Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 1 of 12
Found at i:3794 original size:52 final size:51
Alignment explanation
Indices: 3724--3843 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 51
3714 GAAAATTTAT
*
3724 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGC
*
3776 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGC
3827 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3844 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 21 0.32
52 45 0.68
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGC
Found at i:3856 original size:51 final size:51
Alignment explanation
Indices: 3724--3863 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
3714 GAAAATTTAT
3724 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3776 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-TTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3827 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3864 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.42
52 45 0.56
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3870 original size:13 final size:13
Alignment explanation
Indices: 3852--3876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3842 CAAAGATCAG
3852 TGTATCGATACAA
1 TGTATCGATACAA
3865 TGTATCGATACA
1 TGTATCGATACA
3877 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:3959 original size:13 final size:13
Alignment explanation
Indices: 3941--3965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3931 ACAAAAAATA
3941 TGTATCGATACAT
1 TGTATCGATACAT
3954 TGTATCGATACA
1 TGTATCGATACA
3966 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:3961 original size:32 final size:33
Alignment explanation
Indices: 3920--3985 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
3910 AGTAGCTTAA
3920 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
3952 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
3985 A
1 A
3986 AATCATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:4063 original size:21 final size:21
Alignment explanation
Indices: 4022--4063 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4012 GTTGGGACCT
*
4022 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
4043 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
4064 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:5118 original size:49 final size:49
Alignment explanation
Indices: 4911--5908 Score: 1172
Period size: 49 Copynumber: 20.6 Consensus size: 49
4901 GATGTCAACG
*
4911 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATG-TGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---ATGATGCCAATA
* *
4963 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * *
5006 TGTTGATTCAAGGCCAGCTACATTGGACTT-AAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5054 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * * *
5103 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-ATGATGCCAATA
*
5153 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * *
5202 TGCTGATTCAAGGCCAGCAATATTGGACTT-AAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5250 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * *
5299 TGCTGA-TCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCC-ATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5346 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * * *
5395 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5444 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * * *
5493 TGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5542 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGA-TGCCAATA
* * * * * *
5592 TGCTGATTCAAGGCCAGCGATA-TGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5640 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * * * *
5689 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTG-CAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5737 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * * *
5786 TGTTGATTCAAGGCCAGCGATATT-GACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* *
5828 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAGA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* *
5877 TGCTGATTCAAGGTCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGG-CCAGCTACATTGGACTTA
5909 GAAGGGTTGC
Statistics
Matches: 799, Mismatches: 126, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.04
43 44 0.06
44 2 0.00
45 3 0.00
46 2 0.00
47 11 0.01
48 217 0.27
49 378 0.47
50 84 0.11
51 2 0.00
52 28 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:5234 original size:196 final size:195
Alignment explanation
Indices: 4911--5913 Score: 1597
Period size: 196 Copynumber: 5.2 Consensus size: 195
4901 GATGTCAACG
* * * * * *
4911 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGTCAAGG
* * * * *
4976 CCAGCTATATTGGACTT-AA-A-G--G-TGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACT
63 CCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
5035 TAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
128 TAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
5100 ATA
193 ATA
* *
5103 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGGTGCCAATGTGCTGAGTCAAGGCC
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAA-GGTGCCAATGTGCTGAGTCAAGGCC
*
5168 AGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTA
65 AGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
5233 AGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
130 AGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
5298 A
195 A
*
5299 TGCTGA-TCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCC-ATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
*
5362 GCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAA
66 GCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A
5427 AGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
130 AGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
5492 A
195 A
* *
5493 TGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5558 GCTACATTGGACTTAAAGATGATGATTGCCAATATGCTGATTCAAGGCCAGCGATA-TGGACTTA
66 GCTACATTGGACTTAAAGATGATGA-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
5622 AAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAA
129 AAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAA
5687 TA
194 TA
*
5689 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTG-CAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
*
5753 GCTACATTGGACTTAAAGATGATGATGCCAATATGTTGATTCAAGGCCAGCGATATT-GACTT-A
66 GCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * *
5816 ----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAGA
131 GGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5877 TGCTGATTCAAGGTCCAGCTATATTGGGCTTAGAAGG
1 TGCTGATTCAAGG-CCAGCTATATTGGACTTA-AAGG
5914 GTTGCCACCG
Statistics
Matches: 767, Mismatches: 30, Indels: 30
0.93 0.04 0.04
Matches are distributed among these distances:
188 71 0.09
189 18 0.02
190 40 0.05
191 3 0.00
192 33 0.04
193 81 0.11
194 112 0.15
195 115 0.15
196 265 0.35
197 29 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (195 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
GGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:5302 original size:97 final size:98
Alignment explanation
Indices: 4911--5913 Score: 1585
Period size: 97 Copynumber: 10.4 Consensus size: 98
4901 GATGTCAACG
* * * * * * *
4911 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGTCAAGG
* *
4976 CCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
63 CCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
5006 TGTTGATTCAAGGCCAGCTACATTGGACTT-AAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5070 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
5103 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGGTGCCAATGTGCTGAGTCAAGGCC
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAA-GGTGCCAATGTGCTGAGTCAAGGCC
5168 AGCTACATTGGACTTAAAGATGATGATGCCAATA
65 AGCTACATTGGACTTAAAGATGATGATGCCAATA
*
5202 TGCTGATTCAAGGCCAGCAATATTGGACTT-AAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5266 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
5299 TGCTGA-TCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCC-ATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5362 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
5395 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5460 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
5493 TGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5558 GCTACATTGGACTTAAAGATGATGATTGCCAATA
66 GCTACATTGGACTTAAAGATGATGA-TGCCAATA
5592 TGCTGATTCAAGGCCAGCGATA-TGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5656 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
5689 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTG-CAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
5753 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
5786 TGTTGATTCAAGGCCAGCGATATT-GACTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* *
5844 GCTACATTGGACTTAAAGATGAAGATGCCAAGA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
5877 TGCTGATTCAAGGTCCAGCTATATTGGGCTTAGAAGG
1 TGCTGATTCAAGG-CCAGCGATATTGGACTTA-AAGG
5914 GTTGCCACCG
Statistics
Matches: 859, Mismatches: 28, Indels: 39
0.93 0.03 0.04
Matches are distributed among these distances:
90 6 0.01
91 101 0.12
92 12 0.01
93 6 0.01
94 6 0.01
95 28 0.03
96 88 0.10
97 257 0.30
98 240 0.28
99 115 0.13
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:5837 original size:42 final size:43
Alignment explanation
Indices: 5584--5861 Score: 218
Period size: 48 Copynumber: 6.0 Consensus size: 43
5574 AGATGATGAT
* * *
5584 TGCCAATATGCTGATTCAAGGCCAGCGATA-TGGACTTAAAGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A----AAGG
*
5632 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G--G
* * *
5680 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
1 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG
* *
5724 TGAAGGTGCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 T----G-CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G--G
* * * *
5777 ATGCCAATATGTTGATTCAAGGCCAGCGATATT-GACTTAAAGG
1 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG
5820 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
5862 ATGAAGATGC
Statistics
Matches: 189, Mismatches: 23, Indels: 41
0.75 0.09 0.16
Matches are distributed among these distances:
42 28 0.15
43 11 0.06
44 2 0.01
45 2 0.01
46 3 0.02
47 4 0.02
48 67 0.35
49 67 0.35
50 2 0.01
51 1 0.01
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG
Found at i:5937 original size:30 final size:29
Alignment explanation
Indices: 5900--5978 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 29
5890 TCCAGCTATA
5900 TTGGGCTTAGAAGGGTTGCCACCGACTTG
1 TTGGGCTTAGAAGGGTTGCCACCGACTTG
*
5929 TGTGGGCTTTGGAAGAAGGTTGCCACCGACTTG
1 T-TGGGC-TTAGAAG--GGTTGCCACCGACTTG
