Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 93 of 259
Found at i:30472635 original size:26 final size:27
Alignment explanation
Indices: 30472590--30472641 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
30472580 AAATTCAAAA
*
30472590 TATTTATAAAAATTTCAAAATTTATAT
1 TATTTATAAAAATTTCAAAATATATAT
* *
30472617 TATTTA-ATAAATTTTAAAATATATA
1 TATTTATAAAAATTTCAAAATATATA
30472642 AAGAAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTATAAAAATTTCAAAATATATAT
Found at i:30472840 original size:14 final size:14
Alignment explanation
Indices: 30472821--30472858 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
30472811 ATAATAAGAT
*
30472821 TTTAATTT-GACATA
1 TTTAATTTAAACA-A
30472835 TTTAATTTAAACAA
1 TTTAATTTAAACAA
30472849 TTTAATTTAA
1 TTTAATTTAA
30472859 CTTAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (14 bp):
TTTAATTTAAACAA
Found at i:30472877 original size:24 final size:24
Alignment explanation
Indices: 30472836--30472887 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
30472826 TTTGACATAT
* * * * *
30472836 TTAATTTAAACAATTTAATTTAAC
1 TTAATTCAAAAAAATTAAATTAAA
30472860 TTAATTCAAAAAAATTAAATTAAA
1 TTAATTCAAAAAAATTAAATTAAA
30472884 TTAA
1 TTAA
30472888 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAATTCAAAAAAATTAAATTAAA
Found at i:30472885 original size:20 final size:20
Alignment explanation
Indices: 30472862--30472907 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
30472852 AATTTAACTT
*
30472862 AATTCAAAAAAATTAAATTA
1 AATTCAAAAAAATAAAATTA
* *
30472882 AATTAAAAAAAATAAAATTC
1 AATTCAAAAAAATAAAATTA
30472902 AATTCA
1 AATTCA
30472908 TTAACTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
AATTCAAAAAAATAAAATTA
Found at i:30475512 original size:3 final size:3
Alignment explanation
Indices: 30475504--30475539 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
30475494 CTTCGCTCTC
30475504 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30475540 GATACACCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30478177 original size:55 final size:54
Alignment explanation
Indices: 30478071--30478250 Score: 211
Period size: 53 Copynumber: 3.3 Consensus size: 54
30478061 AGTTTACAAG
* *
30478071 TTTACTTTCCTCTCAAAAATTTTATTTCCCTCAAACTGC-CAAAACTATTTTTCCT
1 TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACT-CTCAAAACT-TTTTTCCT
* * * *
30478126 TTTACTTTCCCCCTTAAAATTTTTATTTTCCCCCAAACTCTCAAAACTTTTTTTCT
1 TTTACTTT-CCCCTAAAAAATTTTA-TTTCCCTCAAACTCTCAAAACTTTTTTCCT
* ** *
30478182 TTTACTTTCCCCTAAAAACTTTTATTTCTTTCAAAC-CTCAAAACTTTTTTCAT
1 TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACTCTCAAAACTTTTTTCCT
*
30478235 TTTGCTTTCCCCTAAA
1 TTTACTTTCCCCTAAA
30478251 CCCCTCAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
53 30 0.28
54 9 0.08
55 22 0.20
56 29 0.27
57 19 0.17
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (54 bp):
TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACTCTCAAAACTTTTTTCCT
Found at i:30478184 original size:56 final size:54
Alignment explanation
Indices: 30478071--30478250 Score: 204
Period size: 56 Copynumber: 3.3 Consensus size: 54
30478061 AGTTTACAAG
* * *
30478071 TTTACTTTCCTCTCAAAAATTTTATTTCCCTCAAACTGC-CAAAACTATTTTTCCT
1 TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACT-CTCAAAACT-TTTTTTCT
* * *
30478126 TTTACTTTCCCCCTTAAAATTTTTATTTTCCCCCAAACTCTCAAAACTTTTTTTCT
1 TTTACTTT-CCCCTAAAAAATTTTA-TTTCCCTCAAACTCTCAAAACTTTTTTTCT
* **
30478182 TTTACTTTCCCCTAAAAACTTTTATTTCTTTCAAAC-CTCAAAAC-TTTTTTCAT
1 TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACTCTCAAAACTTTTTTTC-T
*
30478235 TTTGCTTTCCCCTAAA
1 TTTACTTTCCCCTAAA
30478251 CCCCTCAAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
52 7 0.06
53 24 0.22
54 9 0.08
55 22 0.20
56 29 0.26
57 19 0.17
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (54 bp):
TTTACTTTCCCCTAAAAAATTTTATTTCCCTCAAACTCTCAAAACTTTTTTTCT
Found at i:30480113 original size:30 final size:30
Alignment explanation
Indices: 30480018--30480114 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
30480008 CGAGCACTCC
* *
30480018 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
30480048 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
30480078 CAGCTCAACTTTAGCTCACGAGCTAAAGTT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
30480108 TAGCTCA
1 TAGCTCA
30480115 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:30481844 original size:12 final size:12
Alignment explanation
Indices: 30481827--30481872 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
30481817 TATACAAGTA
30481827 AAAAAAAATTCG
1 AAAAAAAATTCG
*
30481839 AAAAAAAATTCA
1 AAAAAAAATTCG
30481851 AAAAAAAATTTCG
1 AAAAAAAA-TTCG
30481864 AAAAGAAAA
1 AAAA-AAAA
30481873 AAAATCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 7 0.23
14 4 0.13
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:30481885 original size:18 final size:18
Alignment explanation
Indices: 30481851--30481888 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30481841 AAAAAATTCA
*
30481851 AAAAAAAATTTCGAAAAG
1 AAAAAAAATCTCGAAAAG
30481869 AAAAAAAATCT-GAAAA-
1 AAAAAAAATCTCGAAAAG
30481885 AAAA
1 AAAA
30481889 GTGTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
18 10 0.53
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (18 bp):
AAAAAAAATCTCGAAAAG
Found at i:30482808 original size:9 final size:10
Alignment explanation
Indices: 30482801--30482857 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
30482791 AAGAGAAAAC
30482801 AAAGAAAAGA
1 AAAGAAAAGA
30482811 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
30482823 AAAGAAGA-A
1 AAAGAAAAGA
30482832 AAAGAAAATGA
1 AAAGAAAA-GA
30482843 AATA-AAAAGA
1 AA-AGAAAAGA
30482853 AAAGA
1 AAAGA
30482858 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:30482824 original size:21 final size:20
Alignment explanation
Indices: 30482790--30482857 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
30482780 ACTTTCTTGT
30482790 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
30482811 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
30482832 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
30482853 AAAGA
1 AAAGA
30482858 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:30482825 original size:6 final size:5
Alignment explanation
Indices: 30482801--30482857 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
30482791 AAGAGAAAAC
*
30482801 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
30482848 AAAGA AAAGA
1 AAAGA AAAGA
30482858 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:30482832 original size:15 final size:14
Alignment explanation
Indices: 30482801--30482857 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
30482791 AAGAGAAAAC
30482801 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
30482817 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
30482832 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
30482848 AAAGAAAAGA
1 AAAGAAAAGA
30482858 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:30482937 original size:11 final size:12
Alignment explanation
Indices: 30482905--30482935 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30482895 TTGAGAGAAC
30482905 TTGAAAAAGCCT
1 TTGAAAAAGCCT
30482917 TTGAAAAAGCCT
1 TTGAAAAAGCCT
30482929 TTGAAAA
1 TTGAAAA
30482936 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:30482946 original size:12 final size:12
Alignment explanation
Indices: 30482938--30482962 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30482928 TTTGAAAAGC
30482938 AAAAAGAAAATG
1 AAAAAGAAAATG
30482950 AAAAAGAAAATG
1 AAAAAGAAAATG
30482962 A
1 A
30482963 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:30482959 original size:18 final size:18
Alignment explanation
Indices: 30482932--30482987 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
30482922 AAAGCCTTTG
30482932 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
30482951 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
30482969 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
30482986 AA
1 AA
30482988 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:30482972 original size:30 final size:31
Alignment explanation
Indices: 30482938--30483019 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
30482928 TTTGAAAAGC
*
30482938 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
30482968 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
30482998 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
30483020 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:30488723 original size:35 final size:35
Alignment explanation
Indices: 30488673--30488804 Score: 120
Period size: 35 Copynumber: 3.6 Consensus size: 35
30488663 ACACAATCGC
** *
30488673 CGGTTTATCTGACTAGCGCTAGGTGCAAACACCGT
1 CGGTTTATCCAACTAGCGCTGGGTGCAAACACCGT
* * * * *
30488708 TGGTTTATCCAACTAGAGCTGGGCTTACATTTAATATCGT
1 CGGTTTATCCAACTAGCGCTGGG--TGCA---AACACCGT
* *
30488748 CAGTTTATCCAACTAGCGCTGGGCGCAAACACCGT
1 CGGTTTATCCAACTAGCGCTGGGTGCAAACACCGT
*
30488783 CGGTTTATCCAACTAGAGCTGG
1 CGGTTTATCCAACTAGCGCTGG
30488805 ACTCACATTT
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
35 44 0.59
37 3 0.04
38 2 0.03
40 26 0.35
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (35 bp):
CGGTTTATCCAACTAGCGCTGGGTGCAAACACCGT
Found at i:30488769 original size:40 final size:39
Alignment explanation
Indices: 30488709--30488846 Score: 131
Period size: 40 Copynumber: 3.6 Consensus size: 39
30488699 AAACACCGTT
30488709 GGTTTATCCAACTAGAGCTGGGCTTACATTTAATATCGTC
1 GGTTTATCCAACTAGAGCTGGGC-TACATTTAATATCGTC
* * * * *
30488749 AGTTTATCCAACTAGCGCTGGGC-GCA---AACACCGTC
1 GGTTTATCCAACTAGAGCTGGGCTACATTTAATATCGTC
* *
30488784 GGTTTATCCAACTAGAGCTGGACTCACATTTAATATCGCC
