Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 57 of 313
Found at i:19198635 original size:42 final size:42
Alignment explanation
Indices: 19198576--19198697 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
19198566 TTAGGGTTAC
19198576 TGAGATTACGTGTAAGACCATACCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATACCTGGGATATGGCATCGATA
* * * *
19198618 TGAGATTTCGTGAAAGACCATAGCC-AGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATA-CCTGGGATA-TGGCATCGATA
* * *
19198661 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATACCTGGGATATGGCAT
19198698 TACGGTACTG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATACCTGGGATATGGCATCGATA
Found at i:19203984 original size:22 final size:19
Alignment explanation
Indices: 19203967--19204003 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19203957 GAACCTAGTG
19203967 TCTATTAAAAATTTACCTA
1 TCTATTAAAAATTTACCTA
*
19203986 TCTGTTAAAAATTTACCT
1 TCTATTAAAAATTTACCT
19204004 GTTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (19 bp):
TCTATTAAAAATTTACCTA
Found at i:19204841 original size:21 final size:22
Alignment explanation
Indices: 19204815--19204857 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
19204805 TACCAAAGAT
19204815 AGCTTTTAGAACTAGGT-TGGA
1 AGCTTTTAGAACTAGGTATGGA
19204836 AGCTTTTAGAACTAGGTATGGA
1 AGCTTTTAGAACTAGGTATGGA
19204858 CATTATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
AGCTTTTAGAACTAGGTATGGA
Found at i:19209679 original size:28 final size:28
Alignment explanation
Indices: 19209622--19209684 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19209612 TGGGAAGTAG
* * *
19209622 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATACGAACGAGA
* *
19209650 TTGGGCCTGATGGGTCATGCGAACGAGA
1 TTGGGCCTGATGGGCCATACGAACGAGA
19209678 TTGGGCC
1 TTGGGCC
19209685 CTAAGGGGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATACGAACGAGA
Found at i:19210042 original size:27 final size:27
Alignment explanation
Indices: 19210023--19210314 Score: 250
Period size: 27 Copynumber: 10.8 Consensus size: 27
19210013 ATACTCCCGG
* *
19210023 TTTGTAAATTTACTGAAATACCCTCGG
1 TTTGTAAAATTACTGAAATACCCTCGA
* * *
19210050 TTTGCAAAATTATTGAAACACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCGA
*
19210077 TTTGTAAAATTACCT-AAATACCCTCAA
1 TTTGTAAAATTA-CTGAAATACCCTCGA
*
19210104 TTTGTAAAATTACCGAAATACCCTC-A
1 TTTGTAAAATTACTGAAATACCCTCGA
** * **
19210130 CTTTGTAAAATTACCAAAATA-CTTTTA
1 -TTTGTAAAATTACTGAAATACCCTCGA
* *
19210157 GTTTGCAAAATTACTGAAACACCCTCGA
1 -TTTGTAAAATTACTGAAATACCCTCGA
* * * *
19210185 TTTGTAAATTTA-TCGAAATACCTTTGT
1 TTTGTAAAATTACT-GAAATACCCTCGA
** *
19210212 TTTGTAAAATTACCAAAATACCCACGA
1 TTTGTAAAATTACTGAAATACCCTCGA
* *
19210239 TTTGTAAAATTACTAAAATATCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCGA
* * ** *
19210266 TTTTTAAAATTACCGAAGCACCCCCGAA
1 TTTGTAAAATTACTGAAATACCCTCG-A
*
19210294 TTTGTAAAATTATTGAAATAC
1 TTTGTAAAATTACTGAAATAC
19210315 TCTTGTAGTG
Statistics
Matches: 208, Mismatches: 49, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
26 5 0.02
27 182 0.88
28 21 0.10
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCTCGA
Found at i:19210191 original size:108 final size:108
Alignment explanation
Indices: 19210049--19210258 Score: 305
Period size: 108 Copynumber: 1.9 Consensus size: 108
19210039 AATACCCTCG
* *
19210049 GTTTGCAAAATTATTGAAACACCCTCGATTTGTAAAATTACCTAAATACCCTCAATTTGTAAAAT
1 GTTTGCAAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
* *
19210114 TACCGAAATACCCTC-ACTTTGTAAAATTACCAAAATACTTTTA
66 TACCAAAATACCCACGA-TTTGTAAAATTACCAAAATACTTTTA
* * * ***
19210157 GTTTGCAAAATTACTGAAACACCCTCGATTTGTAAATTTATCGAAATACCTTTGTTTTGTAAAAT
1 GTTTGCAAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
*
19210222 TACCAAAATACCCACGATTTGTAAAATTACTAAAATA
66 TACCAAAATACCCACGATTTGTAAAATTACCAAAATA
19210259 TCCTCGATTT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 89 0.99
109 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (108 bp):
GTTTGCAAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
TACCAAAATACCCACGATTTGTAAAATTACCAAAATACTTTTA
Found at i:19217871 original size:24 final size:24
Alignment explanation
Indices: 19217843--19217978 Score: 164
Period size: 24 Copynumber: 5.7 Consensus size: 24
19217833 GATTCAACTC
* *
19217843 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCAAACAAATA
* * **
19217867 CGCACACGTAGTGCCATACATGTA
1 CGCACACATAGTGCCAAACAAATA
*
19217891 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAAACAAATA
* *
19217915 CGAACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAAACAAATA
* *
19217939 CGCACACATAGTGCCATACCAATA
1 CGCACACATAGTGCCAAACAAATA
*
19217963 CGCGCACATAGTGCCA
1 CGCACACATAGTGCCA
19217979 CTCAAATCCG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 100 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCAAACAAATA
Found at i:19217985 original size:48 final size:48
Alignment explanation
Indices: 19217843--19217978 Score: 191
Period size: 48 Copynumber: 2.8 Consensus size: 48
19217833 GATTCAACTC
* * * * **
19217843 CGCACACATAGTGCCAAATAATTACGCACACGTAGTGCCATACATGTA
1 CGCACACATAGTGCCATACAAATACGCACACATAGTGCCATACAAATA
*
19217891 CGCACACATAGTGCCATACAAATACGAACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATACGCACACATAGTGCCATACAAATA
* *
19217939 CGCACACATAGTGCCATACCAATACGCGCACATAGTGCCA
1 CGCACACATAGTGCCATACAAATACGCACACATAGTGCCA
19217979 CTCAAATCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (48 bp):
CGCACACATAGTGCCATACAAATACGCACACATAGTGCCATACAAATA
Found at i:19220386 original size:28 final size:28
Alignment explanation
Indices: 19220346--19220420 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
19220336 AAGTAGTTGA
* *
19220346 GCCTGATTGGCCATATGAATATGATTGG
1 GCCTGATGGGCCATATGAATATGATTAG
*
19220374 GCCTGATGGGCCATATGAATGTGATTAG
1 GCCTGATGGGCCATATGAATATGATTAG
* *
19220402 GCCTGATGGGTCATGTGAA
1 GCCTGATGGGCCATATGAA
19220421 CGAGATTGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (28 bp):
GCCTGATGGGCCATATGAATATGATTAG
Found at i:19220937 original size:107 final size:107
Alignment explanation
Indices: 19220750--19220982 Score: 369
Period size: 107 Copynumber: 2.2 Consensus size: 107
19220740 TAATAAAGAG
* * *
19220750 AAATTACCGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCTTGGTTTGTAAAATTACTGAA
1 AAATTATCGAAATA-CCCTAGTTTGTAAAATTACCGAAATACCCTTGGTTTGCAAAATTACTGAA
* *
19220815 ACATCCTCGATTTGTAAAATTATCGAAATACGCTT-AATTTGTA
65 ACACCCTCGATTTGTAAAATTACCGAAATAC-CTTCAATTTGTA
* *
19220858 AAATTATCGAAATACCCTAGTTTGTAAAATTATCGAAATACCCTTGGTTTGCAAAATTATTGAAA
1 AAATTATCGAAATACCCTAGTTTGTAAAATTACCGAAATACCCTTGGTTTGCAAAATTACTGAAA
*
19220923 CACCCTCGATTTGTAAAATTACCGAAATACCTTCGATTTGTA
66 CACCCTCGATTTGTAAAATTACCGAAATACCTTCAATTTGTA
19220965 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
19220983 CGATTAAATT
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
106 3 0.03
107 100 0.86
108 13 0.11
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (107 bp):
AAATTATCGAAATACCCTAGTTTGTAAAATTACCGAAATACCCTTGGTTTGCAAAATTACTGAAA
CACCCTCGATTTGTAAAATTACCGAAATACCTTCAATTTGTA
Found at i:19220985 original size:27 final size:27
Alignment explanation
Indices: 19220750--19221021 Score: 279
Period size: 27 Copynumber: 10.2 Consensus size: 27
19220740 TAATAAAGAG
* *
19220750 AAATTACCGAAATACCC-CCAGTTTGTA
1 AAATTATCGAAATACCCTCGA-TTTGTA
* * *
19220777 AAATTACCGAAATACCCTTGGTTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
19220804 AAATTA-CTGAAACATCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* **
19220831 AAATTATCGAAATACGCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
19220858 AAATTATCGAAATACCCTAG-TTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
19220884 AAATTATCGAAATACCCTTGGTTTGCA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
19220911 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
19220938 AAATTACCGAAATACCTTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
19220965 AAATTATCGAAATACCCTCGA--T-T-
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
19220988 AAATTATTGAAACACCTCCCGATTTGTA
1 AAATTATCGAAATACC-CTCGATTTGTA
19221016 AAATTA
1 AAATTA
19221022 CTAAAATACT
Statistics
Matches: 205, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
23 14 0.07
24 5 0.02
25 1 0.00
26 27 0.13
27 151 0.74
28 7 0.03
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:19221010 original size:24 final size:23
Alignment explanation
Indices: 19220965--19221011 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19220955 TCGATTTGTA
* *
19220965 AAATTATCGAAATACCCTCGATT
1 AAATTATCGAAACACCCCCGATT
*
19220988 AAATTATTGAAACACCTCCCGATT
1 AAATTATCGAAACACC-CCCGATT
19221012 TGTAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATTATCGAAACACCCCCGATT
Found at i:19221045 original size:78 final size:79
Alignment explanation
Indices: 19220851--19221046 Score: 195
Period size: 78 Copynumber: 2.5 Consensus size: 79
19220841 AATACGCTTA
* * * * * * * *
19220851 ATTTGTAAAATTATCGAAATACCCTAG-TTTGTAAAATTATCGAAATACCCTTGGTTTGCAAAAT
1 ATTTGTAAAATTACCAAAATACCTTCGATGTATAAAATTATCGAAATACCCTTCGATT--AAAAT
*
19220915 TATTGAAACACCCTCG
64 TATTGAAACACCCCCG
* * *
19220931 ATTTGTAAAATTACCGAAATACCTTCGATTTGTAAAATTATCGAAATACCC-TCGATT-AAATTA
1 ATTTGTAAAATTACCAAAATACCTTCGATGTATAAAATTATCGAAATACCCTTCGATTAAAATTA
19220994 TTGAAACACCTCCCG
66 TTGAAACACC-CCCG
*
19221009 ATTTGTAAAATTACTAAAATACTCTT-G-TAGTATAAAAT
1 ATTTGTAAAATTACCAAAATAC-CTTCGAT-GTATAAAAT
19221047 GACTGAATAC
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
77 17 0.17
78 31 0.30
79 3 0.03
80 28 0.27
81 23 0.23
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (79 bp):
ATTTGTAAAATTACCAAAATACCTTCGATGTATAAAATTATCGAAATACCCTTCGATTAAAATTA
TTGAAACACCCCCG
Found at i:19225946 original size:15 final size:15
Alignment explanation
Indices: 19225926--19225977 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
19225916 AAACACTTGG
19225926 GTGTGTGTCTAGGCC
1 GTGTGTGTCTAGGCC
* *
19225941 GTGTGTGACACACGG--
1 GTGTGTGTC-TA-GGCC
19225956 GTGTGTGTCTAGGCC
1 GTGTGTGTCTAGGCC
19225971 GTGTGTG
1 GTGTGTG
19225978 ACACACGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 2 0.07
14 1 0.03
15 23 0.79
16 1 0.03
17 2 0.07
ACGTcount: A:0.10, C:0.17, G:0.42, T:0.31
Consensus pattern (15 bp):
GTGTGTGTCTAGGCC
Found at i:19225960 original size:30 final size:30
Alignment explanation
Indices: 19225924--19225985 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
19225914 ATAAACACTT
19225924 GGGTGTGTGTCTAGGCCGTGTGTGACACAC
1 GGGTGTGTGTCTAGGCCGTGTGTGACACAC
19225954 GGGTGTGTGTCTAGGCCGTGTGTGACACAC
1 GGGTGTGTGTCTAGGCCGTGTGTGACACAC
19225984 GG
1 GG
19225986 TTTCCTCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.42, T:0.26
Consensus pattern (30 bp):
