TTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAATGAAAAAGGTGCCACGG
1 TTGTGGACTT-AAA-GGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAGGAAAAAGGTGCCACGG
484501 AG
64 AG
*
484503 TTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACG
1 TTGTGGACTTA-AAGGAAAAAGAGTGCCACGAAGTTGTGGACTT-AAAGGAA-AAAGGTGCCACG
484568 GAG
63 GAG
* *
484571 TTGTGGACTTAAATGGAACAAGGGTGCCAC-AGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAC
1 TTGTGGACTTAAA-GGAAAAAGAGTGCCACGA-AGTTGTGGACTTA-AAGGAAAAAG-GTGCCAC
*
484635 GAAG
62 GGAG
* * * *
484639 TTGTGGGCTTAAATGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGA
1 TTGTGGACTTAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTA-AAGGAAAAAG-GTGCCACGG
484703 AG
64 AG
* * * * * *
484705 TTGTGGGCTTAAATGAAAAAGGGTGCCACGGAGTTGTGGACTTAAATGGAACAAGGGTGCCACAG
1 TTGTGGACTTAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAA-GGAA-AAAGGTGCCACGG
484770 AG
64 AG
* *
484772 TTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTATGG-CTTAAATGAAAAAGGTGCCACGGA
1 TTGTGGACTTA-AAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAGGAAAAAGGTGCCACGGA
484836 G
65 G
* *
484837 TTGTGGACTTAGAA-GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAATGAAAAAGGTGCCACGGA
1 TTGTGGACTTA-AAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAGGAAAAAGGTGCCACGGA
484901 G
65 G
* *
484902 TCGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACG
1 TTGTGGACTTA-AAGGAAAAAGAGTGCCACGAAGTTGTGGACTT-AAAGGAA-AAAGGTGCCACG
484967 GAG
63 GAG
* * * *
484970 TTGTGGACTTAAATGAAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATGA
1 TTGTGGACTTAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTA-AAGGAAAAAG-GTGCCACGG
485034 AG
64 AG
* * * * * **
485036 TTGTGGGCTTAAATGAAAAAG-GTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGATGCCATAGA
1 TTGTGGACTTAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTT-AAAGGAAAAAGGTGCCACGGA
485100 G
65 G
* * * * *
485101 TTATGGGCTTTGCAGAAAAGGAAGAAG-GTGCCACGAAGTTGTGGGCTTTAAA--AAAAAGATGC
1 TTGTGGAC-TT-----AAAGGAAAAAGAGTGCCACGAAGTTGTGGAC-TTAAAGGAAAAAGGTGC
*
485163 CACTGAG
59 CACGGAG
*
485170 TCGTGGACTT
1 TTGTGGACTT
485180 TGGAAAGCGA
Statistics
Matches: 601, Mismatches: 50, Indels: 51
0.86 0.07 0.07
Matches are distributed among these distances:
64 24 0.04
65 84 0.14
66 213 0.35
67 98 0.16
68 132 0.22
69 20 0.03
71 28 0.05
72 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (65 bp):
TTGTGGACTTAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAGGAAAAAGGTGCCACGGAG
Found at i:484584 original size:100 final size:100
Alignment explanation
Indices: 484425--485153 Score: 884
Period size: 100 Copynumber: 7.2 Consensus size: 100
484415 ACTTACAAGG
* * * * *
484425 GTGCCACTAAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAATGAAAA
1 GTGCCACGAAGTTGTGGACTTAAAA-GGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAA
484490 AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
65 AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
484526 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGGAACA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAAT-GAA-A
* *
484591 AGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
64 AAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
* * * *
484628 GTGCCACGAAGTTGTGGGCTT-AAATGAA-AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTA-AATGAAAA
* * * *
484691 AGAGTGCCACGAAGTTGTGGGCTTA-AATGAAAAAGG
65 AG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
* * * *
484727 GTGCCACGGAGTTGTGGACTTAAATGGAACAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTA-AATGAAAA
* * *
484792 AGAGTGCCACGAAGTTATGG-CTTA-AATGAAAAAG-
65 AG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
* * * * * *
484826 GTGCCACGGAGTTGTGGACTTAGAA-GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAATGAAAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAA
*
484890 GGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGA
66 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
484925 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAA
484990 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
66 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
* * * * * *
485025 GTGCCATGAAGTTGTGGGCTT-AAATGAA-AAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTT-AAATGAAAA
* ** * * *
485088 AGATGCCATAGAGTTATGGGCTTTGCAGAAAAGGAAGAAG-
65 AGGTGCCACGGAGTTGTGGAC-TT--AG--AAGGAAAAAGA
*
485128 GTGCCACGAAGTTGTGGGCTTTAAAA
1 GTGCCACGAAGTTGTGGAC-TTAAAA
485154 AAAAGATGCC
Statistics
Matches: 554, Mismatches: 56, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
96 14 0.03
97 13 0.02
98 57 0.10
99 107 0.19
100 187 0.34
101 86 0.16
102 58 0.10
103 18 0.03
104 11 0.02
105 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (100 bp):
GTGCCACGAAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAATGAAAAA
GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
Found at i:485193 original size:30 final size:30
Alignment explanation
Indices: 485158--485216 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
485148 TTAAAAAAAA
485158 GATGCCACTGAGTCGTGGACTTTGGAAAGC
1 GATGCCACTGAGTCGTGGACTTTGGAAAGC
485188 GATGCCACTGAGTCGTGGACTTTGGAAAG
1 GATGCCACTGAGTCGTGGACTTTGGAAAG
485217 AAGGTATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (30 bp):
GATGCCACTGAGTCGTGGACTTTGGAAAGC
Found at i:486186 original size:14 final size:14
Alignment explanation
Indices: 486154--486212 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
486144 GTGAAAGGGA
486154 TTTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
*
486168 CTTTTCTTT-TTTT
1 TTTTTCTTTCTTTT
* * *
486181 GTTTTTGTTTGTTTG
1 -TTTTTCTTTCTTTT
*
486196 TTTTT-TTTGTTTT
1 TTTTTCTTTCTTTT
486209 TTTT
1 TTTT
486213 GAAGATTAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 15 0.39
14 20 0.53
15 3 0.08
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTCTTTT
Found at i:486552 original size:17 final size:16
Alignment explanation
Indices: 486532--486571 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
486522 GCCTTTGCAC
486532 TTTTTTTTGTGTTGTTG
1 TTTTTTTTGTGTT-TTG
*
486549 TTTTTTTTTTGTTTTG
1 TTTTTTTTGTGTTTTG
486565 TTTTTTT
1 TTTTTTT
486572 GCATTTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTGTTTTG
Found at i:486556 original size:19 final size:18
Alignment explanation
Indices: 486532--486571 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
486522 GCCTTTGCAC
486532 TTTTTTTTGTGTTGTTGTT
1 TTTTTTTTGTGTTGTT-TT
*
486551 TTTTTTTTGTTTTGTTTT
1 TTTTTTTTGTGTTGTTTT
486569 TTT
1 TTT
486572 GCATTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (18 bp):
TTTTTTTTGTGTTGTTTT
Found at i:492151 original size:25 final size:25
Alignment explanation
Indices: 492123--492172 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
492113 GGTATCTACA
492123 CCATGTATCGATACATGAATAATTG
1 CCATGTATCGATACATGAATAATTG
492148 CCATGTATCGATACATGAATAATTG
1 CCATGTATCGATACATGAATAATTG
492173 TAACGATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
CCATGTATCGATACATGAATAATTG
Found at i:501208 original size:28 final size:28
Alignment explanation
Indices: 501103--502049 Score: 849
Period size: 28 Copynumber: 33.6 Consensus size: 28
501093 AGTACTATGA
* * *
501103 CCTTTTCAAAGTCCACGACTCAGTGGCATTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA--C
* * * *
501134 CTTTTTAAAATCCATAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
501162 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501189 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501217 CCTTTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501245 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501273 CCTTTT-AAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
501300 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501328 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
501356 CGTTTT-AAGTCCACAACTCCGTCGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501383 CC-TTTAAAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501410 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* **
501438 CGTTTT-AAGTCCACAACTCCGTGG-TG
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
501464 CCATTTAAGGTCTACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
501492 CC-TTTAAAGTCTACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
501519 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
501547 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
** * *
501575 CCTTTTAAAGTCCACAACTCCAAGGTAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
501603 CGTTTT-AAGTCCACAACTTCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
501630 CC-TTTAAAGTCCATAACTCTGTGGTAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
501657 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
501684 CCTTTT-AAGTTCACAACTTCGTAGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
501711 CCTTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * ** * *
501739 CCTGTTAAAGCCCACACAAGCCGATAGCAA
1 CCTTTTAAAGTCCACA-ACTCCG-TGGCAC
* * **
501769 CCTATTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CCT-TTT-AAAG-TC-CACAACTCCGTGGC-AC
* * * * *
501802 CCATTTGAAAGCCCACACAAGTCGGTGGTAAC
1 CC-TTTTAAAG-TC-CACAACTCCGTGG-CAC
* *
501834 CCATTTTAAAGCCCACATA-TCAGTGGCAC
1 CC-TTTTAAAGTCCACA-ACTCCGTGGCAC
* * * *
501863 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
501891 CCTTTTAAAGCCCACAAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGC-AC
* * * **
501920 CCATTTCAAAGCCCACAAATCAATGGCAC
1 CC-TTTTAAAGTCCACAACTCCGTGGCAC