1 GGTTTATCCAACTAGAGCTGGGCT-ACATTTAATATCGTC
* ** *
30488824 GGTATATCTGACTAGCGCTGGGC
1 GGTTTATCCAACTAGAGCTGGGC
30488847 GCAAACTCCC
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
35 27 0.36
37 2 0.03
38 2 0.03
40 45 0.59
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (39 bp):
GGTTTATCCAACTAGAGCTGGGCTACATTTAATATCGTC
Found at i:30488798 original size:75 final size:75
Alignment explanation
Indices: 30488668--30488852 Score: 271
Period size: 75 Copynumber: 2.5 Consensus size: 75
30488658 TAGGCACACA
* * * * *
30488668 ATCGCCGGTTTATCTGACTAGCGCTAGGTGCAAACACCGTTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGCCAGTTTATCTGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
*
30488733 TACATTTAAT
66 CACATTTAAT
* **
30488743 ATCGTCAGTTTATCCAACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
1 ATCGCCAGTTTATCTGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
30488808 CACATTTAAT
66 CACATTTAAT
* *
30488818 ATCGCCGGTATATCTGACTAGCGCTGGGCGCAAAC
1 ATCGCCAGTTTATCTGACTAGCGCTGGGCGCAAAC
30488853 TCCCCTGTGG
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (75 bp):
ATCGCCAGTTTATCTGACTAGCGCTGGGCGCAAACACCGTCGGTTTATCCAACTAGAGCTGGACT
CACATTTAAT
Found at i:30494752 original size:43 final size:41
Alignment explanation
Indices: 30494651--30494770 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 41
30494641 GTAATTCAAT
* *
30494651 ATCGATGCCTTTGTCCCAGACAGGGTCTTATACGAAATCAG
1 ATCGATGCCTGTGTCCCAGACACGGTCTTATACGAAATCAG
* *
30494692 ATGTGATGCC-GATGTCCCAGACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTG-TGTCCCAGACACGGTCTTATACG-AAA--TCAG
* *
30494736 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATCGATGCCTGTGTCCCAGACACGGTCTTATACGA
30494771 TGTCTCAGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.03
42 29 0.44
43 29 0.44
44 3 0.05
45 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACACGGTCTTATACGAAATCAG
Found at i:30514925 original size:39 final size:40
Alignment explanation
Indices: 30514721--30514943 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
30514711 TTGAATGCTG
* * * * * *
30514721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
30514761 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30514801 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30514841 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30514881 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
30514920 ACCGGGCTATGTGCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30514944 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30519488 original size:42 final size:43
Alignment explanation
Indices: 30519383--30519490 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
30519373 AAGTACAATG
* * * *
30519383 CCGACGTCCCAGACATGGTCTTACATGTAATTCAATATCGATG
1 CCGATGTCCCAGACATGGTCTTACACGAAATTCAATATCGATA
** * * *
30519426 CCTCTATCCCAGATAGGGTCTTACACGAAATT-AGATA-CGATA
1 CCGATGTCCCAGACATGGTCTTACACGAAATTCA-ATATCGATA
30519468 CCGATGTCCCAGACATGGTCTTA
1 CCGATGTCCCAGACATGGTCTTA
30519491 TACATAAATC
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
CCGATGTCCCAGACATGGTCTTACACGAAATTCAATATCGATA
Found at i:30529487 original size:24 final size:24
Alignment explanation
Indices: 30529451--30529555 Score: 128
Period size: 24 Copynumber: 4.4 Consensus size: 24
30529441 TAGTTGGAGA
*
30529451 TTACTATT-TCAGCTCATAAGAGC
1 TTACTGTTCTCAGCTCATAAGAGC
*
30529474 TTACTGTTCTCAGCTCATCAGAGC
1 TTACTGTTCTCAGCTCATAAGAGC
30529498 TTACTGTT-TCAGCTCAATAA-AGC
1 TTACTGTTCTCAGCTC-ATAAGAGC
30529521 TTACTGTTCATCAGCTCA-AGAGGAGC
1 TTACTGTTC-TCAGCTCATA-A-GAGC
30529547 TTACTGTTC
1 TTACTGTTC
30529556 ATAGCTCGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
23 26 0.36
24 27 0.38
25 7 0.10
26 12 0.17
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
TTACTGTTCTCAGCTCATAAGAGC
Found at i:30529487 original size:47 final size:48
Alignment explanation
Indices: 30529447--30529538 Score: 143
Period size: 47 Copynumber: 1.9 Consensus size: 48
30529437 CAGCTAGTTG
30529447 GAGATTACTATTTCAGCTC-ATAAGAGCTTACTGTTCTCAGCTCATCA
1 GAGATTACTATTTCAGCTCAATAAGAGCTTACTGTTCTCAGCTCATCA
* *
30529494 GAGCTTACTGTTTCAGCTCAATAA-AGCTTACTGTTCATCAGCTCA
1 GAGATTACTATTTCAGCTCAATAAGAGCTTACTGTTC-TCAGCTCA
30529539 AGAGGAGCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
47 29 0.71
48 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (48 bp):
GAGATTACTATTTCAGCTCAATAAGAGCTTACTGTTCTCAGCTCATCA
Found at i:30529562 original size:25 final size:24
Alignment explanation
Indices: 30529451--30529555 Score: 117
Period size: 23 Copynumber: 4.4 Consensus size: 24
30529441 TAGTTGGAGA
*
30529451 TTACTATT-TCAGCTCATA-AGAGC
1 TTACTGTTCTCAGCTCA-ACAGAGC
*
30529474 TTACTGTTCTCAGCTCATCAGAGC
1 TTACTGTTCTCAGCTCAACAGAGC
* *
30529498 TTACTGTT-TCAGCTCAATAAAGC
1 TTACTGTTCTCAGCTCAACAGAGC
*
30529521 TTACTGTTCATCAGCTCAAGAGGAGC
1 TTACTGTTC-TCAGCTCAACA-GAGC
30529547 TTACTGTTC
1 TTACTGTTC
30529556 ATAGCTCGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
23 27 0.39
24 21 0.30
25 10 0.14
26 12 0.17
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
TTACTGTTCTCAGCTCAACAGAGC
Found at i:30529691 original size:20 final size:20
Alignment explanation
Indices: 30529662--30529702 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30529652 CAACGAGCAT
30529662 AAATACTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
*
30529682 AAATATTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
30529702 A
1 A
30529703 GCTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (20 bp):
AAATACTGTTTATATGGATG
Found at i:30534947 original size:43 final size:42
Alignment explanation
Indices: 30534900--30535050 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 42
30534890 GTTGTCGTGC
*
30534900 AAGACCACATCTGGGACGTTGGCATCGATATGTTATTACATGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATGTTATT-CATGT
* * * *
30534943 AAGACCATGTCTGGGGCATTGGCATCG-TAT-TTGATTCGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATGTT-ATTCATGT
* * * *
30534984 AAGACCATGTCTAGGATAG-TGGAATCGATATGTTATTGCATGT
1 AAGACCACGTCTGGGA-CGTTGGCATCGATATGTTATT-CATGT
* *
30535027 AAGACCTCGTGTGGGACGTTGGCA
1 AAGACCACGTCTGGGACGTTGGCA
30535051 GTGTATGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
41 27 0.32
42 13 0.15
43 45 0.53
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
AAGACCACGTCTGGGACGTTGGCATCGATATGTTATTCATGT
Found at i:30534995 original size:41 final size:42
Alignment explanation
Indices: 30534881--30535050 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 42
30534871 TATAGGATTT
* ** *
30534881 TCGATATGTGT-TGTCGTGCAAGACCACATCTGGGACGTTGGCA
1 TCGATATGT-TAT-TCGTGTAAGACCATGTCTGGGACATTGGCA
* *
30534924 TCGATATGTTATTACATGTAAGACCATGTCTGGGGCATTGGCA
1 TCGATATGTTATT-CGTGTAAGACCATGTCTGGGACATTGGCA
* * * *
30534967 TCG-TAT-TTGATTCGTGTAAGACCATGTCTAGGATAGTGGAA
1 TCGATATGTT-ATTCGTGTAAGACCATGTCTGGGACATTGGCA
* * *
30535008 TCGATATGTTATTGCATGTAAGACC-TCGTGTGGGACGTTGGCA
1 TCGATATGTTATT-CGTGTAAGACCAT-GTCTGGGACATTGGCA
30535051 GTGTATGATA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
41 28 0.28
42 15 0.15
43 58 0.57
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
TCGATATGTTATTCGTGTAAGACCATGTCTGGGACATTGGCA
Found at i:30562650 original size:15 final size:17
Alignment explanation
Indices: 30562624--30562668 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
30562614 TAATCACTTT
*
30562624 AATATTAAATTAAGAT-
1 AATATTATATTAAGATA
30562640 AATATT-TATTAAGATA
1 AATATTATATTAAGATA
30562656 AATATTATATTAA
1 AATATTATATTAA
30562669 ATTTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 12 0.46
17 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
AATATTATATTAAGATA
Found at i:30566368 original size:16 final size:16
Alignment explanation
Indices: 30566347--30566377 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30566337 ATTCAACAAT
30566347 GGTAGAAATCTTACTA
1 GGTAGAAATCTTACTA
30566363 GGTAGAAATCTTACT
1 GGTAGAAATCTTACT
30566378 GGGATCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
GGTAGAAATCTTACTA
Found at i:30569641 original size:54 final size:55
Alignment explanation
Indices: 30569537--30569689 Score: 164
Period size: 56 Copynumber: 2.7 Consensus size: 55
30569527 ATATAGCACA
* * ** * *
30569537 CCTCTCAACAGGGCTACATATGAACACCCAGACCTAGCATACATCACATAA-CCACG
1 CCTCTCAACAGGGCTACATA--AGCTCCCAGACCTAGCATGTACCACATAATACACG
* * *
30569593 CCTCTCAATAGGGCTACATAAGCTCCCAGACCTAGCGTGTACCACATAATTACATG
1 CCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAA-TACACG
* * *
30569649 CCTCTCAACAGGGCTACACAAGCTCCCGGACCTAGCTTGTA
1 CCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTA
30569690 TCATGTTATC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 23 0.28
56 59 0.72
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.20
Consensus pattern (55 bp):
CCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCATGTACCACATAATACACG
Found at i:30571290 original size:23 final size:23
Alignment explanation
Indices: 30571225--30571290 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
30571215 CAATGAGACA
* *
30571225 ATACAAAATTTGCCACAAAAGCC
1 ATACAAAATTCGCCACAAAGGCC
* *
30571248 ATACAAAATACGCCACAAAGGCT
1 ATACAAAATTCGCCACAAAGGCC
*
30571271 ATACAAAATTCGCTACAAAG
1 ATACAAAATTCGCCACAAAG
30571291 ACTTAGCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.48, C:0.24, G:0.11, T:0.17
Consensus pattern (23 bp):
ATACAAAATTCGCCACAAAGGCC
Found at i:30571300 original size:23 final size:23
Alignment explanation
Indices: 30571220--30571293 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
30571210 TACTGCAATG
* **
30571220 AGACAATACAAAATTTGCCACAA
1 AGACTATACAAAATACGCCACAA
*
30571243 A-AGCCATACAAAATACGCCACAA
1 AGA-CTATACAAAATACGCCACAA
* * *
30571266 AGGCTATACAAAATTCGCTACAA
1 AGACTATACAAAATACGCCACAA
30571289 AGACT
1 AGACT