GGGTGTGTGTCTAGGCCGTGTGTGACACAC
Found at i:19228450 original size:13 final size:13
Alignment explanation
Indices: 19228428--19228460 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19228418 AAGGGTTTGT
19228428 TTAT-TAAACTAA
1 TTATCTAAACTAA
19228440 TTATCTAAACTAA
1 TTATCTAAACTAA
*
19228453 TTAACTAA
1 TTATCTAA
19228461 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:19231990 original size:27 final size:28
Alignment explanation
Indices: 19231953--19232062 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
19231943 AACATGGCTG
* *
19231953 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
19231979 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
19232007 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
19232035 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
19232062 C
1 C
19232063 TAGAACACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.07
27 29 0.39
28 41 0.55
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:19232052 original size:55 final size:55
Alignment explanation
Indices: 19231953--19232067 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
19231943 AACATGGCTG
* *
19231953 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
* *
19232007 CCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
*
19232062 CTAGAA
1 CCAGAA
19232068 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 4 0.07
55 32 0.59
56 18 0.33
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
Found at i:19235632 original size:17 final size:17
Alignment explanation
Indices: 19235610--19235642 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19235600 GCTTTTATGA
19235610 GAAACCCTTATAGGGAT
1 GAAACCCTTATAGGGAT
*
19235627 GAAACCTTTATAGGGA
1 GAAACCCTTATAGGGA
19235643 CTAATTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (17 bp):
GAAACCCTTATAGGGAT
Found at i:19237987 original size:33 final size:33
Alignment explanation
Indices: 19237944--19238013 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
19237934 ACATGTTATC
* *
19237944 ACATATTGATGCCACTGTCCCAAG-CAAGGTCTT
1 ACATAATGATGCCAATGT-CCAAGACAAGGTCTT
* *
19237977 ACATAATGATGCCAATGTCCTAGACATGGTCTT
1 ACATAATGATGCCAATGTCCAAGACAAGGTCTT
19238010 ACAT
1 ACAT
19238014 GCAATCTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (33 bp):
ACATAATGATGCCAATGTCCAAGACAAGGTCTT
Found at i:19240986 original size:48 final size:46
Alignment explanation
Indices: 19240881--19241001 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
19240871 GTGGATGTGT
* ** *
19240881 GCTAGTGTAAGACATGTTTGGGACATGGATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGGATCAGCCACAAGACGAGA
*
19240927 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATTAAGACGAGA
1 GCTAGTGTAAGA-CATGTTTGGGACATGG-ATCAGCCA-CAAGACGAGA
*
19240975 GCTAGTGTAAGACATGTCTGGGACATG
1 GCTAGTGTAAGACATGTTTGGGACATG
19241002 CATTGGCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 12 0.18
47 32 0.48
48 22 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGGGACATGGATCAGCCACAAGACGAGA
Found at i:19241026 original size:48 final size:46
Alignment explanation
Indices: 19240881--19241057 Score: 162
Period size: 48 Copynumber: 3.7 Consensus size: 46
19240871 GTGGATGTGT
* *
19240881 GCTAGTGTAAGACATGTTTGGGACATGGATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCTA-TATGAGA
* * * *
19240927 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT-TAAGACGAGA
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCT-ATATGAGA
* *
19240975 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGTGATATGCA-A
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTC-T-ATATG-AGA
***
19241023 GCTAGTGTAAGACCCATTTGGGACATGCCATCGGC
1 GCTAGTGTAAGACATGTTTGGGACATG-CATCGGC
19241058 TTAAAATGTG
Statistics
Matches: 105, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
46 19 0.18
47 27 0.26
48 51 0.49
49 8 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCTATATGAGA
Found at i:19248242 original size:27 final size:28
Alignment explanation
Indices: 19248218--19248382 Score: 204
Period size: 27 Copynumber: 6.1 Consensus size: 28
19248208 TACCCTACAG
*
19248218 GGGTATTTCGATAATTTTAC-ACTACA-A
1 GGGTATTTCGATAATTTTACAAAT-CAGA
* *
19248245 -GGTATTTCGGTAATTTTACAAAT-TGA
1 GGGTATTTCGATAATTTTACAAATCAGA
19248271 GGGTATTTC-AGTAATTTTACAAATC-GA
1 GGGTATTTCGA-TAATTTTACAAATCAGA
*
19248298 GGGTATTTCGGTAATTTTACAAATC-GA
1 GGGTATTTCGATAATTTTACAAATCAGA
19248325 GGGTATTTCGATAATTTTACAAATCA-A
1 GGGTATTTCGATAATTTTACAAATCAGA
*
19248352 GGGTATTTCGGTAATTTTACAAATC-GA
1 GGGTATTTCGATAATTTTACAAATCAGA
19248379 GGGT
1 GGGT
19248383 CTTTTAGTAA
Statistics
Matches: 123, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 19 0.15
27 104 0.85
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (28 bp):
GGGTATTTCGATAATTTTACAAATCAGA
Found at i:19248317 original size:54 final size:54
Alignment explanation
Indices: 19248218--19248395 Score: 256
Period size: 54 Copynumber: 3.3 Consensus size: 54
19248208 TACCCTACAG
* *
19248218 GGGTATTTC-GATAATTTTAC-ACTACAA-GGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCAG-TAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACAAATCGA
*
19248271 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
19248325 GGGTATTTC-GATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
* *
19248379 GGGTCTTTTAGTAATTT
1 GGGTATTTCAGTAATTT
19248396 CTCTTTATTA
Statistics
Matches: 114, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
53 21 0.18
54 92 0.81
55 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:19248355 original size:81 final size:80
Alignment explanation
Indices: 19248218--19248382 Score: 242
Period size: 81 Copynumber: 2.0 Consensus size: 80
19248208 TACCCTACAG
* * **
19248218 GGGTATTTCGATAATTTTACACTACAAGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCAGT
1 GGGTATTTCGATAATTTTACAATACAAGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGT
19248283 AATTTTACAAATCGA
66 AATTTTACAAATCGA
* * *
19248298 GGGTATTTCGGTAATTTTACAA-ATCGAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCG
1 GGGTATTTCGATAATTTTACAATA-C-AAGGTATTTCGATAATTTTACAAATCAAGGGTATTTCA
19248362 GTAATTTTACAAATCGA
64 GTAATTTTACAAATCGA
19248379 GGGT
1 GGGT
19248383 CTTTTAGTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
79 1 0.01
80 21 0.28
81 54 0.71
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (80 bp):
GGGTATTTCGATAATTTTACAATACAAGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGT
AATTTTACAAATCGA
Found at i:19248392 original size:27 final size:27
Alignment explanation
Indices: 19248245--19248395 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
19248235 TACACTACAA
* *
19248245 GGTATTTCGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
19248272 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
19248299 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
19248326 GGTATTTC-GATAATTTTACAAATCAAG
1 GGTATTTCAG-TAATTTTACAAATCGAG
*
19248353 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
19248380 GGTCTTTTAGTAATTT
1 GGTATTTCAGTAATTT
19248396 CTCTTTATTA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:19248774 original size:28 final size:28
Alignment explanation
Indices: 19248694--19248774 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 28
19248684 ATCCACACTT
* * * *
19248694 ATTCATTTGGCCCCTTTAGGCTCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
* * * * *
19248723 GTTCACATGGCGCATCAGGTCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
19248751 ATTCATATGGCCCATTAGGCCCAA
1 ATTCATATGGCCCATTAGGCCCAA
19248775 CTACTTTCCA
Statistics
Matches: 38, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
28 31 0.82
29 7 0.18
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:19253287 original size:47 final size:47
Alignment explanation
Indices: 19253218--19253486 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 47
19253208 AATGTTGATA
* * *
19253218 CCATGTCCCAAACATGTTCTTACACTGGCTCATCCATCAAGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
* * *
19253265 CCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCAAGGTCGACG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA-GTCGATG
* * *
19253314 CCATG-CCCTAGACACGGTCTTACACTAGCTC-TCACAT-ATCCGTGCCGATG
1 CCATGTCCC-AGACATGGTCTTACACTGGCTCATC-CATCA--AGT--CGATG
* * * *
19253364 CCATGTCCCACG-CATGGTCTTACACTGACACAT-C-TCGTAGCCGATG
1 CCATGTCCCA-GACATGGTCTTACACTGGCTCATCCATC-AAGTCGATG
*
19253410 -CATGTCCCAGACAT-GTCTTACACTAGCTC-T-CATCTCAA-TACTGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TCAAGT-C-GATG
*
19253456 CCATGTCCCAAACATGGTCTTACACTGGCTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTC
19253487 TCAAATAACC
Statistics
Matches: 174, Mismatches: 26, Indels: 43
0.72 0.11 0.18
Matches are distributed among these distances:
43 2 0.01
44 13 0.07
45 14 0.08
46 14 0.08
47 41 0.24
48 29 0.17
49 31 0.18
50 25 0.14
51 5 0.03
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
Found at i:19253444 original size:46 final size:48
Alignment explanation
Indices: 19253262--19253489 Score: 179
Period size: 50 Copynumber: 4.8 Consensus size: 48
19253252 CATCAAGTCA
* ** * *
19253262 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATC-AAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATCTCGTA-GCCG
* * *
19253311 ACGCCATG-CCCTAGACACGGTCTTACACTAGCTCTCACATATCCGT-GCCG
1 ATGCCATGTCCC-AGACATGGTCTTACACTAGCTCT--CATCT-CGTAGCCG
* *
19253361 ATGCCATGTCCCACG-CATGGTCTTACACT-G-ACACATCTCGTAGCCG
1 ATGCCATGTCCCA-GACATGGTCTTACACTAGCTCTCATCTCGTAGCCG
* *
19253407 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATA-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-GTAGCCG
* *
19253453 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
19253490 AATAACCCGA
Statistics
Matches: 147, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 23 0.16
47 15 0.10
48 21 0.14
49 27 0.18
50 28 0.19
51 6 0.04
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTAGCCG
Found at i:19255479 original size:27 final size:28
Alignment explanation
Indices: 19255367--19255492 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
19255357 CATGAGATTG
* * * *
19255367 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
* *
19255396 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19255424 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19255452 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19255479 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19255493 GAATTAATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.27
28 47 0.53
29 17 0.19
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19255489 original size:55 final size:57
Alignment explanation
Indices: 19255367--19255492 Score: 184
Period size: 55 Copynumber: 2.2 Consensus size: 57