* * * **
501949 CCTTTCAAAGCCCACAAGTCAATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
501977 CCTTTTAAAGCCCACAAATCAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
502004 CATTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* *
502033 TCTTTTCAAAGCCCACA
1 CCTTTT-AAAGTCCACA
502050 CGATTCGATG
Statistics
Matches: 788, Mismatches: 103, Indels: 52
0.84 0.11 0.06
Matches are distributed among these distances:
26 10 0.01
27 237 0.30
28 394 0.50
29 30 0.04
30 54 0.07
31 10 0.01
32 39 0.05
33 9 0.01
34 5 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:501210 original size:55 final size:55
Alignment explanation
Indices: 501136--501754 Score: 805
Period size: 55 Copynumber: 11.3 Consensus size: 55
501126 TGGCATTTCT
* *
501136 TTTTAAAATCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
*
501191 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCC
*
501247 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
501302 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCG
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
501358 TTTT-AAGTCCACAACTCCGTCGTACCCTTTAAAGTCCACAACTCCATGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
* **
501412 TTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGG-TGCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * *
501466 ATTTAAGGTCTACAACTCCGTGGCACCCTTTAAAGTCTACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
*
501521 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCC
** * * * *
501577 TTTTAAAGTCCACAACTCCAAGGTATCGTTTTAAGTCCACAACTTCGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * *
501632 -TTTAAAGTCCATAACTCTGTGGTAACCTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * *
501686 TTTT-AAGTTCACAACTTCGTAGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACCC
* *
501741 TGTTAAAGCCCACA
1 TTTTAAAGTCCACA
501755 CAAGCCGATA
Statistics
Matches: 489, Mismatches: 67, Indels: 15
0.86 0.12 0.03
Matches are distributed among these distances:
54 130 0.27
55 225 0.46
56 134 0.27
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (55 bp):
TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:501782 original size:32 final size:32
Alignment explanation
Indices: 501723--503966 Score: 1875
Period size: 32 Copynumber: 73.2 Consensus size: 32
501713 TTTTTAAGCC
* * *
501723 CACAAGTCAGTGGCACCCT-GTT-AAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
501753 CACAAGCCGATAGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
501785 CACAAGTTGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
501817 CACAAGTCGGTGGTAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
501849 CA-TA-TCAGTGGC-ACC-CTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
501875 CACAAGTCAGTGGCACCCT-TTT-AAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
501903 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
** *
501935 CA-AA-TCAATGGC-ACC-CTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
** *
501961 CACAAGTCAATGGCACCCT-TTT-AAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
501991 CA-AA-TCAGTGGC-ACAT-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502017 CACAAGTCAGTGGC-ACTCT-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAAC-CTATTTCAAAGCCCA
* * *
502048 CACGATTCGATGGCAACCCT-TTTCAAAG--CA
1 CACAAGTCGGTGGCAA-CCTATTTCAAAGCCCA
* *
502078 CACAAGTCAGTGGCAA-CTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
502110 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502142 CACAAGTTGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
502174 CACAAGTCGGTGGCAACTTATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502206 CACAAGTTGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
502238 CACAAGTTGGTGGCAACCTATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
502270 CACAAGTTGGTGGCAA-GTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
*
502302 CACAAGTTGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* * *
502334 CAAAAGTCGATGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
502366 CACAAGTTGGTGGCAACCTATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
502398 CACAAGTCGATGGCAA-CTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* ** *
502430 CACAAGTTGGTTACAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
502462 CACAAGTTGGTGGCAACTTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * * *
502494 CACAAGTTGGTAGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
502526 CACAAGTTGGTGGCAA-GTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
502558 CACAAGTCGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* * *
502590 CACAAGTTGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * * * *
502622 TACAGGTTGGTGGCAA-GTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
502654 CACAAGTCGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
502686 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502718 CACAAGTTGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
502750 CATAAGTCAGTGGCAA-CTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* * *
502782 CATAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
502814 CACAAGTTGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
502846 CACAAGTTGGTGGCAA-GTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
502878 CACAAGTCGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* * *
502910 CACAAGTTGGTGGCAACCCATTTCAAAGACCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502942 CACAAGTCGGTGGTAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
502974 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503004 CATAAGCCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
503034 CACAAGTCGGTGGC-ATCT-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503062 CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503092 -A-AAGTCAGTGGCATCC--TTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
503120 CACAAGTCGATGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* ** *
503152 AACAAGTTAGTGGCAACCTATGTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503184 CACAAGTTGATGGCAACCTATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * **
503216 CACAAGTTGGTGGCAA-GTCATTGGAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
503248 CACAAGTCGGTGGCAA-CTCGTTTCAAAGCCTA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
503280 CACAAGTTGGTGGCAACCTATTTCAAAGACCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503312 CACAAGTCGGTGGTAACCTATTTTAAAGCTCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503344 CACAAGTCGGTGGTAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503374 CACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
** * *
503402 CACAAGTTAGTGGCATCC--TTTCCAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
**
503430 CACAAGTTAGTGGCAA-CT-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
*
503460 CGC--GTCGGTGGCAA-CTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-ATTTCAAAGCCCA
* *
503490 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
** *
503522 CACAAGTTAGTGGCAACCTACTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
**
503554 CACAAGTCAATGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503586 CACAAGTCGGTGGCAACCCATTTCAAA-ACC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503616 CACAAGTCAGTGGC-ATCT-TTACAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503644 CACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503672 CACAAGTCAGTGGCATCC--TTTCCAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
** *
503700 CACAAGTTAGTGGC-AGCT-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * *
503730 CGC--GTCAGTGGC-AGCT-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* ** * *
503756 CACGAGTTAGTGGCATCC--TTCCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* * * ***
503784 CACGAGTCAGTGGCATCC--TTTC-AATTTC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503812 CACAAGTCAGTTGC-ACCT-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503840 CACAAGTCAGTGGC-GCC-A-TTCAAAG-CC-
1 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
* *
503867 CACAAGTCAGTAGC-ACTCT-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAAC-CTATTTCAAAGCCCA
* * *
503896 CACAAGCCAGTGGTAACTCT-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAAC-CTATTTCAAAGCCCA
* *
503928 TACGAGTCGGTGGCAACTCT-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAAC-CTATTTCAAAGCCCA
503960 CACAAGT
1 CACAAGT
503967 TAGTGGCACC
Statistics
Matches: 1886, Mismatches: 245, Indels: 164
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.00
27 47 0.02
28 367 0.19
29 77 0.04
30 161 0.09
31 31 0.02
32 1180 0.63
33 15 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
Found at i:504202 original size:47 final size:48
Alignment explanation
Indices: 504093--504271 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
504083 GGCACCTTTA
* *
504093 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTATCCACCTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
504141 TTAGCTCAATGTCGCTGGCCTTGAATCAGTACATTGTCCA-TTTTCCT
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * * * *
504188 TTAGCTCAATGTCGCTAGCCTTGAATCAACATATTGTCCATTTTTCCC
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
504236 TTAGCTCGATGTCATTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTG
504272 GCACCCTCTC
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
47 41 0.37
48 71 0.63
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:504270 original size:95 final size:95
Alignment explanation