30571294 TAGCAAATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (23 bp):
AGACTATACAAAATACGCCACAA
Found at i:30574286 original size:48 final size:48
Alignment explanation
Indices: 30574224--30574323 Score: 110
Period size: 48 Copynumber: 2.1 Consensus size: 48
30574214 TGATTATGTA
** * * * *
30574224 ATTGATATTGTTACTGAAATTGCATTGTCTAGCATGCTATGCTACATG
1 ATTGATATCATTACTGAAACTACATTATCTAGCATGATATGCTACATG
** * *
30574272 ATTGATATCATTACTGTTACTATATTATTTAGCATGATATGCTACATG
1 ATTGATATCATTACTGAAACTACATTATCTAGCATGATATGCTACATG
30574320 ATTG
1 ATTG
30574324 GTATGCCATT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (48 bp):
ATTGATATCATTACTGAAACTACATTATCTAGCATGATATGCTACATG
Found at i:30580117 original size:5 final size:5
Alignment explanation
Indices: 30580107--30580144 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
30580097 ATTTGTGAAA
*
30580107 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
30580145 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:30580544 original size:19 final size:19
Alignment explanation
Indices: 30580520--30580558 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30580510 CATAGCAACT
30580520 AAACTCAATTATCATGGTA
1 AAACTCAATTATCATGGTA
30580539 AAACTCAATTATCATGGTA
1 AAACTCAATTATCATGGTA
30580558 A
1 A
30580559 GAAAGATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (19 bp):
AAACTCAATTATCATGGTA
Found at i:30581824 original size:16 final size:16
Alignment explanation
Indices: 30581803--30581870 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
30581793 TTTGGTTCGC
30581803 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
30581819 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
30581834 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
30581851 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
30581867 TGTA
1 TGTA
30581871 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:30581843 original size:32 final size:32
Alignment explanation
Indices: 30581803--30581870 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
30581793 TTTGGTTCGC
30581803 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
30581835 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
30581867 TGTA
1 TGTA
30581871 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:30582194 original size:157 final size:157
Alignment explanation
Indices: 30582000--30582309 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
30581990 CCCTTAGCAT
*
30582000 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
30582065 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
30582130 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
30582157 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
30582222 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
30582287 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
30582310 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:30582306 original size:82 final size:81
Alignment explanation
Indices: 30582063--30582312 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
30582053 TATTATTATC
* * *
30582063 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
30582128 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
30582145 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
30582199 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
30582220 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
30582285 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
30582302 AATAATTAATA
1 AATAATAAATA
30582313 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:30582383 original size:157 final size:155
Alignment explanation
Indices: 30582046--30582367 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
30582036 TTAAATTTTA
* * * *
30582046 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
30582111 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
30582176 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
30582203 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
30582268 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
30582333 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
30582364 ATAA
1 ATAA
30582368 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:30586177 original size:27 final size:30
Alignment explanation
Indices: 30586133--30586195 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 30
30586123 TTTTTAAAGT
*
30586133 CCCTTAAAAGTTAAAAAA-AA-A-TTAGAC
1 CCCTTAAAAATTAAAAAATAATATTTAGAC
*
30586160 CCCTTAAAAATTAGAAAATAATATTTTAGAC
1 CCCTTAAAAATTAAAAAATAATA-TTTAGAC
30586191 CCCTT
1 CCCTT
30586196 TTTAGTCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 16 0.53
28 2 0.07
29 1 0.03
31 11 0.37
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (30 bp):
CCCTTAAAAATTAAAAAATAATATTTAGAC
Found at i:30588518 original size:19 final size:20
Alignment explanation
Indices: 30588454--30588519 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
30588444 ATCCAACCCT
30588454 TAAAAT-AC-ATTATTTAAA
1 TAAAATAACTATTATTTAAA
* **
30588472 TTTAAAATAATTATTATTTGTTA
1 --TAAAATAACTATTATTT-AAA
30588495 TAAAA-AACTATTATTTAAA
1 TAAAATAACTATTATTTAAA
30588514 TAAAAT
1 TAAAAT
30588520 TTTAAAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.17
20 16 0.44
21 6 0.17
22 7 0.19
23 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATAACTATTATTTAAA
Found at i:30589533 original size:16 final size:16
Alignment explanation
Indices: 30589512--30589559 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30589502 TATTCAAAAG
30589512 TTTCTCCTTCTTTTCC
1 TTTCTCCTTCTTTTCC
30589528 TTTCTCC-T-TTTTCAC
1 TTTCTCCTTCTTTTC-C
30589543 TTTC-CCTTCTCTTTCC
1 TTTCTCCTTCT-TTTCC
30589559 T
1 T
30589560 ACCTACTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.25
15 7 0.25
16 10 0.36
17 4 0.14
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTCTCCTTCTTTTCC
Found at i:30592139 original size:21 final size:21
Alignment explanation
Indices: 30592091--30592140 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
30592081 ACAAATACGG
* * *
30592091 ATCATACTTATCATATTACAG
1 ATCATATTTATCATATCACAA
*
30592112 ATCATATTTATCTTATCACAA
1 ATCATATTTATCATATCACAA
30592133 ATCATATT
1 ATCATATT
30592141 GAGCATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (21 bp):
ATCATATTTATCATATCACAA
Found at i:30594610 original size:30 final size:29
Alignment explanation
Indices: 30594574--30594634 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
30594564 AAAAAGAAAA
*
30594574 AATTAGG-CTTAAATGCCACTTTTATTTTTT
1 AATTAGGCCTT-AAGGCCA-TTTTATTTTTT
*
30594604 AATTAGGCCTTTAGGCCATTTTATTTTTT
1 AATTAGGCCTTAAGGCCATTTTATTTTTT
30594633 AA
1 AA
30594635 ATAGAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 12 0.43
31 3 0.11
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.49
Consensus pattern (29 bp):
AATTAGGCCTTAAGGCCATTTTATTTTTT
Found at i:30604723 original size:54 final size:54
Alignment explanation
Indices: 30604641--30604771 Score: 235
Period size: 54 Copynumber: 2.4 Consensus size: 54
30604631 TCGCTGCAAA
* * *
30604641 GGATTTGGCCTAGACTGGTAATCCCGACATCACCCTATGAGTTTACATTGTGGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCACCCTATGAGTTTACATTGCGGG
30604695 GGATTTAGCCTGGACTGGTAATCCCGACATCACCCTATGAGTTTACATTGCGGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCACCCTATGAGTTTACATTGCGGG
30604749 GGATTTAGCCTGGACTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
30604772 TTGCCTTATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (54 bp):
GGATTTAGCCTGGACTGGTAATCCCGACATCACCCTATGAGTTTACATTGCGGG
Found at i:30609380 original size:19 final size:19
Alignment explanation
Indices: 30609356--30609395 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30609346 AGCTCCCATG
30609356 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
30609375 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
30609394 TA
1 TA
30609396 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:30610658 original size:14 final size:14
Alignment explanation
Indices: 30610636--30610683 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
30610626 ACCTAAACCG
*
30610636 ACCAATTTGTTCAT
1 ACCATTTTGTTCAT
*
30610650 ACCATTTTGTTCTT
1 ACCATTTTGTTCAT
* * *
30610664 ACCCTTTCGTTCCT
1 ACCATTTTGTTCAT
30610678 ACCATT
1 ACCATT
30610684 CCATTCGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.46
Consensus pattern (14 bp):
ACCATTTTGTTCAT
Found at i:30618536 original size:36 final size:36
Alignment explanation
Indices: 30618489--30618560 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
30618479 CCTAGTACTC
*
30618489 ATACTAGTCCACGCATTTCATTTATTTCACATTTTA
1 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
30618525 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
1 ATACTAGTCCACACATTTCATTTATTTCACATTTTA
30618561 GTTCCTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (36 bp):
ATACTAGTCCACACATTTCATTTATTTCACATTTTA
Found at i:30620728 original size:40 final size:40
Alignment explanation
Indices: 30620677--30620904 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
30620667 GCTACTTGCT
30620677 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30620717 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30620757 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30620797 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
30620837 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
30620876 CAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30620905 CATCCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.18
40 139 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30628009 original size:40 final size:40
Alignment explanation
Indices: 30627965--30628192 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
