Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001494.1 Hibiscus syriacus cultivar Beakdansim tig00002909_pilon, whole genome shotgun sequence
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: 56727
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Found at i:152 original size:44 final size:45
Alignment explanation
Indices: 3--160 Score: 219
Period size: 45 Copynumber: 3.5 Consensus size: 45
1 AT
*
3 GATGCCATAAATGATATGTATAATAGTGTATTATAGGCATGAAAG
1 GATGCCATAAATGAAATGTATAATAGTGTATTATAGGCATGAAAG
* * *
48 GTTGCCATAAATGAAATGTATAATAGTGTATTATCGACATGAAAG
1 GATGCCATAAATGAAATGTATAATAGTGTATTATAGGCATGAAAG
* *
93 GATGCCCTAAATGAAATGTATAATA-TGTATTATTGGCATGAAAG
1 GATGCCATAAATGAAATGTATAATAGTGTATTATAGGCATGAAAG
* * * *
137 GATGTCATGATTGAAATGCATAAT
1 GATGCCATAAATGAAATGTATAAT
161 GGTGCATAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 36 0.36
45 64 0.64
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (45 bp):
GATGCCATAAATGAAATGTATAATAGTGTATTATAGGCATGAAAG
Found at i:179 original size:89 final size:90
Alignment explanation
Indices: 3--197 Score: 223
Period size: 89 Copynumber: 2.2 Consensus size: 90
1 AT
* * * *
3 GATGCCATAAATGATATGTATAATAGTGTATTATAGGCATGAAAGGTTGCCATAAATGAAATGTA
1 GATGCCCTAAATGAAATGTATAATAGTGTATTATAGGCATGAAAGGATGCCATAAATGAAATGCA
* * *
68 TAATAGTGTATTATCGACATGAAAG
66 TAATAGTGCATAATAGACATGAAAG
* * * *
93 GATGCCCTAAATGAAATGTATAATA-TGTATTATTGGCATGAAAGGATGTCATGATTGAAATGCA
1 GATGCCCTAAATGAAATGTATAATAGTGTATTATAGGCATGAAAGGATGCCATAAATGAAATGCA
* * *
157 TAATGGTGCATAATA-AGTATGAATG
66 TAATAGTGCATAATAGA-CATGAAAG
* *
182 GATGCTCTCAATGAAA
1 GATGCCCTAAATGAAA
198 ATAAAGAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 1 0.01
89 64 0.73
90 23 0.26
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (90 bp):
GATGCCCTAAATGAAATGTATAATAGTGTATTATAGGCATGAAAGGATGCCATAAATGAAATGCA
TAATAGTGCATAATAGACATGAAAG
Found at i:1109 original size:80 final size:81
Alignment explanation
Indices: 1018--1177 Score: 232
Period size: 80 Copynumber: 2.0 Consensus size: 81
1008 TCCTTTAGAT
* * * *
1018 TTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGAC-CCTTTATGCTAAATGCAC
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGCCAAATGCAC
**
1082 AGTTAGGCCATTAATC
66 AACTAGGCCATTAATC
* * *
1098 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCAC
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGCCAAATGCAC
1163 AACTAGGCCATTAAT
66 AACTAGGCCATTAAT
1178 TTATTTTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 42 0.60
81 28 0.40
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (81 bp):
TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATGCCAAATGCAC
AACTAGGCCATTAATC
Found at i:1664 original size:47 final size:47
Alignment explanation
Indices: 1510--2041 Score: 470
Period size: 47 Copynumber: 11.2 Consensus size: 47
1500 TATTCGTTAA
* * * *
1510 TTTTATTTATGGCATCATTT-ATTCCTTAATGCATCCGTTCATGCA-
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
** *
1555 TTTTAGTTATATCATCCTTTC-TTCCTTAATGCATC-GTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
* * * *
1600 TTTTAGTTATCGTATCCTGTCATGCCTTAATGCATCTGTTCATGAAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
* * *
1647 TTTTAATTATGGCATCCTTTCATGCCTT-ACGCATCTTTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
