Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 20
Found at i:1917068 original size:16 final size:16
Alignment explanation
Indices: 1917047--1917078 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1917037 AATTAAAATA
*
1917047 TAATTTAATAATAATT
1 TAATTTAACAATAATT
1917063 TAATTTAACAATAATT
1 TAATTTAACAATAATT
1917079 AAAGATAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAACAATAATT
Found at i:1920564 original size:26 final size:26
Alignment explanation
Indices: 1920524--1920578 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
1920514 AAAGGGTTTA
*
1920524 ATTTTTATGTATATTTTAAAAAT-TAT
1 ATTTTTATATATA-TTTAAAAATATAT
* *
1920550 ATTTTTATATTTATTTATAAATATAT
1 ATTTTTATATATATTTAAAAATATAT
1920576 ATT
1 ATT
1920579 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTTATATATATTTAAAAATATAT
Found at i:1920590 original size:13 final size:14
Alignment explanation
Indices: 1920561--1920611 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
1920551 TTTTTATATT
* *
1920561 TATTTATAAATATA
1 TATTTAAAAATAAA
1920575 TA-TTAAAAATAAA
1 TATTTAAAAATAAA
1920588 TATTTAAAAAATTAAA
1 TATTT-AAAAA-TAAA
*
1920604 AATTTAAA
1 TATTTAAA
1920612 TAAGATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 11 0.35
14 4 0.13
15 8 0.26
16 8 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTTAAAAATAAA
Found at i:1920603 original size:16 final size:15
Alignment explanation
Indices: 1920579--1920624 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
1920569 AATATATATT
1920579 AAAAATAAATATTTA
1 AAAAATAAATATTTA
*
1920594 AAAAATTAAAAATTTA
1 AAAAA-TAAATATTTA
1920610 AATAAGATAAATATT
1 AA-AA-ATAAATATT
1920625 AGAAAAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 11 0.42
17 9 0.35
18 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAAATAAATATTTA
Found at i:1921491 original size:15 final size:15
Alignment explanation
Indices: 1921471--1921500 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1921461 AAGCAGAAAA
1921471 TGGAAGGAAATGGGT
1 TGGAAGGAAATGGGT
*
1921486 TGGAAGGAGATGGGT
1 TGGAAGGAAATGGGT
1921501 CAAACGGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (15 bp):
TGGAAGGAAATGGGT
Found at i:1929274 original size:6 final size:6
Alignment explanation
Indices: 1929263--1929288 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1929253 AATTGTTAGA
1929263 AAATAG AAATAG AAATAG AAATAG AA
1 AAATAG AAATAG AAATAG AAATAG AA
1929289 TGTCCATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAATAG
Found at i:1930796 original size:54 final size:54
Alignment explanation
Indices: 1930734--1930839 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
1930724 CCTTAAGATT
*
1930734 TGAAAACGGTCTAAAAGGACAAACATATTCTTAATGTGTACCTTTGACATGATC
1 TGAAAACGGTCTAAAAGGACAAACATATTCTTAATGTGTACCTTCGACATGATC
*
1930788 TGAAAACGGTCTAAAAGGACAAACATATTTTTAATGTGTACCTTCGACATGA
1 TGAAAACGGTCTAAAAGGACAAACATATTCTTAATGTGTACCTTCGACATGA
1930840 AAGTATGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (54 bp):
TGAAAACGGTCTAAAAGGACAAACATATTCTTAATGTGTACCTTCGACATGATC
Found at i:1933871 original size:21 final size:21
Alignment explanation
Indices: 1933838--1933882 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1933828 TTGCAAGTTG
*
1933838 AAATAAAGAAGTTGGCTAAAGA
1 AAATAAAGAAGTTAGCT-AAGA
*
1933860 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1933880 AAA
1 AAA
1933883 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1935706 original size:15 final size:15
Alignment explanation
Indices: 1935686--1935716 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1935676 TAAAAATGTC
*
1935686 CAAAATGACGAAGCT
1 CAAAATGAAGAAGCT
1935701 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1935716 C
1 C
1935717 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1937582 original size:8 final size:8
Alignment explanation
Indices: 1937569--1937600 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
1937559 ATTTGATTAA
1937569 ATTTTGTG
1 ATTTTGTG
1937577 ATTTTGTG
1 ATTTTGTG
1937585 ATTTTGTG
1 ATTTTGTG
1937593 ATTTTGTG
1 ATTTTGTG
1937601 TTGAATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1937821 original size:13 final size:13
Alignment explanation
Indices: 1937803--1937841 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1937793 ACATTTTTCT
1937803 TTGTATCGATACA
1 TTGTATCGATACA
1937816 TTGTATCGATACA
1 TTGTATCGATACA
1937829 TTGTATCGATACA
1 TTGTATCGATACA
1937842 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1941244 original size:29 final size:29
Alignment explanation
Indices: 1941202--1941260 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1941192 AAGAATATGA
*
1941202 AAGTTTTAACATTTTCTACATACCTTTGG
1 AAGTTTTAACATTTTCTACACACCTTTGG
*
1941231 AAGTTTTAACATTTTCTACACCCCTTTGG
1 AAGTTTTAACATTTTCTACACACCTTTGG
1941260 A
1 A
1941261 GAATCAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.42
Consensus pattern (29 bp):
AAGTTTTAACATTTTCTACACACCTTTGG
Found at i:1943707 original size:3 final size:3
Alignment explanation
Indices: 1943699--1943735 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1943689 TTAACCATCA
* *
1943699 ATG ATG ATG AAG ATA ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1943736 AGTTGACTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:1949656 original size:52 final size:51
Alignment explanation
Indices: 1949576--1949694 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 51
1949566 AAAAGTTGTT
*
1949576 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGCC
1949628 TGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTGCC
1949679 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1949695 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 21 0.32
52 39 0.60
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCC
Found at i:1949707 original size:51 final size:50
Alignment explanation
Indices: 1949576--1949714 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 50
1949566 AAAAGTTGTT
*
1949576 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGCC
1949628 TGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-TTGCC
1 TGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAATTTGCC
1949679 TGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1949715 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
47 2 0.03
48 1 0.01
50 1 0.01
51 33 0.41
52 38 0.47
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (50 bp):
TGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1949721 original size:13 final size:13
Alignment explanation
Indices: 1949703--1949727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1949693 CAAAGATCAG
1949703 TGTATCGATACAA
1 TGTATCGATACAA
1949716 TGTATCGATACA
1 TGTATCGATACA
1949728 TGTGAGTAAT
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:1949810 original size:13 final size:13
Alignment explanation
Indices: 1949792--1949816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1949782 CAAAAAAATA
1949792 TGTATCGATACAT
1 TGTATCGATACAT
1949805 TGTATCGATACA
1 TGTATCGATACA
1949817 ACATTTTATG
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:1949812 original size:33 final size:33
Alignment explanation
Indices: 1949770--1949836 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1949760 AGTAGCTTAA
1949770 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1949803 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1949836 A
1 A
1949837 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1950830 original size:171 final size:168
Alignment explanation
Indices: 1950635--1951019 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
1950625 TTTTAGAGAT
1950635 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1950700 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
* *
1950765 TGTCAACGTGCTGATTCAAGGCCAGC-TACATTGAACT-TAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTA-A-AG-A-TGGAAA
* * *
1950806 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1950871 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1950936 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
*
1950975 -AT---GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1951020 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 8, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
164 40 0.20
165 1 0.00
168 3 0.01
169 4 0.02
170 2 0.01
171 151 0.74
172 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (168 bp):
GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
Found at i:1950852 original size:49 final size:49
Alignment explanation
Indices: 1950706--1950864 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1950696 AAAAGTGATA
* * * * *
1950706 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1950757 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1950810 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
1950859 ATGATG
1 AAGATG
1950865 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1950967 original size:45 final size:42
Alignment explanation
Indices: 1950915--1951047 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 42
1950905 ACGATATTGG
* *
1950915 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
1950960 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * **
1951002 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
1951045 GCT
1 GCT
1951048 ACATTGGACT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.30
43 34 0.45
44 1 0.01
45 11 0.14
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:1950996 original size:42 final size:42
Alignment explanation
Indices: 1950944--1951139 Score: 148
Period size: 43 Copynumber: 4.5 Consensus size: 42
1950934 GATGTCAACG
*
1950944 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
1950986 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
* *
1951029 TGCTGATTCAAGGCCAGC-TACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--T-AA-A-G--G-TGCCAATA
* * * *
1951078 TGCTGATTCAAGGCCAGC-GATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
1951121 TGCTGAGTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
1951140 ACATTGGACT
Statistics
Matches: 134, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
40 4 0.03
41 3 0.02
42 18 0.13
43 64 0.48
44 3 0.02
45 1 0.01
46 2 0.01
47 1 0.01
48 3 0.02
49 35 0.26
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:1951076 original size:49 final size:49
Alignment explanation
Indices: 1950978--1951451 Score: 659
Period size: 49 Copynumber: 9.9 Consensus size: 49
1950968 ATGGAAAATG
*
1950978 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
1951021 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951070 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951113 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
1951162 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951211 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
1951260 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951309 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951358 TGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGA
* **
1951407 TGCCAATGTGCTGGGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1951452 GAAAAGGCCA
Statistics
Matches: 380, Mismatches: 37, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
43 70 0.18
44 5 0.01
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.01
49 293 0.77
50 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:1951238 original size:98 final size:98
Alignment explanation
Indices: 1950978--1951451 Score: 828
Period size: 98 Copynumber: 5.0 Consensus size: 98
1950968 ATGGAAAATG
* *