30627955 GCTACTTGCT
30627965 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30628005 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
30628045 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
30628085 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
30628125 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
30628164 CAAATGCCTTCGGGACTTAGTCCAGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30628193 CATCCGAATA
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 134 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30628064 original size:80 final size:80
Alignment explanation
Indices: 30627932--30628183 Score: 359
Period size: 80 Copynumber: 3.2 Consensus size: 80
30627922 AAACCAAGTA
* * * *
30627932 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
30627995 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*
30628011 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
30628076 TAACTCGCACAAATA
66 TAACTCGCACAAATG
* * *
30628091 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATGCCTTCAGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
30628154 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
30628170 CCTTCGGGACTTAG
1 CCTTCGGGACTTAG
30628184 TCCAGTTATC
Statistics
Matches: 158, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 52 0.33
80 105 0.66
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:30631344 original size:22 final size:22
Alignment explanation
Indices: 30631316--30631359 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30631306 ATCGAGAAGA
30631316 ATGAAAAATTACCAAAATGCCC
1 ATGAAAAATTACCAAAATGCCC
30631338 ATGAAAAATTACCAAAATGCCC
1 ATGAAAAATTACCAAAATGCCC
30631360 TTGTACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.09, T:0.18
Consensus pattern (22 bp):
ATGAAAAATTACCAAAATGCCC
Found at i:30631770 original size:39 final size:40
Alignment explanation
Indices: 30631714--30631808 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
30631704 AGCTTCTATT
* *
30631714 CAGCTCTTATGAACTTCTG-TTGGCATGTTTCGGGTGGAC
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
* *
30631753 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
* *
30631793 CAACTCTTATAAGCTT
1 CAGCTCTTATGAGCTT
30631809 TTGTCTGGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 18 0.37
40 31 0.63
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGGTGGAC
Found at i:30635154 original size:30 final size:30
Alignment explanation
Indices: 30635120--30635179 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
30635110 AATTAACAAG
*
30635120 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
30635150 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
30635180 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:30637076 original size:30 final size:31
Alignment explanation
Indices: 30637018--30637079 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
30637008 ATAACAGCAC
* *
30637018 TTAAATTATCTTAGATTTATTCTTAATTAAT
1 TTAAATTAACTTAGATTTAATCTTAATTAAT
30637049 TTAAATTAACTTA-A-TTAATCATTAATTAAT
1 TTAAATTAACTTAGATTTAATC-TTAATTAAT
30637079 T
1 T
30637080 AAACTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 11 0.39
31 12 0.43
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (31 bp):
TTAAATTAACTTAGATTTAATCTTAATTAAT
Found at i:30637077 original size:15 final size:13
Alignment explanation
Indices: 30637040--30637082 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 13
30637030 AGATTTATTC
30637040 TTAATTAATTTAAA
1 TTAATTAA-TTAAA
30637054 TTAACTTAATTAATCA
1 TTAA-TTAATTAA--A
30637070 TTAATTAATTAAA
1 TTAATTAATTAAA
30637083 CTATAATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.31
15 12 0.46
16 5 0.19
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:30643591 original size:21 final size:19
Alignment explanation
Indices: 30643561--30643609 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
30643551 TTCCAAAAAG
*
30643561 TATCGGTACCCATATGATTTT
1 TATCGATACCCATAT--TTTT
30643582 TATCGATA-CCATATTTTT
1 TATCGATACCCATATTTTT
*
30643600 TATTGATACC
1 TATCGATACC
30643610 AAAATTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 6 0.24
21 7 0.28
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (19 bp):
TATCGATACCCATATTTTT
Found at i:30657760 original size:47 final size:47
Alignment explanation
Indices: 30657704--30657971 Score: 219
Period size: 47 Copynumber: 5.7 Consensus size: 47
30657694 AGGGTATAGT
*
30657704 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCACCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTCCAA
* * * * *
30657751 GTCGATGCCATGTCCTAGACATGGTCTTAAACTGACTC-TCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C---TCCAA
* * * * ***
30657801 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-TTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTCCAA
* * * * *
30657847 GCCGATG-CATGTCCCAGATAT-GTCTTACACTAGTTC-TCGTCTTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTC-CAA
* * *
30657892 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCTCCAA
30657941 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
30657972 AGCACACAAA
Statistics
Matches: 174, Mismatches: 34, Indels: 27
0.74 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 14 0.08
46 25 0.14
47 62 0.36
48 17 0.10
49 2 0.01
50 39 0.22
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCTCCAA
Found at i:30657926 original size:92 final size:93
Alignment explanation
Indices: 30657706--30657973 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 93
30657696 GGTATAGTGC
* * * * * *
30657706 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATCCACCAAGTCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTACAT-CTCGAGGCCGATG-CATGTCCCAGA
* * * * * **
30657770 CATGGTCTTAAACTGACTCTCACATATCCATG-
64 CAT-GTCTTACACT-AGT-TCTCGTCTTAATGT
* *
30657802 CTGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATTTTGTA-GCCGATGCATGTCCCAGA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGACTACATCTCG-AGGCCGATGCATGTCCCAGA
*
30657865 TATGTCTTACACTAGTTCTCGTCTTAATGT
64 CATGTCTTACACTAGTTCTCGTCTTAATGT
*
30657895 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACATCTCGAGGCCGATGCATGTCCCAGAC
30657960 ATGTCTTACACTAG
65 ATGTCTTACACTAG
30657974 CACACAAATG
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
92 40 0.27
93 4 0.03
94 47 0.32
95 12 0.08
96 7 0.05
97 36 0.25
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTACATCTCGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGTTCTCGTCTTAATGT
Found at i:30661560 original size:29 final size:29
Alignment explanation
Indices: 30661527--30661585 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
30661517 CCTTAACTCA
30661527 AACTTTGGAAAAATTACAATTTTGCCCCT
1 AACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30661556 AACTTTTGCATATTTACACTTTTGCCCCT
1 AACTTTGGAAAAATTACAATTTTGCCCCT
30661585 A
1 A
30661586 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (29 bp):
AACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30666086 original size:49 final size:50
Alignment explanation
Indices: 30666019--30666265 Score: 275
Period size: 49 Copynumber: 5.0 Consensus size: 50
30666009 AGCTATTGTG
* * *
30666019 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTT
* * * *
30666069 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-AGTT
* * * * * *
30666119 CGATCACGTGTGTAGTTA-TAAGTGCAGGCTGCTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAG-TACTAAGTGCAGGCTACTATGTGTACCAGATAGTT
* * * *
30666169 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTT
* * *
30666219 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
30666266 CTTCGGCTAC
Statistics
Matches: 162, Mismatches: 31, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
49 82 0.51
50 43 0.27
51 35 0.22
52 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTT
Found at i:30666216 original size:101 final size:98
Alignment explanation
Indices: 30666022--30666263 Score: 315
Period size: 101 Copynumber: 2.4 Consensus size: 98
30666012 TATTGTGAGG
* * *
30666022 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTGGTCACATGTGTAGTACT
* *
30666087 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * *
30666122 TCACGTGTGTAGTTA-TAAGTGCAGGCTGCTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAG-TACTAAGTGCAGGCTACTATGTGTACCAGATGGTT-GGTCACATGTGTAGTA
* *
30666186 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * *
30666221 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
30666264 AGCTTCGGCT
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 2 0.02
99 35 0.28
100 42 0.34
101 44 0.36
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:30668302 original size:16 final size:16
Alignment explanation
Indices: 30668281--30668314 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30668271 ACTCTAACAT
30668281 TAAATTCAGTGGATTC
1 TAAATTCAGTGGATTC
30668297 TAAATTCAGTGGATTC
1 TAAATTCAGTGGATTC
30668313 TA
1 TA
30668315 TTGGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (16 bp):
TAAATTCAGTGGATTC
Found at i:30677716 original size:46 final size:46
Alignment explanation
Indices: 30677573--30677716 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
30677563 CCCGCCCATA
* *
30677573 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
30677622 --CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
30677666 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
30677712 AGTGA
1 AGTGA
30677717 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 30 0.41
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:30687382 original size:49 final size:51
Alignment explanation
Indices: 30687329--30687462 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 51
30687319 GTAGTGGCAA
* *
30687329 TATATCTGCAGATCAGTGGTGGCTTGTCCACAAAA-T-TTATCAATGATAG