5962 TTGGGGCTTAGGAAGGG
1 TT-GGGCTTA-GAAGGG
5979 AGAAAGATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 8 0.19
32 3 0.07
33 25 0.60
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (29 bp):
TTGGGCTTAGAAGGGTTGCCACCGACTTG
Found at i:5952 original size:33 final size:34
Alignment explanation
Indices: 5908--5976 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
5898 TATTGGGCTT
*
5908 AGAAGGGTTGCCACCGACTTG-TGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTTG-GGGCTTAGGA
5942 AGAA-GGTTGCCACCGACTTGTTGGGGCTTAGGA
1 AGAAGGGTTGCCACCGACTTGTTGGGGCTTAGGA
5975 AG
1 AG
5977 GGAGAAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.25
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTTGGGGCTTAGGA
Found at i:6096 original size:33 final size:33
Alignment explanation
Indices: 5981--6403 Score: 497
Period size: 33 Copynumber: 12.8 Consensus size: 33
5971 AGGAAGGGAG
* * *
5981 AAAGA-TGCCACGGAGTTATGGACTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-GG-A
*
6015 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAGGA
6049 AGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGGA
1 A-AAGAGTGCCACGGAGTTGTGGGCTTTAAAGGA
6082 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGA
6115 AAAGAGTGCCAC-GAGTTGTGGGC-TTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGA
* * *
6147 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAGGA
*
6181 AAAGAATGCCACGGAGTTGTGGGC-TTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGA
* *
6214 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGA
6247 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGA
* *
6280 AAAGAGTGCCACGTAATTGTGGGC--TAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AAGGA
* * *
6312 AAAGAATGCCACGTAATTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGA
*
6345 AAAGAGTGCCACGGAGTTGTGGGCTTTGAA-GA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGA
* * * * *
6377 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
6404 GAGAAGAGAT
Statistics
Matches: 348, Mismatches: 28, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
32 96 0.28
33 165 0.47
34 61 0.18
35 23 0.07
36 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGA
Found at i:6156 original size:65 final size:66
Alignment explanation
Indices: 5961--6398 Score: 516
Period size: 65 Copynumber: 6.6 Consensus size: 66
5951 CCACCGACTT
* * *
5961 GTTG-GGGCTTAGGAAGGGAGAAAG-ATGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTGC
1 GTTGTGGGCTTA-GAA-GGA-AAAGAATGCCACGGAGTTGTGGGCTTAGAA-GG-AAAAGAGTGC
6024 CACGGA
61 CACGGA
* * *
6030 GTTGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTA-AAGGAAAAGAGTGCCA
1 GTTGTGGGC-TTAGAAGGAA-AAGAATGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCA
6093 CGGA
63 CGGA
* * *
6097 GTTGTGGGCTTAGAAGGAAAAGAGTGCCAC-GAGTTGTGGGCTTAGAAGGAAAAGTGTGCCACAG
1 GTTGTGGGCTTAGAAGGAAAAGAATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGG
6161 A
66 A
* *
6162 GTTGTGGGCTTTAAAAGAAAAAGAATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACG
1 GTTGTGGGC-TTAGAAGGAAAAGAATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACG
*
6227 TA
65 GA
* *
6229 ATTGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACG
1 GTTGTGGGC-TTAGAAGGAAAAGAATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACG
*
6293 TA
65 GA
* * *
6295 ATTGTGGGC-TAGAAGGAAAAGAATGCCACGTAATTGTGGGCTTTA-AAGGAAAAGAGTGCCACG
1 GTTGTGGGCTTAGAAGGAAAAGAATGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCACG
6358 GA
65 GA
* * * *
6360 GTTGTGGGCTTTGAA-GAAAAAAATGCCACTGAGTCGTGG
1 GTTGTGGGCTTAGAAGGAAAAGAATGCCACGGAGTTGTGG
6399 ACTTTGAGAA
Statistics
Matches: 329, Mismatches: 29, Indels: 26
0.86 0.08 0.07
Matches are distributed among these distances:
64 5 0.02
65 113 0.34
66 100 0.30
67 69 0.21
68 3 0.01
69 27 0.08
70 9 0.03
71 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (66 bp):
GTTGTGGGCTTAGAAGGAAAAGAATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGG
A
Found at i:6249 original size:165 final size:163
Alignment explanation
Indices: 5961--6388 Score: 571
Period size: 165 Copynumber: 2.6 Consensus size: 163
5951 CCACCGACTT
* *
5961 GTTG-GGGCTTAGGAAGGGAGAAAGATGCCACGGAGTTATGGAC-TTAAAAGGGAAAAAGAGTGC
1 GTTGTGGGCTTA-GAA-GGA-AAAGATGCCAC-GAGTTGTGGGCTTTAAAA--GAAAAAGAGTGC
* *
6024 CACGGAGTTGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAG
60 CACGGAGTTGTGGGC-TT-AGAAGAA-AAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAG
6088 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACG-A
122 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
* *
6129 GTTGTGGGCTTAGAAGGAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAATGCCACG
1 GTTGTGGGCTTAGAAGGAAAAG-ATGCCAC-GAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACG
*
6194 GAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCAC
64 GAGTTGTGGGCTTAGAA-GAAAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCAC
6259 GGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
128 GGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
* * *
6295 ATTGTGGGC-TAGAAGGAAAAGAATGCCACGTAATTGTGGGCTTT-AAAGGAAAAGAGTGCCACG
1 GTTGTGGGCTTAGAAGGAAAAG-ATGCCACG-AGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACG
* * *
6358 GAGTTGTGGGCTTTGAAGAAAAAAATGCCAC
64 GAGTTGTGGGCTTAGAAGAAAAGAGTGCCAC
6389 TGAGTCGTGG
Statistics
Matches: 236, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
163 12 0.05
164 40 0.17
165 107 0.45
166 39 0.17
167 18 0.08
168 13 0.06
169 7 0.03
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (163 bp):
GTTGTGGGCTTAGAAGGAAAAGATGCCACGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGA
GTTGTGGGCTTAGAAGAAAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGA
GTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
Found at i:6420 original size:31 final size:32
Alignment explanation
Indices: 6351--6435 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
6341 AGGAAAAGAG
* * *
6351 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
* * *
6383 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
6414 TGCCACTTGAGTCGTGGACTTT
1 TGCCAC-TGAGTCGTGGACTTT
6436 AAAAAGGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 12 0.26
32 34 0.74
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
Found at i:7392 original size:1 final size:1
Alignment explanation
Indices: 7386--7422 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
7376 GTTGTTCTTC
* *
7386 TTTTTTTTTTCTTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7423 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:7399 original size:11 final size:11
Alignment explanation
Indices: 7383--7422 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
7373 GGGGTTGTTC
7383 TTCTTTTTTTT
1 TTCTTTTTTTT
7394 TTCTTTTTTTT
1 TTCTTTTTTTT
*
7405 TTGTTTTTTTT
1 TTCTTTTTTTT
7416 TT-TTTTT
1 TTCTTTTT
7423 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.93
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:7677 original size:11 final size:11
Alignment explanation
Indices: 7660--7732 Score: 71
Period size: 10 Copynumber: 6.7 Consensus size: 11
7650 GACTTTGCAC
7660 TTTTTTTCTGTG
1 TTTTTTT-TGTG
*
7672 TTTTTTTTTTG
1 TTTTTTTTGTG
*
7683 -TTTTTTTGTT
1 TTTTTTTTGTG
7693 TTTTTTTTGTG
1 TTTTTTTTGTG
*
7704 TGTTTTTTTTTG
1 T-TTTTTTTGTG
*
7716 -TTTGTTTGT-
1 TTTTTTTTGTG
7725 TTTTTTTT
1 TTTTTTTT
7733 TTATCACCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.42
11 13 0.26
12 16 0.32
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:7677 original size:14 final size:13
Alignment explanation
Indices: 7660--7730 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
7650 GACTTTGCAC
*
7660 TTTTTTTCTGTG-
1 TTTTTTTTTGTGT
7672 TTTTTTTTT-TG-
1 TTTTTTTTTGTGT
7683 --TTTTTTTGT-T
1 TTTTTTTTTGTGT
7693 TTTTTTTTGTGTGT
1 TTTTTTTT-TGTGT
*
7707 TTTTTTTTGTTTGT
1 TTTTTTTT-TGTGT
7721 TTGTTTTTTT
1 TT-TTTTTTT
7731 TTTTATCACC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 2 0.04
12 14 0.28
13 3 0.06
14 17 0.34
15 6 0.12
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:7678 original size:13 final size:12
Alignment explanation
Indices: 7660--7716 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
7650 GACTTTGCAC
*
7660 TTTTTTTCTGTG
1 TTTTTTTTTGTG
7672 TTTTTTTTT-TG
1 TTTTTTTTTGTG
7683 TTTTTTTGTT-T-
1 TTTTTTT-TTGTG
*
7694 TTTTTTTGTGTG
1 TTTTTTTTTGTG
7706 TTTTTTTTTGT
1 TTTTTTTTTGT
7717 TTGTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 1 0.03
11 17 0.44
12 21 0.54
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:7694 original size:18 final size:18
Alignment explanation
Indices: 7673--7732 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
7663 TTTTCTGTGT
7673 TTTTTTTTTGTTT-TTT-
1 TTTTTTTTTGTTTGTTTG
* *
7689 TGTTTTTTT-TTTGTGTG
1 TTTTTTTTTGTTTGTTTG
7706 TTTTTTTTTGTTTGTTTG
1 TTTTTTTTTGTTTGTTTG
7724 TTTTTTTTT
1 TTTTTTTTT
7733 TTATCACCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.08
16 10 0.27
17 8 0.22
18 16 0.43
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTGTTTGTTTG
Found at i:7697 original size:33 final size:33
Alignment explanation
Indices: 7660--7733 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
7650 GACTTTGCAC
* *
7660 TTTTTTTCTGTGT-TTTTTTTTTGTTTTTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
7692 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
7725 TTTTTTTTT
1 TTTTTTTTT
7734 TATCACCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 12 0.31
33 27 0.69
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (33 bp):
TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
Found at i:7745 original size:33 final size:33
Alignment explanation
Indices: 7675--7746 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
7665 TTCTGTGTTT
* * ***
7675 TTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGTT
1 TTTTTTTGTTTGTTTGTTTTTTTTTTGTATACC
7708 TTTTTTTGTTTGTTTGTTTTTTTTTT-TATCACC
1 TTTTTTTGTTTGTTTGTTTTTTTTTTGTAT-ACC
7741 TTTTTT
1 TTTTTT
7747 AAGGGAACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.82
Consensus pattern (33 bp):
TTTTTTTGTTTGTTTGTTTTTTTTTTGTATACC
Found at i:7746 original size:1 final size:1
Alignment explanation
Indices: 7672--7734 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
7662 TTTTTCTGTG
* * * * * * * *
7672 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7735 ATCACCTTTT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:14700 original size:52 final size:52
Alignment explanation
Indices: 14630--14750 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
14620 GAAAATTTAT
*
14630 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
14682 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
14734 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
14751 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:14763 original size:52 final size:51
Alignment explanation
Indices: 14630--14770 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