Indices: 504093--504271 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
504083 GGCACCTTTA
* * *
504093 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTATCCACCTTTCCCTTAGCTCAATGTCGCTG
1 TTAGCTCAATGTCACTAGCCTTGAATCAACACATTATCCACCTTTCCCTTAGCTCAATGTCACTG
*
504158 GCCTTGAATCAGTACATTGTCCATTTTCCT
66 GCCTTGAATCAGCACATTGTCCATTTTCCT
* * * ** * *
504188 TTAGCTCAATGTCGCTAGCCTTGAATCAACATATTGTCCATTTTTCCCTTAGCTCGATGTCATTG
1 TTAGCTCAATGTCACTAGCCTTGAATCAACACATTATCCACCTTTCCCTTAGCTCAATGTCACTG
**
504253 GCCTTGAATTGGCACATTG
66 GCCTTGAATCAGCACATTG
504272 GCACCCTCTC
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 71 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (95 bp):
TTAGCTCAATGTCACTAGCCTTGAATCAACACATTATCCACCTTTCCCTTAGCTCAATGTCACTG
GCCTTGAATCAGCACATTGTCCATTTTCCT
Found at i:508980 original size:20 final size:20
Alignment explanation
Indices: 508955--509013 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
508945 TGCCTGCATG
*
508955 TATCGATATATTGAATAATA
1 TATCGATACATTGAATAATA
*
508975 TATCGATACATTGAATAATG
1 TATCGATACATTGAATAATA
* *
508995 CATCGATACATCGAATAAT
1 TATCGATACATTGAATAAT
509014 GCACTGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (20 bp):
TATCGATACATTGAATAATA
Found at i:509014 original size:20 final size:20
Alignment explanation
Indices: 508956--509026 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
508946 GCCTGCATGT
* * **
508956 ATCGATATATTGAATAATAT
1 ATCGATACATCGAATAATGC
*
508976 ATCGATACATTGAATAATGC
1 ATCGATACATCGAATAATGC
508996 ATCGATACATCGAATAATGC
1 ATCGATACATCGAATAATGC
509016 A-CTGATACATC
1 ATC-GATACATC
509027 TGGGTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
ATCGATACATCGAATAATGC
Found at i:512263 original size:164 final size:160
Alignment explanation
Indices: 512018--512540 Score: 574
Period size: 164 Copynumber: 3.2 Consensus size: 160
512008 ATTTAACTTG
* * * * * * * * *
512018 AGAAAAACCCCTT-GAAAACTTTTGTGGAATAGAAAACTCAATTTTTC-AGAAAA-AA-TTCAAG
1 AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATCCATATTTCGAAAAAAGAATTTCAAG
* * * *
512079 GAAAAATTTAAAAACTCATGAAGATGAATTAATTTTTCAAATATGATTTAATATGAAATAAACTA
66 GAAAAATTCAAAAACTCATGAA-ATAAATTAATTTTTTAAA-ATGATTTAATATGAATTAAA-TA
512144 TAATATTTTATGAATTTTAAAAATTAAAAACCA
128 TAATATTTTATGAATTTTAAAAATTAAAAACCA
* ** *
512177 AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATTCAT-TTTTTAAAAAATGAAATTTCG
1 AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATCCATATTTCGAAAAAA-G-AATTTCA
512241 AGGAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTTAAAAATGATTTAATATGAATTAAAT
64 AGGAAAAATTCAAAAACTCATG-AAATAAATTAATTTTTT-AAAATGATTTAATATGAATTAAA-
512306 TATAATATTTTATGAATTTTAAAAATTAAAAACCA
126 TATAATATTTTATGAATTTTAAAAATTAAAAACCA
* * * * * * *
512341 AGAAATATCCATTCGAAAACATTTACGAAATAGAAAACTCCGTATTTCGAAAAAAGAATTTCAAG
1 AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATCCATATTTCGAAAAAAGAATTTCAAG
512406 GAAAAATTTC-AAAACTCATGACAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATA
66 GAAAAA-TTCAAAAACTCATGA-AATAAATTAATTTTTTAAAA-TGATTTAATATGAATTAAAT-
* * * *
512470 ATAATATTTGATGAATTTGTAAAATTTTAAACCCA
127 ATAATATTTTATGAATTT-TAAAAATTAAAAACCA
* ** * * *
512505 TG-AAAATCCTCCCAAAAAAATTTATGGAGAAGAAAA
1 AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAA
512541 CCCCGTAATT
Statistics
Matches: 308, Mismatches: 42, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
159 14 0.05
160 28 0.09
162 6 0.02
163 102 0.33
164 144 0.47
165 14 0.05
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.32
Consensus pattern (160 bp):
AGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATCCATATTTCGAAAAAAGAATTTCAAG
GAAAAATTCAAAAACTCATGAAATAAATTAATTTTTTAAAATGATTTAATATGAATTAAATATAA
TATTTTATGAATTTTAAAAATTAAAAACCA
Found at i:512604 original size:163 final size:159
Alignment explanation
Indices: 512089--512651 Score: 476
Period size: 164 Copynumber: 3.5 Consensus size: 159
512079 GAAAAATTTA
* * * *
512089 AAAACTCATGAAGATGAATTAATTTTTCAAATA-TGATTTAATATGAAATAAACT-ATAATATTT
1 AAAACTCATGAAAATAAATTAATTTTTTAAA-ACTGATTTAATATGAATTAAA-TAATAATATTT
* * * * * * * * * ***
512152 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTTTCGAAAACATTTATGGAGTAGAAAAATT
64 GATGAATTTTAAAAATTAAAAACCAAGAAATATCCATCCAAAAAAATTTACGAAATAGAAAACCC
* * * * *
512217 CATTTTTTAAAAAATGAAATTTCGAGGAAAAATTC
129 CGTATTTCAAAAAAAG-AATTTC-A--AAAAAATC
* * *
512252 AAAAACTCATGAAAATAAATTAATTTTTTAAAAATGATTTAATATGAATTAAATTATAATATTTT
1 -AAAACTCATGAAAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTG
* * * *
512317 ATGAATTTTAAAAATTAAAAACCAAGAAATATCCATTCGAAAACATTTACGAAATAGAAAACTCC
65 ATGAATTTTAAAAATTAAAAACCAAGAAATATCCATCCAAAAAAATTTACGAAATAGAAAACCCC
*
512382 GTATTTCGAAAAAAGAATTTCAAGGAAAAATTTC
130 GTATTTCAAAAAAAGAATTTCAA--AAAAA--TC
*
512416 AAAACTCATGACAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGA
1 AAAACTCATGAAAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGA
* * * * * *
512481 TGAATTTGTAAAATTTTAAACCCATGAAA-ATCC-TCCCAAAAAAATTTATGGAGA-AGAAAACC
66 TGAATTT-TAAAAATTAAAAACCAAGAAATATCCAT-CCAAAAAAATTTA-CGAAATAGAAAACC
*
512543 CCGTAATTTCAAAATAAAAAGAATTT-TAAAAAATC
128 CCGT-ATTTC--AA-AAAAAGAATTTCAAAAAAATC
* * * * * *
512578 AACAACTTA-GAAAATAAAAATAATTTTTCAAAACTGATTTGATGA-AAATTAAATAATAATGTT
1 AA-AACTCATGAAAAT-AAATTAATTTTTTAAAACTGATTTAAT-ATGAATTAAATAATAATATT
* *
512641 TAAGGAATTTT
63 TGATGAATTTT
512652 GACATTTGAA
Statistics
Matches: 341, Mismatches: 42, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
160 1 0.00
162 16 0.05
163 154 0.45
164 157 0.46
166 2 0.01
167 11 0.03
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (159 bp):
AAAACTCATGAAAATAAATTAATTTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGA
TGAATTTTAAAAATTAAAAACCAAGAAATATCCATCCAAAAAAATTTACGAAATAGAAAACCCCG
TATTTCAAAAAAAGAATTTCAAAAAAATC
Found at i:520979 original size:22 final size:24
Alignment explanation
Indices: 520953--521000 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
520943 ATTTTAACTA
520953 AATTTAAA-AAATTTAATT-AATT
1 AATTTAAATAAATTTAATTCAATT
520975 AATTTAAATTCAAATTTAATTCAATT
1 AATTTAAA-T-AAATTTAATTCAATT
521001 CGATTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AATTTAAATAAATTTAATTCAATT
Found at i:522427 original size:53 final size:54
Alignment explanation
Indices: 522305--522428 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 54
522295 TAAACCCATA
* ** * * *
522305 TAAAATGACTTGAACATAATTCAACTCAAATGTTAAACTCGATTAACCCGAATT
1 TAAAATGACTTGAACTTAATTCAACTCAAACATTAAACCCGATTAACCCAAACT
* *
522359 TAAAATGA-TTCGAACTTAATT-AACTCAAGCATTAAACCCGATTGACCCAAACT
1 TAAAATGACTT-GAACTTAATTCAACTCAAACATTAAACCCGATTAACCCAAACT
*
522412 TAAAATAACTTGAACTT
1 TAAAATGACTTGAACTT
522429 GAAATGACTC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 40 0.68
54 19 0.32
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (54 bp):
TAAAATGACTTGAACTTAATTCAACTCAAACATTAAACCCGATTAACCCAAACT
Found at i:522465 original size:16 final size:16
Alignment explanation
Indices: 522446--522502 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
522436 CTCGAAACCG
522446 AAATGACTCAAATCTA
1 AAATGACTCAAATCTA
* *
522462 AAATGAGCT-GAATCTG
1 AAATGA-CTCAAATCTA
* *
522478 AAATGACCCAAACTCGA
1 AAATGACTCAAA-TCTA
522495 AAATGACT
1 AAATGACT
522503 TAAAAATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.03
16 19 0.61
17 11 0.35
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (16 bp):
AAATGACTCAAATCTA
Found at i:522703 original size:22 final size:23
Alignment explanation
Indices: 522645--522708 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
522635 AAGCTATTTG
* * *
522645 ATTTAAAATAAAAATTTATTAATT
1 ATTTAAAA-ATAAATTTAATAAAT
**
522669 ATTTAAATTTAAA-TTAATAAAT
1 ATTTAAAAATAAATTTAATAAAT
522691 ATTTAAAAATAAAGTTTA
1 ATTTAAAAATAAA-TTTA
522709 CATTATATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 18 0.58
23 3 0.10
24 10 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTAAAAATAAATTTAATAAAT
Found at i:522797 original size:104 final size:103
Alignment explanation
Indices: 522645--523123 Score: 328
Period size: 100 Copynumber: 4.7 Consensus size: 103
522635 AAGCTATTTG
* * *
522645 ATTTAAA-ATAAAAATTTATTAA-TTATTTAAATTTAAATTAATAAATATTTAAAAATAAAGTTT
1 ATTTAAATATTAAATTTTATTAATTTATTTAAA-TT-AATTCATAAATATTTAAAAATAAAGTTT
* * *
522708 ACATTATATTAATCTACTTTAAAATTAATAATTTTTTTCA
64 ACATAATATTAATCTACTTTAAAATTAATAAATATTTTCA
* * * *
522748 ATTTAAATATTCAATCTTATTAATTTATTTAACTCTAATTCATAAATATTTAAAAAATAGAGTTT
1 ATTTAAATATTAAATTTTATTAATTTATTTAAAT-TAATTCATAAATATTT-AAAAATAAAGTTT
* * * * *
522813 ATATAATATTAAT-GACTTTAAAATTAAAAAAAAATATATCCA
64 ACATAATATTAATCTACTTTAAAATT---AATAAATATTTTCA
* * *
522855 ATTTAAA-ATGAAATTTTATTAATTTATTTAAATTAA--C---AATATTTAAAGATAGAAG-TCA
1 ATTTAAATATTAAATTTTATTAATTTATTTAAATTAATTCATAAATATTTAAAAATA-AAGTTTA
* * * * *
522913 CATGATATTAATCTATTTTAAAAATAATAAAAATTTTCT
65 CATAATATTAATCTACTTTAAAATTAATAAATATTTTCA
* * * *
522952 ATTTAAATTTTTAATTTTATTAATTTATTTAAA-T--TT-AAAAATATTTAAAAAATAGAGTTTA
1 ATTTAAATATTAAATTTTATTAATTTATTTAAATTAATTCATAAATATTT-AAAAATAAAGTTTA
* * * * * * *
523013 TATTATATCAAAT-GACTCTAAAATTAGTAAACTATCCTT--
65 CATAATAT-TAATCTACTTTAAAATTAATAAA-TAT-TTTCA
* * ** **
523052 GTTTAAATATATAAGTTTTATTAATTTATTTAAATTTAAATGAACTGCATATTT-AAAATAAAGT
1 ATTTAAATAT-TAAATTTTATTAATTTATTTAAA-TT-AATTCA-TAAATATTTAAAAATAAAGT
523116 TTACATAA
62 TTACATAA
523124 AATATTTTAC
Statistics
Matches: 289, Mismatches: 59, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
97 17 0.06
98 22 0.08
99 27 0.09
100 53 0.18
101 26 0.09
102 2 0.01
103 9 0.03
104 37 0.13