1 TATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
* * * * *
30687378 TATATCTACATACCAGTGGTGGCTTGTCCACAAAAGTGTTATTAGTGGTAG
1 TATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
* *
30687429 TTTATCTTCAAATCAGTGGTGGCTTGTCCACAAA
1 TATATCTACAAATCAGTGGTGGCTTGTCCACAAA
30687463 TGGTGTTTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 32 0.44
50 1 0.01
51 40 0.55
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (51 bp):
TATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGATAG
Found at i:30691989 original size:31 final size:32
Alignment explanation
Indices: 30691947--30692007 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
30691937 GTGTTCGTAT
*
30691947 AGGGGTTCGCACACCTATGGTTCACACAAAAA
1 AGGGGTTCGCACACCTAGGGTTCACACAAAAA
*
30691979 AGGGG-TCGCACACCTAGGGTTCGCACAAA
1 AGGGGTTCGCACACCTAGGGTTCACACAAA
30692008 TATTGAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.16
Consensus pattern (32 bp):
AGGGGTTCGCACACCTAGGGTTCACACAAAAA
Found at i:30692002 original size:15 final size:15
Alignment explanation
Indices: 30691949--30692005 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
30691939 GTTCGTATAG
30691949 GGGTTCGCACACCTA
1 GGGTTCGCACACCTA
* * ***
30691964 TGGTTCACACAAAAAA
1 GGGTTCGCAC-ACCTA
*
30691980 GGGGTCGCACACCTA
1 GGGTTCGCACACCTA
30691995 GGGTTCGCACA
1 GGGTTCGCACA
30692006 AATATTGAGC
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (15 bp):
GGGTTCGCACACCTA
Found at i:30692108 original size:18 final size:18
Alignment explanation
Indices: 30692077--30692125 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
30692067 TGCCACTAAT
*
30692077 GGGGGTTTCGCATACCATA
1 GGGGGTTT-ACATACCATA
*
30692096 GGGGGTTTACATACTATA
1 GGGGGTTTACATACCATA
**
30692114 GGATGTTTACAT
1 GGGGGTTTACAT
30692126 GCAATAGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (18 bp):
GGGGGTTTACATACCATA
Found at i:30695337 original size:21 final size:21
Alignment explanation
Indices: 30695311--30695351 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30695301 AAATTACTAT
30695311 AAAAATTACATAT-TTAAAATA
1 AAAAATT-CATATATTAAAATA
*
30695332 AAAAATTTATATATTAAAAT
1 AAAAATTCATATATTAAAAT
30695352 TGAAATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTCATATATTAAAATA
Found at i:30697373 original size:17 final size:18
Alignment explanation
Indices: 30697351--30697385 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30697341 AAATTATTTT
30697351 AAATAATT-AAATTTAAA
1 AAATAATTAAAATTTAAA
30697368 AAATAATTAAAATTTAAA
1 AAATAATTAAAATTTAAA
30697386 TTTAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAATTTAAA
Found at i:30706125 original size:31 final size:31
Alignment explanation
Indices: 30706090--30706193 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
30706080 TATCAGAACT
*
30706090 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTGAC
30706121 AGAATCAAAATCAGAAT-----T-AGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTGAC
* * * * *
30706146 AGAATTAGAATCAGAATAAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTGAC
30706177 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
30706194 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 22 0.36
26 1 0.02
30 1 0.02
31 37 0.61
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTGAC
Found at i:30706142 original size:25 final size:25
Alignment explanation
Indices: 30706104--30706162 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
30706094 TCAAAATGAG
30706104 AATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGGTGACAGAATCAA
* * *
30706129 AATCAGAATTAGGTGACAGAATTAG
1 AATCAGAATCAGGTGACAGAATCAA
30706154 AATCAGAAT
1 AATCAGAAT
30706163 AAGTATCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGGTGACAGAATCAA
Found at i:30706725 original size:27 final size:27
Alignment explanation
Indices: 30706695--30707077 Score: 363
Period size: 27 Copynumber: 14.2 Consensus size: 27
30706685 AACACCCTAG
* * * *
30706695 GGGTAAAATGGTAATTTTATAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
30706722 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
30706749 TGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *** * *
30706776 GGATAAAATACTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
30706803 GGGTAAAACGGTAATTCTATAGATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* ** * *
30706830 AGGTAAAAAAGTAATTCTGTAGAT-TA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** * *
30706856 GGGGTAAAATAGTAATTTTGTAAATTGA
1 -GGGTAAAACGGTAATTCTGTAAATCGA
*** *
30706884 GGGTAAAATACTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
30706911 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * * *
30706938 AGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** *
30706965 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
30706992 GGGTAAAATGATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
30707019 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
30707046 GGGTAAAACGATAAATCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
30707073 GGGTA
1 GGGTA
30707078 CTTTGGTAAT
Statistics
Matches: 300, Mismatches: 54, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 298 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:30706872 original size:108 final size:108
Alignment explanation
Indices: 30706695--30707053 Score: 458
Period size: 108 Copynumber: 3.3 Consensus size: 108
30706685 AACACCCTAG
* * * * * * *
30706695 GGGTAAAATGGTAATTTTATAAATC-AAGGGT-AAAACGATAATTCTATAAATCGATGGTAAAA-
1 GGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAAAAG-TAATTCTGTAAATTGAGGGTAAAAT
* * *
30706757 CGATAATTCTGTAAATCGAGGATAAAATACTAATTTTATAAATCGA
64 AG-TAATTTTGTAAATCGAGGGTAAAATACTAATTTTATAAATCGA
* * *
30706803 GGGTAAAACGGTAATTCTATAGATCGAAGGTAAAAAAGTAATTCTGTAGATT-AGGGGTAAAATA
1 GGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAAAAGTAATTCTGTAAATTGA-GGGTAAAATA
* *
30706867 GTAATTTTGTAAATTGAGGGTAAAATACTAATTCTATAAATCGA
65 GTAATTTTGTAAATCGAGGGTAAAATACTAATTTTATAAATCGA
* *
30706911 GGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAAAAGTAATTCTGTAAATTGAGGGTAAAATAG
*
30706976 TAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGAGGGTAAAAT-ACTAATTTTATAAATCGA
* *
30707019 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
1 GGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAA
30707054 CGATAAATCT
Statistics
Matches: 222, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
107 1 0.00
108 211 0.95
109 10 0.05
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (108 bp):
GGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAAAAGTAATTCTGTAAATTGAGGGTAAAATAG
TAATTTTGTAAATCGAGGGTAAAATACTAATTTTATAAATCGA
Found at i:30707090 original size:81 final size:81
Alignment explanation
Indices: 30706695--30707077 Score: 457
Period size: 81 Copynumber: 4.7 Consensus size: 81
30706685 AACACCCTAG
* * * * *
30706695 GGGTAAAATGGTAATTTTATAAATCAAGGGTAAAACGATAATTCTATAAATCGATGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
30706760 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * * * **
30706776 GGATAAAATACTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAGATCGAAGGTAAAAAAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
* *
30706841 TAATTCTGTAGAT-TA
66 TAATTCTGTAAATCGA
* *
30706856 GGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAA-TACTAATTCTATAAATCGAGGGTAAAAC
1 -GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAAC
30706920 GGTAATTCTGTAAATCGA
64 GGTAATTCTGTAAATCGA
* * * * * * *
30706938 AGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAA-TAGTAATTTTGTAAATCGAGGGTAAAATG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACG
* *
30707002 ATAATTTTGTAAATCGA
65 GTAATTCTGTAAATCGA
* * *
30707019 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAAATCTATAAATCGAGGGTA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
30707078 CTTTGGTAAT
Statistics
Matches: 259, Mismatches: 39, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
80 1 0.00
81 256 0.99
82 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
TAATTCTGTAAATCGA
Found at i:30707099 original size:27 final size:26
Alignment explanation
Indices: 30707067--30707250 Score: 154
Period size: 27 Copynumber: 6.8 Consensus size: 26
30707057 TAAATCTATA
* *
30707067 AATCGAGGGTACTTTGGTAATTTTAC
1 AATCAAGGGTATTTTGGTAATTTTAC
* **
30707093 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCAAGGGTATTTTGGTAATTTTAC
* * ** *
30707120 AGGTCAAAGGTATTTCAGTAATTTCAC
1 A-ATCAAGGGTATTTTGGTAATTTTAC
30707147 AAATC-AGAGGTATTTTGGTAATTTTAC
1 -AATCAAG-GGTATTTTGGTAATTTTAC
* *
30707174 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATC-AAGGGTATTTTGGTAATTTTAC
* * *
30707201 AAACCAGGGGTATTTTGGTAATTTTATA
1 -AATCAAGGGTATTTTGGTAATTTTA-C
*
30707229 AACCAAGGGTATTTTGGTAATT
1 AATCAAGGGTATTTTGGTAATT
30707251 CTACCCTACA
Statistics
Matches: 133, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.05
27 122 0.92
28 5 0.04
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (26 bp):
AATCAAGGGTATTTTGGTAATTTTAC
Found at i:30707213 original size:81 final size:82
Alignment explanation
Indices: 30707066--30707303 Score: 209
Period size: 81 Copynumber: 2.9 Consensus size: 82
30707056 ATAAATCTAT
* * * ***
30707066 AAATC-GAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCAAAGG
1 AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAAACCAAAGG
30707130 TATTTCAGTAATTTCAC
66 TATTTCAGTAATTTCAC
** **
30707147 AAATCAGA-GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAGGG
1 AAATCAGAGGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAGTAATTTTACAAACCAAAG
** * *
30707210 GTATTTTGGTAATTTTAT
65 GTATTTCAGTAATTTCAC
* * * * * ** *
30707228 AAACCA-AGGGTATTTTGGTAATTCTAC-CCTACAGGGGTATTTCAGTAATTCTACCCTA-CAAG
1 AAATCAGAGGGTATTTTGGTAATTTTACAACTAGA-GGGTATTTCAGTAATTTTA-CAAACCAAA