1950978 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1951037 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1951070 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1951129 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1951162 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1951227 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1951260 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1951325 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
1951358 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGGGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1951423 CAAGGCCAGCTACATTGGACTTAAAGATG
66 CAAGGCCAGCTACATTGGACTTAAAGATG
1951452 GAAAAGGCCA
Statistics
Matches: 372, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
92 128 0.34
96 1 0.00
98 243 0.65
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:1951520 original size:33 final size:34
Alignment explanation
Indices: 1951481--1951545 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
1951471 GGCTTAGAGG
1951481 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
1951514 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1951546 GGAGAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (34 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
Found at i:1951588 original size:34 final size:33
Alignment explanation
Indices: 1951550--1951963 Score: 405
Period size: 34 Copynumber: 12.8 Consensus size: 33
1951540 AGGAAGGGAG
* *
1951550 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAA-GGAA
* *
1951584 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1951619 GAAGGTGCCACGGAGTTGTGGGCTTTAAA-G--
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1951649 --A-GTGCCACGGAGTCGTGGGCTTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1951680 AAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAA
1 AAA-GGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * **
1951714 AAAGAGTGCCACAGAGTTGTAGGCTTTTAA--AA
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
1951746 AAA-GTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
1951779 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
1951813 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1951845 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
* *
1951879 AAAAGTGCCACGGAATTGTGGGCTTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
1951910 ---GGTGCCACGGAGTTGTGGGCTTTAAAGG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1951939 AAAGGTGCCACGGAGTTGTGGGCTT
1 AAAGGTGCCACGGAGTTGTGGGCTT
1951964 TGAAGAAAAA
Statistics
Matches: 322, Mismatches: 34, Indels: 50
0.79 0.08 0.12
Matches are distributed among these distances:
27 23 0.07
28 25 0.08
29 1 0.00
30 17 0.05
31 2 0.01
32 56 0.17
33 24 0.07
34 124 0.39
35 44 0.14
36 6 0.02
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:1951761 original size:64 final size:67
Alignment explanation
Indices: 1951645--1951974 Score: 303
Period size: 66 Copynumber: 5.0 Consensus size: 67
1951635 TGTGGGCTTT
* * * * *
1951645 AAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAA
1 AAAG-GTGCCACGGAGTTGTAGGCTTTAAAAAGAAGAA-GGTGCCACGGAGTTGTGGGCTTAGAA
1951710 GGAA
64 GGAA
* * *
1951714 AAAGAGTGCCACAGAGTTGTAGGCTTT-TAAA-AA-AA-GTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAG-GTGCCACGGAGTTGTAGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTAG-AA
*
1951775 AGAA
64 GGAA
* *
1951779 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA-AAG
1 AAAGGTGCCACGGAGTTGTAGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTAGAAG
1951843 G-A
65 GAA
* * * *
1951845 AAAGGTGCCACGGAGTTGT-GGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTT----
1 AAAGGTGCCACGGAGTTGTAGG-CTTTAAA-AAGAAGAAGGTGCCACGGAGTTGTGGGCTTAGAA
*
1951904 -TAA
64 GGAA
* * * * *
1951907 AAGGGTGCCACGGAGTTGTGGGCTTT-AAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGGTGCCACGGAGTTGTAGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTAGAAGG
1951970 AA
66 AA
1951972 AAA
1 AAA
1951975 TGCCATTGAG
Statistics
Matches: 219, Mismatches: 26, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
60 22 0.10
61 4 0.02
62 22 0.10
63 4 0.02
64 41 0.19
65 24 0.11
66 48 0.22
67 7 0.03
68 21 0.10
69 26 0.12
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (67 bp):
AAAGGTGCCACGGAGTTGTAGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTAGAAGG
AA
Found at i:1951764 original size:160 final size:155
Alignment explanation
Indices: 1951582--1951969 Score: 514
Period size: 160 Copynumber: 2.4 Consensus size: 155
1951572 CTTAAAAGGG
*
1951582 AAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
*
1951647 AGA-GTGCCACGGAGTCGTGGGCTTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAG
65 AGAGGTGCCACGGAGTCGTGGGCTTT-AAAGG-AAAA-GGTGCCACGGAGTTATGGACTTA-AAG
*
1951711 -GAAAAAGAGTGCCACAGAGTTGTAGGCTTTT
126 AGAAAAA-AGTGCCACAGAATTGTAGGC-TTT
*
1951742 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--
* *
1951807 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAA
63 --A-AAG-AGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAA
* *
1951872 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
124 AGA-GAAAAAAGTGCCACAGAATTGTAGGCTTT
* * *
1951905 -AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
1951968 GA
66 GA
1951970 AAAAATGCCA
Statistics
Matches: 206, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
154 1 0.00
155 3 0.01
160 85 0.41
161 6 0.03
162 26 0.13
163 6 0.03
164 39 0.19
165 13 0.06
166 6 0.03
167 21 0.10
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (155 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
GAGGTGCCACGGAGTCGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTATGGACTTAAAGAGAAA
AAAGTGCCACAGAATTGTAGGCTTT
Found at i:1951806 original size:194 final size:192
Alignment explanation
Indices: 1951550--1951967 Score: 521
Period size: 194 Copynumber: 2.1 Consensus size: 192
1951540 AGGAAGGGAG
*
1951550 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAA
*
1951613 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-G-A-GTGCCACGGAGTCGTGGGCTTTAAA
64 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGAC-TTAAA
* *
1951675 -AGGAAAAAGGGTGCCACGGAGTTATGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTAGGCT
128 GAGGAAAAA-AGTGCCACGGAATTATGGGCTT------AAAAAGAGTGCCACAGAGTTGTAGGC-
1951739 TTTAAA-A
185 TTTAAAGA
* *
1951746 AAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
*
1951809 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAG
66 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG--AAGGTGCCACGGAGTCGTGGACTTAAAG
* * * * * *
1951874 ATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
129 AGGAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTAGGCTTTAAA-GA
1951939 AAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAA-GTGCCACGGAGTTGTGGGCTTTGAA
1951968 GAAAAAATGC
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
191 6 0.03
192 22 0.11
193 4 0.02
194 83 0.42
195 24 0.12
196 6 0.03
197 4 0.02
198 25 0.13
199 24 0.12
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (192 bp):
AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGGAAGGTGCCACGGAGTCGTGGACTTAAAGAG
GAAAAAAGTGCCACGGAATTATGGGCTTAAAAAGAGTGCCACAGAGTTGTAGGCTTTAAAGA
Found at i:1952005 original size:30 final size:30
Alignment explanation
Indices: 1951944--1952088 Score: 157
Period size: 31 Copynumber: 4.7 Consensus size: 30
1951934 AAGGAAAAGG
* * * *
1951944 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
* *
1951975 TGCCATTGAGTCGTGGACCTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
* *
1952005 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GAGACAAA-A
*
1952037 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1952068 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1952089 TTTTTTTTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
30 27 0.28
31 47 0.48
32 23 0.24
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:1952045 original size:32 final size:32
Alignment explanation
Indices: 1951550--1952057 Score: 400
Period size: 34 Copynumber: 15.8 Consensus size: 32
1951540 AGGAAGGGAG
* *
1951550 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAA--GAA
*
1951584 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTT--AAAGAA
* *
1951619 GAAGGTGCCACGGAGTTGTGGGCTTTAAAG--
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
*
1951649 --AG-TGCCACGGAGTCGTGGGCTTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAA-GAA
* *
1951680 AAAGGGTGCCACGGAGTTATGGGC-TTAGAAGGAA
1 AAA-GATGCCACGGAGTTGTGGGCTTTA-AA-GAA
* * *
1951714 AAAGAGTGCCACAGAGTTGTAGGCTTTTAA-AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAGAA
1951746 AAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAAGAA
* *
1951779 GAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAAGAA
* * *
1951813 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* *
1951845 AAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGA--A
* *
1951878 AAAAAGTGCCACGGAATTGTGGGCTTT----AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1951907 AAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* *
1951939 AAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
** * * * * *
1951971 AAA-ATGCCATTGAGTCGTGGACCTT-GAGAC
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1952001 AAA-ATGCCACTGAGTCGTGGACTTTAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
* * *
1952032 AAAGATGCCACTGAGTCGTGGACTTT
1 AAAGATGCCACGGAGTTGTGGGCTTT
1952058 GAGCAGAGAT
Statistics
Matches: 399, Mismatches: 47, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
27 20 0.05
28 25 0.06
29 4 0.01
30 45 0.11
31 29 0.07
32 93 0.23
33 12 0.03
34 124 0.31
35 44 0.11
37 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (32 bp):
AAAGATGCCACGGAGTTGTGGGCTTTAAAGAA
Found at i:1952058 original size:93 final size:93
Alignment explanation
Indices: 1951912--1952085 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
1951902 TTTAAAAGGG
* * * * * *
1951912 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AAAAAAT
1 TGCCACGGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTG-AGCAAAAAAT
*
1951976 GCCATTGAGTCGTGGACCTTGAGACAAAA
65 GCCACTGAGTCGTGGACCTTGAGACAAAA
* * * * *
1952005 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTG
1 TGCCACGGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTGAGCAAAAAATG
1952070 CCACTGAGTCGTGGAC
66 CCACTGAGTCGTGGAC
1952086 TTTTTTTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (93 bp):
TGCCACGGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTGAGCAAAAAATG
CCACTGAGTCGTGGACCTTGAGACAAAA
Found at i:1953045 original size:1 final size:1
Alignment explanation
Indices: 1953039--1953063 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1953029 TGAAAAGGGG
1953039 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1953064 CGTGAAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1960447 original size:52 final size:51
Alignment explanation
Indices: 1960367--1960485 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 51
1960357 AAAAGTTGTT
*
1960367 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGCC
1960419 TGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTGCC
1960470 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1960486 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 21 0.32
52 39 0.60
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCC
Found at i:1960498 original size:51 final size:50
Alignment explanation
Indices: 1960367--1960505 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 50
1960357 AAAAGTTGTT
*
1960367 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGCC
1960419 TGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-TTGCC
1 TGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAATTTGCC
1960470 TGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1960506 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
47 2 0.03
48 1 0.01
50 1 0.01
51 33 0.41
52 38 0.47
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (50 bp):
TGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1960512 original size:13 final size:13
Alignment explanation
Indices: 1960494--1960518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1960484 CAAAGATCAG
1960494 TGTATCGATACAA
1 TGTATCGATACAA
1960507 TGTATCGATACA
1 TGTATCGATACA
1960519 TGTGAGTAAT
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:1960601 original size:13 final size:13
Alignment explanation
Indices: 1960583--1960607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1960573 CAAAAAAATA
1960583 TGTATCGATACAT
1 TGTATCGATACAT
1960596 TGTATCGATACA
1 TGTATCGATACA
1960608 ACATTTTATG
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:1960603 original size:33 final size:33
Alignment explanation
Indices: 1960561--1960627 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1960551 AGTAGCTTAA
1960561 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1960594 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1960627 A
1 A
1960628 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1965320 original size:13 final size:13
Alignment explanation
Indices: 1965302--1965326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1965292 ATATTGCTTA
1965302 GTATCGATACATT
1 GTATCGATACATT
1965315 GTATCGATACAT
1 GTATCGATACAT
1965327 GTTCTTGGTA
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):
GTATCGATACATT
Found at i:1967319 original size:51 final size:51
Alignment explanation
Indices: 1967252--1967369 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
1967242 TCGAAAATAG
* ** *
1967252 CGGGGTTGAACTATCCTCGATTGTGAAAAATTGATGA-TTTAGAAATAAGGC
1 CGGGGTTGAAGTATCCTCGATTGTGAAAAATCAAT-ATTTTAGAAATAAAGC
* *
1967303 CGGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGAAGTATCCTCGATTGTGAAAAATCAATATTTTAGAAATAAAGC
*
1967354 CGGGGTTGGAGTATCC
1 CGGGGTTGAAGTATCC
1967370 CCTCGGAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
CGGGGTTGAAGTATCCTCGATTGTGAAAAATCAATATTTTAGAAATAAAGC
Found at i:1967423 original size:28 final size:28
Alignment explanation
Indices: 1967354--1967429 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
1967344 GAAATAAAGC
***
1967354 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1967382 -TGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1967409 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1967430 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1967484 original size:51 final size:51
Alignment explanation
Indices: 1967413--1967637 Score: 201
Period size: 51 Copynumber: 4.3 Consensus size: 51
1967403 AAATAACGGG
1967413 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAATCGGA
* * * * *
1967464 GTTGGAGTATCCTCGGTTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * * *
1967515 GTTGGAGTATCCCC---T-T-AAAAATAACGGGGTTGTAGTATCCCCAATGAAATAACGGG
1 GTTGGAGTATCCCCGATTGTGAAAAAT--TGGTGTTTTAG-A-----AAT-AAA-ATCGGA
* *
1967571 GTTGGAGTATCCCCGATTTTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
1967622 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1967638 GATGAAAAAT
Statistics
Matches: 140, Mismatches: 18, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
46 4 0.03
47 1 0.01
48 9 0.06
49 1 0.01
51 77 0.55
52 4 0.03
53 3 0.02
54 3 0.02
55 3 0.02
56 19 0.14
58 1 0.01
59 8 0.06
60 1 0.01
61 6 0.04
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:1967515 original size:157 final size:158
Alignment explanation
Indices: 1967246--1967633 Score: 494
Period size: 157 Copynumber: 2.5 Consensus size: 158
1967236 ATTCTCTCGA
* * * * * * *** *
1967246 AAATAGCGGGGTTGAACTATCCTCGATTGTGAAAAATTGATGATTT-AGAAATAAGGCCGGGGTT
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGGAGTT
* * * *
1967310 GAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCG
65 GGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCA
* * *
1967375 GAAATAA-TGGGTTGGAGTATCCCCGATG
130 AAAATAACGGGGTTGGAGTATCCCCAATG
1967403 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
* *** * * *
1967468 GAGTATCCTCGGTTGTG-GAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTTA
66 GAGTATCCTCGATTGTGAGA-AATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCA
*
1967532 AAAATAACGGGGTTGTAGTATCCCCAATG
130 AAAATAACGGGGTTGGAGTATCCCCAATG
* *
1967561 AAATAACGGGGTTGGAGTATCCCCGATTTTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
1 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
1967626 GAGTATCC
66 GAGTATCC
1967634 CCGAGATGAA
Statistics
Matches: 201, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
156 2 0.01
157 109 0.54
158 90 0.45
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (158 bp):
AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
GAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAA
AAATAACGGGGTTGGAGTATCCCCAATG
Found at i:1967545 original size:28 final size:27
Alignment explanation
Indices: 1967511--1967584 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
1967501 GAAATAAAAT
1967511 CGGGGTTGGAGTATCCCCTTAA-AAATAA
1 CGGGGTTGGAGTATCCCC--AAGAAATAA
*
1967539 CGGGGTTGTAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAA-GAAATAA
1967567 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1967585 GATTTTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCAAGAAATAA
Found at i:1969909 original size:20 final size:20
Alignment explanation
Indices: 1969886--1969988 Score: 132
Period size: 20 Copynumber: 5.5 Consensus size: 20
1969876 TAGTAAAATT
1969886 TATCGATACAATGAGCAATG
1 TATCGATACAATGAGCAATG
1969906 TATCGATACAATGAGCAATG
1 TATCGATACAATGAGCAATG
1969926 TATCGATACAAT--G---TG
1 TATCGATACAATGAGCAATG
1969941 --TCGATACAATGAGCAATG
1 TATCGATACAATGAGCAATG
*
1969959 TATCGATACAATGCA-AAATG
1 TATCGATACAATG-AGCAATG
1969979 TATCGATACA
1 TATCGATACA
1969989 TCAAGGTAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
13 10 0.14
15 3 0.04
18 3 0.04
20 57 0.77
21 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
TATCGATACAATGAGCAATG
Found at i:1969945 original size:33 final size:33
Alignment explanation
Indices: 1969901--1969971 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
1969891 ATACAATGAG
1969901 CAATGTATCGATACAATGAGCAATGTATCGATA
1 CAATGTATCGATACAATGAGCAATGTATCGATA
*
1969934 CAATGTGTCGATACAATGAGCAATGTATCGATA
1 CAATGTATCGATACAATGAGCAATGTATCGATA
1969967 CAATG
1 CAATG
1969972 CAAAATGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (33 bp):
CAATGTATCGATACAATGAGCAATGTATCGATA
Found at i:1969968 original size:53 final size:53
Alignment explanation
Indices: 1969888--1969988 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
1969878 GTAAAATTTA
*
1969888 TCGATACAATGAGCAATGTATCGATACAATG-AGCAATGTATCGATACAATGTG
1 TCGATACAATGAGCAATGTATCGATACAATGCA-AAATGTATCGATACAATGTG
1969941 TCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATACA
1 TCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATACA
1969989 TCAAGGTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
53 45 0.98
54 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (53 bp):
TCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATACAATGTG
Found at i:1969970 original size:13 final size:13
Alignment explanation
Indices: 1969921--1969951 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1969911 ATACAATGAG
1969921 CAATGTATCGATA
1 CAATGTATCGATA
*
1969934 CAATGTGTCGATA
1 CAATGTATCGATA
1969947 CAATG
1 CAATG
1969952 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1970022 original size:13 final size:13
Alignment explanation
Indices: 1970004--1970033 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1969994 GTAAATCCAA
1970004 AATGTATCGATAC
1 AATGTATCGATAC
1970017 AATGTATCGATAC
1 AATGTATCGATAC
1970030 AATG
1 AATG
1970034 AATAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1970042 original size:20 final size:20
Alignment explanation
Indices: 1970015--1970071 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1970005 ATGTATCGAT
1970015 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1970035 ATAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1970055 ACAATATATCGATACAA
1 ACAATGTATCGATACAA
1970072 ATTGTGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1970699 original size:40 final size:41
Alignment explanation
Indices: 1970655--1970754 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 41
1970645 GTCCCACTTT
* * * *
1970655 TTGAGGACAAAGGAAAAGAGAATGAA-ATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAA-AAAGAAAGTGTCCTGCTCC
*
1970695 TTGAGGACAAAGGAAAAAAGAAAAAGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAAGAAAGTGTCCTGCTCC
1970736 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
1970755 GTGTACGTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 2 0.04
40 24 0.46
41 20 0.38
42 6 0.12
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAAGAAAGTGTCCTGCTCC
Found at i:1970754 original size:41 final size:40
Alignment explanation
Indices: 1970655--1970755 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
1970645 GTCCCACTTT
* * *
1970655 TTGAGGACAAAGG-AAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAAGAAATA-GTCCTGCTCC
*
1970695 TTGAGGACAAAGGAAAAAAGAAAAAGAAAGT-GTCCTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAAGAAA-TAGTCCTGCTCC
1970736 TTGAGGACAAAGTGAAAAAG
1 TTGAGGACAAAG-GAAAAAG
1970756 TGTACGTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 13 0.25
41 26 0.49
42 13 0.25
43 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.27, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAAGAAATAGTCCTGCTCC
Found at i:1970904 original size:45 final size:45
Alignment explanation
Indices: 1970760--1970954 Score: 169
Period size: 42 Copynumber: 4.5 Consensus size: 45
1970750 AAAAAGTGTA
* *
1970760 CGTCCTACT-TTTCGAGGAC-AAAG-GAAAAAAGGAAAACGAAA-TG
1 CGTCCTGCTCTTT-GAGGACAAAAGAGAAAAAAGGAAAA-TAAAGTG
* *
1970803 CATCCTGCTCTTTGAGGAC-AAA-AG-AAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGGAAAATAAAGTG
* *
1970845 CGTCCTGCTCTTTGAGGACAAAAGAGAAAATAAGG-GAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAGAAAA-AAGGAAAATAAAGTG
* * * * *
1970890 TGTCTTGCTCTTTGAGGA-TAAAG-G-AGAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGGAAAATAAAGTG
* *
1970932 CGTCCTACTCATTGAGGACAAAA
1 CGTCCTGCTCTTTGAGGACAAAA
1970955 AAGTGCCGCC
Statistics
Matches: 123, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
41 6 0.05
42 54 0.44
43 24 0.20
44 9 0.07
45 27 0.22
46 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (45 bp):
CGTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGGAAAATAAAGTG
Found at i:1971170 original size:62 final size:62
Alignment explanation
Indices: 1970926--1971170 Score: 268
Period size: 61 Copynumber: 4.0 Consensus size: 62
1970916 AGAGGAAAAT
* * * * * *
1970926 AAAGTGCGTCCTACTCATTGAGGACAAAAAAGTGCCGCCAACTCGTGTGGGCTTTGAAAAAG-
1 AAAG-GCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGA
* * * * * * *
1970988 AAAGGTGTTCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAA-GA
1 AAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGA
*
1971049 GAAA-GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGGA
1 -AAAGGCGTCCTGCTCTTTGAGGAC-AGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGA
* *