105 35 0.12
106 38 0.13
107 17 0.06
108 6 0.02
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (103 bp):
ATTTAAATATTAAATTTTATTAATTTATTTAAATTAATTCATAAATATTTAAAAATAAAGTTTAC
ATAATATTAATCTACTTTAAAATTAATAAATATTTTCA
Found at i:529550 original size:27 final size:23
Alignment explanation
Indices: 529493--529536 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
529483 TATTAGTTTT
529493 GTTCATGTTATTTATAAAATGGG
1 GTTCATGTTATTTATAAAATGGG
529516 GTTCATGTTATTTATAAAATG
1 GTTCATGTTATTTATAAAATG
529537 ACCGGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (23 bp):
GTTCATGTTATTTATAAAATGGG
Found at i:530699 original size:2 final size:2
Alignment explanation
Indices: 530692--530726 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
530682 ATCAGAACTT
530692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
530727 TAATTGCCGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:531500 original size:2 final size:2
Alignment explanation
Indices: 531493--531544 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
531483 TAAAGAAAAG
531493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
531535 AT AT AT AT AT
1 AT AT AT AT AT
531545 CCAGAGCTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:535212 original size:45 final size:45
Alignment explanation
Indices: 535161--535269 Score: 209
Period size: 45 Copynumber: 2.4 Consensus size: 45
535151 ACAGTCTATT
535161 CAACCTATTGTTGATACATCTATACAACCCACTCAACCTCAATCC
1 CAACCTATTGTTGATACATCTATACAACCCACTCAACCTCAATCC
*
535206 CAACCTATTGTTGATACATCTATACAACCCACTCAACCTCAGTCC
1 CAACCTATTGTTGATACATCTATACAACCCACTCAACCTCAATCC
535251 CAACCTATTGTTGATACAT
1 CAACCTATTGTTGATACAT
535270 GGAGATACAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.32, C:0.33, G:0.06, T:0.28
Consensus pattern (45 bp):
CAACCTATTGTTGATACATCTATACAACCCACTCAACCTCAATCC
Found at i:540233 original size:31 final size:32
Alignment explanation
Indices: 540168--540243 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
540158 TGTATATTAG
*
540168 ATTTG-ATTTTTTCAAATTTATATCATTTTGA
1 ATTTGAATTTTTTCAAATTTATATCATTTTAA
**
540199 ATTTGAATTTTTT-AAATTTA-AGTTTTTTTAA
1 ATTTGAATTTTTTCAAATTTATA-TCATTTTAA
540230 ATTTGAATTATTTT
1 ATTTGAATT-TTTT
540244 TTATTCAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 1 0.03
31 27 0.69
32 11 0.28
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (32 bp):
ATTTGAATTTTTTCAAATTTATATCATTTTAA
Found at i:540243 original size:16 final size:16
Alignment explanation
Indices: 540192--540243 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
540182 AATTTATATC
*
540192 ATTTTGAATTTGAATT
1 ATTTTAAATTTGAATT
540208 -TTTTAAATTT-AAGTT
1 ATTTTAAATTTGAA-TT
*
540223 TTTTTAAATTTGAATT
1 ATTTTAAATTTGAATT
540239 ATTTT
1 ATTTT
540244 TTATTCAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 2 0.06
15 11 0.35
16 16 0.52
17 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
ATTTTAAATTTGAATT
Found at i:543137 original size:19 final size:20
Alignment explanation
Indices: 543099--543137 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
543089 ATTCATAAAG
543099 ATGTATCGATACATATCATTA
1 ATGTATCGATACA-ATCATTA
543120 ATGTATCGATAC-ATCATT
1 ATGTATCGATACAATCATT
543138 GGGTTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATCATTA
Found at i:543939 original size:14 final size:13
Alignment explanation
Indices: 543901--543951 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
543891 GTTTTTAGGG
*
543901 GAAAAAAATAAATTA
1 GAAAAAAA-AAA-GA
*
543916 GAAAAGAAAAAGA
1 GAAAAAAAAAAGA
543929 GAAAGAAAAAAAGA
1 GAAA-AAAAAAAGA
543943 GAAAAAAAA
1 GAAAAAAAA
543952 CCAAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 10 0.31
14 15 0.47
15 7 0.22
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (13 bp):
GAAAAAAAAAAGA
Found at i:544673 original size:58 final size:57
Alignment explanation
Indices: 544610--544828 Score: 181
Period size: 58 Copynumber: 3.8 Consensus size: 57
544600 GCATATTAAG
* * * *
544610 GATTTTTGTGTCATTCCATTCATTTTTATGTCATTTTGGTCATTTACCATGACTTAGA
1 GATTTTTATGTCATTCCATGCATTTTAATGTCATTTTAGTCATTT-CCATGACTTAGA
** * * * * *
544668 GATTTTTAATGTTGTT-CATGCATGTCAATATCATTTTAGTCATTTGCCATGACTAAGG
1 GATTTTT-ATGTCATTCCATGCATTTTAATGTCATTTTAGTCATTT-CCATGACTTAGA
* * * * * * *
544726 GATTTTTGATATCATTCAATGCATTTTTATTTCATTTTAATCATTTTCATGTCTTA-A
1 GATTTTT-ATGTCATTCCATGCATTTTAATGTCATTTTAGTCATTTCCATGACTTAGA
* * * *
544783 GGATTTTTATGTCATTTCATGCATTTTAAGGTCATTTAAATCATTT
1 -GATTTTTATGTCATTCCATGCATTTTAATGTCATTTTAGTCATTT
544829 TTCATAATTT
Statistics
Matches: 125, Mismatches: 33, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
57 31 0.25
58 66 0.53
59 28 0.22
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (57 bp):
GATTTTTATGTCATTCCATGCATTTTAATGTCATTTTAGTCATTTCCATGACTTAGA
Found at i:544818 original size:116 final size:116
Alignment explanation
Indices: 544609--544828 Score: 250
Period size: 116 Copynumber: 1.9 Consensus size: 116
544599 TGCATATTAA
* * * **
544609 GGATTTTTGTGTCATTCCATTCATTTTTATGTCATTTTGGTCATTTACCATGACTTAGAGATTTT
1 GGATTTTTGTATCATTCAATGCATTTTTATGTCATTTTAATCATTTACCATGACTTAGAGATTTT
* * *
544674 TAATGTTGTTCATGCATGTCAATATCATTTTAGTCATTTGCCATGACTAAG
66 TAATGTTGTTCATGCATGTCAAGATCATTTAAATCATTTGCCATGACTAAG
* * *
544725 GGATTTTTGATATCATTCAATGCATTTTTATTTCATTTTAATCATTT-TCATGTCTTA-AGGATT
1 GGATTTTTG-TATCATTCAATGCATTTTTATGTCATTTTAATCATTTACCATGACTTAGA-GATT
* * *
544788 TTT-ATGTCAT-TTCATGCATTTTAAGGTCATTTAAATCATTT
64 TTTAATGT--TGTTCATGCATGTCAAGATCATTTAAATCATTT
544829 TTCATAATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
115 5 0.06
116 49 0.57
117 32 0.37
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (116 bp):
GGATTTTTGTATCATTCAATGCATTTTTATGTCATTTTAATCATTTACCATGACTTAGAGATTTT
TAATGTTGTTCATGCATGTCAAGATCATTTAAATCATTTGCCATGACTAAG
Found at i:544841 original size:58 final size:57
Alignment explanation
Indices: 544725--544878 Score: 161
Period size: 58 Copynumber: 2.7 Consensus size: 57
544715 CATGACTAAG
* ** * *
544725 GGATTTTTGATATCA-TTCAATGCATTTTTATTTCATTTTAATCATTTTCATGTCTTAA
1 GGATTTTT-ATATCATTTC-ATGCATTTTAAAGTCATTTAAATCATTTTCATATCTTAA
* *
544783 GGATTTTTATGTCATTTCATGCATTTTAAGGTCATTTAAATCATTTTTCATAAT-TTAA
1 GGATTTTTATATCATTTCATGCATTTTAAAGTCATTTAAATCA-TTTTCAT-ATCTTAA
* *
544841 GGACTTTTATAT-AGTTTCATACATTTTAAAGTCATTTA
1 GGATTTTTATATCA-TTTCATGCATTTTAAAGTCATTTA
544879 GGCGATTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
57 27 0.33
58 54 0.66
59 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (57 bp):
GGATTTTTATATCATTTCATGCATTTTAAAGTCATTTAAATCATTTTCATATCTTAA
Found at i:544868 original size:29 final size:29
Alignment explanation
Indices: 544779--544869 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
544769 TTTTCATGTC
* * *
544779 TTAAGGATTTTTATGTCATTTCATGCATT
1 TTAAGGACTTTTATATCATTTCATACATT
* * *
544808 TTAAGGTCATTTAAATCATTTTTCATA-A-T
1 TTAAGGACTTTTATATCA--TTTCATACATT
544837 TTAAGGACTTTTATAT-AGTTTCATACATT
1 TTAAGGACTTTTATATCA-TTTCATACATT
544866 TTAA
1 TTAA
544870 AGTCATTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
27 7 0.15
28 2 0.04
29 32 0.67
30 1 0.02
31 6 0.12
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (29 bp):
TTAAGGACTTTTATATCATTTCATACATT
Found at i:544878 original size:29 final size:31
Alignment explanation
Indices: 544797--544878 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 31
544787 TTTTATGTCA
* *
544797 TTTCATGCATTTTAAGGTCATTTAAATCATT
1 TTTCATACATTTTAAGGTCATTTAAATCATG
* * *
544828 TTTCATA-A-TTTAAGGACTTTTATAT-A-G
1 TTTCATACATTTTAAGGTCATTTAAATCATG
*
544855 TTTCATACATTTTAAAGTCATTTA
1 TTTCATACATTTTAAGGTCATTTA
544879 GGCGATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
27 7 0.17
28 2 0.05
29 25 0.61
30 1 0.02
31 6 0.15
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (31 bp):
TTTCATACATTTTAAGGTCATTTAAATCATG
Found at i:544932 original size:116 final size:116
Alignment explanation
Indices: 544812--545034 Score: 249
Period size: 116 Copynumber: 1.9 Consensus size: 116
544802 TGCATTTTAA
* * * * *
544812 GGTCATTTAAATCATTTTTCATA-ATTTAAGG-ACTTTTATATAGTTTCATACATTTTAAAGTCA
1 GGTCATTGAAATCATTTTTCA-AGATCT-AGGAACTTTTATACAATTTCATACATGTTAAAGTCA
* *
544875 TTTAGG-CGATTTTTTATGAT-TTAGGGAC-TTCTATGCAATTTCATGTATGCTAG
64 TTTAGGTC-ATTTTTCATAATCTT-GGGACTTTC-ATGCAATTTCATGTATGCTAG
** ** *
544928 GGTCATTGAGGTCATTTTTCAAGATCTAGGAACTTTTATACAATTTCATGTATGTTGAAGTCATT
1 GGTCATTGAAATCATTTTTCAAGATCTAGGAACTTTTATACAATTTCATACATGTTAAAGTCATT
*
544993 TAGGTCATTTTTCATAATCTTGGGACTTTCATGTAATTTCAT
66 TAGGTCATTTTTCATAATCTTGGGACTTTCATGCAATTTCAT
545035 ATATTTTAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
115 4 0.04
116 79 0.89
117 6 0.07
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (116 bp):
GGTCATTGAAATCATTTTTCAAGATCTAGGAACTTTTATACAATTTCATACATGTTAAAGTCATT
TAGGTCATTTTTCATAATCTTGGGACTTTCATGCAATTTCATGTATGCTAG
Found at i:545021 original size:58 final size:57
Alignment explanation
Indices: 544796--545021 Score: 197
Period size: 58 Copynumber: 3.9 Consensus size: 57
544786 TTTTTATGTC
* ** * *
544796 ATTTCATGCATTTTAAGGTCATTTAAATCATTTTTCATAATTTAAGGACTTTTATATA
1 ATTTCATGCATGTTAA-GTCATTTAGGTCATTTTTCATAATTTAGGGACTTTTATACA
* * * * * * *
544854 GTTTCATACATTTTAAAGTCATTTAGG-CGATTTTTTATGATTTAGGGACTTCTATGCA
1 ATTTCATGCATGTT-AAGTCATTTAGGTC-ATTTTTCATAATTTAGGGACTTTTATACA
* * * * * *
544912 ATTTCATGTATGCTAGGGTCATTGAGGTCATTTTTCA-AGATCTAGGAACTTTTATACA
1 ATTTCATGCATGTTA-AGTCATTTAGGTCATTTTTCATA-ATTTAGGGACTTTTATACA
*
544970 ATTTCATGTATGTTGAAGTCATTTAGGTCATTTTTCATAATCTT-GGGACTTT
1 ATTTCATGCATGTT-AAGTCATTTAGGTCATTTTTCATAAT-TTAGGGACTTT