* * **
1693 TTTTAGTCATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
* * *
1740 CTTTAATTATGGCATCCTTTCATGCCTTAATACATCCT-TTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT-CTGTTCATGCAT
*
1787 TTTTAGTTATGGTATCCTTTCATGCCTTAATGCATCCT-TTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT-CTGTTCATGCAT
*
1834 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATCCTTTCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT-CTGTTCA----TGCAT
* *
1885 TTTTAGTTATGGCACCCTTTCAT---TT-AT---TTTAGTT-ATGGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCT-GTTCAT-GCAT
* * *
1926 CCTTTCATACCTTAAT-GCATCCTTTTATGCATTTTAGTTATGACATCCT-TTCATGCAT
1 --TTT--TA-GTT-ATGGCATCCTTTCATGC--CTTA---ATG-CAT-CTGTTCATGCAT
* *
1984 TTTTAATTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
2031 TTTTAGTTATG
1 TTTTAGTTATG
2042 TATTCGGTTT
Statistics
Matches: 405, Mismatches: 46, Indels: 70
0.78 0.09 0.13
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
43 4 0.01
44 11 0.03
45 51 0.13
46 67 0.17
47 197 0.49
48 6 0.01
51 31 0.08
52 2 0.00
53 15 0.04
54 2 0.00
55 2 0.00
56 3 0.01
58 6 0.01
59 3 0.01
60 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (47 bp):
TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGCAT
Found at i:1734 original size:20 final size:20
Alignment explanation
Indices: 1706--1880 Score: 109
Period size: 20 Copynumber: 7.8 Consensus size: 20
1696 TAGTCATGGA
1706 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
1726 ATCCATTCATGCATCTTTAATTATGGC
1 ATCCTTTCATGC--C-TT-A--AT-GC
*
1753 ATCCTTTCATGCCTTAATAC
1 ATCCTTTCATGCCTTAATGC
* *
1773 ATCCTTTCATGCATTTTTAGTTATGGT
1 ATCCTTTCATGC---CTTA---AT-GC
1800 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
1820 ATCCTTTCATGCATTTTTAGTTATGGC
1 ATCCTTTCATGC---CTTA---AT-GC
1847 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
1867 ATCCTTTCAT-CCTT
1 ATCCTTTCATGCCTT
1881 TCATTTTTAG
Statistics
Matches: 124, Mismatches: 10, Indels: 43
0.70 0.06 0.24
Matches are distributed among these distances:
19 4 0.03
20 49 0.40
21 6 0.05
22 1 0.01
23 9 0.07
24 9 0.07
25 1 0.01
26 6 0.05
27 39 0.31
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAATGC
Found at i:1762 original size:27 final size:27
Alignment explanation
Indices: 1724--2008 Score: 162
Period size: 27 Copynumber: 11.5 Consensus size: 27
1714 ATGCCTTAAT
*
1724 GCATCCATTCATGCATCTTTAATTATG
1 GCATCCTTTCATGCATCTTTAATTATG
1751 GCATCCTTTCATGC--C-TTAA-TA--
1 GCATCCTTTCATGCATCTTTAATTATG
* *
1772 -CATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATCTTTAATTATG
*
1798 GTATCCTTTCATGC--C-TT-A--AT-
1 GCATCCTTTCATGCATCTTTAATTATG
* *
1818 GCATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATCTTTAATTATG
1845 GCATCCTTTCATGC--C-TT-A--AT-
1 GCATCCTTTCATGCATCTTTAATTATG
* * *
1865 GCATCCTTTCATCCTTTCATTTTTAGTTATG
1 GCATCCTTTCA----TGCATCTTTAATTATG
* ** *
1896 GCACCCTTTCATTTAT-TTTAGTTATG
1 GCATCCTTTCATGCATCTTTAATTATG
*
1922 GCATCCTTTCAT--A-CCTT-A--AT-
1 GCATCCTTTCATGCATCTTTAATTATG
* *
1942 GCATCCTTTTATGCAT-TTTAGTTATG
1 GCATCCTTTCATGCATCTTTAATTATG
* *
1968 ACATCCTTTCATGCATTTTTAATTATG
1 GCATCCTTTCATGCATCTTTAATTATG
1995 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2009 CTTAATGCAT
Statistics
Matches: 198, Mismatches: 26, Indels: 68