19255357 CATGAGATTG
* * *
19255367 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
* *
19255424 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
*
19255479 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19255493 GAATTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGCTTGATTATATA
Found at i:19255503 original size:27 final size:27
Alignment explanation
Indices: 19255395--19255505 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
19255385 TAAATTGTAC
* * *
19255395 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGAATATAT
* *
19255423 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGAATATAT
* *
19255451 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGAATATAT
*
19255478 AGCACTGAGTGTGCGGAATT-AATATAT
1 AGCACTAAGTGTGC-GAATTGAATATAT
19255505 A
1 A
19255506 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGAATATAT
Found at i:19263546 original size:27 final size:27
Alignment explanation
Indices: 19263507--19263662 Score: 170
Period size: 27 Copynumber: 5.7 Consensus size: 27
19263497 TAAATTGTAC
*
19263507 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
19263534 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
19263560 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
19263588 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
19263616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19263643 AGCACTGAGTGTGCGGAATT
1 AGCACTAAGTGTGC-GAATT
19263663 AATATATACT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 80 0.75
28 27 0.25
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:19263621 original size:82 final size:82
Alignment explanation
Indices: 19263508--19263662 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 82
19263498 AAATTGTACA
*
19263508 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
19263572 TGC-GAATTGACCATGCG
65 TGCGGAATTGACCATGCG
** * *
19263589 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
19263654 TGCGGAATT
65 TGCGGAATT
19263663 AATATATACT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 17 0.26
82 44 0.67
83 5 0.08
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGGAATTGACCATGCG
Found at i:19263648 original size:55 final size:55
Alignment explanation
Indices: 19263479--19263657 Score: 184
Period size: 55 Copynumber: 3.3 Consensus size: 55
19263469 CATGAGATTG
* * * *
19263479 GCACTAAGTGTGCGGGTTTAAAT-TGTACAGCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAGTTTGAATATGT--AGCACTAAGTGTGCGAATTGACTATGTA
** * **
19263535 GCACTAAGTGTGCGA-AATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTTGAATATGTA-GCACTAAGTGTGCGAATTGACTATGTA
* * * *
19263589 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGTA
*
19263644 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19263658 GAATTAATAT
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 38 0.38
55 45 0.45
56 17 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAATTGACTATGTA
Found at i:19268163 original size:41 final size:41
Alignment explanation
Indices: 19267992--19268151 Score: 168
Period size: 41 Copynumber: 3.9 Consensus size: 41
19267982 GGGTCTAAAT
*
19267992 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
19268033 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * *
19268073 CC-AGACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
19268114 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
19268152 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
39 6 0.06
40 32 0.32
41 55 0.56
42 3 0.03
43 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:19276139 original size:15 final size:15
Alignment explanation
Indices: 19276116--19276157 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
19276106 GGATATTTTC
*
19276116 TTCTGGATTTCTTTA
1 TTCTGGATTTCTATA
19276131 TAT-TGGATTTCTATA
1 T-TCTGGATTTCTATA
19276146 TTCTGGATTTCT
1 TTCTGGATTTCT
19276158 CCGTTATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (15 bp):
TTCTGGATTTCTATA
Found at i:19284175 original size:40 final size:40
Alignment explanation
Indices: 19284120--19284199 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
19284110 CGTAAGATAG
*
19284120 GGGGAGAAGTGAAACTTCCTGTATGATAAATTCCTCGAAC
1 GGGGAGAAGTGAAACTTCCTATATGATAAATTCCTCGAAC
*
19284160 GGGGAGAAGTGAAACTTCCTATATGATGAATTCCTCGAAC
1 GGGGAGAAGTGAAACTTCCTATATGATAAATTCCTCGAAC
19284200 TAGAGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (40 bp):
GGGGAGAAGTGAAACTTCCTATATGATAAATTCCTCGAAC
Found at i:19292385 original size:25 final size:25
Alignment explanation
Indices: 19292357--19292453 Score: 140
Period size: 25 Copynumber: 3.9 Consensus size: 25
19292347 CTCTTTTAAT
* *
19292357 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTAGGTA
*
19292382 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTAGGTA
19292407 AACTGGGGCAAAGCCCTTTTAGGTA
1 AACTGGGGCAAAGCCCTTTTAGGTA
* * *
19292432 AACTAGGGTATAGCCCTTTTAG
1 AACTGGGGCAAAGCCCTTTTAG
19292454 CACTTCCCCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTAGGTA
Found at i:19292387 original size:50 final size:50
Alignment explanation
Indices: 19292344--19292451 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
19292334 CTGGAGGCCT
*
19292344 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTAGATAAACTGGGGCAA
** * * * *
19292393 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTAGGTAAACTAGGGTAT
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTAGATAAACTGGGGCAA
19292443 AGCCCTTTT
1 AGCCCTTTT
19292452 AGCACTTCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 40 0.80
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTAGATAAACTGGGGCAA
Found at i:19292684 original size:27 final size:27
Alignment explanation
Indices: 19292654--19292897 Score: 317
Period size: 27 Copynumber: 9.0 Consensus size: 27
19292644 AGGGCAAAAT
* * * *
19292654 GGTAATTATACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
19292681 GGTAATTCTACCTTACTGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
19292708 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19292735 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19292762 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
19292789 GGTAGTTCTACCCTACAAGGTTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19292816 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
19292843 GGTAATTCTACTGTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
19292870 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
19292897 G
1 G
19292898 ATATTTTACA
Statistics
Matches: 183, Mismatches: 34, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:19292968 original size:27 final size:27
Alignment explanation
Indices: 19292886--19293039 Score: 161
Period size: 27 Copynumber: 5.8 Consensus size: 27
19292876 TCTACCCTAC
* *
19292886 AGGGGTATTTCGAT-ATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * * * *
19292911 CAAGAGTATTTTGATAAGTTCATAAATT
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
19292939 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
19292966 AGGGGTGTTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
19292993 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
19293020 AGGGGTATTTTGGT-ATTTTA
1 AGGGGTATTTTGGTAATTTTA
19293040 GTAATTTTGT
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.16
27 88 0.83
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:19293209 original size:27 final size:27
Alignment explanation
Indices: 19293040--19293207 Score: 239
Period size: 27 Copynumber: 6.2 Consensus size: 27
19293030 TGGTATTTTA
* *
19293040 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19293067 GTAATTCTATAAATTC-AGGGTAAAACG
1 GTAATTCTGTAAA-TCGAGGGTAAAACG
* *
19293094 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19293121 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19293148 GTAATTCTCTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19293175 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
19293202 GTAATT
1 GTAATT
19293208 TTACAAATTG
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19293221 original size:81 final size:81
Alignment explanation
Indices: 19293039--19293209 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
19293029 TTGGTATTTT
19293039 AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTCAGGGTAAAACGGTAATTCTAT
1 AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTCAGGGTAAAACGGTAATTCTAT
*
19293104 AAATTGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * *
19293120 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTCTAAA-TCGAGGGTAAAACGGTAATTTTG
1 AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTC-AGGGTAAAACGGTAATTCTA
19293184 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
19293201 AGTAATTTT
1 AGTAATTTT
19293210 ACAAATTGAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.02
81 79 0.98
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTCAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:19295596 original size:24 final size:25
Alignment explanation
Indices: 19295571--19295664 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
19295561 CTCTTTTAAT
19295571 AACTGGGGCAAAGCCCTTATT-GATA
1 AACTGGGGCAAAGCCCTT-TTCGATA
19295596 AACTGGGGCAAAGCCCTTTTCG-TA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
19295620 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
19295645 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19295665 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
24 25 0.39
25 39 0.61
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:19295625 original size:49 final size:49
Alignment explanation
Indices: 19295571--19295664 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
19295561 CTCTTTTAAT
*
19295571 AACTGGGGCAAAGCCCTTATT-GATAAACTGGGGCAAAGCCCTTTTCGTA
1 AACTGGGGCAAAACCCTT-TTCGATAAACTGGGGCAAAGCCCTTTTCGTA
* *
19295620 AACTGGGGCAAAACCCTTTTCGGTAAACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAACCCTTTTCGATAAACTGGGGCAAAGCCCTTTT
19295665 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (49 bp):
AACTGGGGCAAAACCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGTA
Found at i:19295896 original size:27 final size:27
Alignment explanation
Indices: 19295866--19296108 Score: 294
Period size: 27 Copynumber: 9.0 Consensus size: 27
19295856 GGGGCAAAAT
* * * *
19295866 GGTAATTATACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
19295893 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
19295920 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
19295947 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
19295974 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
19296001 GATAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