14620 GAAAATTTAT
14630 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
14682 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
14734 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
14771 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:14777 original size:13 final size:13
Alignment explanation
Indices: 14759--14783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14749 CAAAGATCAG
14759 TGTATCGATACAA
1 TGTATCGATACAA
14772 TGTATCGATACA
1 TGTATCGATACA
14784 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:14867 original size:13 final size:13
Alignment explanation
Indices: 14849--14873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14839 CAAAAAAATA
14849 TGTATCGATACAT
1 TGTATCGATACAT
14862 TGTATCGATACA
1 TGTATCGATACA
14874 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:14869 original size:33 final size:33
Alignment explanation
Indices: 14827--14893 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14817 AGTAGCTTAA
14827 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
14860 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
14893 A
1 A
14894 AATCATTGAA
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:14972 original size:21 final size:21
Alignment explanation
Indices: 14931--14972 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14921 GTTGGGACCT
*
14931 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
14952 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
14973 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:15906 original size:22 final size:22
Alignment explanation
Indices: 15881--15949 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
15871 ATGCTGATTC
15881 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
15903 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
15924 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
15946 AAGG
1 AAGG
15950 TGAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:15959 original size:49 final size:49
Alignment explanation
Indices: 15819--16821 Score: 1267
Period size: 49 Copynumber: 20.7 Consensus size: 49
15809 GGATGTCAAC
* *
15819 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
15871 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
15914 GTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
15963 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
16012 ATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16061 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
16110 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16159 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
16208 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16257 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
16306 ATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16355 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
16404 ATGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16453 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
16502 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16551 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
16600 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
16649 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
16698 ATGTTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
16741 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA-
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
16789 GATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 G-TGCTGATTCAAGGCCAGCTACATTGGACTTA
16822 GAAGGGTTGC
Statistics
Matches: 807, Mismatches: 131, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
43 74 0.09
45 1 0.00
47 1 0.00
48 2 0.00
49 701 0.87
52 28 0.03
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:16054 original size:98 final size:98
Alignment explanation
Indices: 15820--16826 Score: 1669
Period size: 98 Copynumber: 10.4 Consensus size: 98
15810 GATGTCAACG
* * * * * * *
15820 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGTCAAGG
* *
15885 CCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
63 CCAGCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
15915 TGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
15980 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
16013 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16078 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
16111 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16176 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
16209 TGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16274 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
*
16307 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16372 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* * *
16405 TGTTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16470 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
16503 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16568 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
16601 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
16666 GCTACATTGGACTTAAAGATGATGATGCCAATA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
16699 TGTTGATTCAAGGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* *
16758 GCTACATTGGACTTAAAGATGAAGATGCCAAGA
66 GCTACATTGGACTTAAAGATGATGATGCCAATA
* *
16791 TGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
16827 GTTGCCACCG
Statistics
Matches: 873, Mismatches: 28, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
92 123 0.14
93 2 0.00
94 2 0.00
95 35 0.04
96 1 0.00
97 1 0.00
98 709 0.81
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGATGATGCCAATA
Found at i:16865 original size:33 final size:35
Alignment explanation
Indices: 16821--16890 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
16811 TATTGGGCTT
16821 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
16855 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
16889 AG
1 AG
16891 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:17010 original size:33 final size:33
Alignment explanation
Indices: 16875--17353 Score: 519
Period size: 33 Copynumber: 14.4 Consensus size: 33
16865 CACCGACTTG
16875 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AA-GGA-AAAGAGTGCCACGGAGT
* * *
16911 TATGGACTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAA-GG-AAAAGAGTGCCACGGAGT
*
16946 TGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAGGAA-AAGAGTGCCACGGAGT
16980 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
17013 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* *
17046 TGTGGGC-TTAGAAGGAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* *
17079 TGTGGGCTTTAAAAGAAAAAGAATGCCACGGAGT
1 TGTGGGCTTT-AAAGGAAAAGAGTGCCACGGAGT
* *
17113 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
17146 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* *
17179 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
* * *
17212 TGTGGGC-TTAGAAGGAAAAGAATGCCACGTAAT
1 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGT
17245 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* * * *
17278 TGTGGGCTTTGAA-GAAAAAAATGCCACTGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* * * * * *
17310 CGTGGACTTT-GA-GAAGAGATTGCCACTGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* *
17341 CGTGGACTTTAAA
1 TGTGGGCTTTAAA
17354 AAGGTATTTG
Statistics
Matches: 393, Mismatches: 37, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
31 27 0.07
32 35 0.09
33 229 0.58
34 67 0.17
35 24 0.06
36 11 0.03
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (33 bp):
TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
Found at i:17089 original size:133 final size:133
Alignment explanation
Indices: 16875--17356 Score: 581
Period size: 133 Copynumber: 3.6 Consensus size: 133
16865 CACCGACTTG
* *
16875 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA-GAA-GGA-AAAGAGTGCCACGGAGTTGTGGACTTAGAA-GG-AAAAGAGTGCC
*
16939 ACGGAGTTGTGGGCTTTAAAAAGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGT
61 AC-GAGTTGTGGGCTTTAAAAAGAA-AAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGT
17003 GCCACGGAGT
124 GCCACGGAGT
* *
17013 TGTGGGC-TTAGAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGTGTGCCACAGA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCAC-GA
17077 GTTGTGGGCTTT-AAAAGAAAAAGAATGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCA
65 GTTGTGGGCTTTAAAAAG-AAAAGAATGCCACGGAGTTGTGGGCTTTA-AAGGAAAAGAGTGCCA
* *
17140 CGTAAT
128 CGGAGT
*
17146 TGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACG-A
* * * * *
17210 ATTGTGGGC-TTAGAAGGAAAAGAATGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACG
65 GTTGTGGGCTTTAAAAAGAAAAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACG
17274 GAGT
130 GAGT
* * * * * * *
17278 TGTGGGCTTT-GAA-GAAAAAAATGCCACTGAGTCGTGGACTTTG-A-GAAGAGATTGCCACTGA
1 TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCAC-GA
* *
17339 GTCGTGGACTTTAAAAAG
65 GTTGTGGGCTTTAAAAAG
17357 GTATTTGAAG
Statistics
Matches: 304, Mismatches: 29, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
129 19 0.06
130 8 0.03
131 24 0.08
132 69 0.23
133 137 0.45
134 10 0.03
135 24 0.08
136 3 0.01
137 3 0.01
138 7 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (133 bp):
TGTGGGCTTTAGAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACGAG
TTGTGGGCTTTAAAAAGAAAAGAATGCCACGGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGG
AGT
Found at i:17336 original size:31 final size:32
Alignment explanation
Indices: 17267--17350 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 32
17257 AGGAAAAGAG
* * *
17267 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
* * *
17299 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
17330 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
17351 AAAAAGGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 27 0.59
32 19 0.41
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAA
Found at i:18308 original size:1 final size:1
Alignment explanation
Indices: 18302--18338 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
18292 GTTGTTCTTC
* *
18302 TTTTTTTTTTCTTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18339 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:18315 original size:11 final size:11
Alignment explanation
Indices: 18299--18338 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
18289 GGGGTTGTTC
18299 TTCTTTTTTTT
1 TTCTTTTTTTT
18310 TTCTTTTTTTT
1 TTCTTTTTTTT
*
18321 TTGTTTTTTTT
1 TTCTTTTTTTT
18332 TT-TTTTT
1 TTCTTTTT
18339 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.93
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:18593 original size:11 final size:11
Alignment explanation
Indices: 18576--18648 Score: 71
Period size: 10 Copynumber: 6.7 Consensus size: 11