0.68 0.09 0.23
Matches are distributed among these distances:
20 48 0.24
21 6 0.03
22 3 0.02
23 7 0.04
24 15 0.08
25 3 0.02
26 37 0.19
27 67 0.34
30 2 0.01
31 10 0.05
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (27 bp):
GCATCCTTTCATGCATCTTTAATTATG
Found at i:1928 original size:77 final size:75
Alignment explanation
Indices: 1822--2041 Score: 288
Period size: 73 Copynumber: 2.9 Consensus size: 75
1812 CTTAATGCAT
* *
1822 CCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATCCTTTCATTT
1 CCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT--ATGCA-TT
*
1887 TTAGTTATGGCAC
63 TTAGTTATGACAC
** *
1900 CCTTTCATTTA-TTTTAGTTATGGCATCCTTTCATACCTTAATGCATCCTTT--TATGCATTTTA
1 CCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATGCATTTTA
*
1962 GTTATGACAT
66 GTTATGACAC
* *
1972 CCTTTCATGCATTTTTAATTATGGCATCCTTTCATGCCTTAATGCATCTTTTC--ATGCATTTTT
1 CCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATGCA-TTTT
2035 AGTTATG
65 AGTTATG
2042 TATTCGGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
72 22 0.17
73 45 0.35
74 11 0.09
75 1 0.01
77 39 0.31
78 9 0.07
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (75 bp):
CCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATATGCATTTTA
GTTATGACAC
Found at i:6845 original size:81 final size:80
Alignment explanation
Indices: 6713--6878 Score: 244
Period size: 81 Copynumber: 2.1 Consensus size: 80
6703 TCCTTTAGTT
* * *
6713 TTTTACCCAAAGGCATTAAGCCTTTTATCTGATTGCATAATTGACACATTTCTACCAAATGCACA
1 TTTTACCCAAAGGCATTAAGCCTTTCATCTAATGGCATAATTGACACATTTCTACCAAATGCACA
6778 GCTAGGCCATTAATC
66 GCTAGGCCATTAATC
* * *
6793 TTTTACTCAAAGGTATTTAA-CCTTTCATCTAACTGGCATAATTGTCACATTTCTACCAAATGCA
1 TTTTACCCAAAGGCA-TTAAGCCTTTCATCTAA-TGGCATAATTGACACATTTCTACCAAATGCA
*
6857 CAGCTAGGCTATTAATC
64 CAGCTAGGCCATTAATC
6874 TTTTA
1 TTTTA
6879 TTTTTAATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 23 0.30
81 54 0.70
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTACCCAAAGGCATTAAGCCTTTCATCTAATGGCATAATTGACACATTTCTACCAAATGCACA
GCTAGGCCATTAATC
Found at i:7278 original size:47 final size:47
Alignment explanation
Indices: 7227--7405 Score: 223
Period size: 47 Copynumber: 3.8 Consensus size: 47
7217 TTAATTTCAT
* * *
7227 TTATGGCATCCTTTTATGCCTTAATGCATTCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGAATTTTTAG
* **
7274 TTATGACATCCTTTCATGCCTTAATGCATATGTTCATGAATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGAATTTTTAG
* * * * * *
7321 TTATCGTATCCTTTCAAGCCTTAATGCATCCATTCATGAATTTTAAA
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGAATTTTTAG
* * *
7368 TTGTGGCATCCTTTCATGCCTTATTGCATCCTTTCATG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATG
7406 CCTTATTGCA
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (47 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGAATTTTTAG
Found at i:7398 original size:20 final size:20
Alignment explanation
Indices: 7373--7426 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
7363 TTAAATTGTG
7373 GCATCCTTTCATGCCTTATT
1 GCATCCTTTCATGCCTTATT
7393 GCATCCTTTCATGCCTTATT
1 GCATCCTTTCATGCCTTATT
7413 GCATCCTTTCATGC
1 GCATCCTTTCATGC
7427 ATTTTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.31, G:0.11, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTATT
Found at i:7409 original size:67 final size:67
Alignment explanation
Indices: 7328--7473 Score: 204
Period size: 67 Copynumber: 2.2 Consensus size: 67
7318 TAGTTATCGT
* *
7328 ATCCTTTCAAGCCTTAATGCATCCATTCATGAATTTTAAATTGTGGCATCCTTTCATGCCTT-AT
1 ATCCTTTCATGCCTTAATGCATCCATTCATGAATTTTAAATTATGGCATCCTTTCATGCCTTAAT
7392 TGC
66 T-C
* * * * *
7395 ATCCTTTCATGCCTTATTGCATCCTTTCATGCATTTTTAATTATGGTATCCTTTCATGCCTTAAT
1 ATCCTTTCATGCCTTAATGCATCCATTCATGAATTTTAAATTATGGCATCCTTTCATGCCTTAAT
7460 TC
66 TC
*
7462 ATCATTTCATGC
1 ATCCTTTCATGC
7474 ATTTTTAGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 67 0.96
68 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (67 bp):
ATCCTTTCATGCCTTAATGCATCCATTCATGAATTTTAAATTATGGCATCCTTTCATGCCTTAAT
TC
Found at i:7448 original size:47 final size:47
Alignment explanation
Indices: 7395--7486 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
7385 GCCTTATTGC
*
7395 ATCCTTTCATGCCTT-ATTGCATCCTTTCATGCATTTTTAATTATGGT
1 ATCCTTTCATGCCTTAATT-CATCATTTCATGCATTTTTAATTATGGT
*
7442 ATCCTTTCATGCCTTAATTCATCATTTCATGCATTTTTAGTTATG
1 ATCCTTTCATGCCTTAATTCATCATTTCATGCATTTTTAATTATG
7487 TATTCGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 39 0.93
48 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (47 bp):
ATCCTTTCATGCCTTAATTCATCATTTCATGCATTTTTAATTATGGT
Found at i:7908 original size:19 final size:19
Alignment explanation
Indices: 7884--7934 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
7874 TTCTGAGTCA
7884 ATAGTATCGATACCCTACC
1 ATAGTATCGATACCCTACC
7903 ATAGTATCGATACCCTACC
1 ATAGTATCGATACCCTACC
* *
7922 ATGGTACCGATAC
1 ATAGTATCGATAC
7935 TACTATACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.25
Consensus pattern (19 bp):
ATAGTATCGATACCCTACC
Found at i:7949 original size:22 final size:22
Alignment explanation
Indices: 7922--7979 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
7912 ATACCCTACC
7922 ATGGTACCGATACTACTATACT
1 ATGGTACCGATACTACTATACT
7944 ATGGTACCGATACTACTATACT
1 ATGGTACCGATACTACTATACT
*
7966 ATGGTACCAATACT
1 ATGGTACCGATACT
7980 CCGCCACGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (22 bp):
ATGGTACCGATACTACTATACT
Found at i:11691 original size:2 final size:2
Alignment explanation
Indices: 11684--11723 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11674 ATTGATGTAC
11684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11724 CATCCTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11936 original size:81 final size:81
Alignment explanation
Indices: 11783--11949 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 81
11773 TCCTTTAGTT
* *
11783 TTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTCCATAATTGACACCTTTCCACCAAATACCT
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCCACCAAATACCT
** *
11848 AGTTAGGCCATTAATG
66 AACTAGGCCATTAATC
* * * * ** *
11864 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGTCACCTTTCTGCCAAATGCAC
1 TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCCACCAAATAC-C
*
11929 -AACTAGGCTATTAATC
65 TAACTAGGCCATTAATC
11945 TTTTA
1 TTTTA
11950 TTTTTAAACA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 71 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (81 bp):
TTTTACCCAAAGGCATTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCCACCAAATACCT
AACTAGGCCATTAATC