19296028 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
19296055 GGTAATTCTACCCTTTAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
19296082 GGT-ATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
19296108 G
1 G
19296109 ATATTTTACA
Statistics
Matches: 188, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
26 25 0.13
27 160 0.85
28 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:19296125 original size:26 final size:26
Alignment explanation
Indices: 19296096--19296225 Score: 129
Period size: 27 Copynumber: 4.8 Consensus size: 26
19296086 TTCTACCCTA
*
19296096 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTT-GATAATTTTACAAAC
* *
19296122 CAGGGTTATTTTAGA-AATTTTACAAGC
1 CAGGGGTA-TTT-GATAATTTTACAAAC
*
19296149 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTA-TTTGATAATTTTACAAAC
* *
19296176 TAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTGA-TAATTTTACAAAC
*
19296203 CAGGGGTATTTTGGTAATTTTAC
1 CAGGGGTA-TTTGATAATTTTAC
19296226 CGATCGAGGA
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.13
27 72 0.84
28 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
CAGGGGTATTTGATAATTTTACAAAC
Found at i:19296152 original size:27 final size:27
Alignment explanation
Indices: 19296111--19296277 Score: 183
Period size: 27 Copynumber: 6.2 Consensus size: 27
19296101 GTATTTCGAT
* * *
19296111 ATTTTACAAATCAGGGTTATTTTAGAA
1 ATTTTACAAACCAGGGGTATTTTAGTA
* *
19296138 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTAGTA
*
19296165 ATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTAGTA
*
19296192 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTAGTA
** * * *
19296219 ATTTTACCGATC-GAGGATATTTTGGTA
1 ATTTTACAAACCAG-GGGTATTTTAGTA
** *
19296246 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTAGTA
19296273 ATTTT
1 ATTTT
19296278 GTAAATCGAG
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.99
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACAAACCAGGGGTATTTTAGTA
Found at i:19296207 original size:81 final size:81
Alignment explanation
Indices: 19296111--19296277 Score: 210
Period size: 81 Copynumber: 2.1 Consensus size: 81
19296101 GTATTTCGAT
* * *
19296111 ATTTTACAAATCAGGGTTATTTTAGAAATTTTA-CAAGCCAGGGGTATTTTGGTAATTTTACAAA
1 ATTTTACAAACCAGGGGTATTTTAGAAATTTTACCAAGCCA-GGATATTTTGGTAATTTTACAAA
* *
19296175 CTAGGGGTATTTTAGTA
65 CCAAGGGTATTTTAGTA
* * * * * **
19296192 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACCGATCGAGGATATTTTGGTAATTTTGTAAAC
1 ATTTTACAAACCAGGGGTATTTTAGAAATTTTACCAAGCCAGGATATTTTGGTAATTTTACAAAC
19296257 CAAGGGTATTTTAGTA
66 CAAGGGTATTTTAGTA
19296273 ATTTT
1 ATTTT
19296278 GTAAATCGAG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 69 0.95
82 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
ATTTTACAAACCAGGGGTATTTTAGAAATTTTACCAAGCCAGGATATTTTGGTAATTTTACAAAC
CAAGGGTATTTTAGTA
Found at i:19296289 original size:27 final size:27
Alignment explanation
Indices: 19296152--19296453 Score: 194
Period size: 27 Copynumber: 11.2 Consensus size: 27
19296142 TACAAGCCAG
* *
19296152 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
19296178 GGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
***
19296205 GGGGTATTTTGGTAATTTTACCGATCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
19296233 GGATATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
19296260 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
19296287 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
19296314 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * *
19296341 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *** *
19296368 GGGCAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
19296395 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
19296422 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
19296449 GGGTA
1 GGGTA
19296454 AAACGATAAT
Statistics
Matches: 245, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
27 243 0.99
28 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:19296454 original size:27 final size:27
Alignment explanation
Indices: 19296270--19296505 Score: 355
Period size: 27 Copynumber: 8.7 Consensus size: 27
19296260 GGGTATTTTA
* *
19296270 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
19296297 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
19296324 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
19296351 ATAATTCTATAAATCGAGGGCAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
19296378 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
19296405 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
19296432 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
19296459 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
19296486 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
19296506 CATTTCAATA
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:19314882 original size:255 final size:255
Alignment explanation
Indices: 19314423--19314930 Score: 838
Period size: 255 Copynumber: 2.0 Consensus size: 255
19314413 CATATTTATG
* *
19314423 GATGATTTTTCCTTGGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTC
1 GATGATATTTCCTTAGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTC
*
19314488 AGAAGAGCTTAGGATGGAGAAATGAGCAAGAAACGGGCCAAAAACGGACAAATTGGGCCTAAATT
66 AGAAGAGCTTAGGATGGAGAAATGAGCAAGAAACGGGCCAAAAACGGACAAATTGGGCCTAAATC
* * *
19314553 AGTATTTCACATGACCTGGGCACTTCCACACGGGTGATTAACATGTCCGTGTGTGACACACAGGT
131 AGTATTTCACACGACCTGAGCACTTCCACACGGGTGATTAACACGTCCGTGTGTGACACACAGGT
*
19314618 AGACCACACGCCCGTGTGTCATGGCCGTGTCGACATTAATCCAAGTCAGAATTGCACATA
196 AGACCACACGCCCGTGTGTCATGGCCATGTCGACATTAATCCAAGTCAGAATTGCACATA
*
19314678 GATGATATTTCCTTAGTTTCATTGAATTTGATGGTCCTAATCCTTTAATTTCATGTTTTATACTC
1 GATGATATTTCCTTAGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTC
* *
19314743 AGGAGAGCTTAGGATGGCGAAATGAGCAAGAAACGGGCCAAGAAA-GGACAAATTGGGCCTAAAT
66 AGAAGAGCTTAGGATGGAGAAATGAGCAAGAAACGGGCCAA-AAACGGACAAATTGGGCCTAAAT
* * * * * *
19314807 CAGTGTTTCACACGGCCTGAGCACTTCTACATGGGTGATTCACACGTCCGTGTGTGACACACGGG
130 CAGTATTTCACACGACCTGAGCACTTCCACACGGGTGATTAACACGTCCGTGTGTGACACACAGG
* *
19314872 TAGGCCACACGCCCGTGTGTCATTGCCATGTCGACATTAATCCAAGTCAGAATTGCACA
195 TAGACCACACGCCCGTGTGTCATGGCCATGTCGACATTAATCCAAGTCAGAATTGCACA
19314931 CGGCTGAGTA
Statistics
Matches: 234, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
255 231 0.99
256 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (255 bp):
GATGATATTTCCTTAGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTC
AGAAGAGCTTAGGATGGAGAAATGAGCAAGAAACGGGCCAAAAACGGACAAATTGGGCCTAAATC
AGTATTTCACACGACCTGAGCACTTCCACACGGGTGATTAACACGTCCGTGTGTGACACACAGGT
AGACCACACGCCCGTGTGTCATGGCCATGTCGACATTAATCCAAGTCAGAATTGCACATA
Found at i:19318704 original size:27 final size:26
Alignment explanation
Indices: 19318634--19318729 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
19318624 CAGCATAGCT
* * * *
19318634 ACCAGAATAGATATTGCGACAGAGTC
1 ACCAGAACAGATATTGTGGCAGAGCC
19318660 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGGCAGAGCC
*
19318687 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGGCAGAGCC
* *
19318714 ACTAGAAACAGGTATT
1 ACCAG-AACAGATATT
19318730 TGGGGCATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.22
27 40 0.67
28 7 0.12
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCAGAGCC
Found at i:19318736 original size:28 final size:28
Alignment explanation
Indices: 19318667--19318748 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
19318657 GTCACCAGAT
* * *
19318667 ACAGATA-TTGTGGCAGAGCCACCAG-A
1 ACAGATATTTGGGGCATAGCCACTAGAA
*
19318693 ACAGATATTTGTGGCATAGCCACTAGAA
1 ACAGATATTTGGGGCATAGCCACTAGAA
* *
19318721 ACAGGTATTTGGGGCATAGCGACTAGAA
1 ACAGATATTTGGGGCATAGCCACTAGAA
19318749 CGCTTCCTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
26 7 0.14
27 16 0.33
28 26 0.53
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (28 bp):
ACAGATATTTGGGGCATAGCCACTAGAA
Found at i:19325155 original size:75 final size:75
Alignment explanation
Indices: 19325032--19325175 Score: 288
Period size: 75 Copynumber: 1.9 Consensus size: 75
19325022 GAAGATATTT
19325032 GAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTGTTCCAACTTTAGGAATTCACCA
1 GAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTGTTCCAACTTTAGGAATTCACCA
19325097 TAAATTGTAC
66 TAAATTGTAC
19325107 GAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTGTTCCAACTTTAGGAATTCACCA
1 GAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTGTTCCAACTTTAGGAATTCACCA
19325172 TAAA
66 TAAA
19325176 CAAACGTCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (75 bp):
GAATTTTTGTGAAACAGGGCCAGAGTGATTTCTGGATCCCCTGTTCCAACTTTAGGAATTCACCA
TAAATTGTAC
Found at i:19325530 original size:84 final size:84
Alignment explanation
Indices: 19325426--19325589 Score: 319
Period size: 84 Copynumber: 2.0 Consensus size: 84
19325416 GCAGGTAACT
19325426 AAAAAGTTGTGAATGTAGAAACAAATGATTCGAAGTTCTTAATTTGATAAATTATGTTTGGTAAC
1 AAAAAGTTGTGAATGTAGAAACAAATGATTCGAAGTTCTTAATTTGATAAATTATGTTTGGTAAC
*
19325491 ACCTCAAGCTCGACTCCGG
66 ACCTCAAGCTAGACTCCGG
19325510 AAAAAGTTGTGAATGTAGAAACAAATGATTCGAAGTTCTTAATTTGATAAATTATGTTTGGTAAC
1 AAAAAGTTGTGAATGTAGAAACAAATGATTCGAAGTTCTTAATTTGATAAATTATGTTTGGTAAC
19325575 ACCTCAAGCTAGACT
66 ACCTCAAGCTAGACT
19325590 TCTGTGACGG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (84 bp):
AAAAAGTTGTGAATGTAGAAACAAATGATTCGAAGTTCTTAATTTGATAAATTATGTTTGGTAAC
ACCTCAAGCTAGACTCCGG
Found at i:19331408 original size:136 final size:136
Alignment explanation
Indices: 19331164--19331435 Score: 490
Period size: 136 Copynumber: 2.0 Consensus size: 136
19331154 CATTTTATCT
*
19331164 CGGTACGTATGGATTATTCTCTTAACAAGTTGGCTGAACTGTATATTAGAGAAATTGTTAGATTA
1 CGGTACGTATGGATTATTCTCTTAACAAGTTGGCTGAACTGTATATTAGAGAAATTGTTAGACTA
* *
19331229 CACGGAATACCATTGTCGATTATTTCAGATAGAGATCCAAGGTTTACCTCACGGTTTTGGCAAAA
66 CACGGAATACCATTGTCGATCATTTCAGATAGAGATCCAAGGTTTACCTCACGGTTTTGGAAAAA
19331294 GTTGCA
131 GTTGCA
*
19331300 CGGTACGTATGGATTATTCTCTTAACAAGTTGGCTGAACTGTATGTTAGAGAAATTGTTAGACTA
1 CGGTACGTATGGATTATTCTCTTAACAAGTTGGCTGAACTGTATATTAGAGAAATTGTTAGACTA
* *
19331365 CACGGAATACCATTGTTGATCATTTCAGATAGAGATCCAAGGTTTACCTCGCGGTTTTGGAAAAA
66 CACGGAATACCATTGTCGATCATTTCAGATAGAGATCCAAGGTTTACCTCACGGTTTTGGAAAAA
19331430 GTTGCA
131 GTTGCA
19331436 GGACACGTTA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 130 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (136 bp):
CGGTACGTATGGATTATTCTCTTAACAAGTTGGCTGAACTGTATATTAGAGAAATTGTTAGACTA
CACGGAATACCATTGTCGATCATTTCAGATAGAGATCCAAGGTTTACCTCACGGTTTTGGAAAAA
GTTGCA
Found at i:19338061 original size:53 final size:53
Alignment explanation
Indices: 19337867--19338071 Score: 229
Period size: 53 Copynumber: 3.8 Consensus size: 53