18566 GACTTTGCTC
18576 TTTTTTTCTGTG
1 TTTTTTT-TGTG
*
18588 TTTTTTTTTTG
1 TTTTTTTTGTG
*
18599 -TTTTTTTGTT
1 TTTTTTTTGTG
18609 TTTTTTTTGTG
1 TTTTTTTTGTG
*
18620 TGTTTTTTTTTG
1 T-TTTTTTTGTG
*
18632 -TTTGTTTGT-
1 TTTTTTTTGTG
18641 TTTTTTTT
1 TTTTTTTT
18649 TATCACCTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.42
11 13 0.26
12 16 0.32
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:18593 original size:14 final size:13
Alignment explanation
Indices: 18576--18646 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
18566 GACTTTGCTC
*
18576 TTTTTTTCTGTG-
1 TTTTTTTTTGTGT
18588 TTTTTTTTT-TG-
1 TTTTTTTTTGTGT
18599 --TTTTTTTGT-T
1 TTTTTTTTTGTGT
18609 TTTTTTTTGTGTGT
1 TTTTTTTT-TGTGT
*
18623 TTTTTTTTGTTTGT
1 TTTTTTTT-TGTGT
18637 TTGTTTTTTT
1 TT-TTTTTTT
18647 TTTATCACCT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 2 0.04
12 14 0.28
13 3 0.06
14 17 0.34
15 6 0.12
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:18594 original size:13 final size:12
Alignment explanation
Indices: 18576--18632 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
18566 GACTTTGCTC
*
18576 TTTTTTTCTGTG
1 TTTTTTTTTGTG
18588 TTTTTTTTT-TG
1 TTTTTTTTTGTG
18599 TTTTTTTGTT-T-
1 TTTTTTT-TTGTG
*
18610 TTTTTTTGTGTG
1 TTTTTTTTTGTG
18622 TTTTTTTTTGT
1 TTTTTTTTTGT
18633 TTGTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 1 0.03
11 17 0.44
12 21 0.54
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:18613 original size:33 final size:33
Alignment explanation
Indices: 18576--18649 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
18566 GACTTTGCTC
* *
18576 TTTTTTTCTGTGT-TTTTTTTTTGTTTTTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
18608 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
1 TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
18641 TTTTTTTTT
1 TTTTTTTTT
18650 ATCACCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 12 0.31
33 27 0.69
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (33 bp):
TTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGT
Found at i:18647 original size:19 final size:18
Alignment explanation
Indices: 18588--18649 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
18578 TTTTTCTGTG
*
18588 TTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTGTTTGTTT
*
18606 GTTTTTTTTTTGTGTGTTT
1 -TTTTTTTTTTGTTTGTTT
*
18625 TTTTTTGTTTGTTTGTTT
1 TTTTTTTTTTGTTTGTTT
18643 TTTTTTT
1 TTTTTTT
18650 ATCACCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
18 22 0.58
19 16 0.42
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTGTTTGTTT
Found at i:18660 original size:33 final size:33
Alignment explanation
Indices: 18590--18661 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
18580 TTTCTGTGTT
* * ****
18590 TTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGT
1 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
18623 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
1 TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
18656 TTTTTT
1 TTTTTT
18662 AAGGGAACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.82
Consensus pattern (33 bp):
TTTTTTTTGTTTGTTTGTTTTTTTTTTATCACC
Found at i:18661 original size:1 final size:1
Alignment explanation
Indices: 18588--18649 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
18578 TTTTTCTGTG
* * * * * * * *
18588 TTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18650 ATCACCTTTT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:25614 original size:52 final size:52
Alignment explanation
Indices: 25544--25664 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
25534 GAAAATTTAT
*
25544 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
25596 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
25648 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
25665 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:25677 original size:52 final size:51
Alignment explanation
Indices: 25544--25684 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
25534 GAAAATTTAT
25544 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
25596 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
25648 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
25685 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:25691 original size:13 final size:13
Alignment explanation
Indices: 25673--25697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25663 CAAAGATCAG
25673 TGTATCGATACAA
1 TGTATCGATACAA
25686 TGTATCGATACA
1 TGTATCGATACA
25698 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:25781 original size:13 final size:13
Alignment explanation
Indices: 25763--25787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25753 CAAAAAAATA
25763 TGTATCGATACAT
1 TGTATCGATACAT
25776 TGTATCGATACA
1 TGTATCGATACA
25788 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:25783 original size:33 final size:33
Alignment explanation
Indices: 25741--25807 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
25731 AGTAGCTTAA
25741 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
25774 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
25807 A
1 A
25808 AATCATTGAA
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:25886 original size:21 final size:21
Alignment explanation
Indices: 25845--25886 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25835 GTTGGGACCT
*
25845 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
25866 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
25887 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:30393 original size:20 final size:20
Alignment explanation
Indices: 30368--30410 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30358 ATAAAACTGA
30368 TAATTTATCTAAAAGATATT
1 TAATTTATCTAAAAGATATT
* * *
30388 TAATTTTTTTAGAAGATATT
1 TAATTTATCTAAAAGATATT
30408 TAA
1 TAA
30411 CCTTGATCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (20 bp):
TAATTTATCTAAAAGATATT
Found at i:34006 original size:15 final size:16
Alignment explanation
Indices: 33967--34012 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
33957 GGAAAAAAAT
*
33967 AAATAAAAATTGTTGA
1 AAATGAAAATTGTTGA
*
33983 AAATG-AAATTCTTGA
1 AAATGAAAATTGTTGA
33998 AAA-GAAAATTGTTGA
1 AAATGAAAATTGTTGA
34013 GCTAGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.04
15 21 0.81
16 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.30
Consensus pattern (16 bp):
AAATGAAAATTGTTGA
Found at i:34732 original size:20 final size:20
Alignment explanation
Indices: 34707--34757 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34697 ACCCTAAAAA
*
34707 GTATCGATACACATTTAAAT
1 GTATCGATACACATTGAAAT
* * *
34727 GTATCGATACAGATTGCATT
1 GTATCGATACACATTGAAAT
34747 GTATCGATACA
1 GTATCGATACA
34758 TTGTATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATTGAAAT
Found at i:34803 original size:21 final size:20
Alignment explanation
Indices: 34759--34811 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
34749 ATCGATACAT
* **
34759 TGTATCAATACATGACCAAA
1 TGTATCGATACATGAAAAAA
34779 TGTATCGATACATGAAAAGAA
1 TGTATCGATACATGAAAA-AA
34800 TGTATCGATACA
1 TGTATCGATACA
34812 AGTCATTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:34885 original size:13 final size:13
Alignment explanation
Indices: 34863--34901 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34853 ACACACAGTA
*
34863 TGTATTGATACAT
1 TGTATCGATACAT
34876 TGTATCGATACAT
1 TGTATCGATACAT
34889 TGTATCGATACAT
1 TGTATCGATACAT
34902 CACAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:35792 original size:32 final size:32
Alignment explanation
Indices: 35750--35825 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
35740 AAATAGTAAC
*
35750 TGTATTGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
35782 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
35814 TGTATCGCTACA
1 TGTATCGATACA
35826 AAGCTACTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:45546 original size:13 final size:13
Alignment explanation
Indices: 45528--45565 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
45518 CATATTGATT
45528 TGTATCGATACAC
1 TGTATCGATACAC
45541 TGTATCGATACAC
1 TGTATCGATACAC
45554 TGTATCGATACA
1 TGTATCGATACA
45566 TGATCTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:45666 original size:20 final size:20
Alignment explanation
Indices: 45638--45689 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
45628 CCACTGTTTG
*
45638 TATCAATACATGATACATTC
1 TATCGATACATGATACATTC
*
45658 TATCGATACATGATACATTG
1 TATCGATACATGATACATTC
45678 TATCGATACATG
1 TATCGATACATG
45690 GTGAAAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATGATACATTC
Found at i:49201 original size:66 final size:66
Alignment explanation
Indices: 49065--49209 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 66
49055 TTTCTAATAA
* *
49065 TTTATGTAATTACATGTAAAGGTATGTTTTATATAACTTGTAATGCTTATCTATAGTTGGTAATG
1 TTTATGTAATTACATGTAAAGGTATGTTTTATATAACTTGTAATGCTTATCTATACTTGGTAAAG
49130 T
66 T
* * * * *
49131 TTTATGTAATTACATGTAAAGGTAATTTTTTATGTAACTTTTAATGTTTGCATGTA-ACTT-GTA
1 TTTATGTAATTACATGTAAAGGT-ATGTTTTATATAACTTGTAATGCTT--ATCTATACTTGGTA
49194 AAGT
63 AAGT
49198 TTATATGTAATT
1 TT-TATGTAATT
49210 TATAACATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
66 23 0.34
67 29 0.43
68 12 0.18
69 4 0.06
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (66 bp):
TTTATGTAATTACATGTAAAGGTATGTTTTATATAACTTGTAATGCTTATCTATACTTGGTAAAG
T
Found at i:49205 original size:20 final size:20
Alignment explanation
Indices: 49161--49207 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
49151 GGTAATTTTT
* * *
49161 TATGTAACTTTTAATGTTTG
1 TATGTAACTTGTAAAGTTTA
*
49181 CATGTAACTTGTAAAGTTTA
1 TATGTAACTTGTAAAGTTTA
49201 TATGTAA
1 TATGTAA
49208 TTTATAACAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (20 bp):
TATGTAACTTGTAAAGTTTA
Found at i:49319 original size:55 final size:54
Alignment explanation
Indices: 49260--49363 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
49250 TGTAATTGAT
*
49260 AGTATTTATACATAATTTATAATATTTTATGTAATTATATGTAAATGTAACCAAG
1 AGTATTTATACATAATTTATAAT-TTTTATGTAATTATATGTAAACGTAACCAAG
** *
49315 AGTATTTATATGTAATTTGTAATTTTTATGTAATTATATGTAAACGTAA
1 AGTATTTATACATAATTTATAATTTTTATGTAATTATATGTAAACGTAA
49364 TGTTTTATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.56
55 20 0.44
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (54 bp):
AGTATTTATACATAATTTATAATTTTTATGTAATTATATGTAAACGTAACCAAG
Found at i:49355 original size:28 final size:28
Alignment explanation
Indices: 49279--49375 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
49269 ACATAATTTA
49279 TAATATTTTATGTAATTATATGTAAATG
1 TAATATTTTATGTAATTATATGTAAATG
* ** * *
49307 TAACCA--AGA-GTATTTATATGTAATTTG
1 TAA-TATTTTATGTAATTATATGTAA-ATG
*
49334 TAAT-TTTTATGTAATTATATGTAAACG
1 TAATATTTTATGTAATTATATGTAAATG
*
49361 TAATGTTTTATGTAA
1 TAATATTTTATGTAA