545022 CATGTAATTT
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
57 2 0.02
58 124 0.94
59 6 0.05
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (57 bp):
ATTTCATGCATGTTAAGTCATTTAGGTCATTTTTCATAATTTAGGGACTTTTATACA
Found at i:556487 original size:97 final size:97
Alignment explanation
Indices: 556255--556501 Score: 343
Period size: 97 Copynumber: 2.5 Consensus size: 97
556245 TTTTTGATTG
* * *
556255 AAAATCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGATAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATTTA
*
556320 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAGATTTAAACTTTGATGTATTT
* * * * * * *
556352 AAAAGAGAGATTTGAGTATCCCCTCGAAGGAATGGGGTTGAAGTGTCCTCGATGGTGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATTTA
556417 AGTGAGAATAAGATTTAAACTTTGATGTATTT
66 AGTGAGAATAAGATTTAAACTTTGATGTATTT
* * * *
556449 AAAAGCGGGGTTGGAGTATCCCCTTGGAGTAATAGGGTT-AGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGA-AGTGTCCCCGAT
556502 AAATAAAATT
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 1 0.01
97 127 0.99
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.30
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATTTA
AGTGAGAATAAGATTTAAACTTTGATGTATTT
Found at i:558148 original size:14 final size:14
Alignment explanation
Indices: 558131--558176 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
558121 ATTTTTTAAA
558131 ATTTTTTTTATTTT
1 ATTTTTTTTATTTT
*
558145 ATTTATTTTATTTT
1 ATTTTTTTTATTTT
558159 -TTTTGTTTTATTATT
1 ATTTT-TTTTATT-TT
558174 ATT
1 ATT
558177 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 20 0.74
15 2 0.07
16 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
ATTTTTTTTATTTT
Found at i:558149 original size:4 final size:5
Alignment explanation
Indices: 558131--558176 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
558121 ATTTTTTAAA
*
558131 ATTTT -TTTT ATTTT A-TTT ATTTT ATTTT -TTTT GTTTT ATTATT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATT
558177 ATTTAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
4 12 0.33
5 19 0.53
6 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:558161 original size:23 final size:23
Alignment explanation
Indices: 558131--558180 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
558121 ATTTTTTAAA
558131 ATTTTTTTTATTTTATTTATT-TT
1 ATTTTTTTTATTTTA-TTATTATT
*
558154 ATTTTTTTTGTTTTATTATTATT
1 ATTTTTTTTATTTTATTATTATT
558177 ATTT
1 ATTT
558181 AAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (23 bp):
ATTTTTTTTATTTTATTATTATT
Found at i:558911 original size:52 final size:50
Alignment explanation
Indices: 558833--559324 Score: 396
Period size: 52 Copynumber: 9.8 Consensus size: 50
558823 TAAAGATGAG
*
558833 AAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
1 AAAGATG--AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
558885 AAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGA-TT
1 AAAGATG--AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT
* * * * * * *
558937 AAAAATGCGAAGAATGTCAATATGCTGATTCACGGCCAGCGACATTAGACTT
1 AAAGATG-AAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* ** * * * * *
558989 GAAGATGAGAAAAATACCAATGTGCTAATTCAAGGCTAGCAACATTGGGCTT
1 AAAGAT--GAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
** * * * * *
559041 AGGGATGTTAAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 AAAGATG--AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
*
559093 AAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
1 AAAGATGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * *
559142 AAAGATG-GAGGCGCCAATGTGCTAATTCAAGGCTAGCGACATTGGACTT
1 AAAGATGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * * **
559191 AAATATG-GAGGTGCCAATGGGCTAATTCAAGGCTAATGACATTGGACTT
1 AAAGATGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
559240 AAATG-TGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-T
1 AAA-GAT-G-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
*
559291 -----T-AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGA
1 AAAGATGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
559325 TAGTGGGCCC
Statistics
Matches: 362, Mismatches: 67, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
43 31 0.09
46 1 0.00
49 128 0.35
50 2 0.01
51 7 0.02
52 187 0.52
53 5 0.01
54 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (50 bp):
AAAGATGAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:559397 original size:32 final size:32
Alignment explanation
Indices: 559346--559530 Score: 198
Period size: 32 Copynumber: 5.8 Consensus size: 32
559336 AAAGGAGATT
* * *
559346 CCACCAACTTGTTTCGGCTTTTGAAAGGGTTG
1 CCACCAGCTTGTGTGGGCTTTTGAAAGGGTTG
* *
559378 CCACTAGCTTGAGTGGGC-TTTGAGAAGGGTTG
1 CCACCAGCTTGTGTGGGCTTTTGA-AAGGGTTG
* *
559410 TCACCAGCTTGTGTGGGC-TTTGAAGGGGTTG
1 CCACCAGCTTGTGTGGGCTTTTGAAAGGGTTG
*
559441 CCACC-GACTTGTGTGGGCTTTTGAAGAAGGTTG
1 CCACCAG-CTTGTGTGGGCTTTTGAA-AGGGTTG
* *
559474 CCACCAGCTTGTATGGGCTTTAGAGAA-GGTTG
1 CCACCAGCTTGTGTGGGCTTTTGA-AAGGGTTG
* *
559506 CCACCAACTTGTGTGGACTTTTGAA
1 CCACCAGCTTGTGTGGGCTTTTGAA
559531 GAAGGTTTCT
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
30 1 0.01
31 28 0.22
32 72 0.56
33 26 0.20
34 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (32 bp):
CCACCAGCTTGTGTGGGCTTTTGAAAGGGTTG
Found at i:559429 original size:64 final size:65
Alignment explanation
Indices: 559346--559537 Score: 207
Period size: 65 Copynumber: 3.0 Consensus size: 65
559336 AAAGGAGATT
* * *
559346 CCACCAACTTGTTTCGGCTTTTGAAAGGGTTGCCACTAG-CTTGAGTGGGC-TTTG-AGAAGGGT
1 CCACCAGCTTGTATGGGCTTTTGAAAGGGTTGCCAC-AGACTTGAGTGGGCTTTTGAAGAA-GGT
559408 TG
64 TG
* * * * *
559410 TCACCAGCTTGTGTGGGC-TTTGAAGGGGTTGCCACCGACTTGTGTGGGCTTTTGAAGAAGGTTG
1 CCACCAGCTTGTATGGGCTTTTGAAAGGGTTGCCACAGACTTGAGTGGGCTTTTGAAGAAGGTTG
* * *
559474 CCACCAGCTTGTATGGGCTTTAGAGAA-GGTTGCCACCA-ACTTGTGTGGACTTTTGAAGAAGGT
1 CCACCAGCTTGTATGGGCTTTTGA-AAGGGTTGCCA-CAGACTTGAGTGGGCTTTTGAAGAAGGT
559537 T
64 T
559538 TCTTCAGTGG
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
63 26 0.24
64 39 0.36
65 41 0.38
66 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (65 bp):
CCACCAGCTTGTATGGGCTTTTGAAAGGGTTGCCACAGACTTGAGTGGGCTTTTGAAGAAGGTTG
Found at i:559505 original size:96 final size:96
Alignment explanation
Indices: 559346--559531 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
559336 AAAGGAGATT
* * * *
559346 CCACCAACTTGTTTCGGCTTTTGAAAGGGTTGCCACTAGCTTGAGTGGGCTTTGAGAAGGGTTGT
1 CCACCAACTTGTGTCGGCTTTTGAAAAGGTTGCCACCAGCTTGAGTGGGCTTTGAGAAGGGTTGC
* *
559411 CACCAGCTTGTGTGGGC-TTTGAAGGGGTTG
66 CACCAACTTGTGTGGACTTTTGAAGGGGTTG
* *
559441 CCACCGACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAGCTTGTA-TGGGCTTTAGAGAA-GGT
1 CCACCAACTTGTGTCGGCTTTTGAA-AAGGTTGCCACCAGCTTG-AGTGGGCTTT-GAGAAGGGT
559504 TGCCACCAACTTGTGTGGACTTTTGAAG
63 TGCCACCAACTTGTGTGGACTTTTGAAG
559532 AAGGTTTCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
95 22 0.28
96 44 0.56
97 13 0.16
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.31
Consensus pattern (96 bp):
CCACCAACTTGTGTCGGCTTTTGAAAAGGTTGCCACCAGCTTGAGTGGGCTTTGAGAAGGGTTGC
CACCAACTTGTGTGGACTTTTGAAGGGGTTG
Found at i:559878 original size:33 final size:32
Alignment explanation
Indices: 559787--559878 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
559777 GACTTTGAAG
* * * *
559787 GAAAAGATGACACGGAGTTATGGGCTTTGAAGA
1 GAAAAGATGCCACGG-GTTATGGACTTTAAAAA
*
559820 GAAAACGATGCCACAGGGTTGTGGAC-TTAAAAA
1 GAAAA-GATGCCAC-GGGTTATGGACTTTAAAAA
559853 GAACAAGATGCCACGGTGTTATGGAC
1 GAA-AAGATGCCACGG-GTTATGGAC
559879 CTTGAGAGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
32 2 0.04
33 29 0.59
34 16 0.33
35 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (32 bp):
GAAAAGATGCCACGGGTTATGGACTTTAAAAA
Found at i:559940 original size:83 final size:83
Alignment explanation
Indices: 559801--559966 Score: 242
Period size: 83 Copynumber: 2.0 Consensus size: 83
559791 AGATGACACG
*
559801 GAGTTATGGGCTTTGAAGAGAAAACGATGCCACAGGGTTGTGGACTTAAAAAGAACAAGATGCCA
1 GAGTTATGGGCTTTGAAAAGAAAACGATGCCACAGGGTTGTGGACTTAAAAAGAACAAGATGCCA
* *
559866 CGGTGTTATGGACCTTGA
66 CGGAGTTACGGACCTTGA
* * * * * *
559884 GAGTTGTGGGCTTTGAAAAGAAAATGGTGCCACGGGGTTGTGGACTTAAAAGGAACAAGGTGCCA
1 GAGTTATGGGCTTTGAAAAGAAAACGATGCCACAGGGTTGTGGACTTAAAAAGAACAAGATGCCA
*
559949 TGGAGTTACGGACCTTGA
66 CGGAGTTACGGACCTTGA
559967 AGGAAAAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.23
Consensus pattern (83 bp):
GAGTTATGGGCTTTGAAAAGAAAACGATGCCACAGGGTTGTGGACTTAAAAAGAACAAGATGCCA
CGGAGTTACGGACCTTGA
Found at i:560072 original size:99 final size:99
Alignment explanation
Indices: 559883--560203 Score: 294
Period size: 99 Copynumber: 3.2 Consensus size: 99
559873 ATGGACCTTG
* ** * * *
559883 AGAGTTGTGGGCTTTGAAAAGAAAATGGTGCCACGGGGTTGTGGACTTAAAAGGAACAAGGTGCC
1 AGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGATTTAAAA-GAAAAAGATGCC
* *
559948 ATGGAGTTACGGACCTTG-AAGGAAAAGATGCCAC
65 ATAGAGTTACGGACCTTGAAAGAAAAAGATGCCAC
*
559982 GGAGTTGTGGG-TCTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGATTTAAAAGAAAAAGATGCC
1 AGAGTTGTGGGCT-TTGAAAAGAAAAAGGTGCCACGAAGTTGTGGATTTAAAAGAAAAAGATGCC
** * *
560046 ATAGAGTTGGGGGCTTTGGAAAGAAAAAGATGCCAC
65 ATAGAGTTACGGACCTT-GAAAGAAAAAGATGCCAC
* * * * * * *
560082 AGAGTTGTGGACTTTG--AAGGAAAAGATGCCACGAAATTGTGGGCTTTAAAGAGAAAACGGTGC
1 AGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGT-GGATTTAAA-AGAAAAAGATGC
** ** * *
560145 CACGGAGTTGTGGA-CTTAAAAGGAACAAGATGCCAC
64 CATAGAGTTACGGACCTTGAAA-GAAAAAGATGCCAC