1971110 AAAGGCGTCCTGCTCCTTGAGGACCAGAAAAGTGCCACCAACTTGTGTGGGCCTT-AAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGA-CAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
1971171 CATCCTGTTC
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
60 7 0.05
61 108 0.71
62 38 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGA
Found at i:1971479 original size:117 final size:109
Alignment explanation
Indices: 1971211--1971513 Score: 356
Period size: 117 Copynumber: 2.7 Consensus size: 109
1971201 AGGAGAGAGT
* * * * * * * *
1971211 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGCGTCCTGCTTT
1 GTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCT
1971276 TTGAGGACTAAAAAAATGCCACCAACTTGTGGGCTTTGAAAGGC
66 TTGAGGACTAAAAAAATGCCACCAACTTGTGGGCTTTGAAAGGC
* * *
1971320 GTCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT------AAAAGGCATCC
* ** *
1971385 TGCTCTTTGAGGACTAGAAATGTGCCGCCAACTTGTGTGGGCTTTGAAAGGC
60 TGCTCTTTGAGGACTAAAAAAATGCCACCAAC-T-TGTGGGCTTTGAAAGGC
* * *
1971437 GTCCTGCTCTTTAAGGACT-GAAAGGTGCCACCCACTTATGTGGGCTTTAAAAGGCGTCCTGCTC
1 GTCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTC
1971501 TTTGAGGACTAAA
65 TTTGAGGACTAAA
1971514 GGGTGAAAGG
Statistics
Matches: 167, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
109 44 0.26
111 27 0.16
115 36 0.22
116 5 0.03
117 55 0.33
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (109 bp):
GTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCT
TTGAGGACTAAAAAAATGCCACCAACTTGTGGGCTTTGAAAGGC
Found at i:1971490 original size:55 final size:55
Alignment explanation
Indices: 1971211--1971511 Score: 347
Period size: 55 Copynumber: 5.4 Consensus size: 55
1971201 AGGAGAGAGT
* * * *
1971211 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * *
1971266 GTCCTGCTTTTTGAGGACTAAAAAAATGCCACCAAC-T-TGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * *
1971320 GTCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
* * *
1971381 ATCCTGCTCTTTGAGGACTAGAAATGTGCCGCCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * *
1971437 GTCCTGCTCTTTAAGGACT-GAAAGGTGCCACCCACTTATGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1971492 GTCCTGCTCTTTGAGGACTA
1 GTCCTGCTCTTTGAGGACTA
1971512 AAGGGTGAAA
Statistics
Matches: 210, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
53 14 0.07
54 35 0.17
55 77 0.37
56 35 0.17
61 27 0.13
62 22 0.10
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1971564 original size:211 final size:215
Alignment explanation
Indices: 1971313--1971708 Score: 575
Period size: 211 Copynumber: 1.8 Consensus size: 215
1971303 TGTGGGCTTT
* * * *
1971313 GAAAGGCGTCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 GAAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * * *
1971378 GGCATCCTGCTCTTTGAGGACTAGAAATGTGCCGCCAACTTGTGTGGGCTTT-G-AAAGGCGTCC
66 GGCATCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAGAAAAGGCGTCC
* *
1971441 TGCTCTTTAAGGACT-GAAAGGTGCCACCCACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
131 TGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
1971505 AGGACTAAAGGGTGAAAGGA
196 AGGACTAAAGGGTGAAAGGA
**
1971525 GAAA-GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 GAAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * *
1971589 GGCGTCATGCTCTTTGAGTACTAGAAAAGTGCTACCAACTTGTGTGAGCTTTAAAAGGAAAAGGC
66 GGCATCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTT---A-GAAAAGGC
* *
1971654 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
127 GTCCTGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGG
1971709 GAAAAGAAGG
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
211 99 0.62
212 4 0.03
216 1 0.01
217 24 0.15
218 32 0.20
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (215 bp):
GAAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
GGCATCATGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTTAGAAAAGGCGTCC
TGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
AGGACTAAAGGGTGAAAGGA
Found at i:1971646 original size:62 final size:62
Alignment explanation
Indices: 1971519--1971714 Score: 306
Period size: 62 Copynumber: 3.2 Consensus size: 62
1971509 CTAAAGGGTG
* *
1971519 AAAGGAGAAA-GCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
1971580 AAAGGAAAAGGCGTCATGCTCTTTGAGTACTAGAAAAGTGCTACCAACTTGTGTGAGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1971642 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1971704 AAAGGGAAAAG
1 AAA-GGAAAAG
1971715 AAGGAAATGA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
60 3 0.02
61 26 0.21
62 86 0.70
63 7 0.06
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (62 bp):
AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:1971830 original size:43 final size:42
Alignment explanation
Indices: 1971727--1971962 Score: 214
Period size: 43 Copynumber: 5.5 Consensus size: 42
1971717 GGAAATGAAG
* * *
1971727 TGCGTCATACTCTTTGAGGACAAAAGGAGAAAA-GAAGGGAATGGAA
1 TGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAGGAA---AAT-AAA
* * * *
1971773 TGTGTCCTGTTCTTTGAGGACGAAGGGGAAAAGGAAAATAAA
1 TGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAA
*
1971815 GTGCGTCCTGCTCTTTGAGAACAAAGGAGAAAAGGAAAATAAA
1 -TGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAA
* * * *
1971858 GTGTGTCCTGCTTTTTGAGGATAAAAGG-GAAAAGAAGGAAATGAAA
1 -TGCGTCCTGCTCTTTGAGGA-CAAAGGAGAAAAG--GAAAAT-AAA
*
1971904 TGTGTCCTGCTCTTTGAGGACAAAGGAGAAAA-G-AAA-AAA
1 TGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAA
1971943 -GCGTCCTGCTCTTTGAGGAC
1 TGCGTCCTGCTCTTTGAGGAC
1971963 TAAAAAGTGC
Statistics
Matches: 163, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
38 19 0.12
39 3 0.02
41 3 0.02
42 3 0.02
43 64 0.39
44 10 0.06
45 38 0.23
46 23 0.14
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAA
Found at i:1971919 original size:88 final size:88
Alignment explanation
Indices: 1971702--1971941 Score: 276
Period size: 88 Copynumber: 2.7 Consensus size: 88
1971692 GTGTGGGCTT
* * *
1971702 TAAAAGGGAAAAGAAGGAAATGAAGTGCGTCATACTCTTTGAGGACAAAAGGAGAAAA-GAAGGG
1 TAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAGGAA---
*
1971766 AATGGAATGTGTCCTGTTCTTTGAGGA
62 AATGAAATGTGTCCTGTTCTTTGAGGA
** * * *
1971793 CGAAGGGGAAAAG--GAAAAT-AAAGTGCGTCCTGCTCTTTGAGAACAAAGGAGAAAAGGAAAAT
1 TAAAAGGGAAAAGAAGGAAATGAAA-TGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
1971855 -AAAGTGTGTCCTGCTT-TTTGAGGA
65 GAAA-TGTGTCCTG-TTCTTTGAGGA
* *
1971879 TAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAAA
1 TAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAA
1971942 AGCGTCCTGC
Statistics
Matches: 126, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
85 2 0.02
86 30 0.24
87 2 0.02
88 53 0.42
89 29 0.23
91 10 0.08
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.20
Consensus pattern (88 bp):
TAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATG
AAATGTGTCCTGTTCTTTGAGGA
Found at i:1972124 original size:55 final size:55
Alignment explanation
Indices: 1971938--1972419 Score: 488
Period size: 55 Copynumber: 8.4 Consensus size: 55
1971928 GGAGAAAAGA
* *
1971938 AAAAAGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAA-TTCGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTT-GTGTGGGCTTT
* *
1971993 GAAAAGAAAATGCGTCCTGCTCTTTGAGGACTAGAAAATTGCCACCAACTTATGTGGGCTTT
1 -AAAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT
** * *
1972055 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGGTACCAACTTCTATGGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
1972110 AAAAGGCGTTCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
1972165 AAAAGAAAACGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * * * *
1972225 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTAGGCTGT
1 ------AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* **
1972286 AAAAGGCGTCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGT-GGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACT--GGAAAATGCCACCAACTTGTGTGGGCTTT
* * * * *
1972342 GAAAGTCGTCCTGCTTTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
* *
1972397 GAAAGGCATCCT-CTCTTTGAGGA
1 AAAAGGCGTCCTGCTCTTTGAGGA
1972420 TTAAAGGGTG
Statistics
Matches: 362, Mismatches: 42, Indels: 46
0.80 0.09 0.10
Matches are distributed among these distances:
53 3 0.01
54 25 0.07
55 113 0.31
56 56 0.15
57 18 0.05
60 47 0.13
61 70 0.19
62 23 0.06
63 2 0.01
66 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (55 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1972208 original size:232 final size:232
Alignment explanation
Indices: 1971932--1972401 Score: 635
Period size: 232 Copynumber: 2.0 Consensus size: 232
1971922 GACAAAGGAG
1971932 AAAAGAAAAAAGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAA-TTCGTGTGGGCTTTGAA
1 AAAAGAAAAAAGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTT-GTGTGGGCTTT-AA
* * * * * *
1971996 AA-GAAAATGCGTCCTGCTCTTTGAGGACTAGAAAATTGCCACCAACTTATGTGGGCTTTAAAAG
64 AAGGAAAAGGCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACCTATGTAGGCTGTAAAAG
* ** ** *
1972060 GCGTCCTGCTCTTTGAGGACT-GGAAAATGGTACCAACTTCTATGGGCTTTAAAAGGCGTTCTGC
128 GCGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTCTAT-GGCTTTAAAAGGCGTCCTGC
*
1972124 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
192 TCTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
*
1972165 AAAAG-AAAACGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGAAAAAAGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAA
* *
1972228 AGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTAGGCTGTAAAAGGC
65 AGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACCTATGTAGGCTGTAAAAGGC
* * * * *
1972293 GTCCTACTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGCTTTGAAAGTCGTCCTGCTT
130 GTCCTACTCTTTGAGGACT-AAAAAAATGCCACCAACTTCTATGGCTTTAAAAGGCGTCCTGCTC
**
1972358 TTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
194 TTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
*
1972397 GAAAG
1 AAAAG
1972402 GCATCCTCTC
Statistics
Matches: 208, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
231 52 0.25
232 129 0.62
233 27 0.13
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (232 bp):
AAAAGAAAAAAGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACCTATGTAGGCTGTAAAAGGCG
TCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTCTATGGCTTTAAAAGGCGTCCTGCTCTT
TAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1973510 original size:12 final size:12
Alignment explanation
Indices: 1973493--1973552 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
1973483 CTTAAGCAAG
1973493 TTCTTTTTTTTT
1 TTCTTTTTTTTT
*
1973505 TTCTTTCTTTTT
1 TTCTTTTTTTTT
* *
1973517 TCCTTTTTGTTGT
1 TTCTTTTT-TTTT
* *
1973530 TT-TTTTTGTTG
1 TTCTTTTTTTTT
*
1973541 TTGTTTTTTTTT
1 TTCTTTTTTTTT
1973553 AAAAAAAGGT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
11 3 0.08
12 29 0.81
13 4 0.11
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:1973548 original size:15 final size:15
Alignment explanation
Indices: 1973523--1973551 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1973513 TTTTTCCTTT
1973523 TTGTTGTTTTTTTTG
1 TTGTTGTTTTTTTTG
1973538 TTGTTGTTTTTTTT
1 TTGTTGTTTTTTTT
1973552 TAAAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TTGTTGTTTTTTTTG
Found at i:1985704 original size:23 final size:22
Alignment explanation
Indices: 1985661--1985704 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
1985651 TAAATCAAAG
**
1985661 AAAATAACAAACAAATTTATAC
1 AAAATAACAAACAAAAATATAC
*
1985683 AAAATAAACACACAAAAATATA
1 AAAAT-AACAAACAAAAATATA
1985705 TGGAAAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAACAAACAAAAATATAC
Found at i:1985940 original size:17 final size:17
Alignment explanation
Indices: 1985918--1985953 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1985908 CATCTCCCGA
1985918 TGAAAAATTTAATAGTT
1 TGAAAAATTTAATAGTT
*
1985935 TGAAAAATTTAATATTT
1 TGAAAAATTTAATAGTT
1985952 TG
1 TG
1985954 GAGATGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (17 bp):
TGAAAAATTTAATAGTT
Found at i:1986094 original size:79 final size:79
Alignment explanation
Indices: 1985962--1986151 Score: 204
Period size: 79 Copynumber: 2.4 Consensus size: 79
1985952 TGGAGATGAC
* * * * * *
1985962 AACGGGGCTGGAGTATCCACTGATTATAGGAAATCAACGTTTTGAGAATAAAATCGAGG-TTGGA
1 AACGGGGTTGGAGTATCC-CCGATTGTAGAAAATCAACATTTTGAAAATAAAATCG-GGATTGGA
* *
1986026 GTATCCCCTCGAAAAT
64 GCATCCCCTCAAAAAT
**
1986042 AACGGGGTTGGAGTATCCCCGATTGTAGAAAATCAGTATTTTGAAAATAAAATCGGGATTGGAGC
1 AACGGGGTTGGAGTATCCCCGATTGTAGAAAATCAACATTTTGAAAATAAAATCGGGATTGGAGC
* *
1986107 ATTCTCTCAAAAAT
66 ATCCCCTCAAAAAT
** * *
1986121 AACAAGGTTGAAATATCCCCGATTGT-GAAAA
1 AACGGGGTTGGAGTATCCCCGATTGTAGAAAA
1986152 ATCGATGATT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 7 0.08
79 69 0.74
80 17 0.18
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTGTAGAAAATCAACATTTTGAAAATAAAATCGGGATTGGAGC
ATCCCCTCAAAAAT
Found at i:1986195 original size:51 final size:51
Alignment explanation
Indices: 1986126--1986242 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 51
1986116 AAAATAACAA
* * * *
1986126 GGTTGAAA-TATCCCCGATTGTGAAAAATCGATGATTTAG-AAATAAGGCTGG
1 GGTT-AAAGTATCCCCGATTGCGAAAAATCAAT-ATTTAGAAAATAAAGCCGG
* * *
1986177 GGTTAAAGTATCCTCGATTGCGAGAAATCAATATTTTGAAAATAAAGCCGG
1 GGTTAAAGTATCCCCGATTGCGAAAAATCAATATTTAGAAAATAAAGCCGG
**
1986228 GGTTGGAGTATCCCC
1 GGTTAAAGTATCCCC
1986243 TTGGAAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
50 8 0.15
51 46 0.85
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
GGTTAAAGTATCCCCGATTGCGAAAAATCAATATTTAGAAAATAAAGCCGG
Found at i:1986259 original size:28 final size:28
Alignment explanation
Indices: 1986225--1986298 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
1986215 AAAATAAAGC
1986225 CGGGGTTGGAGTATCCCCTTG-GAAATAA
1 CGGGGTTGGAGTATCCCC-TGAGAAATAA
*
1986253 CGGGGTTGGAGTAT-CTCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
1986281 AGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1986299 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 34 0.85
29 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:1986363 original size:50 final size:50
Alignment explanation
Indices: 1986285--1986398 Score: 167
Period size: 50 Copynumber: 2.3 Consensus size: 50
1986275 AAATAAAGGG
*
1986285 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAATCAGA
1 GTTGGAGTAT-CCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCAGA
* * *
1986336 GTTGGAGTATCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGA
1 GTTGGAGTATCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGA
1986386 GTTGGAGTATCCC
1 GTTGGAGTATCCC
1986399 CTCGAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 47 0.81
51 11 0.19
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCAGA
Found at i:1986419 original size:28 final size:29
Alignment explanation
Indices: 1986386--1986454 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
1986376 TAAAACCGGA
* *
1986386 GTTGGAGTATCCCCTCGA-AAATAATGGG
1 GTTGGAGTATCCCCTCAAGAAATAACGGG
1986414 GTTGGAGTAT--CCTCAATGAAATAACGGG
1 GTTGGAGTATCCCCTCAA-GAAATAACGGG
1986442 GTTGGAGTATCCC
1 GTTGGAGTATCCC
1986455 TGATTGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.14
28 29 0.83
30 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (29 bp):
GTTGGAGTATCCCCTCAAGAAATAACGGG
Found at i:1986507 original size:157 final size:157
Alignment explanation
Indices: 1986216--1986504 Score: 474
Period size: 157 Copynumber: 1.8 Consensus size: 157
1986206 AATATTTTGA
* * * * *
1986216 AAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCTCTGATGAAATAA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCTCTAATGAAATAA
1986281 AGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTTGGAGTAT
66 AGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTTGGAGTAT
1986346 CCCGATTGTGGAGAATTGGTGTTTTAG
131 CCCGATTGTGGAGAATTGGTGTTTTAG
*
1986373 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATC-CTCAATGAAATA
1 AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCTCT-AATGAAATA
* * *
1986437 ACGGGGTTGGAGTATCCCTGATTGTG-AAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGTA
65 AAGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTTGGAGTA
1986501 TCCC
130 TCCC
1986505 CGAGATGAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
156 43 0.35
157 79 0.65
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (157 bp):
AAATAAAACCGGAGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCTCTAATGAAATAA
AGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTTGGAGTAT
CCCGATTGTGGAGAATTGGTGTTTTAG
Found at i:1986517 original size:50 final size:50
Alignment explanation
Indices: 1986285--1986517 Score: 165
Period size: 50 Copynumber: 4.5 Consensus size: 50
1986275 AAATAAAGGG
*
1986285 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGA-TGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
* * * * *
1986336 GTTGGAGTAT-CCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGA
1 GTTGGAGTATCCCCGA-TGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
* * * * * * *
1986386 GTTGGAGTATCCCC--T-CGAAAATAATGG-GGTTGGAGTATCCTCAATGAAATAACGGG
1 GTTGGAGTATCCCCGATGTGAAAA-ATTGGTGTTTTG-G-A-----AAT-AAA-ATCAGA
*
1986442 GTTGGAGTATCCCTGATTGTG-AAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGA-TGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1986492 GTTGGAGTATCCCCGA-GATGAAAAAT
1 GTTGGAGTATCCCCGATG-TGAAAAAT
1986518 CTAGAGATTT
Statistics
Matches: 140, Mismatches: 24, Indels: 37
0.70 0.12 0.18
Matches are distributed among these distances:
47 6 0.04
48 7 0.05
49 3 0.02
50 67 0.48
51 16 0.11
52 3 0.02
54 3 0.02
55 3 0.02
56 17 0.12
57 1 0.01
58 5 0.04
59 8 0.06
60 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
Found at i:1988828 original size:20 final size:19
Alignment explanation
Indices: 1988803--1988876 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1988793 AAAATGCTTG
*
1988803 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1988823 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1988843 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1988863 AATGTATCGATACA
1 AATGTATCGATACA
1988877 TCTAGGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1988939 original size:13 final size:13
Alignment explanation
Indices: 1988892--1988921 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1988882 GAAAACCTAG
1988892 AATGTATCGATAC
1 AATGTATCGATAC
*
1988905 AATGTATCGGTAC
1 AATGTATCGATAC
1988918 AATG
1 AATG
1988922 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1991736 original size:20 final size:21
Alignment explanation
Indices: 1991711--1991767 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
1991701 GTAAAAAGAC
1991711 AGAATGTATCGATACATTGA-
1 AGAATGTATCGATACATTGAT
*
1991731 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATTGAT
*
1991752 A-CATGTATCGATACAT
1 AGAATGTATCGATACAT
1991768 CTGGGTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (21 bp):
AGAATGTATCGATACATTGAT
Found at i:1991791 original size:71 final size:71
Alignment explanation
Indices: 1991645--1991849 Score: 335
Period size: 71 Copynumber: 2.9 Consensus size: 71
1991635 ATTTAACTAC
* *
1991645 ATGTATCGATACATTGAATAATGTATCGATACAATTC--A-ATGTATCGATACATCTAGGTAAAA
1 ATGTATCGATACATTGAAGAATGTATCGATAC-ATTCATACATGTATCGATACATCTGGGTAAAA
1991707 AGACAGA
65 AGACAGA
*
1991714 ATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATCTGGGTAAACA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATCTGGGTAAAAA
*
1991779 GATAGA
66 GACAGA
*
1991785 ATGTATCGATACATTGAAGAATGTATTGATACATTCATACATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATCTGGGTAAAAA
1991850 TGTGACTTTT
Statistics
Matches: 127, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
68 4 0.03
69 31 0.24
70 1 0.01
71 91 0.72
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (71 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATCTGGGTAAAAA
GACAGA
Found at i:1991807 original size:20 final size:21
Alignment explanation
Indices: 1991780--1991838 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1991770 GGGTAAACAG
*
1991780 ATAGAATGTATCGATACATTG
1 ATAGAATGTATCGATACATTC
*
1991801 A-AGAATGTATTGATACATTC
1 ATAGAATGTATCGATACATTC
*
1991821 ATA-CATGTATCGATACAT
1 ATAGAATGTATCGATACAT
1991839 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (21 bp):
ATAGAATGTATCGATACATTC
Found at i:1992397 original size:20 final size:21
Alignment explanation
Indices: 1992348--1992403 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1992338 ACAGTATTGA
* *
1992348 TACATTGTATTGATATATACT
1 TACATTGTATCGATATATACG
*
1992369 TAAATTGTATCGATATATA-G
1 TACATTGTATCGATATATACG
1992389 TACATTGTATCGATA
1 TACATTGTATCGATA
1992404 CATTGAGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (21 bp):
TACATTGTATCGATATATACG
Found at i:1992892 original size:21 final size:20
Alignment explanation
Indices: 1992866--1992904 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1992856 AGGTCAAAAC
1992866 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
1992887 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
1992905 TATTACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:1993576 original size:36 final size:33
Alignment explanation
Indices: 1993531--1993619 Score: 112
Period size: 36 Copynumber: 2.6 Consensus size: 33
1993521 CTAAGTTATT
1993531 GAGAGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTTGTG-AAAAGATA---A
1993567 GAGAGGTTCTATCTTAG-CTTGTGAAAAGATAA
1 GAGAGGTTCTATCTTAGCCTTGTGAAAAGATAA
1993599 G-GAGGTTTCTATCTTAGCCTT
1 GAGAGG-TTCTATCTTAGCCTT
1993620 AAAAGATAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
31 4 0.08
32 13 0.26
33 3 0.06
35 11 0.22
36 19 0.38
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGTGAAAAGATAA
Found at i:1996584 original size:13 final size:13
Alignment explanation
Indices: 1996566--1996591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1996556 CAATTTTTTG
1996566 TGTATCGATACAT
1 TGTATCGATACAT
1996579 TGTATCGATACAT
1 TGTATCGATACAT
1996592 ATTTTGTGTA
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:1996602 original size:32 final size:33
Alignment explanation
Indices: 1996546--1996609 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1996536 TACAAGCCAA
*
1996546 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1996579 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1996610 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1996603 original size:19 final size:19
Alignment explanation
Indices: 1996546--1996609 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1996536 TACAAGCCAA
*
1996546 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1996566 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1996579 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1996598 TGTATCGATACA
1 TGTATCGATACA
1996610 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1998746 original size:20 final size:21
Alignment explanation
Indices: 1998707--1998749 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1998697 GGCTAATTTG
*
1998707 GGGACTGCCTGGTTGTGACCT
1 GGGACTGCCTGGTCGTGACCT
*
1998728 GGGAGTGCC-GGTCGTGACCT
1 GGGACTGCCTGGTCGTGACCT
1998748 GG
1 GG