49376 CTTGTAATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
26 13 0.25
27 12 0.23
28 26 0.50
29 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.47
Consensus pattern (28 bp):
TAATATTTTATGTAATTATATGTAAATG
Found at i:49423 original size:121 final size:122
Alignment explanation
Indices: 49197--49425 Score: 311
Period size: 121 Copynumber: 1.9 Consensus size: 122
49187 ACTTGTAAAG
* * *
49197 TTTATATGTAATTTATAACATTTTATGTACTTACATGTAGACGTAATGTTTTATGTAATTGATAG
1 TTTATATGTAATTTATAACATTTTATGTAATTACATGTAAACGTAATGTTTTATGTAATTGATAA
* ** * *
49262 TATTTATACATAATTTATAATATTTTATGTAATTATATGTAAATGTAACCAAGAGTA
66 TATTTATACATAATTGATAATATTTTACATAAGTACATGTAAATGTAACCAAGAGTA
* * *
49319 TTTATATGTAATTTGTAA-TTTTTATGTAATTATATGTAAACGTAATGTTTTATGTAACTTG-TA
1 TTTATATGTAATTTATAACATTTTATGTAATTACATGTAAACGTAATGTTTTATGTAA-TTGATA
*
49382 ATATTTATATC-TAATTGATAATATTTTGCATAAGTACATGTAAA
65 ATATTTATA-CATAATTGATAATATTTTACATAAGTACATGTAAA
49426 ATTAATGTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
121 72 0.77
122 21 0.23
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.47
Consensus pattern (122 bp):
TTTATATGTAATTTATAACATTTTATGTAATTACATGTAAACGTAATGTTTTATGTAATTGATAA
TATTTATACATAATTGATAATATTTTACATAAGTACATGTAAATGTAACCAAGAGTA
Found at i:54455 original size:6 final size:6
Alignment explanation
Indices: 54446--54487 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
54436 TTAAGAAGAT
*
54446 AATAAT AATAAA AATAATA AAT-AA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA
54488 GTTTTTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 4 0.12
6 25 0.76
7 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:60848 original size:164 final size:168
Alignment explanation
Indices: 60523--60859 Score: 483
Period size: 164 Copynumber: 2.0 Consensus size: 168
60513 TTCTAACTTC
*
60523 AAAA-TTATTTATAAATTATCATTTAATTACTATTAAATTAGTTTTAAAAAATTCATTTATTTTC
1 AAAATTTATTTATAAATTATCATTTAATTACTAGTAAATTAGTTTTAAAAAATTCATTTATTTTC
* * **
60587 ATGAGTTTTTCATTTTTTTCCTTAAAATTTCCCTATTCTTGAAAAACTGAGTTTTCTATTTTATA
66 ATCAGTTTTTCATTTTTTTCCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCATA
* *
60652 AATGTTTTCAGGAGGATTTTTCTCAGTTTAAAATTTTT
131 AATGTTTTCAGAAGGATTTCTCTCAGTTTAAAATTTTT
* * *
60690 AAAATTTATTTA-ATATTGTCATTTAATT-CATAGTAAA-TAGTTTTGAAAAATTCATTTATTTT
1 AAAATTTATTTATAAATTATCATTTAATTAC-TAGTAAATTAGTTTTAAAAAATTCATTTATTTT
* *
60752 CATCAGTTTTTCA-TTTTTT-CTTAAAGTTTCCTTATTCTCGAAAAACTGAGTTTTCTATTCCAT
65 CATCAGTTTTTCATTTTTTTCCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCAT
60815 AAATGTTTTC-GAAAGGATTTCTCTC-GATTTAAAATTTTT
130 AAATGTTTTCAG-AAGGATTTCTCTCAG-TTTAAAATTTTT
60854 AAAATT
1 AAAATT
60860 CATCAAATTT
Statistics
Matches: 154, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
163 2 0.01
164 78 0.51
165 6 0.04
166 37 0.24
167 24 0.16
168 7 0.05
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (168 bp):
AAAATTTATTTATAAATTATCATTTAATTACTAGTAAATTAGTTTTAAAAAATTCATTTATTTTC
ATCAGTTTTTCATTTTTTTCCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCATA
AATGTTTTCAGAAGGATTTCTCTCAGTTTAAAATTTTT
Found at i:60903 original size:164 final size:167
Alignment explanation
Indices: 60541--60915 Score: 478
Period size: 164 Copynumber: 2.3 Consensus size: 167
60531 TTATAAATTA
* * *
60541 TCATTTAA-TTACTATTAAATTAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTT
1 TCATTTAACTCAC-ATTAAATTAGTTTTGAAAAATTCATTTATTTTCATCAGTTTTTCATTTTTT
* ** *
60605 TCCTTAAAATTTCCCTATTCTTGAAAAACTGAGTTTTCTATTTTATAAATGTTTTCAGGAGGATT
65 TCCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCATAAATGTTTTCAGAAGGATT
* * **
60670 TTTCTCAGTTTAAAATTTTTAAAATTTATTTAATATTG
130 TCTCTCAGTTTAAAATTTTTAAAATTCATCAAATATTG
* * *
60708 TCATTTAATTCATAGTAAA-TAGTTTTGAAAAATTCATTTATTTTCATCAGTTTTTCA-TTTTTT
1 TCATTTAACTCACATTAAATTAGTTTTGAAAAATTCATTTATTTTCATCAGTTTTTCATTTTTTT
* *
60771 -CTTAAAGTTTCCTTATTCTCGAAAAACTGAGTTTTCTATTCCATAAATGTTTTC-GAAAGGATT
66 CCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCATAAATGTTTTCAG-AAGGATT
60834 TCTCTC-GATTTAAAATTTTTAAAATTCATCAAAT-TTG
130 TCTCTCAG-TTTAAAATTTTTAAAATTCATCAAATATTG
* **
60871 TCA-TTAGACTCCCATTAAATTAGTACTGAAAAATTCAATTTATTT
1 TCATTTA-ACTCACATTAAATTAGTTTTGAAAAATTC-ATTTATTT
60916 CATGAATTTT
Statistics
Matches: 181, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
162 3 0.02
163 16 0.09
164 97 0.54
165 14 0.08
166 36 0.20
167 13 0.07
168 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (167 bp):
TCATTTAACTCACATTAAATTAGTTTTGAAAAATTCATTTATTTTCATCAGTTTTTCATTTTTTT
CCTTAAAATTTCCCTATTCTCGAAAAACTGAGTTTTCTATTCCATAAATGTTTTCAGAAGGATTT
CTCTCAGTTTAAAATTTTTAAAATTCATCAAATATTG
Found at i:61529 original size:14 final size:15
Alignment explanation
Indices: 61493--61538 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
61483 TCTCTTACCA
*
61493 AATCTTTCATTTTGTT
1 AATCTTT-ATTTTGTG
61509 AAT-TTTATTTT-TG
1 AATCTTTATTTTGTG
61522 AATCTTTATTTTAGTG
1 AATCTTTATTTT-GTG
61538 A
1 A
61539 GTTTTACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 13 0.50
15 3 0.12
16 6 0.23
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.61
Consensus pattern (15 bp):
AATCTTTATTTTGTG
Found at i:62995 original size:156 final size:154
Alignment explanation
Indices: 62553--63392 Score: 700
Period size: 155 Copynumber: 5.4 Consensus size: 154
62543 GGATACTTTC
* * * ** *
62553 AAGTCGAAGGTATACCT-TAGGGGTATTTTTATAATTTTTCAAAATCGAGTTTTAGG-TTTCA-C
1 AAGTCGAAGGTAT-CCTCTAAGGGTATTTTCATAATTTTTTAAAATCGAGTCCTAGGATGTCATC
* * * * *
62615 CAGGAT-CGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAACCCCTTTT
65 GA-G-TCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTT
**
62679 AAGTCCTTTAGGAGTATTAGGCACTTCT
128 AAGTCCTTTAGG-GTATCGGGCACTTCT
** * * * * * *
62707 AAGTTAAAGGTATCC-CTTAGAGGTATTTTCATAATTTTTTAGAACCAAGTCTTA-GATTGTCAG
1 AAGTCGAAGGTATCCTCTAAG-GGTATTTTCATAATTTTTTAAAATCGAGTCCTAGGA-TGTCAT
* * * * * * * *
62770 AGGGTCCACTTTTATGCTGAAGGTGGCTATCTAGGATAAGTTTATCCCATCTATAATCCTTTCTA
64 CGAGTCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTTA
* *
62835 AGTCCTTTAAAGGTATTGGGCACTTCT
129 AGTCCTTT-AGGGTATCGGGCACTTCT
* * *
62862 AAGTCGAACGTATCCTCTAAGGGTATTTTCATAATTTTTTTAAAATGGAGTCCTTGGATGTCATC
1 AAGTCGAAGGTATCCTCTAAGGGTATTTTCATAA-TTTTTTAAAATCGAGTCCTAGGATGTCATC
* ** * *
62927 GGGTTTGCTTTTATGCCGAAGATGGGTATCTAGGATAGGTTCATCCCATCTATAATCTTTTTTAA
65 GAGTCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTTAA
62992 GTCCTTTAGGGT-TGCCGGGCTACCTTC-
130 GTCCTTTAGGGTAT--CGGGC-A-CTTCT
* * * * * * * *
63019 ATGTTGGAGGTATACTCTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCA
1 AAGTCGAAGGTATCCTCTAAGGGTATTTTCATAATTTTTTAAAATCGAGTCCTAGGATGTCATCG
*** * * *
63084 AGTCCGCTTTTATGTTAAAAG-AGGTATCTAGGATAGGTTCATCCCATCTATAATCTTTTTTAAG
66 AGTCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAG
*
63148 TCCTTTAGGGTTATCGGGATACCTTC-
131 TCCTTTAGGG-TATCGGG-CA-CTTCT
* * * * * * * *
63174 ATGTCGAAGGTATACACT-AGAGGTATTTTCGTAATTTCTTAGAATTGAGTCCTAGGTTGTCATC
1 AAGTCGAAGGTATCCTCTAAG-GGTATTTTCATAATTTTTTAAAATCGAGTCCTAGGATGTCATC
* * * * * *
63238 GAGAT--ACTTTCATGCCAAAGGTAGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTCA
65 GAG-TCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTTA
* * *
63301 AGTCTTTTAGGGGGGTATCAGGTACTTCT
129 AGTCCTTTA---GGGTATCGGGCACTTCT
* * ** *
63330 ACGTCGAAGGTA-CCTCATAAGGGCATTTTCATAATTTTTCTAGGATCGAGTCCTAGGTTGTCA
1 AAGTCGAAGGTATCCTC-TAAGGGTATTTTCATAATTTTT-TAAAATCGAGTCCTAGGATGTCA
63393 CTCTTGCACC
Statistics
Matches: 560, Mismatches: 99, Indels: 51
0.79 0.14 0.07
Matches are distributed among these distances:
153 5 0.01
154 53 0.09
155 273 0.49
156 161 0.29
157 61 0.11
158 7 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (154 bp):
AAGTCGAAGGTATCCTCTAAGGGTATTTTCATAATTTTTTAAAATCGAGTCCTAGGATGTCATCG
AGTCCGCTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAG
TCCTTTAGGGTATCGGGCACTTCT
Found at i:63114 original size:311 final size:309
Alignment explanation
Indices: 62526--63393 Score: 830
Period size: 311 Copynumber: 2.8 Consensus size: 309
62516 TCATTTTAGT
* * * * * *
62526 GTCCATTAAGGTTA-CTGGGATACTTTCAAGTCGAAGGTATAC-CTTAGGGGTATTTTTATAATT
1 GTCCTTTAAGGTTATC-GGGACACCTTCAAGTCGAACGTATACAC-TAGAGGTATTTTCATAATT
* ** * * *
62589 T-TTCAAAATCGAGTTTTAGG-TTTCA-CCAGGATCGCTTTTATGTCGAAGGTGGGTATTTAGGA
64 TCTT-AAAATGGAGTCCTAGGATGTCATCGA-GAT-GCTTTTATGCCGAAGGTGGGTATTTAGGA
* * * *
62651 TAGGTTCATCCCATCTATAACCCCTTTTAAGTCCTTTAGGAGTATTAGGC-ACTTCTAAGTTAAA
126 TAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTAGG-GT-TCAGGCTACTTCTAAGTTGAA
* * * * * * * * *
62715 GGTATCCCTTAGAGGTATTTTCATAATTTTTTAGAACCAAGTCTTAGATTGTCA-GAGGGTCCAC
189 GGTATCTCTAAG-GGCATTTTCATAATTTTTTAGAATCGAGTCCTAGGTTGTCACCAGAGTCCAC
* * * *
62779 TTTTATGCTGAAGGTGGCTATCTAGGATAAGTTTATCCCATCTATAATCCTTTCTAA
253 TTTTATGCTAAAAGAGGCTATCTAGGATAAGTTCATCCCATCTATAATCCTTTCTAA
* * *
62836 GTCCTTTAAAGG-TATTGGG-CA-CTTCTAAGTCGAACGTATCCTCTA-AGGGTATTTTCATAAT
1 GTCCTTT-AAGGTTATCGGGACACCTTC-AAGTCGAACGTATACACTAGA-GGTATTTTCATAA-
* * * * * *
62897 TTTTTTAAAATGGAGTCCTTGGATGTCATCGGGTTTGCTTTTATGCCGAAGATGGGTATCTAGGA
62 TTTCTTAAAATGGAGTCCTAGGATGTCATCGAG-ATGCTTTTATGCCGAAGGTGGGTATTTAGGA
* * * *
62962 TAGGTTCATCCCATCTATAATCTTTTTTAAGTCCTTTAGGGTTGCCGGGCTACCTTC-ATGTTGG
126 TAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTAGGGTT--CAGGCTA-CTTCTAAGTTGA
* *
63026 AGGTATACTCTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCA-AGTCCG
188 AGGTAT-CTCTAAGGGCATTTTCATAATTTTTTAGAATCGAGTCCTAGGTTGTCACCAGAGTCCA
* * * *
63090 CTTTTATGTTAAAAGAGG-TATCTAGGATAGGTTCATCCCATCTATAATCTTTTTTAA
252 CTTTTATGCTAAAAGAGGCTATCTAGGATAAGTTCATCCCATCTATAATCCTTTCTAA
* * * * *
63147 GTCCTTTAGGGTTATCGGGATACCTTCATGTCGAAGGTATACACTAGAGGTATTTTCGTAATTTC
1 GTCCTTTAAGGTTATCGGGACACCTTCAAGTCGAACGTATACACTAGAGGTATTTTCATAATTTC
* * * * * * *
63212 TTAGAATTGAGTCCTAGGTTGTCATCGAGATACTTTCATGCCAAAGGTAGGTATTTAGGATAGGT
66 TTAAAATGGAGTCCTAGGATGTCATCGAGATGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGT
* * * *
63277 TCATCCCATCTATAATCCTTTTCAAGTCTTTTAGGGGGGTATCAGG-TACTTCTACGTCGAAGGT
131 TCATCCCATCTATAATCCTTTTTAAGTCCTTTA---GGGT-TCAGGCTACTTCTAAGTTGAAGGT
* *
63341 ACCTCATAAGGGCATTTTCATAATTTTTCTAGGATCGAGTCCTAGGTTGTCAC
192 ATCTC-TAAGGGCATTTTCATAATTTTT-TAGAATCGAGTCCTAGGTTGTCAC
63394 TCTTGCACCA
Statistics
Matches: 454, Mismatches: 77, Indels: 52
0.78 0.13 0.09
Matches are distributed among these distances:
308 3 0.01
309 29 0.06
310 98 0.22
311 185 0.41
312 119 0.26
313 19 0.04
314 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (309 bp):
GTCCTTTAAGGTTATCGGGACACCTTCAAGTCGAACGTATACACTAGAGGTATTTTCATAATTTC
TTAAAATGGAGTCCTAGGATGTCATCGAGATGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGT
TCATCCCATCTATAATCCTTTTTAAGTCCTTTAGGGTTCAGGCTACTTCTAAGTTGAAGGTATCT
CTAAGGGCATTTTCATAATTTTTTAGAATCGAGTCCTAGGTTGTCACCAGAGTCCACTTTTATGC
TAAAAGAGGCTATCTAGGATAAGTTCATCCCATCTATAATCCTTTCTAA
Found at i:66028 original size:19 final size:19
Alignment explanation