* *
560181 AAAGTTGTGGGCTTT-AAAGGAAA
1 AGAGTTGTGGGCTTTGAAAAGAAA
560204 TGGATGCACC
Statistics
Matches: 181, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
98 47 0.26
99 82 0.45
100 51 0.28
101 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (99 bp):
AGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGATTTAAAAGAAAAAGATGCCA
TAGAGTTACGGACCTTGAAAGAAAAAGATGCCAC
Found at i:560137 original size:132 final size:132
Alignment explanation
Indices: 559958--560238 Score: 354
Period size: 132 Copynumber: 2.1 Consensus size: 132
559948 ATGGAGTTAC
* * *
559958 GGACCTTGAAGGAAAAGATGCCACGGAGTTGTGGGTCTTGAAAAGAAAAAGGTGCCACGAAGTTG
1 GGACTTTGAAGGAAAAGATGCCACGAAATTGTGGGTCTTGAAAAGAAAAAGGTGCCACGAAGTTG
* * *
560023 TGGATTTAAAA-GAAAAAGATGCCATAGAGTTGGGGGCTTTGGAAA-GAAAAAGATGC-CACAGA
66 TGGACTTAAAAGGAAAAAGATGCCACAAAGTTGGGGGCTTT--AAAGGAAAAAGATGCAC-CAGA
560085 GTTGT
128 GTTGT
* * *
560090 GGACTTTGAAGGAAAAGATGCCACGAAATTGTGGG-CTTTAAAGAGAAAACGGTGCCACGGAGTT
1 GGACTTTGAAGGAAAAGATGCCACGAAATTGTGGGTCTTGAAA-AGAAAAAGGTGCCACGAAGTT
* * ** *
560154 GTGGACTTAAAAGGAACAAGATGCCACAAAGTTGTGGGCTTTAAAGGAAATGGATGCACCTGAGT
65 GTGGACTTAAAAGGAAAAAGATGCCACAAAGTTGGGGGCTTTAAAGGAAAAAGATGCACCAGAGT
560219 TGT
130 TGT
*
560222 GGGCTTTGAAGAGAAAA
1 GGACTTTGAAG-GAAAA
560239 AGGTACCATG
Statistics
Matches: 129, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
131 9 0.07
132 89 0.69
133 31 0.24
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (132 bp):
GGACTTTGAAGGAAAAGATGCCACGAAATTGTGGGTCTTGAAAAGAAAAAGGTGCCACGAAGTTG
TGGACTTAAAAGGAAAAAGATGCCACAAAGTTGGGGGCTTTAAAGGAAAAAGATGCACCAGAGTT
GT
Found at i:560146 original size:100 final size:98
Alignment explanation
Indices: 559883--560450 Score: 389
Period size: 100 Copynumber: 5.7 Consensus size: 98
559873 ATGGACCTTG
* * * ** * *
559883 AGAGTTGTGGGCTTTGAAAAGAAAATGGTGCCACGGGGTTGTGGAC-TTAAAAGGAACAAGGTGC
1 AGAGTTGTGGACTTTG-AAGGAAAA-GATGCCACGAAGTTGTGGGCTTTAAAA-GAAAAAGGTGC
** *
559947 CATGGAGTTACGGACCTT-GAAGG-AAAAGATGCCAC
63 CATGGAGTTGTGGA-CTTAAAAGGAAAAAGATGCCAC
* * * * * *
559982 GGAGTTGTGG-GTCTTGAAAAGAAAAAGGTGCCACGAAGTTGT-GGATTTAAAAGAAAAAGATGC
1 AGAGTTGTGGACT-TTG--AAGGAAAAGATGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGC
* * * *
560045 CATAGAGTTGGGGGCTTTGGAAA-GAAAAAGATGCCAC
63 CATGGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCAC
* *
560082 AGAGTTGTGGACTTTGAAGGAAAAGATGCCACGAAATTGTGGGCTTTAAAGAGAAAACGGTGCCA
1 AGAGTTGTGGACTTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCA
* *
560147 CGGAGTTGTGGACTTAAAAGGAACAAGATGCCAC
65 TGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* * * * * *
560181 AAAGTTGTGGGCTTTAAAGGAAATGGATG-CACCTG-AGTTGTGGGCTTTGAAGAGAAAAAGGTA
1 AGAGTTGTGGACTTTGAAGGAAA-AGATGCCA-C-GAAGTTGTGGGCTTT-AAAAGAAAAAGGTG
* * * * *
560244 CCATGGGGTTGTGGACTTAAAAGGAACAAGGTGCGAT
62 CCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* * * * * *
560281 AGAGTTATGGACCTTGAAGGAAAATATGGCAGGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCA
1 AGAGTTGTGGACTTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCA
** * * * *
560346 CGGGGTTGTGTTTTGTGGGCTTAAAAGGAACAAGGTGCCAT
65 ------TG-GAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* * * * * *
560387 GGAGTTATGGACTTTGAAGGAAAAGATGCCACGGAGTCGTGGACTTT-TAAGAAAAAGGATGCCA
1 AGAGTTGTGGACTTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGG-TGCCA
560451 CTAAGTCGTG
Statistics
Matches: 380, Mismatches: 64, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
97 1 0.00
98 48 0.13
99 110 0.29
100 132 0.35
101 4 0.01
104 10 0.03
105 7 0.02
106 68 0.18
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (98 bp):
AGAGTTGTGGACTTTGAAGGAAAAGATGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAT
GGAGTTGTGGACTTAAAAGGAAAAAGATGCCAC
Found at i:560219 original size:66 final size:65
Alignment explanation
Indices: 559966--560223 Score: 249
Period size: 66 Copynumber: 3.9 Consensus size: 65
559956 ACGGACCTTG
** * * *
559966 AAGGAAAAGATGCCACGGAGTTGTGGGTCTTGAAAAGAAAAAGG-TGCCAC-GAAGTTGTGGATT
1 AAGGAAAAGATGCCACAAAGTTGTGGG-CTT-TAAAGGAAAAGGATGCCACAG-AGTTGTGGACT
560029 TAA
63 TAA
* * * * *
560032 AAGAAAAAGATGCCATAGAGTTGGGGGCTTTGGAAA-GAAAAAGATGCCACAGAGTTGTGGACTT
1 AAGGAAAAGATGCCACAAAGTTGTGGGCTTT--AAAGGAAAAGGATGCCACAGAGTTGTGGACTT
**
560096 TG
64 AA
*
560098 AAGGAAAAGATGCCACGAAA-TTGTGGGCTTTAAAGAGAAAACGG-TGCCACGGAGTTGTGGACT
1 AAGGAAAAGATGCCAC-AAAGTTGTGGGCTTTAAAG-GAAAA-GGATGCCACAGAGTTGTGGACT
560161 TAA
63 TAA
* *
560164 AAGGAACAAGATGCCACAAAGTTGTGGGCTTTAAAGGAAATGGATG-CACCTGAGTTGTGG
1 AAGGAA-AAGATGCCACAAAGTTGTGGGCTTTAAAGGAAAAGGATGCCA-CAGAGTTGTGG
560224 GCTTTGAAGA
Statistics
Matches: 160, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
64 3 0.02
65 12 0.08
66 116 0.73
67 29 0.18
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (65 bp):
AAGGAAAAGATGCCACAAAGTTGTGGGCTTTAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAA
Found at i:560398 original size:106 final size:105
Alignment explanation
Indices: 560252--560451 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 105
560242 TACCATGGGG
* * * *
560252 TTGTGGACTTAAAAGGAACAAGGTGCGATAGAGTTATGGACCTTGAAGGAAAATATGGCAGGGAG
1 TTGTGGACTTAAAAGGAACAAGGTGCCATAGAGTTATGGACCTTGAAGGAAAAGATGCCACGGAG
* *
560317 TTGTGGGCTTTGAAAAGAAAAAGG-TGCCACGGGGTTGTGTT
66 TCGTGGACTTT--AAAGAAAAAGGATGCCACGGGGTTGTGTT
* * *
560358 TTGTGGGCTTAAAAGGAACAAGGTGCCATGGAGTTATGGACTTTGAAGGAAAAGATGCCACGGAG
1 TTGTGGACTTAAAAGGAACAAGGTGCCATAGAGTTATGGACCTTGAAGGAAAAGATGCCACGGAG
*
560423 TCGTGGACTTTTAAGAAAAAGGATGCCAC
66 TCGTGGACTTTAAAGAAAAAGGATGCCAC
560452 TAAGTCGTGG
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
104 10 0.12
105 6 0.07
106 67 0.81
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (105 bp):
TTGTGGACTTAAAAGGAACAAGGTGCCATAGAGTTATGGACCTTGAAGGAAAAGATGCCACGGAG
TCGTGGACTTTAAAGAAAAAGGATGCCACGGGGTTGTGTT
Found at i:560423 original size:32 final size:32
Alignment explanation
Indices: 560370--560451 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
560360 GTGGGCTTAA
* * *
560370 AAGGAACAAGGTGCCATGGAGTTATGGACTTTG
1 AAGGAA-AAGATGCCACGGAGTCATGGACTTTG
* *
560403 AAGGAAAAGATGCCACGGAGTCGTGGACTTTT
1 AAGGAAAAGATGCCACGGAGTCATGGACTTTG
*
560435 AAGAAAAAGGATGCCAC
1 AAGGAAAA-GATGCCAC
560452 TAAGTCGTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (32 bp):
AAGGAAAAGATGCCACGGAGTCATGGACTTTG
Found at i:560458 original size:33 final size:32
Alignment explanation
Indices: 560394--560486 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
560384 CATGGAGTTA
* * **
560394 TGGACTTTGAAGGAAAAGATGCCACGGAGTCG
1 TGGACTTTTAAGAAAAAGATGCCACTAAGTCG
560426 TGGACTTTTAAGAAAAAGGATGCCACTAAGTCG
1 TGGACTTTTAAGAAAAA-GATGCCACTAAGTCG
* *
560459 TGGA-TTTTTA-AAAATGATGCCACTAAGT
1 TGGACTTTTAAGAAAAAGATGCCACTAAGT
560487 AATGGACATT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
30 13 0.24
31 4 0.07
32 20 0.37
33 17 0.31
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (32 bp):
TGGACTTTTAAGAAAAAGATGCCACTAAGTCG
Found at i:560478 original size:30 final size:31
Alignment explanation
Indices: 560407--560537 Score: 106
Period size: 30 Copynumber: 4.2 Consensus size: 31
560397 ACTTTGAAGG
**
560407 AAAAGATGCCACGGAGTCGTGGACTTTTAAGA
1 AAAAGATGCCACTAAGTCGTGGACTTTT-AGA
*
560439 AAAAGGATGCCACTAAGTCGTGGATTTTTA-A
1 AAAA-GATGCCACTAAGTCGTGGACTTTTAGA
* ** * *
560470 AAATGATGCCACTAAGTAATGGACATTTAGG
1 AAAAGATGCCACTAAGTCGTGGACTTTTAGA
* * * *
560501 AAATG-TGTCAC-AGAGTCGTGGCCTTTTGGA
1 AAAAGATGCCACTA-AGTCGTGGACTTTTAGA
560531 AAAAGAT
1 AAAAGAT
560538 TTGAAAGATT
Statistics
Matches: 78, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
29 1 0.01
30 41 0.53
31 10 0.13
32 5 0.06
33 21 0.27
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAAGATGCCACTAAGTCGTGGACTTTTAGA
Found at i:561797 original size:10 final size:10
Alignment explanation
Indices: 561782--561808 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
561772 TCTTCTACAC
561782 TTTTTTTTCA
1 TTTTTTTTCA
561792 TTTTTTTTCA
1 TTTTTTTTCA
561802 TTTTTTT
1 TTTTTTT
561809 GGTTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:566463 original size:97 final size:97
Alignment explanation
Indices: 566316--566553 Score: 370
Period size: 97 Copynumber: 2.5 Consensus size: 97
566306 GAAAAACGAG
* * * *
566316 GTTGGAGTATCCCCTCGGAAGAATGAGGTTGGAGTATCCCTGATGATGACAATTTAAGTGAGAAT
1 GTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAGAAT
*
566381 AAGATTTAAACTTTGATGTGTTTAAAAGCGG-
66 AAAATTTAAACTTTGATGTGTTTAAAAGCGGA
* * * *
566412 GATTGGAGTATCCCCTCAGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTAAGAA
1 G-TTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAGAA
566477 TAAAATTTAAACTTTGATGTGTTTAAAAGCGGA
65 TAAAATTTAAACTTTGATGTGTTTAAAAGCGGA
*
566510 GTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGAT
566554 AAATAAAATT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
96 1 0.01
97 125 0.98
98 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (97 bp):
GTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAGAAT
AAAATTTAAACTTTGATGTGTTTAAAAGCGGA
Found at i:566782 original size:19 final size:19
Alignment explanation
Indices: 566758--566795 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
566748 AGGGGACAGC
*
566758 ATCGTGCTGTCCCATTTCT
1 ATCGTGCTATCCCATTTCT
566777 ATCGTGCTATCCCATTTCT
1 ATCGTGCTATCCCATTTCT
566796 CGAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.42
Consensus pattern (19 bp):
ATCGTGCTATCCCATTTCT
Found at i:567471 original size:19 final size:19
Alignment explanation
Indices: 567449--567496 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