30707290 GGTATTTCAGTAAT
64 GGTATTTCAGTAAT
30707304 GCTAGCCTAC
Statistics
Matches: 125, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
79 3 0.02
80 1 0.01
81 113 0.90
82 8 0.06
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.37
Consensus pattern (82 bp):
AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAAACCAAAGG
TATTTCAGTAATTTCAC
Found at i:30707243 original size:54 final size:54
Alignment explanation
Indices: 30707072--30707250 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 54
30707062 CTATAAATCG
* * ** ***
30707072 AGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGGTCA
1 AGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCA
* ** * * *
30707126 AAGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCA
* * *
30707180 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCA
30707234 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
30707251 CTACCCTACA
Statistics
Matches: 101, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 100 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCA
Found at i:30707265 original size:27 final size:26
Alignment explanation
Indices: 30707128--30707281 Score: 139
Period size: 27 Copynumber: 5.7 Consensus size: 26
30707118 ACAGGTCAAA
** *
30707128 GGTATTTCAGTAATT-TCACAAATCAGA
1 GGTATTTTGGTAATTCT-ACAAA-CAGG
*
30707155 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTCTACAAAC-AGG
*
30707182 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTCTACAAA-CAGG
* * *
30707209 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTCTACAAA-CAGG
**
30707236 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTA-CAAACAGG
**
30707263 GGTATTTCAGTAATTCTAC
1 GGTATTTTGGTAATTCTAC
30707282 CCTACAAGGG
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.02
27 106 0.95
28 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
GGTATTTTGGTAATTCTACAAACAGG
Found at i:30707282 original size:27 final size:27
Alignment explanation
Indices: 30707235--30707315 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
30707225 TATAAACCAA
**
30707235 GGGTATTTTGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
30707262 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
30707289 GGGTATTTCAGTAATGCTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
30707316 ATATGAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:30709206 original size:6 final size:6
Alignment explanation
Indices: 30709176--30709283 Score: 87
Period size: 6 Copynumber: 17.7 Consensus size: 6
30709166 AAGAAACATT
* * *
30709176 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
30709225 ATCAGA ATCAGA ATCAAA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
30709274 ATCAGA ATCA
1 ATCAGA ATCA
30709284 ATATCAAGTA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 68 0.85
7 5 0.06
8 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30709226 original size:37 final size:37
Alignment explanation
Indices: 30709185--30709312 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 37
30709175 TATCAGAACT
*
30709185 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAAC
* * * *
30709222 AGAATCAGAATCAGAATCAAAATCAGAATC-AG-AATT
1 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAA-C
* * *
30709258 AG-GTGACAGAATTAGAATCAGAATCA-ATATCAAGTAAC
1 AGAAT--CAAAATGAGAATCAGAATCAGA-ATCAAGTAAC
30709296 AGAATCAAAATGAGAAT
1 AGAATCAAAATGAGAAT
30709313 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
35 2 0.03
36 5 0.07
37 58 0.81
38 4 0.06
39 3 0.04
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAAC
Found at i:30709232 original size:43 final size:43
Alignment explanation
Indices: 30709185--30709303 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 43
30709175 TATCAGAACT
* *
30709185 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAAAATCAAAATCAGAATCAGAATCAAGTGACAGAATC
* * * *
30709228 AGAATCAGAATCAAAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAAAATCAAAATCAGAATCAGAATCAAGTGACAGAATC
* *
30709271 AGAATCAGAATCAATATCAAGTAA-CAGAATCAA
1 AGAATCAAAATCAAAATC-AG-AATCAGAATCAA
30709304 AATGAGAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 54 0.83
44 9 0.14
45 2 0.03
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.18
Consensus pattern (43 bp):
AGAATCAAAATCAAAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:30709268 original size:31 final size:31
Alignment explanation
Indices: 30709233--30709312 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
30709223 GAATCAGAAT
* * *
30709233 CAGAATCAAAATCAGAATCAGA-ATTAGGTGA
1 CAGAATCAAAATCAGAATCA-ATATCAAGTAA
* *
30709264 CAGAATTAGAATCAGAATCAATATCAAGTAA
1 CAGAATCAAAATCAGAATCAATATCAAGTAA
*
30709295 CAGAATCAAAATGAGAAT
1 CAGAATCAAAATCAGAAT
30709313 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAATATCAAGTAA
Found at i:30710209 original size:27 final size:27
Alignment explanation
Indices: 30709817--30710198 Score: 500
Period size: 27 Copynumber: 14.1 Consensus size: 27
30709807 ACACCCTAGA
** * *
30709817 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
30709844 GGTAAAACGGTAATTCTGTAAATTGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
30709871 GGTAAAAC-GATAATTCTGTAAATCGAG
1 GGTAAAACAG-TAATTCTGTAAATCGAG
* * * * *
30709898 GATAAAATAGAAATTTTGAAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* * * *
30709925 GGTAAAATAGTAATTTTATAGATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
30709952 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
30709979 GGTAAAATAGTAATTCTGTAATTCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
30710006 GGTAAAACAGTAATTCTGTAAATCGAA
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
30710033 GGTGAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
30710060 GGTAAAAC-GATAATTTTGTAAATTGAG
1 GGTAAAACAG-TAATTCTGTAAATCGAG
*
30710087 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
30710114 GGTAAAAC-GATAATTTTGTAAATCGAG
1 GGTAAAACAG-TAATTCTGTAAATCGAG
30710141 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
30710168 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
30710195 GGTA
1 GGTA
30710199 CTTTGGTAAT
Statistics
Matches: 313, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.01
27 307 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GGTAAAACAGTAATTCTGTAAATCGAG
Found at i:30710220 original size:27 final size:27
Alignment explanation
Indices: 30710190--30710344 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 27
30710180 ATTCTGTAAA
* *
30710190 TCGAGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
30710217 TCGAGGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
30710244 TCGAGGGTATTTTAGTAATTTCACAAA
1 TCGAGGGTATTTTAGTAATTTTACAAG
*
30710271 TC-AGAGGTATTTTGGTAATTTTACAA-
1 TCGAG-GGTATTTTAGTAATTTTACAAG
* * * * *
30710297 ACCAGTGGTATTTTTGTAATTTTATAAA
1 TCGAG-GGTATTTTAGTAATTTTACAAG
* * *
30710325 CCAAGGGTATTTTGGTAATT
1 TCGAGGGTATTTTAGTAATT
30710345 CTACCCTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 102 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TCGAGGGTATTTTAGTAATTTTACAAG
Found at i:30710359 original size:27 final size:27
Alignment explanation
Indices: 30710326--30710408 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
30710316 TTTTATAAAC
**
30710326 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
30710353 CATGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
30710380 CAAGGGTATTTCAATAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
30710407 CA
1 CA
30710409 GATATGAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:30712345 original size:49 final size:49
Alignment explanation
Indices: 30712283--30712378 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
30712273 CAGAACTAGA
*
30712283 ATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGG
1 ATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGG
* * *
30712332 ATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCA
1 ATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCA
30712379 AAATGAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (49 bp):
ATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGG
Found at i:30712376 original size:6 final size:6
Alignment explanation
Indices: 30712271--30712357 Score: 97
Period size: 6 Copynumber: 14.3 Consensus size: 6
30712261 AAGAAACATT
* * *
30712271 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
30712320 ATCAGA ATCAGG ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
30712358 TAGGTGACAG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 2 0.03
6 61 0.90
7 4 0.06
8 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:30712388 original size:49 final size:49
Alignment explanation
Indices: 30712282--30712388 Score: 151
Period size: 49 Copynumber: 2.2 Consensus size: 49
30712272 TCAGAACTAG
* * *
30712282 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
* * *
30712331 GATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
*
30712380 AATGAGAAT
1 AATCAGAAT
30712389 GTGAATGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (49 bp):
AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
Found at i:30712555 original size:27 final size:26
Alignment explanation
Indices: 30712507--30712566 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
30712497 GCGAGGTTGC
*
30712507 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
30712534 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
30712560 CAAATAT
1 CAGATAT
30712567 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30712922 original size:27 final size:27
Alignment explanation
Indices: 30712892--30713270 Score: 431
Period size: 27 Copynumber: 14.0 Consensus size: 27
30712882 AACACCCTAG
* * *
30712892 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