Indices: 66002--66040 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
65992 ATTCAATGAG
*
66002 ATGCTG-AACATATTAAAA
1 ATGCTGAAACATAATAAAA
66020 ATGCATGAAACATAATAAAA
1 ATGC-TGAAACATAATAAAA
66040 A
1 A
66041 AATGCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 2 0.11
20 12 0.67
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (19 bp):
ATGCTGAAACATAATAAAA
Found at i:66988 original size:20 final size:20
Alignment explanation
Indices: 66959--67033 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
66949 AAAAAGACAT
*
66959 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
66979 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
66999 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
67019 AATGTATCGATACAT
1 AATGTATCGATACAT
67034 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:67027 original size:40 final size:39
Alignment explanation
Indices: 66956--67033 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
66946 GGTAAAAAGA
* *
66956 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
66995 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
67034 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:70706 original size:11 final size:11
Alignment explanation
Indices: 70690--70721 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
70680 TCTTTTCAAC
70690 AACAAAAAAAA
1 AACAAAAAAAA
*
70701 AACAAAAAAAC
1 AACAAAAAAAA
70712 AACAAAAAAA
1 AACAAAAAAA
70722 TCTTGGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAAAAAAA
Found at i:72251 original size:62 final size:62
Alignment explanation
Indices: 71897--72528 Score: 648
Period size: 62 Copynumber: 10.1 Consensus size: 62
71887 GTGACATCCC
* * * * * * * *
71897 TTTTAAAAGTCCACACAAGTTGGTGGCACTCCTTTTTAGTCTTCAAATAGTAGGATGTCTTTTTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCA--CC-TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
71962 CTTTTTAGAAACCCACACAAGTTGGTGGCACACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTT
1 -TTTTTA-AAGCCCACACAAGTTGGTGG--CACCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTT
72027 CT
61 CT
* * * * * *
72029 TTTTTAAAGCCTACACAAGTTGGCGGCACCTTTTAGTCTTCAAAGAACATGAGGCCTTTTCCT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CT
* * * *
72092 TCTTTAGAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGCCTTTTCTT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTC-T
* * * * * *
72155 TTTTTAAAGCTCATACAAGTTGGTGGTACCTTTTAGTCTTTAAAGAGCAAGACGCCTTTTCT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCT
* * * * *
72217 TTTTTAAAGCCTACACAAGTTGGTGGCACTTTTTAGTCTTTAAAGAGCAGGATGCCTTTTC-
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCT
* ** ** *
72278 CTTTTAAAGCTTACATGAGTCGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTATC-
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCT
* * * *
72340 -TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAATAGCAGGTCACTTCTTTC-
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCT-TTTCT
* * *
72401 TTTTTAAAGCCCACACAAGCTAGTGGCACTTTTTAGTCCTCAAAGAGCTA-GACGCCTCTTTC-
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC-AGGACGCCT-TTTCT
* * * * * *
72463 TTTTTAAAGTCCATACAAGCTGATGGCACCTATTAGTCCTCAAAGAGCAAGACGCC-TTTCT
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCT
72524 TTTTT
1 TTTTT
72529 TTTCCTTTTC
Statistics
Matches: 485, Mismatches: 69, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
60 4 0.01
61 105 0.22
62 164 0.34
63 136 0.28
65 17 0.04
66 32 0.07
67 25 0.05
69 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (62 bp):
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:73293 original size:19 final size:20
Alignment explanation
Indices: 73266--73321 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
73256 TGTACCGATA
* *
73266 CATTATATCGATACATG-TT
1 CATTGTATCGATACATGCAT
73285 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATGCAT
*
73305 GATTGTATCGATACATG
1 CATTGTATCGATACATG
73322 AAACTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:73311 original size:20 final size:19
Alignment explanation
Indices: 73266--73322 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
73256 TGTACCGATA
* *
73266 CATTATATCGATACATGTT
1 CATTGTATCGATACATGAT
73285 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATG-AT
*
73305 GATTGTATCGATACATGA
1 CATTGTATCGATACATGA
73323 AACTGGTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:73375 original size:20 final size:19
Alignment explanation
Indices: 73350--73403 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
73340 CTACCACTGT
73350 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
73370 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATG-AGAA
73390 TTGTATCGATACAT
1 TTGTATCGATACAT
73404 TGTCCCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:75020 original size:15 final size:15
Alignment explanation
Indices: 75000--75029 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74990 AACCATCAAA
75000 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
75015 GATGATGATGATAAT
1 GATGATGAAGATAAT
75030 TGTTAGGATC
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:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:75344 original size:20 final size:20
Alignment explanation
Indices: 75321--75393 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
75311 ACAATTCAAA
75321 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
75341 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
75362 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
75382 GTATCGATACAT
1 GTATCGATACAT
75394 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:75365 original size:21 final size:21
Alignment explanation
Indices: 75339--75414 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
75329 ACATGTTGCA
75339 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
75360 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
75380 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
75401 TTGTATCGATACAT
1 ATGTATCGATACAT
75415 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:75372 original size:41 final size:41
Alignment explanation
Indices: 75321--75414 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
75311 ACAATTCAAA
*
75321 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
75362 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
75403 GTATCGATACAT
1 GTATCGATACAT
75415 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:75471 original size:13 final size:13
Alignment explanation
Indices: 75453--75478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75443 TACAGCAAGT
75453 ATGTATCGATACA
1 ATGTATCGATACA
75466 ATGTATCGATACA
1 ATGTATCGATACA
75479 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:77719 original size:13 final size:13
Alignment explanation
Indices: 77701--77726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77691 CAATTTTTGG
77701 TGTATCGATACAT
1 TGTATCGATACAT
77714 TGTATCGATACAT
1 TGTATCGATACAT
77727 ACTTGGTGTA
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:77738 original size:32 final size:33
Alignment explanation
Indices: 77681--77744 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
77671 TACAAGCCAA
**
77681 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
77714 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
77745 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:77751 original size:19 final size:18
Alignment explanation
Indices: 77681--77751 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
77671 TACAAGCCAA
77681 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
77701 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
77714 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
77733 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
77752 CTACTGCAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:80294 original size:13 final size:13
Alignment explanation
Indices: 80276--80301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80266 ATAATCACCC
80276 TGTATCGATACAA
1 TGTATCGATACAA
80289 TGTATCGATACAA
1 TGTATCGATACAA
80302 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:86491 original size:13 final size:13
Alignment explanation
Indices: 86473--86498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86463 CAATTTTTGG
86473 TGTATCGATACAT
1 TGTATCGATACAT
86486 TGTATCGATACAT
1 TGTATCGATACAT
86499 ACTTGGTGTA
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:93788 original size:20 final size:20
Alignment explanation
Indices: 93763--93818 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
93753 ACACATGTTC
93763 ATTGTATCGATACATGCACG
1 ATTGTATCGATACATGCACG
*
93783 ATTGTATCGATACAAGCACG
1 ATTGTATCGATACATGCACG
93803 ATTGTATCGATACATG
1 ATTGTATCGATACATG
93819 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (20 bp):
ATTGTATCGATACATGCACG
Found at i:95111 original size:20 final size:21
Alignment explanation
Indices: 95076--95124 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
95066 CAATTTATAT
*
95076 CGATACAAATAGTAAATGTAC
1 CGATACATATAGTAAATGTAC
*
95097 CGATACATA-AGTAAATGTAT
1 CGATACATATAGTAAATGTAC
95117 CGATACAT
1 CGATACAT
95125 GCTTGAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (21 bp):
CGATACATATAGTAAATGTAC
Found at i:97560 original size:13 final size:13
Alignment explanation
Indices: 97542--97567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97532 TACATAAAGT
97542 ATGTATCGATACA
1 ATGTATCGATACA
97555 ATGTATCGATACA
1 ATGTATCGATACA
97568 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:97567 original size:32 final size:33
Alignment explanation
Indices: 97524--97587 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
97514 TAGCCAAACT
* **
97524 TGTATCAATACATAAAGTA-TGTATCGATACAA
1 TGTATCAATACACAAAAAATTGTATCGATACAA
*
97556 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCAATACACAAAAAATTGTATCGATACA
97588 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCAATACACAAAAAATTGTATCGATACAA
Found at i:102218 original size:20 final size:19
Alignment explanation
Indices: 102172--102227 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
102162 AAAATCCTTA
**
102172 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
102192 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
102212 AATGTATCGATACATG
1 AATGTATCGATACATG
102228 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:102315 original size:13 final size:13
Alignment explanation
Indices: 102297--102322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102287 TACATAAAGT
102297 ATGTATCGATACA
1 ATGTATCGATACA
102310 ATGTATCGATACA
1 ATGTATCGATACA
102323 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:102320 original size:32 final size:33
Alignment explanation
Indices: 102279--102342 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
102269 TAGCCAAACT
* **
102279 TGTATCGATACATAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