Found at i:12353 original size:27 final size:26
Alignment explanation
Indices: 12322--12449 Score: 66
Period size: 27 Copynumber: 5.3 Consensus size: 26
12312 AATGCATATG
12322 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
*
12349 TTCATGC---CTTA--AT-GCAT-CT
1 TTCATGCATTTTTATTATGGCATCCT
* *
12368 GTTCATGTATTTTTAGTTATGGCATCAT
1 -TTCATGCATTTTTA-TTATGGCATCCT
* * *
12396 TTCATGC---CTTA--CT-GCATCCG
1 TTCATGCATTTTTATTATGGCATCCT
12416 TTCATGCATTTTTAATTATGGCATCCT
1 TTCATGCATTTTT-ATTATGGCATCCT
*
12443 TTTATGC
1 TTCATGC
12450 TTTACTGCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 32
0.62 0.11 0.27
Matches are distributed among these distances:
19 2 0.03
20 22 0.31
21 3 0.04
23 5 0.07
24 7 0.10
26 3 0.04
27 29 0.40
28 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (26 bp):
TTCATGCATTTTTATTATGGCATCCT
Found at i:12459 original size:94 final size:94
Alignment explanation
Indices: 12290--12460 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 94
12280 TTTATTTCAT
* * * *
12290 TTATGGCATCTTTTCATGTCTTAATGCATATGTTCATGCATTTTTAGTTATGGCATCCTTTCATG
1 TTATGGCATCATTTCATGCCTTAATGCATACGTTCATGCATTTTTAATTATGGCATCCTTTCATG
12355 CCTTAATGCATCTGTTCATGTATTTTTAG
66 CCTTAATGCATCTGTTCATGTATTTTTAG
* * *
12384 TTATGGCATCATTTCATGCCTTACTGCATCCGTTCATGCATTTTTAATTATGGCATCCTTTTATG
1 TTATGGCATCATTTCATGCCTTAATGCATACGTTCATGCATTTTTAATTATGGCATCCTTTCATG
* *
12449 CTTTACTGCATC
66 CCTTAATGCATC
12461 CTTTTATGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (94 bp):
TTATGGCATCATTTCATGCCTTAATGCATACGTTCATGCATTTTTAATTATGGCATCCTTTCATG
CCTTAATGCATCTGTTCATGTATTTTTAG
Found at i:12461 original size:47 final size:47
Alignment explanation
Indices: 12290--12461 Score: 236
Period size: 47 Copynumber: 3.7 Consensus size: 47
12280 TTTATTTCAT
* * **
12290 TTATGGCATCTTTTCATGTCTTAATGCATATGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* *
12337 TTATGGCATCCTTTCATGCCTTAATGCATCTGTTCATGTATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* * *
12384 TTATGGCATCATTTCATGCCTTACTGCATCCGTTCATGCATTTTTAA
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* * *
12431 TTATGGCATCCTTTTATGCTTTACTGCATCC
1 TTATGGCATCCTTTCATGCCTTAATGCATCC
12462 TTTTATGCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (47 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
Found at i:12479 original size:19 final size:20
Alignment explanation
Indices: 12436--12480 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12426 TTTAATTATG
* *
12436 GCATCCTTTTATGCTTTACT
1 GCATCCTTTTATGCTCTAAT
12456 GCATCCTTTTATGC-CTAAT
1 GCATCCTTTTATGCTCTAAT
12475 GCATCC
1 GCATCC
12481 GTTCATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (20 bp):
GCATCCTTTTATGCTCTAAT
Found at i:12512 original size:113 final size:114
Alignment explanation
Indices: 12342--12629 Score: 416
Period size: 113 Copynumber: 2.5 Consensus size: 114
12332 TTTAGTTATG
* * *
12342 GCATCCTTTCATGCCTTAATGCATCTGTTCATGTATTTTTAGTTATGGCATCATTTCATGCCTTA
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
* * * * * * *
12407 CTGCATCCGTTCATGCATTTTTAATTATGGCATCCTTTTATGCTTTACT
66 ATGCATCCATTCATACATTTTTAAGTATGGCATCCTTTCATGCCTTAAT
* * * *
12456 GCATCCTTTTATGCC-TAATGCATCCGTTCATGCATTTATAGTGATGGCATCCTTTCATGTCTTA
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
* *