19337857 ATTAGGGTTT
* *
19337867 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTTTC-TAA-GC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAAG--TTCATAAGGC
* * *
19337921 AAGGATATCATGTAAGGCCATGTCAAGACATGGCATTGATAAGTGTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGT-TC-ATAAGGC
* *
19337976 AAAGG-TCCCATGTAAGACCATGTCAATG-CATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAA-GACATGGCATTGGTAAGTTCATAAGGC
* * *
19338029 AAGGATACCATGTAAAACCATGTCGAGACATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
19338072 GTACCCGTGT
Statistics
Matches: 128, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
51 1 0.01
52 7 0.05
53 46 0.36
54 35 0.27
55 34 0.27
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:19341233 original size:43 final size:43
Alignment explanation
Indices: 19341185--19341269 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
19341175 AAAAATGTGT
*
19341185 ATGACCATTTTGTATTTGAGCTAAAAGTAGCTATATGACCTAC
1 ATGACCATTTTGTAGTTGAGCTAAAAGTAGCTATATGACCTAC
19341228 ATGACCATTTTGTAGTTGAGCTAAAAGTAGCTATATGACCTA
1 ATGACCATTTTGTAGTTGAGCTAAAAGTAGCTATATGACCTA
19341270 TTAAATTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (43 bp):
ATGACCATTTTGTAGTTGAGCTAAAAGTAGCTATATGACCTAC
Found at i:19341817 original size:45 final size:45
Alignment explanation
Indices: 19341748--19342011 Score: 374
Period size: 45 Copynumber: 6.0 Consensus size: 45
19341738 TATCGTACTG
* *
19341748 TACTATTCGGGCCTTTGAGTCTAGCAGGCTATGATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
19341793 TACTATTCAGGCCTTTGAGCCTAGCAGGCTGTGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
*
19341838 TACTATTCGGGCCTTTGAGCCTAGCAGGTTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
19341883 TACTATTCGGGTCTTTGAGCCTAGTAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
** * *
19341928 TACTATTCGGGCCTTCAAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
19341973 T--GATTCGGG-CTTTGAGCCTAGCAGGCTA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
19342012 TTTGATAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 10 0.05
42 17 0.09
43 7 0.04
45 163 0.83
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:19349714 original size:45 final size:45
Alignment explanation
Indices: 19349621--19349837 Score: 243
Period size: 45 Copynumber: 5.0 Consensus size: 45
19349611 TATCGTACAG
19349621 TACTATTCGGGCCTTTGAGCCTAGCAAGC-ATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
* **
19349665 TACTATTTGGGCCTTTGAGCCTAGCAAGCTATGATGTTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
* * *
19349710 TACTATTCGGGCCTTTGAGCCTAGCATGGCAATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCA-AGCTATGATGCCGGTGAAA
* * * *
19349756 TACTGTTCGGGCCTTCGAGCCTAG-AAGGCTATAATACCGGTG-AA
1 TACTATTCGGGCCTTTGAGCCTAGCAA-GCTATGATGCCGGTGAAA
* * *
19349800 -A-TA-TCGGG-CTTCGAGCCTAGCAGGCTA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGA
19349838 TTTGATAAAA
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 9 0.06
40 16 0.11
41 6 0.04
42 1 0.01
43 1 0.01
44 29 0.19
45 51 0.34
46 36 0.24
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
Found at i:19349776 original size:91 final size:89
Alignment explanation
Indices: 19349621--19349787 Score: 255
Period size: 91 Copynumber: 1.9 Consensus size: 89
19349611 TATCGTACAG
* *
19349621 TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTTGGGCCTTTGAGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTCGGGCCTTCGAGCC
19349686 TAGCAA-GCTATGATGTTGGTGAAA
66 TAG-AAGGCTATGATGTTGGTGAAA
* * *
19349710 TACTATTCGGGCCTTTGAGCCTAGCATGGCAATGATGCCGGTGAGATACTGTTCGGGCCTTCGAG
1 TACTATTCGGGCCTTTGAGCCTAGCA-AGC-ATGATGCCGGTGAAATACTATTCGGGCCTTCGAG
19349775 CCTAGAAGGCTAT
64 CCTAGAAGGCTAT
19349788 AATACCGGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 26 0.37
90 4 0.06
91 40 0.57
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (89 bp):
TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTCGGGCCTTCGAGCC
TAGAAGGCTATGATGTTGGTGAAA
Found at i:19349818 original size:40 final size:40
Alignment explanation
Indices: 19349762--19349837 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
19349752 GAGATACTGT
19349762 TCGGGCCTTCGAGCCTAGAAGGCTATAATACCGGTGAAATA
1 TCGGGCCTTCGAGCCTAGAAGGCTA-AATACCGGTGAAATA
* *
19349803 TCGGG-CTTCGAGCCTAGCAGGCTAAATGCCGGTGA
1 TCGGGCCTTCGAGCCTAGAAGGCTAAATACCGGTGA
19349838 TTTGATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 10 0.30
40 18 0.55
41 5 0.15
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
TCGGGCCTTCGAGCCTAGAAGGCTAAATACCGGTGAAATA
Found at i:19350340 original size:16 final size:18
Alignment explanation
Indices: 19350309--19350341 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19350299 AACTCGTCAC
19350309 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
19350327 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
19350342 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:19352740 original size:36 final size:35
Alignment explanation
Indices: 19352657--19352745 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
19352647 CTTTGTTTGT
* * * *
19352657 TGTGTTTCAGTTGGACTCGCTCTTATGAGCATTGG
1 TGTGTTTCGGTTGGATTGGATCTTATGAGCATTGG
*
19352692 TGTGTTTCGGTTGGATTGGATCTTATGAGCATTTTG
1 TGTGTTTCGGTTGGATTGGATCTTATGAGCA-TTGG
*
19352728 TGTGTTTTGGTTGGATTG
1 TGTGTTTCGGTTGGATTG
19352746 ATGACGTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 27 0.57
36 20 0.43
ACGTcount: A:0.12, C:0.10, G:0.31, T:0.46
Consensus pattern (35 bp):
TGTGTTTCGGTTGGATTGGATCTTATGAGCATTGG
Found at i:19357015 original size:24 final size:25
Alignment explanation
Indices: 19356987--19357050 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
19356977 TCAACCAAAT
* * *
19356987 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
19357011 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
19357036 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
19357051 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:19357101 original size:24 final size:24
Alignment explanation
Indices: 19357074--19357123 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
19357064 CATGCATCGA
*
19357074 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
19357098 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
19357122 CA
1 CA
19357124 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:19357549 original size:94 final size:94
Alignment explanation
Indices: 19357079--19357548 Score: 895
Period size: 94 Copynumber: 5.0 Consensus size: 94
19357069 ATCGACATTC
* *
19357079 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
19357144 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
19357173 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
19357238 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
19357267 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
19357332 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
19357361 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
19357426 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
19357455 CAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
19357520 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
19357549 CGGTCACATT
Statistics
Matches: 371, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 371 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:19360940 original size:298 final size:298
Alignment explanation
Indices: 19360404--19360999 Score: 1192
Period size: 298 Copynumber: 2.0 Consensus size: 298
19360394 TGAAATTGGC
19360404 GTGAATGGAAAAAAAAGTATGTGATGTTTATGCATGATAGATGTTAGTATGTGTAAATGATGTAT
1 GTGAATGGAAAAAAAAGTATGTGATGTTTATGCATGATAGATGTTAGTATGTGTAAATGATGTAT
19360469 TGATATCTTATTTGTGGCTGATTTGCTTGTATGTCTATGCTTGGATTGGTGTTGCTTGTTGTTGT
66 TGATATCTTATTTGTGGCTGATTTGCTTGTATGTCTATGCTTGGATTGGTGTTGCTTGTTGTTGT
19360534 GTAGGTTGGTGCAAGTAAGGGTGTCAAAATGGCTTGTAAATAGCCATATTTTGTCCTCACAGGTA
131 GTAGGTTGGTGCAAGTAAGGGTGTCAAAATGGCTTGTAAATAGCCATATTTTGTCCTCACAGGTA
19360599 GAGGCACGACCGTGTGTCTCAGCCGTGTGAAGGACACGGCCTAGGGACATGGGCATGTGTCTAGG
196 GAGGCACGACCGTGTGTCTCAGCCGTGTGAAGGACACGGCCTAGGGACATGGGCATGTGTCTAGG
19360664 GCGTGTGAAGTCTACACCTATTTTATGAAAAATTTTGA
261 GCGTGTGAAGTCTACACCTATTTTATGAAAAATTTTGA
19360702 GTGAATGGAAAAAAAAGTATGTGATGTTTATGCATGATAGATGTTAGTATGTGTAAATGATGTAT
1 GTGAATGGAAAAAAAAGTATGTGATGTTTATGCATGATAGATGTTAGTATGTGTAAATGATGTAT
19360767 TGATATCTTATTTGTGGCTGATTTGCTTGTATGTCTATGCTTGGATTGGTGTTGCTTGTTGTTGT
66 TGATATCTTATTTGTGGCTGATTTGCTTGTATGTCTATGCTTGGATTGGTGTTGCTTGTTGTTGT
19360832 GTAGGTTGGTGCAAGTAAGGGTGTCAAAATGGCTTGTAAATAGCCATATTTTGTCCTCACAGGTA
131 GTAGGTTGGTGCAAGTAAGGGTGTCAAAATGGCTTGTAAATAGCCATATTTTGTCCTCACAGGTA
19360897 GAGGCACGACCGTGTGTCTCAGCCGTGTGAAGGACACGGCCTAGGGACATGGGCATGTGTCTAGG
196 GAGGCACGACCGTGTGTCTCAGCCGTGTGAAGGACACGGCCTAGGGACATGGGCATGTGTCTAGG
19360962 GCGTGTGAAGTCTACACCTATTTTATGAAAAATTTTGA
261 GCGTGTGAAGTCTACACCTATTTTATGAAAAATTTTGA
19361000 AAAATAAATT
Statistics
Matches: 298, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
298 298 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (298 bp):
GTGAATGGAAAAAAAAGTATGTGATGTTTATGCATGATAGATGTTAGTATGTGTAAATGATGTAT
TGATATCTTATTTGTGGCTGATTTGCTTGTATGTCTATGCTTGGATTGGTGTTGCTTGTTGTTGT
GTAGGTTGGTGCAAGTAAGGGTGTCAAAATGGCTTGTAAATAGCCATATTTTGTCCTCACAGGTA
GAGGCACGACCGTGTGTCTCAGCCGTGTGAAGGACACGGCCTAGGGACATGGGCATGTGTCTAGG
GCGTGTGAAGTCTACACCTATTTTATGAAAAATTTTGA
Found at i:19361153 original size:20 final size:20
Alignment explanation
Indices: 19361125--19361163 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19361115 GACCATACGG
19361125 CCAACCCACATGGGTGTGTC
1 CCAACCCACATGGGTGTGTC
* *
19361145 CCAAGCCACATTGGTGTGT
1 CCAACCCACATGGGTGTGT
19361164 GACACTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (20 bp):
CCAACCCACATGGGTGTGTC
Found at i:19361785 original size:18 final size:19
Alignment explanation
Indices: 19361758--19361795 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19361748 GCAGTTATAA
*
19361758 CCAAAGT-AAATTAAAATC
1 CCAAAGTAAAAATAAAATC
*
19361776 CCAAATTAAAAATAAAATC
1 CCAAAGTAAAAATAAAATC
19361795 C
1 C
19361796 ATAGAGGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (19 bp):
CCAAAGTAAAAATAAAATC
Found at i:19364186 original size:27 final size:27
Alignment explanation
Indices: 19364155--19364332 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19364145 TAAATTGTAC
19364155 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19364182 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19364208 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19364236 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19364264 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19364291 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19364318 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19364333 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19364269 original size:82 final size:81