1998750 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.09, C:0.23, G:0.44, T:0.23
Consensus pattern (21 bp):
GGGACTGCCTGGTCGTGACCT
Found at i:1999222 original size:13 final size:13
Alignment explanation
Indices: 1999190--1999226 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
1999180 ATAATCCCCC
1999190 TGTATCGATACAG
1 TGTATCGATACAG
*
1999203 T-TATCGATACAT
1 TGTATCGATACAG
1999215 TGTATCGATACA
1 TGTATCGATACA
1999227 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2001327 original size:15 final size:15
Alignment explanation
Indices: 2001307--2001337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2001297 ATTTCGTTTG
*
2001307 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2001322 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2001337 G
1 G
2001338 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2005421 original size:20 final size:20
Alignment explanation
Indices: 2005396--2005447 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
2005386 TACAAGCCAA
*
2005396 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
2005416 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
2005435 TGTATCGATACAA
1 TGTATCGATACAA
2005448 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:2006457 original size:154 final size:154
Alignment explanation
Indices: 2006239--2006974 Score: 834
Period size: 154 Copynumber: 4.9 Consensus size: 154
2006229 GTAGTAACAG
* *** * * * * *
2006239 GAAAAATTCTAAAACTCATAAAAGAAATTGAAAAATTCAAAAGTTATTTTATATGAACTCAACAA
1 GAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTGATTTAATATGAATTAAACAA
* * * * *
2006304 TGATATTTGAAG-AGTTTAAAAATTATAAACTTAAAAAAATCCTACTGAAGAAATTTACAGAGTA
66 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAGAGTA
* *
2006368 GAAAAACTTTGTATCTCGATAATA
131 GAAAAACTTCGTATCTCGGTAATA
* * * *
2006392 GAAAAAATTTTAAAACTCATAAAATAATTTGAATTTTTCTAAACTAATTTAATATGAATTAAACA
1 G-AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTGATTTAATATGAATTAAACA
* * *
2006457 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCTTACCGGAGAAATTTAC-GAAA
65 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAG-AG
* *
2006521 TAG-AAAACTTCGTACCTCGGTAACA
129 TAGAAAAACTTCGTATCTCGGTAATA
*
2006546 TGAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCTAAACTGATTTAATATGAATTAAACA
1 -GAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTGATTTAATATGAATTAAACA
* *
2006611 ACAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAAAGT
65 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAGAGT
*
2006676 AGAAAAA-TTCGTATCTTGG---T-
130 AGAAAAACTTCGTATCTCGGTAATA
* * *
2006696 -AAAAATTCTAAAAGTCATATAATAAATTAAAATTTTT-AAAACTGATTTAATATGAATT--A-A
1 GAAAAATTCTAAAACTCATAAAATAAATT-GAATTTTTCAAAACTGATTTAATATGAATTAAACA
* * * *
2006756 AT--GA--T--A-ATTTTTGAAAATTATAAACTTAGAAAAATCCTACCGGAGAAATTTACAAAGT
65 ATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAGAGT
* *
2006814 AG-AAAAC-TCTATATCTTGGTAATA
130 AGAAAAACTTC-GTATCTCGGTAATA
* * * * *
2006838 GGAAAAATTCTAAAACTCATAAATTAAATTAAAATTTTCAAAACTGATTTAATATAAATTAAACG
1 -GAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTGATTTAATATGAATTAAACA
* *
2006903 ATAATGTTTGAAAGAATTTTGAAAATTATAAACTTAGAAAAATACTACCGAAGAAATTTAC-GAA
65 ATAATATTTG-AAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAG-A
2006967 GTAGAAAA
128 GTAGAAAA
2006975 CTCTATATTT
Statistics
Matches: 498, Mismatches: 56, Indels: 55
0.82 0.09 0.09
Matches are distributed among these distances:
137 6 0.01
138 60 0.12
139 1 0.00
141 2 0.00
143 8 0.02
144 45 0.09
145 2 0.00
146 2 0.00
147 2 0.00
148 46 0.09
149 7 0.01
151 1 0.00
153 1 0.00
154 214 0.43
155 98 0.20
156 3 0.01
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (154 bp):
GAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTGATTTAATATGAATTAAACAA
TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCCTACCGAAGAAATTTACAGAGTA
GAAAAACTTCGTATCTCGGTAATA
Found at i:2006880 original size:28 final size:29
Alignment explanation
Indices: 2006841--2006900 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
2006831 GGTAATAGGA
2006841 AAAATTCTAAAACTCA-TAAAT-TAAATT
1 AAAATTCTAAAACTCATTAAATATAAATT
* * *
2006868 AAAATTTTCAAAACTGATTTAATATAAATT
1 AAAATTCT-AAAACTCATTAAATATAAATT
2006898 AAA
1 AAA
2006901 CGATAATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 7 0.26
29 4 0.15
30 9 0.33
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTCTAAAACTCATTAAATATAAATT
Found at i:2008198 original size:43 final size:43
Alignment explanation
Indices: 2008141--2008591 Score: 262
Period size: 43 Copynumber: 10.4 Consensus size: 43
2008131 CTAACGAGTT
* * *
2008141 AGTTAGAAAGGTGTTTGCCGGGACAAAACCATGCGTACCAATG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* * * * * *
2008184 AGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* ** * * *
2008227 AGTTAGAAGGGTGTTGGCTAGGA-AGAAACCATATGGACTAACGAG
1 AGTTAGAAAGGTGTTGGCCGGGACA-AAACCATACGTACCAAC--G
* * * *
2008272 TTAGTTAGAAAGGTGTTTGCCGGGACAAAACCATGCGTACTAATG
1 --AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* * * * * *
2008317 AGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* ** *
2008360 AGTTAGAAGGGTGTTGGCTAGGACGAAACCATACGTACCAACG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
** * * * * * *
2008403 AGTTAGAAAGGTGTTGGTTGGGACGAAACTACAAGAACCAA-T
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* * ** * * *
2008445 A--AAGAAAAAGTGTTGATCGGGATAAAACCACACGTACCAATG
1 AGTTAG-AAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* * ** *** *
2008487 AGTTAGAAAGGTGTTGGTCAGGACAAAATTATATAAAGCAACG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* * ** * * * *
2008530 AATTACAAAGGCATTGGCCAGGATAGAACCATACGTACTAACG
1 AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
* *
2008573 GGTTAGAATGGTGTTGGCC
1 AGTTAGAAAGGTGTTGGCC
2008592 AAGATGAAAC
Statistics
Matches: 304, Mismatches: 94, Indels: 20
0.73 0.22 0.05
Matches are distributed among these distances:
40 2 0.01
41 27 0.09
42 2 0.01
43 236 0.78
44 2 0.01
45 2 0.01
47 32 0.11
48 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (43 bp):
AGTTAGAAAGGTGTTGGCCGGGACAAAACCATACGTACCAACG
Found at i:2008276 original size:133 final size:133
Alignment explanation
Indices: 2008105--2008408 Score: 554
Period size: 133 Copynumber: 2.3 Consensus size: 133
2008095 AAGGGTAAGA
*
2008105 TGTTGGCTGGGAAGAAACCATACGGACTAACGAGTTAGTTAGAAAGGTGTTTGCCGGGACAAAAC
1 TGTTGGCTAGGAAGAAACCATACGGACTAACGAGTTAGTTAGAAAGGTGTTTGCCGGGACAAAAC
2008170 CATGCGTACCAATGAGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGGAGTTAGAA
66 CATGCGTACCAATGAGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGGAGTTAGAA
2008235 GGG
131 GGG
*
2008238 TGTTGGCTAGGAAGAAACCATATGGACTAACGAGTTAGTTAGAAAGGTGTTTGCCGGGACAAAAC
1 TGTTGGCTAGGAAGAAACCATACGGACTAACGAGTTAGTTAGAAAGGTGTTTGCCGGGACAAAAC
*
2008303 CATGCGTACTAATGAGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGGAGTTAGAA
66 CATGCGTACCAATGAGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGGAGTTAGAA
2008368 GGG
131 GGG
* * *
2008371 TGTTGGCTAGGACGAAACCATACGTACCAACGAGTTAG
1 TGTTGGCTAGGAAGAAACCATACGGACTAACGAGTTAG
2008409 AAAGGTGTTG
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 164 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.22
Consensus pattern (133 bp):
TGTTGGCTAGGAAGAAACCATACGGACTAACGAGTTAGTTAGAAAGGTGTTTGCCGGGACAAAAC
CATGCGTACCAATGAGTTAGAAAAGTGTTGGCCGGTACGAAGCCATATGTACCAAGGAGTTAGAA
GGG
Found at i:2009271 original size:20 final size:20
Alignment explanation
Indices: 2009246--2009315 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
2009236 TTTTACCCAG
2009246 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2009266 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2009286 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
2009306 ATATATCGAT
1 ATGTATCGAT
2009316 GCAATTTATC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2009342 original size:62 final size:62
Alignment explanation
Indices: 2009274--2009397 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
2009264 CAATGTATCG
2009274 ATACATGTATGAATGTATCAATACATTCTTCAATATATCGATGCAATTTATCTTTTTACCTA
1 ATACATGTATGAATGTATCAATACATTCTTCAATATATCGATGCAATTTATCTTTTTACCTA
* * * *
2009336 ATACATGTATGAATGTATCGATACGTTCTTCAATGTATCGATGCAGTTTATCTTTTTACCTA
1 ATACATGTATGAATGTATCAATACATTCTTCAATATATCGATGCAATTTATCTTTTTACCTA
2009398 GATGTATCGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (62 bp):
ATACATGTATGAATGTATCAATACATTCTTCAATATATCGATGCAATTTATCTTTTTACCTA
Found at i:2011975 original size:13 final size:13
Alignment explanation
Indices: 2011957--2012045 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
2011947 CATAAAGTGT
2011957 TGTATCGATACAA
1 TGTATCGATACAA
2011970 TGTATCGATACATAA
1 TGTATCGATAC--AA
2011985 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2012002 TGTATCGATACATAA
1 TGTATCGATAC--AA
2012017 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2012034 TGTATCGATACA
1 TGTATCGATACA
2012046 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2011992 original size:32 final size:32
Alignment explanation
Indices: 2011937--2012066 Score: 242
Period size: 32 Copynumber: 4.0 Consensus size: 32
2011927 TTCAACGATT
2011937 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2011970 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2012002 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2012034 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2012066 T
1 T
2012067 ATAAGCTACT
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 83 0.86
33 13 0.14
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2011994 original size:19 final size:18
Alignment explanation
Indices: 2011935--2012064 Score: 110
Period size: 19 Copynumber: 7.8 Consensus size: 18
2011925 ATTTCAACGA
2011935 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
2011954 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2011970 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2011986 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2012002 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2012018 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2012034 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2012050 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2012065 ATATAAGCTA
Statistics
Matches: 92, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
13 33 0.36
15 6 0.07
17 6 0.07
19 35 0.38
20 12 0.13
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2012125 original size:13 final size:13
Alignment explanation
Indices: 2012107--2012131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2012097 ATTACTCAAA
2012107 TGTATCGATACAT
1 TGTATCGATACAT
2012120 TGTATCGATACA
1 TGTATCGATACA
2012132 CTGATCTTTG
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:2015318 original size:52 final size:52
Alignment explanation
Indices: 2015237--2015357 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
2015227 TGAAAAGTTA
*
2015237 CTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2015289 CTGCATGTATCGATACATTTTATTA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGCAAATTTGC
2015341 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2015358 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 60 0.91
53 6 0.09
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2015370 original size:52 final size:51
Alignment explanation
Indices: 2015237--2015377 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 51
2015227 TGAAAAGTTA
*