567439 TGATGTGGCT
567449 GCTGCTGGAGTTGCTCCTA
1 GCTGCTGGAGTTGCTCCTA
* * *
567468 GCTGCTAGAGTTGCTCGTG
1 GCTGCTGGAGTTGCTCCTA
567487 GCTGCTGGAG
1 GCTGCTGGAG
567497 GCTGCTGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.10, C:0.23, G:0.38, T:0.29
Consensus pattern (19 bp):
GCTGCTGGAGTTGCTCCTA
Found at i:567535 original size:32 final size:32
Alignment explanation
Indices: 567475--567535 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
567465 CTAGCTGCTA
* *
567475 GAGTTGCTCGTGGCTGCTGGAGGCTGCTGTGG
1 GAGTTGCTCGTAGCTGCTAGAGGCTGCTGTGG
*
567507 GAGTTGCTCG-AGCTGCTAGATGGTTGCTG
1 GAGTTGCTCGTAGCTGCTAGA-GGCTGCTG
567536 AGCTGCTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.10, C:0.18, G:0.43, T:0.30
Consensus pattern (32 bp):
GAGTTGCTCGTAGCTGCTAGAGGCTGCTGTGG
Found at i:567553 original size:51 final size:51
Alignment explanation
Indices: 567445--567544 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 51
567435 AGGCTGATGT
* *
567445 GGCTGCTGCTGGAGTTGCTCCTAGCTGCTAGAGTTGCTCGTGGCTGCTGGA
1 GGCTGCTGCTGGAGTTGCTCCGAGCTGCTAGAGTTGCTCGTAGCTGCTGGA
567496 GGCTGCTG-TGGGAGTTGCT-CGAGCTGCTAGATGGTTGCT-G-AGCTGCTGG
1 GGCTGCTGCT-GGAGTTGCTCCGAGCTGCTAGA--GTTGCTCGTAGCTGCTGG
567545 CCTGCTGCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
50 20 0.45
51 18 0.41
52 6 0.14
ACGTcount: A:0.10, C:0.21, G:0.40, T:0.29
Consensus pattern (51 bp):
GGCTGCTGCTGGAGTTGCTCCGAGCTGCTAGAGTTGCTCGTAGCTGCTGGA
Found at i:568224 original size:23 final size:24
Alignment explanation
Indices: 568198--568258 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
568188 TTTTTTTTAT
568198 TTTTTTTAAATTTTTTT-ATTTGA
1 TTTTTTTAAATTTTTTTCATTTGA
* *
568221 TTTTTTT--ATTTTTTTCGTTTTA
1 TTTTTTTAAATTTTTTTCATTTGA
568243 TTATTATTTAAATTTT
1 TT-TT-TTTAAATTTT
568259 ATATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 8 0.26
22 6 0.19
23 9 0.29
24 3 0.10
26 5 0.16
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTTTTAAATTTTTTTCATTTGA
Found at i:569916 original size:20 final size:20
Alignment explanation
Indices: 569871--569916 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
569861 GTTAACAGCC
*
569871 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
569891 CTATGTTTCATGCA-TTTGTAG
1 C-ATGTTTCATGCATTTTG-AG
569912 CATGT
1 CATGT
569917 CCAGCACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:573490 original size:52 final size:52
Alignment explanation
Indices: 573290--573470 Score: 299
Period size: 52 Copynumber: 3.5 Consensus size: 52
573280 CGAAATATGA
* * * *
573290 AAATTCGCCTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
573342 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
573394 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
573446 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
573471 AAGAACAGTG
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:573497 original size:13 final size:13
Alignment explanation
Indices: 573479--573503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
573469 CAAAGAACAG
573479 TGTATCGATACAA
1 TGTATCGATACAA
573492 TGTATCGATACA
1 TGTATCGATACA
573504 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:573570 original size:19 final size:19
Alignment explanation
Indices: 573546--573597 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
573536 TAGCTTACAT
573546 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
573565 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
573584 TGTATCGATACAAA
1 TGTATCGATACAAA
573598 TCGTTGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:574373 original size:48 final size:49
Alignment explanation
Indices: 574309--574646 Score: 369
Period size: 48 Copynumber: 6.9 Consensus size: 49
574299 GTTAGACTTG
* * * * *
574309 AAGGTGACAATGTGCTGATTCAAGGTCGGCGACATTGGTCTTAAA-AAC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
* * **
574357 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG-GT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
* * * * **
574405 GAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
* * **
574454 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-G-AAC
* * **
574505 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
* *
574555 AA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-AC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
* * *
574602 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
574647 AGAAGACGCC
Statistics
Matches: 245, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
47 2 0.01
48 157 0.64
49 41 0.17
50 1 0.00
51 1 0.00
52 43 0.18
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAC
Found at i:574533 original size:149 final size:148
Alignment explanation
Indices: 574357--574646 Score: 490
Period size: 149 Copynumber: 2.0 Consensus size: 148
574347 TCTTAAAAAC
* * *
574357 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGAGGTACCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTACCAATGTGCTG
*
574422 ATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
574487 ATTAGACTTAAAGGTGCCA
130 ATTAGACTTAAAGGTGCCA
* *
574506 AAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTACCAATGTGCTG
*
574571 ATTCAAGGCCAGCTACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
* *
574636 TTGGGCTTAAA
131 TTAGACTTAAA
574647 AGAAGACGCC
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
148 42 0.32
149 90 0.68
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (148 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTACCAATGTGCTG
ATTCAAGGCCAGCTACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
TTAGACTTAAAGGTGCCA
Found at i:574723 original size:28 final size:28
Alignment explanation
Indices: 574666--574817 Score: 164
Period size: 28 Copynumber: 5.3 Consensus size: 28
574656 CACCAACTTG
*
574666 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-GACT
* *
574695 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* *
574723 TGTGGGCTTTTAAAGATTGCTACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
*
574751 TATGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* *
574779 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTGACT
*
574809 TGTAGGCTT
1 TGTGGGCTT
574818 AAAAGGAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.03
28 68 0.65
29 11 0.10
30 23 0.22
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.37
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACT
Found at i:574802 original size:30 final size:30
Alignment explanation
Indices: 574692--575036 Score: 217
Period size: 30 Copynumber: 11.6 Consensus size: 30
574682 GTTTGCATCA
* *
574692 ACTTGTGTGCTTTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** *
574720 ACTTGTGGGCTTTT--AAAGATTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
574748 ACTTATGGGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
574776 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* ** * * *
574806 ACTTGTAGGCTTAAAAGGAAAAAGAGTGCTACGG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACTG
* * ** * *
574840 AGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACAG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * * *
574875 AGTTGTGGACTTTGGAAAA-GATGCCACCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
574904 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
574934 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * *
574961 ACTTGTGGAC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * *
574990 ACTTGTGGGCTTTGGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
575020 ACTTGTGGGCTTTTGAA
1 ACTTGTGGGCTTTTGAA
575037 GGGTGAGGAA
Statistics
Matches: 259, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
27 24 0.09
28 62 0.24
29 45 0.17
30 78 0.30
31 1 0.00
33 1 0.00
34 20 0.08
35 28 0.11
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:574852 original size:34 final size:35
Alignment explanation
Indices: 574814--574881 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
574804 TAACTTGTAG
* * *
574814 GCTTA-AAAGGAAAAAGAGTGCTACGGAGTTGTGA
1 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTGA
574848 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTG
1 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTG
574882 GACTTTGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (35 bp):
GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTGA
Found at i:575016 original size:86 final size:87
Alignment explanation
Indices: 574867--575038 Score: 265
Period size: 86 Copynumber: 2.0 Consensus size: 87
574857 AGAAAAAGAG
* * * *
574867 TGCCACAGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
*
574932 TGATTTGTGGGC-TTTGAAGGT
66 TGACTTGTGGGCTTTTGAAGGT
* * *
574953 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGATGCCAC
1 TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
575018 TGACTTGTGGGCTTTTGAAGG
66 TGACTTGTGGGCTTTTGAAGG
575039 GTGAGGAATG
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 69 0.90
87 8 0.10
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (87 bp):
TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
TGACTTGTGGGCTTTTGAAGGT
Found at i:576205 original size:19 final size:17
Alignment explanation
Indices: 576181--576215 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
576171 GATGTACTGT
576181 TTGACAAATAAGTGATTAG
1 TTGACAAA-AAG-GATTAG
576200 TTGACAAAAAGGATTA
1 TTGACAAAAAGGATTA
576216 ATTTTGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (17 bp):
TTGACAAAAAGGATTAG
Found at i:590514 original size:52 final size:52
Alignment explanation