102311 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
102343 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:103929 original size:22 final size:22
Alignment explanation
Indices: 103904--103950 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
103894 AACCATCCAT
103904 CATTTTTATGTATTTTTGTGTG
1 CATTTTTATGTATTTTTGTGTG
103926 CATTTTTATGTATTTTTGTGTG
1 CATTTTTATGTATTTTTGTGTG
103948 CAT
1 CAT
103951 AATAAAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.17, T:0.62
Consensus pattern (22 bp):
CATTTTTATGTATTTTTGTGTG
Found at i:112048 original size:155 final size:153
Alignment explanation
Indices: 111847--112378 Score: 527
Period size: 155 Copynumber: 3.4 Consensus size: 153
111837 CTAGTACCCC
* * * * * ***
111847 TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACTCACTTTTGGCATAAAA
1 TAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
* * * * *
111912 GTATCCCAATGACAACCTAGGACTCGGCTCTACAAAATTACGAAAATGCCTCTAGGATATACCTT
66 GTAACCCAATGACAACCTAGGACTCAGTTTTA-AAAATTACAAAAATGCCTCTAGG-TATACCTT
*
111977 TAATGTGAAGGTATCTCGATAATCT
129 TAATGTGAAGGTATCTCGATAACCT
*
112002 TAAAAGACTTAAAAAAGATTATAAATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
1 TAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
* * * * * * *
112067 ATGAAGCCAAGGACAGCCTAGGACTTAGTTTTAAAAATTAAAAAAATGCC-CTTAGGGTATATCT
66 GT-AACCCAATGACAACCTAGGACTCAGTTTTAAAAATTACAAAAATGCCTC-TA-GGTATACCT
* * * *
112131 TTGACGTAAAGGTATC-CTGATAACCC
128 TTAATGTGAAGGTATCTC-GATAACCT
** * *
112157 TAACGGACTT-AAAAAGATTATAGATGGGATGAACCTATCCTAGACACCCACCTTCAACATAAAA
1 TAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
* * * * *
112221 GCAGACCCAGTGATAACTTCA-GACTCAGTTTTATAAAATTACAAAAATG-CTCCTATGGTATAG
66 GTA-ACCCAATGACAACCT-AGGACTCAGTTTTA-AAAATTACAAAAATGCCT-CTA-GGTATAC
* * * *
112284 CTTCGACT-TGAAAGTATCTCAATAACCT
126 CTT-TAATGTGAAGGTATCTCGATAACCT
* * * *
112312 TAAAAGAATTAAAAAAGATTATAGATGGAATGAACCTATCCTAAATATCCACCTTCGACATAAAA
1 TAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
112377 GT
66 GT
112379 GGACTCGGTG
Statistics
Matches: 305, Mismatches: 60, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
153 1 0.00
154 74 0.24
155 154 0.50
156 76 0.25
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (153 bp):
TAAAAGACTTAAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
GTAACCCAATGACAACCTAGGACTCAGTTTTAAAAATTACAAAAATGCCTCTAGGTATACCTTTA
ATGTGAAGGTATCTCGATAACCT
Found at i:114712 original size:84 final size:83
Alignment explanation
Indices: 114610--115105 Score: 446
Period size: 84 Copynumber: 5.9 Consensus size: 83
114600 GGTTACTTGA
* * * * *
114610 GACTAAGCTGACAAGTAAATAAAAGATACAAAA-TTGACTGAGATTAAACTGACAAGTCAACAAA
1 GACTAAGCCGACAAGTAAACAAAGGATA-AAAAGTTGACCGAGATTGAACTGACAAGTCAACAAA
*
114674 GAATAAAATGATTTACTAGG
65 GAATAAAAAGATTTACTA-G
* * * *
114694 GACTAAGCCGATAGGTAAACAAAGGATAAAAAGGTTGA-CTAGGATTAAACTGACAAGTCAACAA
1 GACTAAGCCGACAAGTAAACAAAGGATAAAAA-GTTGACCGA-GATTGAACTGACAAGTCAACAA
* *
114758 A-AGATATAAAGATTTACCCAG
64 AGA-ATAAAAAGATTTA-CTAG
* * * * * * *
114779 TACTAAGTCAACAAG-AAACAAAGGATAGAAAGTTTAACCGAGATTGAACCGATAAGTCAACAAA
1 GACTAAGCCGACAAGTAAACAAAGGATAAAAAG-TTGACCGAGATTGAACTGACAAGTCAACAAA
* *
114843 GGATAAAAAGATTTACTTGG
65 GAATAAAAAGATTTAC-TAG
* * * * * *
114863 GACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACCAAGATTGAACTGACAAGTCAATAAAG
1 GACTAAGCCGACAAGTAAACAAAGGATAAAAAGTTGACCGAGATTGAACTGACAAGTCAACAAAG
* *
114928 GATAAAAAGATTTACCCAG
66 AATAAAAAGATTTA-CTAG
* * * *
114947 GACTAACCCGATAAGTAAACAAAGCATAAAAAAGTTGACCGGGATTGAACTGACAAGTCAACAAA
1 GACTAAGCCGACAAGTAAACAAAGGAT-AAAAAGTTGACCGAGATTGAACTGACAAGTCAACAAA
* * *
115012 GGATAAAAGGATTTACTCAA
65 GAATAAAAAGATTTACT-AG
* * * ** * *
115032 GACTAAG-CGATAGGTAAACAAAGGATATAAAAGTTAATTGAGAATGAACTGACAAGTTAACAAA
1 GACTAAGCCGACAAGTAAACAAAGGATA-AAAAGTTGACCGAGATTGAACTGACAAGTCAACAAA
115096 -AGATAAAAAG
65 GA-ATAAAAAG
115106 CTATACTTGA
Statistics
Matches: 334, Mismatches: 63, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
83 7 0.02
84 204 0.61
85 121 0.36
86 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (83 bp):
GACTAAGCCGACAAGTAAACAAAGGATAAAAAGTTGACCGAGATTGAACTGACAAGTCAACAAAG
AATAAAAAGATTTACTAG
Found at i:114831 original size:126 final size:126
Alignment explanation
Indices: 114656--115035 Score: 358
Period size: 126 Copynumber: 3.0 Consensus size: 126
114646 ACTGAGATTA
* * * * * * *
114656 AACTGACAAGTCAACAAAGAATAAAATGATTTA-CTAGGGACTAAGCCGATAGGTAAACAAAGGA
1 AACTAACAAGTAAACAAAGGATAAAAAGATTTACCCA-GGACTAACCCGATAAGTAAACAAAGGA
* * *
114720 TAAAAAGGTTGACTAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACCCAGTACT-
65 TAAAAAGGTTGACTGGGATTAAACTGACAAGTCAACAAAGGATA-AAAGATTTACCAAG-ACTG
* * * * *
114783 AAGTCAACAAG-AAACAAAGGATAGAAAG-TTTAACC-GAGATTGAA-CCGATAAGTCAACAAAG
1 AACT-AACAAGTAAACAAAGGATAAAAAGATTTACCCAG-GACT-AACCCGATAAGTAAACAAAG
* * * * * * * * *
114844 GATAAAAAGATTTACTTGGGACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACCAAGATTG
63 GATAAAAAGGTTGAC-TGGGATTAAACTGACAAGTCAACAAAGGATAAAAGATTTACCAAGACTG
* * * *
114909 AACTGACAAGTCAATAAAGGATAAAAAGATTTACCCAGGACTAACCCGATAAGTAAACAAAGCAT
1 AACTAACAAGTAAACAAAGGATAAAAAGATTTACCCAGGACTAACCCGATAAGTAAACAAAGGAT
* * *
114974 AAAAAAGTTGACCGGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCAAGACT
66 AAAAAGGTTGACTGGGATTAAACTGACAAGTCAACAAAGGATAAAA-GATTTAC-CAAGACT
115036 AAGCGATAGG
Statistics
Matches: 198, Mismatches: 43, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
125 8 0.04
126 93 0.47
127 85 0.43
128 12 0.06
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (126 bp):
AACTAACAAGTAAACAAAGGATAAAAAGATTTACCCAGGACTAACCCGATAAGTAAACAAAGGAT
AAAAAGGTTGACTGGGATTAAACTGACAAGTCAACAAAGGATAAAAGATTTACCAAGACTG
Found at i:114841 original size:42 final size:41
Alignment explanation
Indices: 114649--115105 Score: 197
Period size: 42 Copynumber: 10.9 Consensus size: 41
114639 AAAATTGACT
* * * * *
114649 GAGATTAAACTGACAAGTCAACAAAGAATAAAATGATTTACTA
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAG-TTTAC-C
* * * * * *
114692 GGGACT-AAGCCGATAGGTAAACAAAGGATAAAAAGGTTGA-C
1 GAGATTGAA-CCGACAAGTCAACAAAGGATAAAAA-GTTTACC
* * * * *
114733 TAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACC
1 GA-GATTGAACCGACAAGTCAACAAAGGATAAAAAG-TTTACC
* * * * * *
114776 CAGTACT-AAGTCAACAAG-AAACAAAGGATAGAAAGTTTAACC
1 GAG-ATTGAA-CCGACAAGTCAACAAAGGATAAAAAGTTT-ACC
* *
114818 GAGATTGAACCGATAAGTCAACAAAGGATAAAAAGATTTACTT
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAG-TTTAC-C
* * * * * * * *
114861 GGGACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACC
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAGTTTACC
* * *
114902 AAGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACC
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAG-TTTACC
* * * * * *
114944 CAGGACT-AACCCGATAAGTAAACAAAGCATAAAAAAGTTGACC
1 GA-GATTGAA-CCGACAAGTCAACAAAGGAT-AAAAAGTTTACC
* * *
114987 GGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTC
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAG-TTTAC-C
* * * * * * * **
115030 AAGACT-AAGCGATAGGTAAACAAAGGATATAAAAGTTAATT
1 GAGATTGAACCGACAAGTCAACAAAGGATA-AAAAGTTTACC
* * * *
115071 GAGAATGAACTGACAAGTTAACAAAAGATAAAAAG
1 GAGATTGAACCGACAAGTCAACAAAGGATAAAAAG
115106 CTATACTTGA
Statistics
Matches: 299, Mismatches: 93, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
41 51 0.17
42 141 0.47
43 100 0.33
44 7 0.02
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (41 bp):
GAGATTGAACCGACAAGTCAACAAAGGATAAAAAGTTTACC
Found at i:114883 original size:169 final size:169
Alignment explanation
Indices: 114649--115105 Score: 557
Period size: 169 Copynumber: 2.7 Consensus size: 169
114639 AAAATTGACT
* * *
114649 GAGATTAAACTGACAAGTCAACAAAGAATAAAATGATTTACTAGGGACTAAGCCGATAGGTAAAC
1 GAGATTGAACTGACAAGTCAACAAAGGATAAAAAGATTTACTAGGGACTAAG-CGATAGGTAAAC
* *
114714 AAAGGATAAAAAGGTTGACTAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACCCAG
65 AAAGGATAAAAAGGTTGACTAGGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCCAG
* ** * *
114779 TACTAAGTCAACAAG-AAACAAAGGAT-AGAAAGTTTAACC
130 GACTAACCCAACAAGTAAACAAAGCATAAAAAAG-TTAACC
* * * * *
114818 GAGATTGAACCGATAAGTCAACAAAGGATAAAAAGATTTACTTGGGACTAAACAGACAGGTAAAC
1 GAGATTGAACTGACAAGTCAACAAAGGATAAAAAGATTTACTAGGGACTAAGC-GATAGGTAAAC
* * * *
114883 AAAGGAT-AAAAGGTTGACCAAGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCCAG
65 AAAGGATAAAAAGGTTGACTAGGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCCAG
* * *
114947 GACTAACCCGATAAGTAAACAAAGCATAAAAAAGTTGACC
130 GACTAACCCAACAAGTAAACAAAGCATAAAAAAGTTAACC
* * *
114987 GGGATTGAACTGACAAGTCAACAAAGGATAAAAGGATTTACTCA-AGACTAAGCGATAGGTAAAC
1 GAGATTGAACTGACAAGTCAACAAAGGATAAAAAGATTTACT-AGGGACTAAGCGATAGGTAAAC
* * * *
115051 AAAGGATATAAAA-GTT-AATTGAGAATGAACTGACAAGTTAACAAAAGATAAAAAG
65 AAAGGATA-AAAAGGTTGACTAG-GATTGAACTGACAAGTCAACAAAAGATAAAAAG
115106 CTATACTTGA
Statistics
Matches: 243, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
168 80 0.33
169 154 0.63
170 9 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (169 bp):
GAGATTGAACTGACAAGTCAACAAAGGATAAAAAGATTTACTAGGGACTAAGCGATAGGTAAACA
AAGGATAAAAAGGTTGACTAGGATTGAACTGACAAGTCAACAAAAGATAAAAAGATTTACCCAGG
ACTAACCCAACAAGTAAACAAAGCATAAAAAAGTTAACC
Found at i:115053 original size:253 final size:253
Alignment explanation
Indices: 114650--115114 Score: 607
Period size: 253 Copynumber: 1.8 Consensus size: 253
114640 AAATTGACTG
* * * *
114650 AGATTAAACTGACAAGTCAACAAAGAATAAAATGATTTACTAGGGACTAAGCCGATAGGTAAACA
1 AGATTAAACTGACAAGTCAACAAAGAATAAAAAGATTTACCAGGGACTAACCCGATAAGTAAACA
* * * *
114715 AAGGATAAAAAGGTTGACTAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACCCAGT
66 AAGCATAAAAAAGTTGACCAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACCAAGT
* * * *
114780 ACTAAGTCAACAAGAAACAAAGGATA-GAAAGTTTAACCGAGATTGAACCGATAAGTCAACAAAG
131 ACTAAGTCAACAAGAAACAAAGGATATAAAAG-TTAACCGAGAATGAACCGACAAGTCAACAAAA
*
114844 GATAAAAAGATTTACTTGGGACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACCA
195 GATAAAAAGATATACTTGGGACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACCA
* * *
114903 AGATTGAACTGACAAGTCAATAAAGGATAAAAAGATTTACCCA-GGACTAACCCGATAAGTAAAC
1 AGATTAAACTGACAAGTCAACAAAGAATAAAAAGATTTA-CCAGGGACTAACCCGATAAGTAAAC
* * *
114967 AAAGCATAAAAAAGTTGACCGGGATTGAACTGACAAGTCAACAAAGGATA-AAAGGATTTACTCA
65 AAAGCATAAAAAAGTTGACCAGGATTAAACTGACAAGTCAACAAAAGATATAAA-GATTTAC-CA
* * * ** * *
115031 AG-ACTAAG-CGATAGGTAAACAAAGGATATAAAAGTTAATTGAGAATGAACTGACAAGTTAACA
128 AGTACTAAGTCAACAAG-AAACAAAGGATATAAAAGTTAACCGAGAATGAACCGACAAGTCAACA
*
115094 AAAGATAAAAAGCTATACTTG
192 AAAGATAAAAAGATATACTTG
115115 ATAAGGTTAA
Statistics
Matches: 180, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
252 7 0.04
253 164 0.91
254 9 0.05
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (253 bp):
AGATTAAACTGACAAGTCAACAAAGAATAAAAAGATTTACCAGGGACTAACCCGATAAGTAAACA