2015237 CTGCATGTATCGATACATTTAATAGTGTATCGATATATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2015289 CTGCATGTATCGATACATTTTATTA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2015341 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2015378 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 1 0.01
52 72 0.89
53 6 0.07
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2015384 original size:13 final size:13
Alignment explanation
Indices: 2015366--2015390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2015356 CAAAGATCAG
2015366 TGTATCGATACAA
1 TGTATCGATACAA
2015379 TGTATCGATACA
1 TGTATCGATACA
2015391 TGTGAGTAAT
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:2015478 original size:13 final size:13
Alignment explanation
Indices: 2015460--2015484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2015450 TACAAAAAAA
2015460 TGTATCGATACAT
1 TGTATCGATACAT
2015473 TGTATCGATACA
1 TGTATCGATACA
2015485 ACATTTTATG
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:2016477 original size:55 final size:52
Alignment explanation
Indices: 2016413--2016572 Score: 149
Period size: 43 Copynumber: 3.2 Consensus size: 52
2016403 CGATATTGGG
* *
2016413 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * *
2016468 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
** *
2016520 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
2016563 CTTAAAGATG
1 CTTAAAGATG
2016573 ATGAGGATGG
Statistics
Matches: 89, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
43 38 0.43
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 31 0.35
53 5 0.06
54 1 0.01
55 10 0.11
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:2016505 original size:52 final size:47
Alignment explanation
Indices: 2016441--2016572 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 47
2016431 GATGTCAACG
*
2016441 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG-----GTGCCAATA
* *
2016493 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--GGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGGTGCCAATA
2016536 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
2016573 ATGAGGATGG
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
43 37 0.51
44 2 0.03
45 1 0.01
48 1 0.01
50 1 0.01
51 2 0.03
52 28 0.39
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (47 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGGTGCCAATA
Found at i:2016708 original size:170 final size:170
Alignment explanation
Indices: 2016522--2016975 Score: 743
Period size: 170 Copynumber: 2.7 Consensus size: 170
2016512 ATATTGGACT
* * * * *
2016522 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGATGGAAAG
1 TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAG
* *
2016587 TGATAAA-AGGACCAATACGTTGATTCACGGCCAACGATATCGGG-TTGAAAGATGA-GAAAAAG
65 TGATAAAGATG-CCAATATGTTGATTCACGGCCAACGATATCGGGCTT-AAAGATGATGAAAAAG
2016649 GATAAAAGAGCCAATATGCGGCTAGCGATATTGGACTTAAAGA
128 GATAAAAGAGCCAATATGCGGCTAGCGATATTGGACTTAAAGA
*
2016692 TGAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
1 TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
* *
2016757 GATAAAGATGCCAATATGTTGATTCACGGCCAATGATATTGGGCTTAAAGATGATGAAAAAGGAT
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATCGGGCTTAAAGATGATGAAAAAGGAT
2016822 AAAAGAGCCAATATGCGGCTAGCGATATTGGACTTAAAGA
131 AAAAGAGCCAATATGCGGCTAGCGATATTGGACTTAAAGA
2016862 TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
1 TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
* * *
2016927 GATAAAGATGCCAATATGTTGATTCACGGCCAGCGATATTGGACTTAAA
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATCGGGCTTAAA
2016976 AGTGCCAATG
Statistics
Matches: 267, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
169 50 0.19
170 217 0.81
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.23
Consensus pattern (170 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGT
GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATCGGGCTTAAAGATGATGAAAAAGGAT
AAAAGAGCCAATATGCGGCTAGCGATATTGGACTTAAAGA
Found at i:2017145 original size:49 final size:49
Alignment explanation
Indices: 2016935--2017965 Score: 1152
Period size: 49 Copynumber: 21.8 Consensus size: 49
2016925 GTGATAAAGA
* * * *
2016935 TGCCAATATGTTGATTCACGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2016978 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGG
* *
2017030 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017073 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2017122 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2017165 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGG
* *
2017217 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017260 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2017309 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2017352 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGG
* *
2017404 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017447 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2017496 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
2017539 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2017588 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017631 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTTTGTAA-ATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC--TT-AAAGATGAAGG
* * *
2017682 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017731 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017780 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017829 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2017878 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017927 TGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
2017966 GAAGGGTTGC
Statistics
Matches: 845, Mismatches: 83, Indels: 114
0.81 0.08 0.11
Matches are distributed among these distances:
43 292 0.35
44 8 0.01
45 6 0.01
46 8 0.01
47 7 0.01
48 9 0.01
49 363 0.43
50 2 0.00
51 42 0.05
52 108 0.13
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:2017171 original size:92 final size:92
Alignment explanation
Indices: 2016935--2017965 Score: 1416
Period size: 92 Copynumber: 10.9 Consensus size: 92
2016925 GTGATAAAGA
* * * *
2016935 TGCCAATATGTTGATTCACGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
2017000 CAGCTACATTGGACTTAAAGATGAAAAAGG
66 CAGCTACATTGGACTTAAAGATG---AAGG
* *
2017030 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
*
2017095 CAGCTACATTGGACTTAAAGATGAAGA
66 CAGCTACATTGGACTTAAAGATGAAGG
* *
2017122 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
2017187 CAGCTACATTGGACTTAAAGATGAAAAAGG
66 CAGCTACATTGGACTTAAAGATG---AAGG
* *
2017217 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
*
2017282 CAGCTACATTGGACTTAAAGATGAAGA
66 CAGCTACATTGGACTTAAAGATGAAGG
* *
2017309 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
2017374 CAGCTACATTGGACTTAAAGATGAAAAAGG
66 CAGCTACATTGGACTTAAAGATG---AAGG
* *
2017404 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
*
2017469 CAGCTACATTGGACTTAAAGATGAAGA
66 CAGCTACATTGGACTTAAAGATGAAGG
* *
2017496 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
2017561 CAGCTACATTGGACTTAAAGATGAAGG
66 CAGCTACATTGGACTTAAAGATGAAGG
* *
2017588 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
* *
2017653 CAGCTACATTGGACTTTTGTAA-ATAAAGG
66 CAGCTACATTGGAC--TT-AAAGATGAAGG
* * *
2017682 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A-AAA-GTGCCAATGTGCTGATT
* * *
2017747 CAAGGCCAGCTATATTGGACTTAATGGTGAAGG
60 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017780 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT----A-AAA-GTGCCAATGTGCTGATT
* * *
2017845 CAAGGCCAGCTATATTGGACTTAATGGTGAAGG
60 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
2017878 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTT--A-A--AA-GTGCCAATGTGCTGATT
* * *
2017943 CAGGGCCAGCTATATTGGGCTTA
60 CAAGGCCAGCTACATTGGACTTA
2017966 GAAGGGTTGC
Statistics
Matches: 870, Mismatches: 48, Indels: 33
0.91 0.05 0.03
Matches are distributed among these distances:
92 343 0.39
94 42 0.05
95 258 0.30
96 3 0.00
97 1 0.00
98 185 0.21
99 3 0.00
100 35 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
TGCCAATATGCTGAGTCAAGGCCAGCTATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATGAAGG
Found at i:2017246 original size:187 final size:187
Alignment explanation
Indices: 2016931--2017965 Score: 1535
Period size: 187 Copynumber: 5.5 Consensus size: 187
2016921 AAAAGTGATA
* *
2016931 AAGATGCCAATATGTTGATTCACGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
2016996 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
66 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
2017061 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
131 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2017118 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
2017183 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
66 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
2017248 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
131 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2017305 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
2017370 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
66 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
2017435 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
131 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
2017492 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
* *
2017557 AGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
66 AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
* * * *
2017619 TGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTTTGTAA-ATA
131 TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC--TT-AAAGATG
* * * * * *
2017678 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAA-GTGCCAATGTGCT
* * * *
2017743 GATTCAAGGCCAGCTATATTGGACTTAATGGTG---AAGGTGCCAATGTGCTGAGTCAAGGCCAG
60 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAG
* * * * *
2017805 CTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAT
125 CTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
2017870 GGTG
184 GATG
* * * * * *
2017874 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-GTGCCAATGTGCT
* * *
2017939 GATTCAGGGCCAGCTATATTGGGCTTA
60 GATTCAAGGCCAGCTACATTGGACTTA
2017966 GAAGGGTTGC
Statistics
Matches: 798, Mismatches: 32, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
184 79 0.10
186 41 0.05
187 466 0.58
190 1 0.00
191 3 0.00
192 78 0.10
193 1 0.00
194 3 0.00
195 1 0.00
196 86 0.11
198 39 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (187 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCA
AGGCCAGCTACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTATAT
TGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:2018009 original size:33 final size:34
Alignment explanation
Indices: 2017965--2018105 Score: 232
Period size: 34 Copynumber: 4.2 Consensus size: 34
2017955 TATTGGGCTT
2017965 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
2017998 AAAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2018031 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2018065 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2018099 AGAAGGG
1 AGAAGGG
2018106 AGAAAGATGC
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 34 0.34
34 65 0.66
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2018047 original size:67 final size:67
Alignment explanation
Indices: 2017965--2018105 Score: 230
Period size: 67 Copynumber: 2.1 Consensus size: 67
2017955 TATTGGGCTT
*
2017965 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTTGCCACCAACTTGTGTGGGCTTT
*
2018029 GG
66 AG
* *