12520 ATGTATCCATTCATACATTTTTAAGTATGGGATCCTTTCATGCCTTAAT
66 ATGCATCCATTCATACATTTTTAAGTATGGCATCCTTTCATGCCTTAAT
*
12569 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGC
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGC
12630 ATTATTAGTT
Statistics
Matches: 152, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
113 97 0.64
114 55 0.36
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (114 bp):
GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
ATGCATCCATTCATACATTTTTAAGTATGGCATCCTTTCATGCCTTAAT
Found at i:12522 original size:47 final size:47
Alignment explanation
Indices: 12456--12830 Score: 311
Period size: 47 Copynumber: 8.0 Consensus size: 47
12446 ATGCTTTACT
* * * *
12456 GCATCCTTTTATGCC-TAATGCATCCGTTCATGCATTTATAGTGATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
* * * *
12502 GCATCCTTTCATGTCTTAATGTATCCATTCATACATTTTTAAG-TATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTT-AGTTATG
* *
12549 GGATCCTTTCATGCCTTAATGCATCCTTTCATGC---CTTA---AT-
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
* *
12589 GCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCATTATTAGTTATG
1 GCATCCTTTCATGC---CTTA---AT-GCATCCTTTCATGCATTTTTAGTTATG
* * *
12643 TCATCCTTTTATGCCTTAATGCTTCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
* * * * ** * * *
12690 GCATACATTCATCCCTTACTGCATAATTTTATACAATTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
* * ** *
12737 TCATCATTTCATGCCTTAATGCAAT-CTTTCATGTTTTTTTAATTATG
1 GCATCCTTTCATGCCTTAATGC-ATCCTTTCATGCATTTTTAGTTATG
** *
12784 GCATCCTTTCATGCCTTAATGCATAATTTCTTGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
12831 TATTCAGTTT
Statistics
Matches: 258, Mismatches: 53, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
40 13 0.05
41 2 0.01
43 4 0.02
44 2 0.01
46 17 0.07
47 194 0.75
48 6 0.02
50 3 0.01
51 3 0.01
53 2 0.01
54 12 0.05
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (47 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATG
Found at i:12576 original size:20 final size:20
Alignment explanation
Indices: 12551--12602 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
12541 TAAGTATGGG
12551 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
12571 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
12591 ATCCTTTCATGC
1 ATCCTTTCATGC
12603 ATTTTTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAATGC
Found at i:12616 original size:67 final size:67
Alignment explanation
Indices: 12502--12713 Score: 237
Period size: 67 Copynumber: 3.1 Consensus size: 67
12492 TATAGTGATG
* * * * *
12502 GCATCCTTTCATGTCTTAATGTATCCATTCATACATTTTTAAG-TATGGGATCCTTTCATGCCTT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTT-AGTTATGGCATCCTTTCATGCCTT
12566 AAT
65 AAT
*
12569 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCATTA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGC---C
12634 TTAGTTAT
63 TTA---AT
* * * * *
12642 GTCATCCTTTTATGCCTTAATGCTTCCTTTCATGCATTTTTAGTTATGGCATACATTCATCCCTT
1 G-CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTT
*
12707 ACT
65 AAT
12710 GCAT
1 GCAT
12714 AATTTTATAC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
66 2 0.02
67 56 0.45
68 2 0.02
70 3 0.02
71 3 0.02
73 3 0.02
74 55 0.44
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (67 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