Alignment explanation
Indices: 19364156--19364311 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19364146 AAATTGTACA
* *
19364156 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19364220 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19364237 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19364302 TGCGAGTTGA
65 TGCGAATTGA
19364312 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19364323 original size:82 final size:81
Alignment explanation
Indices: 19364152--19364332 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19364142 GATTAAATTG
* *
19364152 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19364217 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19364233 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19364297 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19364315 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19364333 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19376213 original size:46 final size:46
Alignment explanation
Indices: 19376108--19376327 Score: 370
Period size: 46 Copynumber: 4.8 Consensus size: 46
19376098 TGTAACCCGC
* * *
19376108 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
19376153 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19376199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
19376245 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
19376291 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19376328 TGCTCAACCA
Statistics
Matches: 166, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
45 32 0.19
46 134 0.81
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19385937 original size:46 final size:46
Alignment explanation
Indices: 19385874--19386019 Score: 204
Period size: 46 Copynumber: 3.1 Consensus size: 46
19385864 GCCACAATAT
* * * *
19385874 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
19385922 ATATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
19385968 -TCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
19386014 ACATAT
1 ATATAT
19386020 ATACACTTCC
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
45 1 0.01
46 81 0.91
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:19386062 original size:22 final size:22
Alignment explanation
Indices: 19386036--19386111 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
19386026 TTCCACGTTC
19386036 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
19386058 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
19386082 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCTGCCTT
19386105 ATCACAT
1 ATCACAT
19386112 ATATGCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:19386064 original size:47 final size:47
Alignment explanation
Indices: 19385993--19386324 Score: 477
Period size: 47 Copynumber: 7.1 Consensus size: 47
19385983 ACACATTTCG
* * * * * *
19385993 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
19386040 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
19386087 CATTGGCCATTCAGCCTTATCACATATATGCATATTCACATTCTTCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
19386134 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
19386181 CATTAGCCATTCGGCCTTATCCCACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19386228 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
19386275 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
19386322 CAT
1 CAT
19386325 AAAATCCTAA
Statistics
Matches: 260, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 259 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:19386134 original size:25 final size:25
Alignment explanation
Indices: 19386058--19386325 Score: 99
Period size: 25 Copynumber: 11.3 Consensus size: 25
19386048 ATTCTGCCTT
*
19386058 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * *
19386083 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCATATTCA-CATTC
19386105 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * * *
19386130 TTCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
* *
19386152 ATCACACATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * *
19386177 ATCACAT-TA-GC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
* * *
19386199 ATCCCACATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
19386224 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
*
19386246 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * *
19386271 ATCACAT-T-TGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
* * *
19386293 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCATATTCACATTC
19386318 ATCACATA
1 ATCACATA
19386326 AAATCCTAAA
Statistics
Matches: 167, Mismatches: 51, Indels: 50
0.62 0.19 0.19
Matches are distributed among these distances:
22 47 0.28
23 32 0.19
24 31 0.19
25 57 0.34
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:19395147 original size:43 final size:43
Alignment explanation
Indices: 19395086--19395250 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
19395076 GAATATTCGG
*
19395086 ATGATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
19395129 ATGATAACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
19395172 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
19395215 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
19395251 AGCTATATCC
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 30 0.26
42 2 0.02
43 83 0.72
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:19395234 original size:40 final size:42
Alignment explanation
Indices: 19395086--19395276 Score: 250
Period size: 43 Copynumber: 4.6 Consensus size: 42
19395076 GAATATTCGG
*
19395086 ATGATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
19395129 ATGATAACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
19395172 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
19395215 AT-AT-CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCT
1 ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
19395255 AT-AT-CC-GGCTAAATCCCGAAGG
1 ATGATACCGGGCTAAGTCCCGAAGG
19395277 TACTTGGTGT
Statistics
Matches: 139, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.12
40 37 0.27
42 2 0.01
43 83 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (42 bp):
ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:19402963 original size:43 final size:42
Alignment explanation
Indices: 19402892--19403052 Score: 227
Period size: 43 Copynumber: 3.8 Consensus size: 42
19402882 ATTCGGATGA
19402892 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* * *
19402934 TTAACTGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACTATG
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
*
19402977 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA--
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* * *
19403018 TATCCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
19403053 AGCTATATCC
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 31 0.29
43 75 0.71
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (42 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
Found at i:19403037 original size:40 final size:40
Alignment explanation
Indices: 19402895--19403078 Score: 219
Period size: 43 Copynumber: 4.5 Consensus size: 40
19402885 CGGATGATAA
*
19402895 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA---TAT
* * *
19402938 CTGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
19402979 AATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19403021 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
19403061 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19403079 TACTTGGTGT
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 17 0.14
40 37 0.30
41 1 0.01
42 2 0.02
43 68 0.54
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19405289 original size:28 final size:28
Alignment explanation
Indices: 19405258--19405338 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
19405248 TTTTCATATG
*
19405258 GCCCATTAAGCCCAATCACATTTATGTA-
1 GCCCATTAGGCCCAATCACATTTAT-TAC
* *
19405286 GCCCATTAGGTCCAAATCACATTCA-TAC
1 GCCCATTAGG-CCCAATCACATTTATTAC
*
19405314 GGCCATTAGGCCCAATCACATTTAT
1 GCCCATTAGGCCCAATCACATTTAT
19405339 AGTCATGCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 14 0.32
28 18 0.41
29 12 0.27
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTTATTAC
Found at i:19406885 original size:27 final size:27
Alignment explanation
Indices: 19406771--19407028 Score: 220
Period size: 27 Copynumber: 9.6 Consensus size: 27
19406761 TTAGTTTACC
*
19406771 AAATTACTGAAATACCCCCAA-TTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * *
19406797 AAATTAC-CAAAGTACCCCCCCAGTTTATA
1 AAATTACTGAAA-TA--CCCTCAATTTGTA
* * * *
19406826 AAATTACCGAAATACCGTCGA-TTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
19406852 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
19406879 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
19406906 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** * *
19406933 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
19406960 AAATTA-TCAAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCTCAATTTGTA
* *
19406987 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*
19407014 AAATTATTGAAATAC
1 AAATTACTGAAATAC
19407029 TCCTGTAAGA
Statistics
Matches: 187, Mismatches: 35, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 33 0.18
27 124 0.66
28 11 0.06
29 13 0.07
30 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:19406928 original size:54 final size:54
Alignment explanation
Indices: 19406771--19407019 Score: 270
Period size: 54 Copynumber: 4.6 Consensus size: 54
19406761 TTAGTTTACC
* * *
19406771 AAATTACTGAAATACCC-CCAATTGTAAAATTACCAAAGTACCCCCCCAGTTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTA--CCCCCAATTTATA
* * * * * *
19406826 AAATTACCGAAATACCGTCGA-TTGCAAAATTACTGAAA-TACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTAC-CAAAGTACCCCCAATTTATA
*
19406879 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
** * * * * * **
19406933 AAATTACCCAAATATCCTCGATTTGTAAAATTATCAAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
*
19406987 AAATTATTGAAATACCCTCGATTTGTAAAATTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTA
19407020 TTGAAATACT
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
53 32 0.20
54 97 0.60
55 28 0.17
56 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
Found at i:19407070 original size:27 final size:27
Alignment explanation
Indices: 19407040--19407155 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