2018031 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTTGCCACCAACTTGTGTGGGCTT
2018096 TAG
65 TAG
2018099 AGAAGGG
1 AGAAGGG
2018106 AGAAAGATGC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 7 0.10
67 31 0.45
68 31 0.45
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:2018139 original size:34 final size:33
Alignment explanation
Indices: 2018113--2018967 Score: 1200
Period size: 34 Copynumber: 25.7 Consensus size: 33
2018103 GGGAGAAAGA
* *
2018113 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAGAAG-G
* *
2018148 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018181 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAA--GAAGAAG-G
*
2018218 TGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAA-AGAAGAAGG
* * *
2018252 TGCCACGGAGTTGTGGGCTTTAAAAAAAAAAAAG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
2018286 TGCCACGGAGTTGTGGGCTTTAAATAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAA-AGAAGAAGG
*
2018320 TGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGAG
1 TGCCACGGAGTTGTGGGCTTTAAA-AGAAGAA-G-G
*
2018356 TGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
2018389 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
2018423 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018455 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
2018489 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018521 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
2018555 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018587 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
2018621 TGCCACGGAGTTGTGGGCTTTAAAAAAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
* *
2018654 TGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
2018688 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018720 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
2018754 TGCCATGGAGTTGTGGGCTTT-AAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018785 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
2018819 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
2018851 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
2018884 TGCCACGGAGTTGTGGGCTTT---A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
* *
2018911 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAA-GAAGAAGG
2018944 TGCCACGGAGTTGTGGGCTTTAAA
1 TGCCACGGAGTTGTGGGCTTTAAA
2018968 GAAAAAATGC
Statistics
Matches: 756, Mismatches: 32, Indels: 65
0.89 0.04 0.08
Matches are distributed among these distances:
26 2 0.00
27 18 0.02
28 1 0.00
29 3 0.00
30 1 0.00
31 29 0.04
32 148 0.20
33 152 0.20
34 306 0.40
35 34 0.04
36 39 0.05
37 23 0.03
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
Found at i:2018482 original size:66 final size:66
Alignment explanation
Indices: 2018113--2018997 Score: 1258
Period size: 66 Copynumber: 13.3 Consensus size: 66
2018103 GGGAGAAAGA
* *
2018113 TGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAA-AA
* *
2018176 AAAAG
62 GAAGG
*
2018181 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAA-A-A
*
2018246 AAAAGG
61 AGAAGG
* * * * *
2018252 TGCCACGGAGTTGTGGGCTTTAAAAAAAAAAAAGTGCCACGGAGTTGTGGGCTTTAAATAGAAAA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-AAGA
2018317 AGG
64 AGG
* *
2018320 TGCCACGGAGTTGTGGGCTTT-AAACAGAAAAAGGAGTGCCACGAAGTTGTGGGCTTTAAAAGAA
1 TGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAA-G-GTGCCACGGAGTTGTGGGCTTTAAAA-AA
2018384 GAAGG
62 GAAGG
2018389 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018454 G
66 G
*
2018455 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018520 G
66 G
*
2018521 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018586 G
66 G
*
2018587 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAGAA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAGAA
2018652 GG
65 GG
* *
2018654 TGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018719 G
66 G
* *
2018720 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTT-AAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018784 G
66 G
*
2018785 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018850 G
66 G
*
2018851 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT---AAAG-A-
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
2018910 G
66 G
* *
2018911 TGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAGAAA-A
1 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAAGA
*
2018973 A-A
64 AGG
* * *
2018975 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTTGTGGGCTTTGA
2018998 GACAAAATGC
Statistics
Matches: 776, Mismatches: 24, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
59 6 0.01
60 46 0.06
61 1 0.00
62 4 0.01
64 20 0.03
65 97 0.12
66 289 0.37
67 93 0.12
68 79 0.10
69 42 0.05
70 66 0.09
71 33 0.04
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (66 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAAG
G
Found at i:2018685 original size:199 final size:198
Alignment explanation
Indices: 2018113--2018997 Score: 1265
Period size: 199 Copynumber: 4.4 Consensus size: 198
2018103 GGGAGAAAGA
* *
2018113 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAA
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAG
* *
2018177 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
63 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAA
* * * *
2018242 CAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAAAAGTGCCACGGAGTTGTGGGCTTT
125 -A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
2018307 AAATAGAAAAAGG
188 AAA-A-AAGAAGG
*
2018320 TGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAG
1 TGCCACGGAGTTGTGGGCTTTAAA-AGAAAAA-G-GTGCCACGGAGTTGTGGGCTTTAAAAGAAG
2018385 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAA
63 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAA
* *
2018450 GAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
128 GAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2018515 AGAAGG
193 AGAAGG
* *
2018521 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AAGAA
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAA
*
2018585 GGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAG
65 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAAG
* * *
2018650 AAGGTGCCACAGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAA
129 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAA
2018715 GAAGG
194 GAAGG
* * *
2018720 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTT-AAA-AAGAA
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAA
*
2018783 GGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGA
65 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGA
2018848 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT---AAAG
130 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAG
2018909 -A-G
195 AAGG
* *
2018911 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAA-AA
1 TGCCACGGAGTTGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAA
** * * *
2018973 AATGCCACTGAGTCGTGGACTTTGA
65 GGTGCCACGGAGTTGTGGGCTTTGA
2018998 GACAAAATGC
Statistics
Matches: 640, Mismatches: 31, Indels: 31
0.91 0.04 0.04
Matches are distributed among these distances:
189 3 0.00
190 53 0.08
191 20 0.03
192 1 0.00
193 4 0.01
196 31 0.05
197 31 0.05
198 126 0.20
199 155 0.24
200 1 0.00
201 33 0.05
202 3 0.00
203 59 0.09
204 1 0.00
205 25 0.04
206 6 0.01
207 23 0.04
208 64 0.10
209 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (198 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGAAG
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGAA
GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGA
AGG
Found at i:2018916 original size:27 final size:27
Alignment explanation
Indices: 2018879--2018969 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
2018869 TTTAAAAGAA
2018879 AAAG-GTGCCACGGAGTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
* *
2018905 AAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
2018932 AAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAA-G----A-GTGCCACGGAGTTGTGGGCTTT
2018965 AAAGA
1 AAAGA
2018970 AAAAATGCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.07
27 23 0.43
28 2 0.04
32 2 0.04
33 23 0.43
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:2019006 original size:30 final size:32
Alignment explanation
Indices: 2018906--2019093 Score: 172
Period size: 31 Copynumber: 6.0 Consensus size: 32
2018896 GTGGGCTTTA
* * * *
2018906 AAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAC
1 AAGAATGCCACTGAGTCGTGGACTTTAAA-G-AC
* * * *
2018940 AAG-GTGCCACGGAGTTGTGGGCTTTAAAGA-
1 AAGAATGCCACTGAGTCGTGGACTTTAAAGAC
* *
2018970 AAAAATGCCACTGAGTCGTGGACTTT-GAGAC
1 AAGAATGCCACTGAGTCGTGGACTTTAAAGAC
*
2019001 AA-AATGCCACTGAGTCGTGGACTTTAAAGAG
1 AAGAATGCCACTGAGTCGTGGACTTTAAAGAC
* * *
2019032 AAGGATGCCACTGCGTCGTGGACTTT-GAG-C
1 AAGAATGCCACTGAGTCGTGGACTTTAAAGAC
*
2019062 AGAGATTGCCACTGAGTCGTGGACTTTAAAGA
1 A-AGAATGCCACTGAGTCGTGGACTTTAAAGA
2019094 GATTTGAAGA
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
30 29 0.22
31 50 0.39
32 24 0.19
33 23 0.18
34 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (32 bp):
AAGAATGCCACTGAGTCGTGGACTTTAAAGAC
Found at i:2019091 original size:63 final size:62
Alignment explanation
Indices: 2018944--2019095 Score: 209
Period size: 63 Copynumber: 2.5 Consensus size: 62
2018934 AGGAACAAGG
* * *
2018944 TGCCACGGAGTTGTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
** * *
2019005 TGCCACTGAGTCGTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
2019068 TGCCACTGAGTCGTGGACTTTAAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAAGAGA
2019096 TTTGAAGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 25 0.31
62 27 0.33
63 29 0.36
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTAAAGAGAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:2024084 original size:21 final size:21
Alignment explanation
Indices: 2024060--2024102 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2024050 ATCAAAATGA
2024060 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
2024081 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
2024102 C
1 C
2024103 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:2027424 original size:52 final size:52
Alignment explanation
Indices: 2027343--2027463 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
2027333 TGAAAAGTTA
2027343 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2027395 CTGCATGTATCGATACATTTTATTA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGCAAATTTGC
2027447 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2027464 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 61 0.91
53 6 0.09
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2027476 original size:52 final size:51
Alignment explanation
Indices: 2027343--2027483 Score: 205
Period size: 52 Copynumber: 2.7 Consensus size: 51
2027333 TGAAAAGTTA
2027343 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2027395 CTGCATGTATCGATACATTTTATTA-TGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2027447 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2027484 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 1 0.01
52 73 0.89
53 6 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2027490 original size:13 final size:13
Alignment explanation
Indices: 2027472--2027496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2027462 CAAAGATCAG
2027472 TGTATCGATACAA
1 TGTATCGATACAA
2027485 TGTATCGATACA
1 TGTATCGATACA
2027497 TGTGAGTAAT
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
Done.