AT
Found at i:12622 original size:160 final size:160
Alignment explanation
Indices: 12290--12629 Score: 356
Period size: 160 Copynumber: 2.1 Consensus size: 160
12280 TTTATTTCAT
* * * *
12290 TTATGGCAT-CTTTTCATGTCTTAATGCATATGTTCATGCATTTTTAGTTATGGCATCCTTTCAT
1 TTATGGCATCCTTTT-ATG-CCTAATGCATACGTTCATGCATTTATAGTGATGGCATCCTTTCAT
** ** *
12354 GCCTTAATGCATCTGTTCATGTATTTTTAGTTATGGCATCATTTCATGCCTTACTGCATCCGTTC
64 GCCTTAATGCATCCATTCATACATTTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCGTTC
* *
12419 ATGCATTTTTAATTATGGCATCCTTTTATGCTTTA
129 ATGC--TCTTAA-TATGGCATCCTTTCATGCTTTA
* * *
12454 --CT-GCATCCTTTTATGCCTAATGCATCCGTTCATGCATTTATAGTGATGGCATCCTTTCATGT
1 TTATGGCATCCTTTTATGCCTAATGCATACGTTCATGCATTTATAGTGATGGCATCCTTTCATGC
* * * *
12516 CTTAATGTATCCATTCATACATTTTTAAG-TATGGGATCCTTTCATGCCTTAATGCATCCTTTCA
66 CTTAATGCATCCATTCATACATTTTT-AGTTATGGCATCATTTCATGCCTTAATGCATCCGTTCA
12580 TGC-CTT-A-AT-GCATCCTTTCATGCATTTTTA
130 TGCTCTTAATATGGCATCCTTTCATGC---TTTA
*
12610 GTTATGGCATCCTTTCATGC
1 -TTATGGCATCCTTTTATGC
12630 ATTATTAGTT
Statistics
Matches: 147, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
153 13 0.09
154 2 0.01
156 5 0.03
157 2 0.01
159 1 0.01
160 109 0.74
161 9 0.06
162 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (160 bp):
TTATGGCATCCTTTTATGCCTAATGCATACGTTCATGCATTTATAGTGATGGCATCCTTTCATGC
CTTAATGCATCCATTCATACATTTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCGTTCAT
GCTCTTAATATGGCATCCTTTCATGCTTTA
Found at i:12627 original size:27 final size:27
Alignment explanation
Indices: 12589--12693 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
12579 ATGCCTTAAT
12589 GCATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTAGTTATG
*
12616 GCATCCTTTCATGCATTATTAGTTATG
1 GCATCCTTTCATGCATTTTTAGTTATG
* * *
12643 TCATCCTTTTATGC---CTTA---AT-
1 GCATCCTTTCATGCATTTTTAGTTATG
*
12663 GCTTCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTAGTTATG
12690 GCAT
1 GCAT
12694 ACATTCATCC
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
20 11 0.18
21 2 0.03
23 3 0.05
24 3 0.05
26 2 0.03
27 41 0.66
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTTAGTTATG
Found at i:17445 original size:16 final size:17
Alignment explanation
Indices: 17401--17445 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
17391 TCATTTTCTT
17401 AGTTTGAGAG-TTACAA
1 AGTTTGAGAGTTTACAA
*
17417 AGTTTGAAAGTTTAC-A
1 AGTTTGAGAGTTTACAA
*
17433 CGTTTGAGAGTTT
1 AGTTTGAGAGTTT
17446 GAGATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (17 bp):
AGTTTGAGAGTTTACAA
Found at i:17672 original size:83 final size:83
Alignment explanation
Indices: 17561--18540 Score: 1128
Period size: 83 Copynumber: 11.8 Consensus size: 83
17551 AATAGAACAT
* * * *
17561 GAGCCTTTTATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTATAAATAATAATAGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
*
17626 AAATGCTTTCCCTAGAAC
66 AAATGCTTCCCCTAGAAC
* * * * * *
17644 GAGCCTTTCATTTTGGATAGCATGGAACATTATGACATGGCATAGATTTTCTGAATAATAATGGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
*
17709 AAACGCTTCCCCT-GAAAC
66 AAATGCTTCCCCTAG-AAC
* * *
17727 GTGCCTTTCATTTCGAATAGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
* * * *
17792 AAATGATTCCCTTGGAAT