19407030 CCTGTAAGAT
19407040 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
19407067 AGAATTATCGTTTTACCCTCAATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
19407094 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
19407121 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
19407148 AAAATTAC
1 AGAATTAC
19407156 TAAAATACCC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:19407164 original size:27 final size:27
Alignment explanation
Indices: 19406796--19407166 Score: 131
Period size: 27 Copynumber: 13.7 Consensus size: 27
19406786 CCCCAATTGT
* * * *
19406796 AAAATTACCAAAGTACCCCCCCAGTTTAT
1 AAAATTACCAAAATA-CCCTCGA-TTTAC
* * *
19406825 AAAATTACCGAAATACCGTCGA-TTGC
1 AAAATTACCAAAATACCCTCGATTTAC
** * **
19406851 AAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
** * **
19406878 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
* * * *
19406905 AAAATTACCAAAGTACCCCCAATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* * **
19406932 AAAATTACCCAAATATCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
* *
19406959 AAAATTATCAAAATACCCTC-AGTTTGC
1 AAAATTACCAAAATACCCTCGA-TTTAC
*** **
19406986 AAAATTATTGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
*** * *
19407013 AAAATTATTGAAATACTCCT-G--TAAG
1 AAAATTACCAAAATAC-CCTCGATTTAC
***
19407038 ATAGAATTACCATTTTACCCTCGATTTAC
1 A-A-AATTACCAAAATACCCTCGATTTAC
* * **** * *
19407067 AGAATTATCGTTTTACCCTCAATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* *** *
19407094 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* ***
19407121 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
*
19407148 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
19407167 TGGTTTGTAG
Statistics
Matches: 275, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 26 0.09
27 223 0.81
28 8 0.03
29 16 0.06
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:19407165 original size:54 final size:54
Alignment explanation
Indices: 19407053--19407184 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
19407043 ATTACCATTT
* * * * * ***
19407053 TACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
* *
19407107 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
* * * *
19407161 TACCCTTGGTTTGTAGATTTACCA
1 TACCCTCGATTTATAGAATTACCA
19407185 AAACACCCTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
Found at i:19407193 original size:81 final size:81
Alignment explanation
Indices: 19407038--19407193 Score: 172
Period size: 81 Copynumber: 1.9 Consensus size: 81
19407028 CTCCTGTAAG
* **
19407038 ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTATAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTAATACCCTCAATTTATAGAATTACC
****
19407103 ATTTTACCCTCGATTT
66 AAAACACCCTCGATTT
*** * *
19407119 ATAGAATTACCATTTTACCCTCGATTTACAAAATTA-C-TAAAATACCCTTGGTTTGTAGATTTA
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTATCGT--AATACCCTCAATTTATAGAATTA
19407182 CCAAAACACCCT
64 CCAAAACACCCT
19407194 TGTAGGATGA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
79 1 0.02
80 1 0.02
81 59 0.97
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTAATACCCTCAATTTATAGAATTACC
AAAACACCCTCGATTT
Found at i:19408126 original size:25 final size:25
Alignment explanation
Indices: 19408098--19408192 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
19408088 AGGAAATGCT
*
19408098 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
19408123 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
19408148 AAAAGGGATTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
19408173 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19408193 ATTAAAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:19408194 original size:24 final size:25
Alignment explanation
Indices: 19408098--19408205 Score: 137
Period size: 25 Copynumber: 4.4 Consensus size: 25
19408088 AGGAAATGCT
* * *
19408098 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
19408123 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
19408148 AAAAGGGATTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
19408173 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
19408197 AAAAAGGCT
1 AAAAGGGCT
19408206 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
24 13 0.17
25 63 0.83
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:19408398 original size:42 final size:42
Alignment explanation
Indices: 19408339--19408430 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
19408329 TAGTCTCCCC
*
19408339 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
19408381 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
19408423 AAATGGGC
1 AAATGGGC
19408431 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:19409592 original size:16 final size:16
Alignment explanation
Indices: 19409573--19409603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19409563 CTTCTTCACT
19409573 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19409589 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19409604 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19409609 original size:20 final size:20
Alignment explanation
Indices: 19409570--19409609 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19409560 AAACTTCTTC
* *
19409570 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19409590 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19409610 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19409985 original size:108 final size:110
Alignment explanation
Indices: 19409841--19410038 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 110
19409831 ATCCTTTTGA
* * * * *
19409841 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTATAAACCTCACCAAT
*
19409904 TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
* ** *
19409949 AACTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTACCTTATAAACCTTACCAAT
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTATAAACCTCACCAAT
*
19410014 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
19410039 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 47 0.61
109 7 0.09
110 23 0.30
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTATAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
Found at i:19410048 original size:55 final size:53
Alignment explanation
Indices: 19409802--19410049 Score: 245
Period size: 55 Copynumber: 4.7 Consensus size: 53
19409792 TACCTTACAT
* * * * *
19409802 TGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAACTTACCAT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAAACTTACCAA
* * * *
19409851 TGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAAACTTACCAA
* * *
19409904 TGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCC-TTACCTTATA--AACTTACCAA
* * *
19409959 TGCCATGTATTGACATGGTCTTACATGATTTCCTTACCTTATAAACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAAA-CTTACCAA
* * * *
19410013 TTTCCATGCCTTGGCATGGTCTTACACGGTATCCTTA
1 -TGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
19410050 AACCCTAATG
Statistics
Matches: 162, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 31 0.19
52 4 0.02
53 46 0.28
54 7 0.04
55 72 0.44
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAAACTTACCAA
Found at i:19417183 original size:16 final size:16
Alignment explanation
Indices: 19417164--19417194 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19417154 CTTCTTCACT
19417164 AACTCACTTACTTAAA
1 AACTCACTTACTTAAA
*
19417180 AACTTACTTACTTAA
1 AACTCACTTACTTAA
19417195 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (16 bp):
AACTCACTTACTTAAA
Found at i:19417512 original size:53 final size:54
Alignment explanation
Indices: 19417393--19417639 Score: 240
Period size: 55 Copynumber: 4.6 Consensus size: 54
19417383 TACCTTACAT
* * * *
19417393 TGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCAT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAA
* *
19417442 TGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAA
* * * *
19417495 TGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAA
* * *
19417550 TTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAAGCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA
** * * *
19417604 TTTTCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
19417640 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 29 0.18
50 1 0.01
52 2 0.01
53 50 0.30
54 10 0.06
55 70 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAA
Found at i:19417575 original size:55 final size:53
Alignment explanation
Indices: 19417432--19417576 Score: 193
Period size: 53 Copynumber: 2.7 Consensus size: 53
19417422 ATCCTTTTGA
* * *
19417432 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
*
19417485 AACTCACCAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCC-TTGCCTTAT-G
* * *
19417539 TAACTTATCAATTCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATG
19417577 ATTTCCTTGC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 2 0.02
53 45 0.56
54 1 0.01
55 33 0.41
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
Found at i:19428775 original size:24 final size:24
Alignment explanation
Indices: 19428730--19428776 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19428720 ACACACCAAC
*
19428730 CTCCCCTATCTCCTCCTAAAATCT
1 CTCCCCTATCTCCTCCCAAAATCT
*
19428754 CTCCCCTTATCT-CTCCCCAAATC
1 CTCCCC-TATCTCCTCCCAAAATC
19428777 CCTCAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.32
Consensus pattern (24 bp):
CTCCCCTATCTCCTCCCAAAATCT
Found at i:19431138 original size:18 final size:18
Alignment explanation
Indices: 19431115--19431149 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19431105 GATATGATAC
19431115 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
19431133 TAAAATATATAAAAAAA
1 TAAAATATATAAAAAAA
19431150 AGGGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:19431149 original size:19 final size:18
Alignment explanation
Indices: 19431115--19431150 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19431105 GATATGATAC
*
19431115 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
19431133 TAAAATATATAAAAAAAA
1 TAAAAT-TATAAAAAAAA
19431151 GGGAAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:19431445 original size:23 final size:22
Alignment explanation
Indices: 19431402--19431459 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
19431392 AAAAGGTATC
* *
19431402 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
19431423 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
19431446 TGCATATCATATCT
1 TACAAATCATATCT
19431460 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19440460 original size:48 final size:48
Alignment explanation
Indices: 19440402--19440560 Score: 255
Period size: 48 Copynumber: 3.3 Consensus size: 48