Indices: 590314--590494 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
590304 CGAAATATGA
* * *
590314 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
590366 AAATTTGCCTGCATGTATCAATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
590418 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
590470 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
590495 AAGATCAGTG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:590521 original size:13 final size:13
Alignment explanation
Indices: 590503--590527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
590493 CAAAGATCAG
590503 TGTATCGATACAA
1 TGTATCGATACAA
590516 TGTATCGATACA
1 TGTATCGATACA
590528 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:590594 original size:19 final size:18
Alignment explanation
Indices: 590570--590667 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
590560 TAGCTTACAT
590570 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
590589 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
590602 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
590621 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
590634 TGTATTGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
590654 TGTATCGATACAAA
1 TGTATCGATACAAA
590668 TCGTTGAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.38
20 12 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:590606 original size:32 final size:32
Alignment explanation
Indices: 590565--590665 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
590555 TGCAGTAGCT
*
590565 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
590597 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
590629 TACATTGTATTGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
590662 TACA
1 TACA
590666 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:590607 original size:13 final size:13
Alignment explanation
Indices: 590589--590645 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
590579 ACAAAACTTA
590589 TGTATCGATACAT
1 TGTATCGATACAT
590602 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
590620 ATGTATCGATACAT
1 -TGTATCGATACAT
*
590634 TGTATTGATACA
1 TGTATCGATACA
590646 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:596318 original size:29 final size:30
Alignment explanation
Indices: 596286--596366 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
596276 TATATTTTTA
* *
596286 TTATATTTAAATAAATTTAAATC-TTTAAT
1 TTATATTCAAATAAATTTAAAGCATTTAAT
* **
596315 TTATATTCAAATAAGTTTCTAGCATTTAAT
1 TTATATTCAAATAAATTTAAAGCATTTAAT
596345 TTATATTCAAATAGAATCTTAA
1 TTATATTCAAATA-AAT-TTAA
596367 TATAAATCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 18 0.44
30 19 0.46
31 2 0.05
32 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (30 bp):
TTATATTCAAATAAATTTAAAGCATTTAAT
Found at i:597017 original size:16 final size:16
Alignment explanation
Indices: 596993--597023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
596983 ATCAAGCACA
596993 TTAAAAAAATTTAATG
1 TTAAAAAAATTTAATG
*
597009 TTAAGAAAATTTAAT
1 TTAAAAAAATTTAAT
597024 TGATTTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAAAAAAATTTAATG
Found at i:597103 original size:11 final size:10
Alignment explanation
Indices: 597087--597122 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
597077 ATATTAAATA
597087 AAAAAATTTAT
1 AAAAAATTT-T
597098 AAAAAATTTT
1 AAAAAATTTT
597108 AAAAAATTATT
1 AAAAAATT-TT
597119 AAAA
1 AAAA
597123 TAAATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:597219 original size:22 final size:23
Alignment explanation
Indices: 597173--597218 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
597163 TAATAATTAT
597173 ATATTTATTTTTTATTTAAAAAA
1 ATATTTATTTTTTATTTAAAAAA
597196 ATATTTA-TTTTTACTTTAAAAAA
1 ATATTTATTTTTTA-TTTAAAAAA
597219 TCCACCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTATTTTTTATTTAAAAAA
Found at i:598129 original size:12 final size:12
Alignment explanation
Indices: 598108--598148 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
598098 CCGTAAAGTA
*
598108 ATATACATATAC
1 ATATATATATAC
598120 ATATATATAT--
1 ATATATATATAC
*
598130 ATATATATACAC
1 ATATATATATAC
598142 ATATATA
1 ATATATA
598149 AAAGAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATATAC
Found at i:604468 original size:16 final size:17
Alignment explanation
Indices: 604444--604479 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
604434 TTGGTTAATT
*
604444 GTTCGGATCA-TTTTGA
1 GTTCAGATCATTTTTGA
604460 GTTCAGATCATTTTTGA
1 GTTCAGATCATTTTTGA
604477 GTT
1 GTT
604480 TAAGTCGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.47
Consensus pattern (17 bp):
GTTCAGATCATTTTTGA
Found at i:604798 original size:11 final size:12
Alignment explanation
Indices: 604774--604798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
604764 CCTAGTGTTG
604774 AAAAAGATTAAA
1 AAAAAGATTAAA
604786 AAAAAGATTAAA
1 AAAAAGATTAAA
604798 A
1 A
604799 GATAAATGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAGATTAAA
Found at i:606168 original size:19 final size:19
Alignment explanation
Indices: 606146--606214 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
606136 TTAGATATGG
606146 AAATAAAAAAATTTTATTT
1 AAATAAAAAAATTTTATTT
*
606165 AAATAAAAAAAATTTATTTT
1 AAATAAAAAAATTTTA-TTT
**
606185 AAA-AAAATTATTAATTATTAT
1 AAATAAAAAAATT--TTATT-T
606206 AAATAAAAA
1 AAATAAAAA
606215 CTTTTAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 21 0.52
20 8 0.20
21 7 0.17
22 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAAAAAATTTTATTT
Found at i:608205 original size:15 final size:16
Alignment explanation
Indices: 608187--608228 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
608177 ATATACACTT
608187 AATAAAACAAATTT-A
1 AATAAAACAAATTTAA
* *
608202 AATAACACTAATTTAA
1 AATAAAACAAATTTAA
608218 AATAAAA-AAAT
1 AATAAAACAAAT
608229 ATTATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAAACAAATTTAA
Found at i:609345 original size:16 final size:16
Alignment explanation
Indices: 609324--609368 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
609314 TACATTTTAA
609324 TTATATTTAA-AATATT
1 TTATATTTAATAA-ATT
609340 TTATATTTATATAAATT
1 TTATATTTA-ATAAATT
609357 TTATATATTAAT
1 TTATAT-TTAAT
609369 TATATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTAATAAATT
Found at i:609354 original size:20 final size:20
Alignment explanation
Indices: 609317--609354 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
609307 TTTTTTATAC
*
609317 ATTTTAATTATATTTAAAAT
1 ATTTTAATTATATATAAAAT
609337 ATTTTATATT-TATATAAA
1 ATTTTA-ATTATATATAAA
609355 TTTTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATTATATATAAAAT
Found at i:609359 original size:27 final size:27
Alignment explanation
Indices: 609329--609421 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 27
609319 TTTAATTATA
*
609329 TTTAAAATATTTTATATTTATATAAAT
1 TTTAATATATTTTATATTTATATAAAT
609356 TTT-ATATATTAATTATA-TTATATAAAT
1 TTTAATATATT--TTATATTTATATAAAT
* * *
609383 TTTAATATGTTTATATATTTATATTATT
1 TTTAATATATTT-TATATTTATATAAAT
*
609411 TTTATTATATT
1 TTTAATATATT
609422 CAAATTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
26 7 0.13
27 20 0.36
28 28 0.51
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTAATATATTTTATATTTATATAAAT
Found at i:609390 original size:28 final size:29
Alignment explanation
Indices: 609340--609444 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 29
609330 TTAAAATATT
609340 TTATATTTATATAAATTTT-ATATATTAA
1 TTATATTTATATAAATTTTAATATATTAA
* *
609368 TTATA-TTATATAAATTTTAATATGTTTA
1 TTATATTTATATAAATTTTAATATATTAA
* * *
609396 -TATATTTATATTATTTTTATTATATTCAAA
1 TTATATTTATATAAATTTTAATATATT--AA
609426 TTAT-TTTGATATTAAATTT
1 TTATATTT-ATA-TAAATTT
609445 ATGTAATTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
27 17 0.28
28 29 0.48
30 4 0.07
31 6 0.10
32 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (29 bp):
TTATATTTATATAAATTTTAATATATTAA
Found at i:610669 original size:12 final size:12
Alignment explanation
Indices: 610647--610672 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
610637 ATTTGTTTGA
610647 TTTTTTGTTTTT
1 TTTTTTGTTTTT
610659 TTTTTTGTTTTT
1 TTTTTTGTTTTT
610671 TT
1 TT
610673 CAGCAGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:611019 original size:15 final size:17
Alignment explanation
Indices: 610990--611032 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
610980 AAATATATTT
* *
610990 TTTAATTTAATAATAAA
1 TTTAATATAATAATATA
611007 TATTAATATAATAATATA
1 T-TTAATATAATAATATA
611025 TTTAATAT
1 TTTAATAT
611033 TACTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAATATAATAATATA
Found at i:611458 original size:16 final size:16
Alignment explanation
Indices: 611411--611460 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
611401 ATTTTTTAAT
*
611411 TTAAAATTTAATTTAA
1 TTAAAATTTAATATAA
* *
611427 TT-AATTTTAAAATAA
1 TTAAAATTTAATATAA
*
611442 TTAAAATTTAATGTAA
1 TTAAAATTTAATATAA
611458 TTA
1 TTA
611461 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTAAAATTTAATATAA
Found at i:611474 original size:27 final size:26
Alignment explanation
Indices: 611420--611475 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
611410 TTTAAAATTT
*
611420 AATTTAATTAATTTTAAAATAATTAA
1 AATTTAATTAATTTTAAAATAATAAA
*
611446 AATTTAATGTAATTATTAAATTAA-AAA
1 AATTTAAT-TAATT-TTAAAATAATAAA
611473 AAT
1 AAT
611476 CAGCAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 10 0.38
28 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTTAATTAATTTTAAAATAATAAA
Done.