30712919 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
30712946 TGTTAAAAT-GATAATTCTGTAAATCAA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
* *
30712973 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
30713000 GGGTAAAACAGTAATTCTATAGATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
30713027 GGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30713054 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
30713081 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* ** *
30713108 GGGTGAAACGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30713135 GGGTAAAA-CGATAATTCTGTAAATTGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
*
30713162 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30713189 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
* *
30713216 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30713243 GGGTAAAATGGTAATTCTGTGAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
30713270 G
1 G
30713271 TGTACTTTGA
Statistics
Matches: 306, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 300 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTGTAAATCGA
Found at i:30713373 original size:27 final size:27
Alignment explanation
Indices: 30713276--30713420 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
30713266 TCGAGTGTAC
* * *
30713276 TTTGATAATTTTACAAGT-TGAGGGTAT
1 TTTGGTAATTTTACAAATCAGA-GGTAT
** **
30713303 TTCAGTAATTTTACAGGTC-GAGGGTAT
1 TTTGGTAATTTTACAAATCAGA-GGTAT
** *
30713330 TTCAGTAATTTCACAAATCAGAGGTAT
1 TTTGGTAATTTTACAAATCAGAGGTAT
* *
30713357 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAATCAGAGGTAT
* * *
30713384 TTTGGTAATCTTATAAACTAAG-GGTAT
1 TTTGGTAATTTTACAAA-TCAGAGGTAT
30713411 TTTGGTAATT
1 TTTGGTAATT
30713421 CTACCCTATA
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 94 0.96
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCAGAGGTAT
Found at i:30713382 original size:54 final size:53
Alignment explanation
Indices: 30713324--30713447 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 53
30713314 TACAGGTCGA
* *
30713324 GGGTATTTCAGTAATTTCACAAA-TCAGAGGTATTTTGGTAATTTTA-CAAACCAG
1 GGGTATTTCAGTAATTT-ACAAACTAAG-GGTATTTTGGTAATTCTACCAAA-CAG
** * ** *
30713378 GGGTATTTTGGTAATCTTATAAACTAAGGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAAT-TTACAAACTAAGGGTATTTTGGTAATTCTACCAAACAG
30713432 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
30713448 CTACCCTACA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.02
54 49 0.86
55 7 0.12
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTACAAACTAAGGGTATTTTGGTAATTCTACCAAACAG
Found at i:30713435 original size:27 final size:27
Alignment explanation
Indices: 30713403--30713473 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
30713393 CTTATAAACT
** *
30713403 AAGGGTATTTTGGTAATTCTACCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTAC
*
30713430 AGGGGTATTTCAGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
30713457 AAGGGTATTTCAGTAAT
1 AAGGGTATTTCAGTAAT
30713474 GCTAGCCTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTCTACCCTAC
Found at i:30721671 original size:34 final size:34
Alignment explanation
Indices: 30721606--30721676 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
30721596 GTTCAATCTT
* * *
30721606 AGTTAGGGCCTTAGCCCATTACAATATCAGTATC
1 AGTTAGGGCCTGAGCCCATTACAATAACAGTAAC
* *
30721640 AGTTTGGGCCTGAGCCCATCT-CAGTAACAGTAAC
1 AGTTAGGGCCTGAGCCCAT-TACAATAACAGTAAC
30721674 AGT
1 AGT
30721677 AACAGTACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (34 bp):
AGTTAGGGCCTGAGCCCATTACAATAACAGTAAC
Found at i:30722031 original size:27 final size:27
Alignment explanation
Indices: 30721971--30722024 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
30721961 TCATACATCT
30721971 CATAGGGGCATAACAATCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
* * *
30721998 CACAGGGGCATAATAGTCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
30722025 GTTAGGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (27 bp):
CATAGGGGCATAACAATCATTTTATCA
Found at i:30724349 original size:37 final size:37
Alignment explanation
Indices: 30724299--30724377 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30724289 TTATTACGAA
* * *
30724299 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
*
30724336 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
30724373 GTCTT
1 GTCTT
30724378 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
Found at i:30724622 original size:47 final size:47
Alignment explanation
Indices: 30724496--30724832 Score: 503
Period size: 47 Copynumber: 7.1 Consensus size: 47
30724486 CCCTTCGGGA
* * * * * *
30724496 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30724543 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30724592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30724639 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30724688 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30724735 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30724782 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30724829 CTTA
1 CTTA
30724833 CTATCATTTC
Statistics
Matches: 267, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 183 0.69
49 84 0.31
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30724660 original size:96 final size:96
Alignment explanation
Indices: 30724496--30724829 Score: 537
Period size: 96 Copynumber: 3.5 Consensus size: 96
30724486 CCCTTCGGGA
* * * * * * *
30724496 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
* *
30724561 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTCGGC
*
30724592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
30724657 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTCGGC
*
30724688 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--GTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
30724751 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTCGGC
* *
30724782 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
30724830 TTACTATCAT
Statistics
Matches: 224, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 84 0.38
96 140 0.62
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:30724754 original size:143 final size:143
Alignment explanation
Indices: 30724496--30724832 Score: 518
Period size: 143 Copynumber: 2.4 Consensus size: 143
30724486 CCCTTCGGGA
* * * * * *
30724496 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATA
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACA-ATATATA
*
30724560 CACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTCCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
30724625 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
30724639 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAATATATA
* *
30724703 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCAC
65 CACTTCCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCAC
*
30724768 ATCGGCCATTCGGC
130 ATCGGCCATTAGGC
* * *
30724782 CCTATCAC-GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTA
30724833 CTATCATTTC
Statistics
Matches: 179, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
141 41 0.23
143 99 0.55
144 1 0.01
145 38 0.21
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (143 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAATATATAC
ACTTCCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:30735493 original size:19 final size:19
Alignment explanation
Indices: 30735465--30735611 Score: 85
Period size: 19 Copynumber: 8.1 Consensus size: 19
30735455 AATAAATTAC
* *
30735465 TCATCATAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
30735484 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
30735503 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
* *
30735519 TCATCATAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
30735538 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * *
30735557 TGC-T-GGAATAAATT-A-T
1 T-CATCTTAGTTAATTAAGT
*
30735573 TCATGTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
30735592 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
30735611 T
1 T
30735612 GCTGGAATAA
Statistics
Matches: 94, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
15 2 0.02
16 5 0.05
17 14 0.15
18 14 0.15
19 57 0.61
20 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:30735516 original size:54 final size:54
Alignment explanation
Indices: 30735443--30735621 Score: 304
Period size: 54 Copynumber: 3.3 Consensus size: 54
30735433 GTTTAATTAG
*
30735443 TTAAGTTGTTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
30735497 TTAAGTTGCTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
* ** *
30735551 TTAAGTTGCTGGAATAAATTATTCATGTTAGTTAATTAAGTTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
*
30735605 TTTAGTTGCTGGAATAA
1 TTAAGTTGCTGGAATAA
30735622 TTTAATGATG
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (54 bp):
TTAAGTTGCTGGAATAAATTACTCATCATAGTTAATTGAGTTCATCTTAGTTAA
Found at i:30735686 original size:9 final size:9
Alignment explanation
Indices: 30735668--30735731 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
30735658 TTTATTTAAG
30735668 TTAA-GTGT
1 TTAATGTGT
*
30735676 TTCATGTGT
1 TTAATGTGT
*
30735685 TTTATGTGT
1 TTAATGTGT
30735694 TTAAATGTGT
1 TT-AATGTGT
*
30735704 TTAATATG-
1 TTAATGTGT
30735712 -T-ATGT-T
1 TTAATGTGT
30735718 TTAATGTGT
1 TTAATGTGT
30735727 TTAAT
1 TTAAT
30735732 TTCAAGTGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 3 0.07
7 2 0.04
8 7 0.16
9 25 0.56
10 8 0.18
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:30740422 original size:18 final size:18
Alignment explanation
Indices: 30740401--30740458 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
30740391 TAGAAAAATC