AAGCATAAAAAAGTTGACCAGGATTAAACTGACAAGTCAACAAAAGATATAAAGATTTACCAAGT
ACTAAGTCAACAAGAAACAAAGGATATAAAAGTTAACCGAGAATGAACCGACAAGTCAACAAAAG
ATAAAAAGATATACTTGGGACTAAACAGACAGGTAAACAAAGGATAAAAGGTTGACCA
Found at i:115434 original size:41 final size:41
Alignment explanation
Indices: 115386--115489 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
115376 TAAAAGGTAG
* * * *
115386 ACCAAGGCAAAACCGATAAAGCCAATAGGTTAGAAGGGTTG
1 ACCAAGGCAAAACCGATAAAGCCAACAGGTTAGAAAGATTA
* * ***
115427 GCTAAGGCAAAATTAATAAAGCCAACAGGTTAGAAAGATTA
1 ACCAAGGCAAAACCGATAAAGCCAACAGGTTAGAAAGATTA
*
115468 ACCAAGGCGAAACCGATAAAGC
1 ACCAAGGCAAAACCGATAAAGC
115490 TAACCAATGA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (41 bp):
ACCAAGGCAAAACCGATAAAGCCAACAGGTTAGAAAGATTA
Found at i:115527 original size:40 final size:40
Alignment explanation
Indices: 115476--115586 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
115466 TAACCAAGGC
* *
115476 GAAACCGATAAAGCTAACCAATGAAAAAGTT-AGCCAGGGT
1 GAAATCGATAAAGCTAACCAATTAAAAAGTTGA-CCAGGGT
* ** *
115516 GAAATCGATAAAGCCAA-CGGTTAGAAAGGTTGACCAGGGT
1 GAAATCGATAAAGCTAACCAATTA-AAAAGTTGACCAGGGT
115556 GAAATCGATAAAG-TCAACCAATT-AAAAGTTG
1 GAAATCGATAAAGCT-AACCAATTAAAAAGTTG
115587 GCTAGAAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
39 10 0.18
40 43 0.75
41 4 0.07
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (40 bp):
GAAATCGATAAAGCTAACCAATTAAAAAGTTGACCAGGGT
Found at i:115826 original size:81 final size:81
Alignment explanation
Indices: 115442--115899 Score: 418
Period size: 81 Copynumber: 5.8 Consensus size: 81
115432 GGCAAAATTA
* * * * * * * *
115442 ATAAAGCCAACAGGTTAGAAAGATTAACCAAGGCGAAACCGATAAAG-CTAACCAATGAAAAAGT
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTC-AACCAATTAAAAAGT
* * *
115506 TAGCCAGGGTGAAATCG
65 TGGCCAGGATGAAACCG
*
115523 ATAAAGCCAAC-GGTTAGAAAGGTTGACCAGGGTGAAA-TCGATAAAGTCAACCAATT-AAAAGT
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACT-GATAAAGTCAACCAATTAAAAAGT
* * * **
115585 TGGCTAGAAAGAAACAA
65 TGGCCAGGATGAAACCG
* * * * * * * * **
115602 ATAAAGCCAATGGGTTAAAATGGTTGACTAGGCTGAAACCGATAAAGCCAA-CGA-T--AGGGTT
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTCAACCAATTAAAAAGTT
* *
115663 GGCCAAGG-TAAAACTG
66 GGCC-AGGATGAAACCG
* * * * *
115679 ATAAAACCAACGGGATAGAAGGGTTGACCAAGGTGAAGC-CAT-AAGTCAACCAATTAAAAAGTT
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTCAACCAATTAAAAAGTT
115742 GGCCAGGATGAAACCG
66 GGCCAGGATGAAACCG
* * *
115758 ATAAAGCCAATGGGTTAGAAGGGTTGACTAGGGTGAAACTAATAAAGTCAACCAATTAAAAAGTT
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTCAACCAATTAAAAAGTT
*
115823 GGCCAGGGA-GAAATCG
66 GGCCA-GGATGAAACCG
* * * *
115839 ATAAAGCTAACGAGTTAGAAGGGTTGACCGGGGTGAAACTGATAAAGTTAACCAATTAAAA
1 ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTCAACCAATTAAAA
115900 GGTTATATCT
Statistics
Matches: 303, Mismatches: 61, Indels: 26
0.78 0.16 0.07
Matches are distributed among these distances:
75 6 0.02
76 4 0.01
77 42 0.14
78 6 0.02
79 74 0.24
80 70 0.23
81 98 0.32
82 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (81 bp):
ATAAAGCCAACGGGTTAGAAGGGTTGACCAGGGTGAAACTGATAAAGTCAACCAATTAAAAAGTT
GGCCAGGATGAAACCG
Found at i:115844 original size:40 final size:39
Alignment explanation
Indices: 115721--115899 Score: 101
Period size: 41 Copynumber: 4.4 Consensus size: 39
115711 GTGAAGCCAT
115721 AAGTCAACCAATTAAAAAGTTGGCCA-GGATGAAACCGATA
1 AAGTCAACCAATTAAAAAGTTGGCCAGGGA-GAAA-CGATA
* **** ** * * * *
115761 AAGCCAATGGGTTAGAAGGGTTGACTAGGGTGAAACTAATA
1 AAGTCAACCAATTA-AAAAGTTGGCCAGGGAGAAAC-GATA
115802 AAGTCAACCAATTAAAAAGTTGGCCAGGGAGAAATCGATA
1 AAGTCAACCAATTAAAAAGTTGGCCAGGGAGAAA-CGATA
* * ** * * *
115842 AAG-CTAACGAGTTAGAAGGGTTGACCGGGGTGAAACTGATA
1 AAGTC-AACCAATTA-AAAAGTTGGCCAGGGAGAAAC-GATA
*
115883 AAGTTAACCAATTAAAA
1 AAGTCAACCAATTAAAA
115900 GGTTATATCT
Statistics
Matches: 98, Mismatches: 33, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
39 1 0.01
40 41 0.42
41 54 0.55
42 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (39 bp):
AAGTCAACCAATTAAAAAGTTGGCCAGGGAGAAACGATA
Found at i:116108 original size:21 final size:21
Alignment explanation
Indices: 116065--116108 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
116055 CATGATTTGA
*
116065 TTCATTCTTCATATTTTATTT
1 TTCATTCTTCATATTTTACTT
*
116086 TTCATTCATTCAT-TTTTCCTT
1 TTCATTC-TTCATATTTTACTT
116107 TT
1 TT
116109 ATAGTATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (21 bp):
TTCATTCTTCATATTTTACTT
Found at i:116511 original size:92 final size:92
Alignment explanation
Indices: 116336--116561 Score: 251
Period size: 92 Copynumber: 2.5 Consensus size: 92
116326 TCACAACATG
*
116336 TGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATAAGTGGTCGAGATA
1 TGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATAAGTGGTAGAGATA
* *
116401 TCCTTGCCCCAAAGAAATCAGGCTTTA
66 TCCCTACCCCAAAGAAATCAGGCTTTA
* * * ** *
116428 TGATGCATCAATACCATCTAGTGGTTGGATA-AAGGGGATATGATTGGGAATGAGTGGTTAG-GA
1 TGATGCATCAATACCATCTAGTGGCT-AAAAGAAAAGGATATGATTGGGAATAAGTGG-TAGAGA
** * * *
116491 TATCCCTA-CCTTAAGAAAATCTGGTTTTG
64 TATCCCTACCCCAAAG-AAATCAGGCTTTA
* * *
116520 TGATGTATCAATACCATCCAGTGGCTAAAAGAAAAAGATATG
1 TGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATG
116562 CATTAATAAA
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
91 7 0.06
92 97 0.90
93 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (92 bp):
TGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATAAGTGGTAGAGATA
TCCCTACCCCAAAGAAATCAGGCTTTA
Found at i:116794 original size:44 final size:42
Alignment explanation
Indices: 116700--116851 Score: 112
Period size: 44 Copynumber: 3.5 Consensus size: 42
116690 CCAATGTTAT
*
116700 CATGAAATGATGCAAATGTAAGCATTAGTAAAGTGACAAATG
1 CATGAAATGATGCAAATGTAAGCATTACTAAAGTGACAAATG
* *
116742 CATGTGAAATGATGCAAATGCTAATGTCA-T-CTAAAGTGTAGATATG
1 CA--TGAAATGATGCAAATG-TAA-G-CATTACTAAAGTG-ACAAATG
* * * * * *
116788 CATGAAACGATGCAATTGAAAGCATAAATAAAG-GGCAAATGCG
1 CATGAAATGATGCAAATGTAAGCATTACTAAAGTGACAAAT--G
**
116831 CATGAGGTGATGCAAATGTAA
1 CATGAAATGATGCAAATGTAA
116852 ATGTTATGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
41 5 0.06
42 4 0.05
43 24 0.29
44 30 0.36
45 10 0.12
46 9 0.11
47 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (42 bp):
CATGAAATGATGCAAATGTAAGCATTACTAAAGTGACAAATG
Found at i:117953 original size:19 final size:17
Alignment explanation
Indices: 117926--117977 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
117916 ACTATCTACA
*
117926 CTTTATTTTTCATTTCAT
1 CTTTTTTTTTCATTTC-T
*
117944 GCTTTTTTTTTCTTTTCT
1 -CTTTTTTTTTCATTTCT
*
117962 CTTCTTTTTT-ATTTCT
1 CTTTTTTTTTCATTTCT
117978 TGTTTAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 1 0.03
19 14 0.48
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (17 bp):
CTTTTTTTTTCATTTCT
Found at i:118307 original size:10 final size:10
Alignment explanation
Indices: 118292--118317 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
118282 GATATTAATA
118292 AAAATAGAAT
1 AAAATAGAAT
118302 AAAATAGAAT
1 AAAATAGAAT
118312 AAAATA
1 AAAATA
118318 AGAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAATAGAAT
Found at i:118729 original size:13 final size:12
Alignment explanation
Indices: 118703--118742 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
118693 AACTGAGGTA
118703 CAATGAAGAAAG
1 CAATGAAGAAAG
118715 CAATGAAGCAAAG
1 CAATGAAG-AAAG
*
118728 CAATGAAAAAAG
1 CAATGAAGAAAG
118740 CAA
1 CAA
118743 ACGACAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.60, C:0.12, G:0.20, T:0.07
Consensus pattern (12 bp):
CAATGAAGAAAG
Found at i:120463 original size:163 final size:163
Alignment explanation
Indices: 120228--120523 Score: 400
Period size: 163 Copynumber: 1.8 Consensus size: 163
120218 TATTAACAGC
* * * * *
120228 AAAATGGTCTTTTCATGCCTACCCGAGTCATATTTTTATATTCCTATGGTTTTTCGTAGGGGTAT
1 AAAATGGTCTTTT-ATGCCTACCCGAGTAATATTTTCATATTCCTATGGTTTTCCGTAGGAGAAT
* *
120293 AAAAA-TTT-TAAATCCTTTCGTATCCCCTGGTTTTTTGTCGGGTACAAAACATAATTTTCGAAA
65 AAAAATTTTGTAAA-CCTTTCGTATCCCCTGG-TTTTCGTCGAGTACAAAACATAATTTTCGAAA
120356 TTTAAAAGCATTTGGCCTACCTAGATTGATATTAAA
128 TTTAAAAGCATTTGGCCTACCTAGATTGATATTAAA
** * **
120392 AAAATGGTCGTTTT-TGCCTATTCGAGTAATGTTTTCATATTTTTATGGTTTTCCGTAGGAGAAT
1 AAAATGGTC-TTTTATGCCTACCCGAGTAATATTTTCATATTCCTATGGTTTTCCGTAGGAGAAT
* * *
120456 GAAAATTTTGTAAACCTTTCGTATCCCCTGGTTTTCGTCGAGTACGAAACGTAATTTTCGAAATT
65 AAAAATTTTGTAAACCTTTCGTATCCCCTGGTTTTCGTCGAGTACAAAACATAATTTTCGAAATT
120521 TAA
130 TAA
120524 CAACTAACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
163 77 0.68
164 29 0.25
165 8 0.07
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (163 bp):
AAAATGGTCTTTTATGCCTACCCGAGTAATATTTTCATATTCCTATGGTTTTCCGTAGGAGAATA
AAAATTTTGTAAACCTTTCGTATCCCCTGGTTTTCGTCGAGTACAAAACATAATTTTCGAAATTT
AAAAGCATTTGGCCTACCTAGATTGATATTAAA
Found at i:129979 original size:20 final size:20
Alignment explanation
Indices: 129954--130004 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
129944 AAAAATCCAG
* *
129954 AATGTATTGATA-ATATGATA
1 AATGTATCGATATATAAG-TA
129974 AATGTATCGATATATAAGTA
1 AATGTATCGATATATAAGTA
129994 AATGTATCGAT
1 AATGTATCGAT
130005 TAATTCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (20 bp):
AATGTATCGATATATAAGTA
Found at i:131927 original size:21 final size:21
Alignment explanation
Indices: 131887--131927 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
131877 TTAAGTATAA
*
131887 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
131908 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
131928 AATCCAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:132081 original size:20 final size:20
Alignment explanation
Indices: 132033--132081 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
132023 AGATGTAAAG
*
132033 ATACATATTGCTTTGTATCA
1 ATACATGTTGCTTTGTATCA
132053 ATACATGTTGCTTTGTATCA
1 ATACATGTTGCTTTGTATCA
*
132073 ATACGTGTT
1 ATACATGTT
132082 CTTGGTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
ATACATGTTGCTTTGTATCA
Found at i:132434 original size:28 final size:28
Alignment explanation
Indices: 132368--132426 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
132358 AAGAACCAAC
132368 AAGAAACATCAAGAAATCAAATCATTCA
1 AAGAAACATCAAGAAATCAAATCATTCA
132396 AAGAAACATCAAGAAATCAAATCATTCA
1 AAGAAACATCAAGAAATCAAATCATTCA
132424 AAG
1 AAG
132427 TTATATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (28 bp):
AAGAAACATCAAGAAATCAAATCATTCA
Found at i:136593 original size:29 final size:29
Alignment explanation
Indices: 136551--136612 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
136541 TATACATGTG
136551 TTCATTATGCCATAAACGTGGTCACACAT
1 TTCATTATGCCATAAACGTGGTCACACAT
136580 TTCATTATGCCATAAACGTGGTCACACAT
1 TTCATTATGCCATAAACGTGGTCACACAT
136609 TTCA
1 TTCA
136613 CACATGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (29 bp):
TTCATTATGCCATAAACGTGGTCACACAT
Done.