19440392 ATATACACAC
*
19440402 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
19440450 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * **
19440498 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACTGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
19440546 ATCTCATATATATTT
1 ATCTCATACATATTT
19440561 ATCTTGTACA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 104 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:19457171 original size:19 final size:19
Alignment explanation
Indices: 19457134--19457171 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19457124 ACCTACCAGA
*
19457134 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
19457153 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
19457172 TAAGTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:19474919 original size:19 final size:19
Alignment explanation
Indices: 19474882--19474919 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19474872 ACCTACCAGA
*
19474882 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
19474901 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
19474920 TAAGTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:19477842 original size:46 final size:46
Alignment explanation
Indices: 19477792--19477967 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
19477782 TGGTTGAGCA
19477792 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19477838 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
19477883 CATTCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19477931 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19477968 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19477953 original size:93 final size:93
Alignment explanation
Indices: 19477789--19477960 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
19477779 GGATGGTTGA
* * *
19477789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19477854 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
19477882 GCATTCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19477947 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
19477961 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19480453 original size:49 final size:49
Alignment explanation
Indices: 19480381--19480480 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
19480371 GGGAATTATA
19480381 AGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGT
1 AGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGT
19480430 AGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGT
1 AGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGT
19480479 AG
1 AG
19480481 GGAACTCGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (49 bp):
AGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGT
Found at i:19484941 original size:154 final size:154
Alignment explanation
Indices: 19484661--19484967 Score: 587
Period size: 154 Copynumber: 2.0 Consensus size: 154
19484651 TCCAAGCCCC
*
19484661 GTTTTTAATGATTTTTACGTTTTTGAGATCCTGATAACTCGATAAAGCTTATGTTAGCAATAATT
1 GTTTTTAATGATTTTTACGTTTTTGAGATCCCGATAACTCGATAAAGCTTATGTTAGCAATAATT
19484726 TAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGA
66 TAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGA
19484791 TAGAATATGAAGTTTTAAATTATT
131 TAGAATATGAAGTTTTAAATTATT
*
19484815 GTTTTTAATGATTTTTACGTTTTTGAGATCCCGGTAACTCGATAAAGCTTATGTTAGCAATAATT
1 GTTTTTAATGATTTTTACGTTTTTGAGATCCCGATAACTCGATAAAGCTTATGTTAGCAATAATT
*
19484880 TAACCTAGGGTTTATATTTGGAAAAATACCCGTAGGTGAAATTTGTGTATTTTGATGTTTTATGA
66 TAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGA
19484945 TAGAATATGAAGTTTTAAATTAT
131 TAGAATATGAAGTTTTAAATTAT
19484968 GTTAGACAAC
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 150 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (154 bp):
GTTTTTAATGATTTTTACGTTTTTGAGATCCCGATAACTCGATAAAGCTTATGTTAGCAATAATT
TAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGATGTTTTATGA
TAGAATATGAAGTTTTAAATTATT
Found at i:19485019 original size:154 final size:152
Alignment explanation
Indices: 19484700--19485011 Score: 414
Period size: 154 Copynumber: 2.0 Consensus size: 152
19484690 CCTGATAACT
19484700 CGATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGA
1 CGATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGA
** * *
19484765 AATTTGTGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTATTGTTTTTAATGATTTT
66 AATTTGTGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTATTG--TTTAACAACTTG
** * ** ** **
19484830 TACGTTTTTGAGATCCCGGTAACT
129 TACGTACTCGAGATCAAGCAAAAA
*
19484854 CGATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTTATATTTGGAAAAATACCCGTAGGTGA
1 CGATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGA
19484919 AATTTGTGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTA-TG-TTAGACAACTTGT
66 AATTTGTGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTATTGTTTA-ACAACTTGT
** *
19484982 AC-TACTCGATTTTAAGCAAAAA
130 ACGTACTCGAGATCAAGCAAAAA
19485004 CGAGTAAA
1 CGA-TAAA
19485012 AGGGCTTAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
150 14 0.10
151 11 0.08
153 2 0.01
154 112 0.81
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (152 bp):
CGATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTTATATTTGGAAAAATACCCATAGGTGA
AATTTGTGTATTTTGATGTTTTATGATAGAATATGAAGTTTTAAATTATTGTTTAACAACTTGTA
CGTACTCGAGATCAAGCAAAAA
Found at i:19485674 original size:46 final size:46
Alignment explanation
Indices: 19485624--19485799 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19485614 TGGTTGAGCA
19485624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19485670 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19485715 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19485763 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19485800 GCGGGTTACC
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19485780 original size:93 final size:93
Alignment explanation
Indices: 19485621--19485792 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19485611 GGATGGTTGA
* *
19485621 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19485686 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19485714 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19485779 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
19485793 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19489284 original size:203 final size:203
Alignment explanation
Indices: 19488930--19489312 Score: 545
Period size: 203 Copynumber: 1.9 Consensus size: 203
19488920 CAAAAAAATA
* * *
19488930 AGAGTATTTGATGTTCAATGTTGTGACACAAAACTATAGGGTGTCGCGAAACTCGTCTAAAAAGG
1 AGAGTATTTGACGTTCAATGTCGTGACACAAAACTATAGGGTGTCGCGAAACTCGTCCAAAAAGG
* * * * * *
19488995 CCCAATTATCAGCTGAAGGTGTTTTTCGTCCATACAGCCTTAGTTAACATGTTTAGTAGTGTATA
66 CCCAATTATAAGCTGAAGGTGTTTTTCATCCACACAGCCTTAATTAACATGTTTACTAGTATATA
* * * *
19489060 ATTGAGCTAATTTGGTCATTTAACAATACTTCTATAAATTTTCGTTCTTAGGACCAAATCAGAAC
131 ATTGAGCTAACTTGGTCATTTAAAAATACTTCTATAAATATTAGTTCTTAGGACCAAATCAGAAC
19489125 CAATAATG
196 CAATAATG
* * * * * *
19489133 AGAGTATTTGACGTTTAATGTCGTGACACAAAACTATAGGGTGTTGCGACACTCGTCCGACATGG
1 AGAGTATTTGACGTTCAATGTCGTGACACAAAACTATAGGGTGTCGCGAAACTCGTCCAAAAAGG
*
19489198 CCCAATTATAAGCTGAGGGTGTTTTTCATCCACACTA-CCTTAATTAACATGTTTACCT-GTATA
66 CCCAATTATAAGCTGAAGGTGTTTTTCATCCACAC-AGCCTTAATTAACATGTTTA-CTAGTATA
*
19489261 TAATTGAGCTAACTTGTTCATTTAAAAATACTTCTATAAATATTAGTTCTTA
129 TAATTGAGCTAACTTGGTCATTTAAAAATACTTCTATAAATATTAGTTCTTA
19489313 TGACTCAATT
Statistics
Matches: 157, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
203 155 0.99
204 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (203 bp):
AGAGTATTTGACGTTCAATGTCGTGACACAAAACTATAGGGTGTCGCGAAACTCGTCCAAAAAGG
CCCAATTATAAGCTGAAGGTGTTTTTCATCCACACAGCCTTAATTAACATGTTTACTAGTATATA
ATTGAGCTAACTTGGTCATTTAAAAATACTTCTATAAATATTAGTTCTTAGGACCAAATCAGAAC
CAATAATG
Found at i:19491196 original size:46 final size:46
Alignment explanation
Indices: 19491139--19491407 Score: 244
Period size: 46 Copynumber: 5.8 Consensus size: 46
19491129 TATTTGGGCA
*
19491139 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * *
19491185 TCCAAACTCGTTGAGTTGAGTTCGAGTTCA-TGAGATGTA-GCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
* *
19491232 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
19491278 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
19491323 CATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
19491371 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19491408 GCGGTTTACA
Statistics
Matches: 178, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
45 4 0.02
46 98 0.55
47 60 0.34
48 4 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:19491251 original size:47 final size:47
Alignment explanation
Indices: 19491191--19491354 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 47
19491181 AATGTCCAAA
*
19491191 CTCGTTGAGTTGAGTTCGAGTTCATGAGATGTAGCTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCATCCGAG
* * * * *
19491238 CTCGTTGAGTTGAGTCCGAGTTCACT--TATGTATGCGA-ACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA-TGAGATGTA-GCTAGGCATCCGAG
* * * *
19491284 CTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCATCCGAG
19491331 CTCGTTGAGTTGAGTCCGAGTTCA
1 CTCGTTGAGTTGAGTCCGAGTTCA
19491355 CTTATGGATA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 35 0.37
47 58 0.61
48 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCATCCGAG
Found at i:19491400 original size:93 final size:93
Alignment explanation
Indices: 19491135--19491400 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
19491125 CTTATATTTG
* * *
19491135 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* * *
19491200 TTGAGTTCGAGTTCATGAGATGTAGCTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19491228 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
19491293 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
19491321 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
19491386 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
19491401 CTTATGGGCG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19494307 original size:15 final size:15
Alignment explanation
Indices: 19494287--19494351 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
19494277 GTATCTTGGG
19494287 TTTCTTTATTCTGAA
1 TTTCTTTATTCTGAA
**
19494302 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGAA
*
19494317 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGAA
*
19494332 TTTCTTTATTC-GAT
1 TTTCTTTATTCTGAA
19494346 TTTCTT
1 TTTCTT
19494352 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 10 0.24
15 29 0.71
16 2 0.05
ACGTcount: A:0.14, C:0.15, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGAA
Done.