30740401 AAAAGAAAAAGAACAAGA
1 AAAAGAAAAAGAACAAGA
* *
30740419 AAAA-AAGAATAAGCAAGA
1 AAAAGAAAAAGAA-CAAGA
*
30740437 AAAAG-AAAAGAAAATAGA
1 AAAAGAAAAAGAACA-AGA
30740455 AAAA
1 AAAA
30740459 AAGAGAGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAGAACAAGA
Found at i:30740425 original size:14 final size:13
Alignment explanation
Indices: 30740406--30740450 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
30740396 AAATCAAAAG
30740406 AAAAAGAACAAGAA
1 AAAAAGAA-AAGAA
30740420 AAAAAGAATAAGCAA
1 AAAAAGAA-AAG-AA
30740435 GAAAAAGAAAAGAA
1 -AAAAAGAAAAGAA
30740449 AA
1 AA
30740451 TAGAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
15 5 0.18
16 8 0.29
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:30743454 original size:40 final size:39
Alignment explanation
Indices: 30743392--30743636 Score: 298
Period size: 40 Copynumber: 6.2 Consensus size: 39
30743382 AAACCAAGTA
* * *
30743392 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTCGCACAAATG
*
30743431 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCA-CTCGCACAAATG
*
30743471 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCA-CTCGCACAAATG
*
30743511 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTCGCACAAATG
* * *
30743551 CCTTCGGGACTTAGCCC-AAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAG-CACTCGCACAAATG
* *
30743591 CCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGGACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAG-CACTCGCACAAATG
30743631 CCTTCG
1 CCTTCG
30743637 TTATCATCCG
Statistics
Matches: 189, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.08
40 172 0.91
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTCGCACAAATG
Found at i:30751539 original size:40 final size:40
Alignment explanation
Indices: 30751477--30751681 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
30751467 AAACCAAGTA
* * * *
30751477 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
30751516 CCTTCGGGACTTAGCCCGGATATAGT-AGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCA-CTCGCACAAATG
*
30751556 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
* *
30751596 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATG
*
30751636 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATG
30751676 CCTTCG
1 CCTTCG
30751682 TTATCATCTG
Statistics
Matches: 154, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
39 16 0.10
40 135 0.88
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATG
Found at i:30757463 original size:133 final size:133
Alignment explanation
Indices: 30757225--30757480 Score: 494
Period size: 133 Copynumber: 1.9 Consensus size: 133
30757215 TGATTGCATA
30757225 TCTATTCATATAACCATCGTGGATTGTGTGCCGATAGAATTCCCATGGTCTTCCCAAGAGCAAAT
1 TCTATTCATATAACCATCGTGGATTGTGTGCCGATAGAATTCCCATGGTCTTCCCAAGAGCAAAT
*
30757290 GGCCAACGTGCATCGACACCACATCACACATTACTTCATCTTGATACTTGCCGATAGAATTCCCA
66 GGCCAACGTGCATCGACACCACATCACACATTACTTCATCTTGATACTTGCCAATAGAATTCCCA
30757355 TGG
131 TGG
*
30757358 TCTATTCGTATAACCATCGTGGATTGTGTGCCGATAGAATTCCCATGGTCTTCCCAAGAGCAAAT
1 TCTATTCATATAACCATCGTGGATTGTGTGCCGATAGAATTCCCATGGTCTTCCCAAGAGCAAAT
30757423 GGCCAACGTGCATCGACACCACATCACACATTACTTCATCTTGATACTTGCCAATAGA
66 GGCCAACGTGCATCGACACCACATCACACATTACTTCATCTTGATACTTGCCAATAGA
30757481 GAATGCAACA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 121 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (133 bp):
TCTATTCATATAACCATCGTGGATTGTGTGCCGATAGAATTCCCATGGTCTTCCCAAGAGCAAAT
GGCCAACGTGCATCGACACCACATCACACATTACTTCATCTTGATACTTGCCAATAGAATTCCCA
TGG
Found at i:30760803 original size:27 final size:26
Alignment explanation
Indices: 30760733--30760933 Score: 219
Period size: 26 Copynumber: 7.6 Consensus size: 26
30760723 TTAGTTTACC
* * * *
30760733 AAATTACGGAAATACCCCCAGTTGTA
1 AAATTACCGAAATACCTCGATTTGTA
*
30760759 AAATTACC-AAAGTACCTCGATTTATA
1 AAATTACCGAAA-TACCTCGATTTGTA
*
30760785 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATA-CCTCGATTTGTA
*
30760812 AAATTACCGAAATACCGTC-AATTGTA
1 AAATTACCGAAATACC-TCGATTTGTA
*
30760838 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATA-CCTCGATTTGTA
*
30760865 AAATTACCAAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACC-TCGATTTGTA
** *
30760891 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATA-CCTCGATTTGTA
30760918 AAATTACCGAAATACC
1 AAATTACCGAAATACC
30760934 CCTGTAGGGT
Statistics
Matches: 150, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
25 3 0.02
26 75 0.50
27 72 0.48
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTACCGAAATACCTCGATTTGTA
Found at i:30760818 original size:53 final size:53
Alignment explanation
Indices: 30760754--30760933 Score: 256
Period size: 53 Copynumber: 3.4 Consensus size: 53
30760744 ATACCCCCAG
* ** *
30760754 TTGTAAAATTACC-AAAGTACC-TCGATTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCGAAA-TACCGTCGA-TTGTAAAATTACTAAAATACCCTCGAT
* *
30760807 TTGTAAAATTACCGAAATACCGTCAATTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGAT
* *
30760860 TTGTAAAATTACCAAAATACCGTCGATTGTAAAATTACTAAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGAT
30760913 TTGTAAAATTACCGAAATACC
1 TTGTAAAATTACCGAAATACC
30760934 CCTGTAGGGT
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 109 0.95
54 6 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGAT
Found at i:30760934 original size:27 final size:27
Alignment explanation
Indices: 30760733--30760934 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
30760723 TTAGTTTACC
* * *
30760733 AAATTACGGAAATACCC-CCAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
30760759 AAATTACC-AAAGTA-CCTCGATTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *
30760785 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
30760812 AAATTACCGAAATACCGTC-AATTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
30760838 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
30760865 AAATTACCAAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
30760891 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
30760918 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
30760935 CTGTAGGGTA
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.03
26 71 0.47
27 74 0.49
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:30760949 original size:27 final size:27
Alignment explanation
Indices: 30760919--30761249 Score: 410
Period size: 27 Copynumber: 12.3 Consensus size: 27
30760909 CAATTTGTAA
30760919 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30760946 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30760973 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30761000 AAATACCGAAATACCCTTGTAGGGAAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30761027 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30761054 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30761081 AAATATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
30761108 AAATACCGAAATAATCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30761135 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30761162 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30761189 AAATACCGAAAAACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
30761216 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
30761243 AATTACC
1 AATTACC
30761250 ATTTTGCCCC
Statistics
Matches: 262, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 262 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30761008 original size:81 final size:81
Alignment explanation
Indices: 30760922--30761231 Score: 467
Period size: 81 Copynumber: 3.8 Consensus size: 81
30760912 TTTGTAAAAT
* * * *
30760922 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATAC
1 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
* *
30760987 CCTTGTAGGGTAGAAA
66 CCCTGTAGGATAGAAA
*
30761003 TACCGAAATACCCTTGTAGGGAAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
1 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
30761068 CCCTGTAGGATAGAAA
66 CCCTGTAGGATAGAAA
* ** *
30761084 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATAATCTTGTAGGGTAGAATTACTGAAATAC
1 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
*
30761149 CCCTGTAGGATAGAAT
66 CCCTGTAGGATAGAAA
* * * * *
30761165 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAAAACCCCTGCAGGGTAGAATTACCGAGATAC
1 TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
30761230 CC
66 CC
30761232 TTGTGGGGTA
Statistics
Matches: 209, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 209 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (81 bp):
TACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
CCCTGTAGGATAGAAA
Found at i:30761730 original size:22 final size:22
Alignment explanation
Indices: 30761677--30761741 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
30761667 TTAAAGCCTT
* *
30761677 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
**
30761699 CT-ACACATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
30761721 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
30761742 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30761936 original size:26 final size:24
Alignment explanation
Indices: 30761892--30761979 Score: 79
Period size: 27 Copynumber: 3.4 Consensus size: 24
30761882 TGCCACGTAT
* *
30761892 TCTGTT-TAGTGGCTTTGCCATATTA
1 TCTGTTCTGGTGGCTCTGCCA-A-TA
30761917 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCTGGTGGCTCTG-C-CAATA
*
30761943 TCTGTATCTGGTGACTCTGTCTCAATA
1 TCTGT-TCTGGTGGCTCTG-C-CAATA
30761970 TCTGTTCTGG
1 TCTGTTCTGG
30761980 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 6 0.11
26 21 0.39
27 25 0.46
28 2 0.04
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.42
Consensus pattern (24 bp):
TCTGTTCTGGTGGCTCTGCCAATA
Done.