66 AAATGCTTCCCCTAGAAC
* *
17810 GCGTCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
17875 AAAT-CTTCCCCT-GTAAC
66 AAATGCTTCCCCTAG-AAC
* * * * * * * * *
17892 GTGTCTTTTATTTAGGATGGGATAGAACACTATGACATGACAGAGATTCACTAAATAATAATAGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
*
17957 AAATGCTTTCCCTAGAAC
66 AAATGCTTCCCCTAGAAC
* * * * * *
17975 GAGCCTTTCATTTCGGATAGGATGGAACATTATGACATGACATAGATTTTTTGAATAATAATGGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
* *
18040 AAACGCTTCCCCTGGAAC
66 AAATGCTTCCCCTAGAAC
*
18058 -ACGCCTTTCATTTCGAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGG
1 GA-GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGG
* ** *
18122 AAAATACTTCCCCTTTAAT
65 AAAATGCTTCCCCTAGAAC
* * * * * ** *
18141 GCGTCTTTCATTTAGGATGGGATGGAATACTATGAAATGATAGAGATTTTCTGAATAATAATGGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
* * *
18206 AAACGCTTTCCCTGGAAC
66 AAATGCTTCCCCTAGAAC
* * * * * * *
18224 GAGCCTTTTATTTCGAATAGGATGGAACACTATGACCTGGCAGAGATTTTCTAAATAATAATAGA
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
* * *
18289 AAAAGATTCCCTTAGAAC
66 AAATGCTTCCCCTAGAAC
* * * *
18307 -ACACCTTTCATTTAGGATGGGATGGAACACTATGACATGACATAGATTCTCTGAATAATAATGG
1 GA-GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGG
* *
18371 AAAATGATTCCCCTAAAAC
65 AAAATGCTTCCCCTAGAAC
* * * * * ** *
18390 GCGCCTTTCATTTTGGATGGGATGAAATACTATGAAATGTTAGAGATTTTCTGAATAATAATGG-
1 GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
*
18454 AAATCGCTTCCCCTAGAAT
66 AAAT-GCTTCCCCTAGAAC
*
18473 GTA-CCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTATCTGAATAATAATGG
1 G-AGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGG
18537 AAAA
65 AAAA
18541 CACTATGAAA
Statistics
Matches: 750, Mismatches: 135, Indels: 23
0.83 0.15 0.03
Matches are distributed among these distances:
81 1 0.00
82 76 0.10
83 668 0.89
84 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (83 bp):
GAGCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGA
AAATGCTTCCCCTAGAAC
Found at i:18273 original size:249 final size:249
Alignment explanation
Indices: 17563--18541 Score: 1282
Period size: 249 Copynumber: 3.9 Consensus size: 249
17553 TAGAACATGA
* * * *
17563 GCCTTTTATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTATAAATAATAATAGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* * * * * * * * * * *
17628 ATGCTTTCCCTAGAACGAGCCTTTCATTTTGGATAGCATGGAACATTATGACATGGCATAGATTT
66 ATACTTCCCCTATAACGCGCCTTTCATTTAGGATGGGATGGAACACTATGAAATGACAGAGATTT
*
17693 TCTGAATAATAATGGAAAACGCTTCCCCT-GAAACGTGCCTTTCATTTCGAATAGGATGGAACAC
131 TCTGAATAATAATGGAAAACGCTTCCCCTAG-AACGAGCCTTTCATTTCGAATAGGATGGAACAC
* * **
17757 TATGACATGGCAGAGATTCTCTGAATAATAATGGAAAATGATTCCCTTGGAATGC
195 TATGACATGGCAGAGATTTTCTGAATAATAATGGAAAACGATTCCCTTGGAACAC
*
17812 GTCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* * * * * * *
17877 AT-CTTCCCCTGTAACGTGTCTTTTATTTAGGATGGGATAGAACACTATGACATGACAGAGATTC
66 ATACTTCCCCTATAACGCGCCTTTCATTTAGGATGGGATGGAACACTATGAAATGACAGAGATTT
* * * * * * *
17941 ACTAAATAATAATAGAAAATGCTTTCCCTAGAACGAGCCTTTCATTTCGGATAGGATGGAACATT
131 TCTGAATAATAATGGAAAACGCTTCCCCTAGAACGAGCCTTTCATTTCGAATAGGATGGAACACT
* * * * *
18006 ATGACATGACATAGATTTTTTGAATAATAATGGAAAACGCTTCCCCTGGAACAC
196 ATGACATGGCAGAGATTTTCTGAATAATAATGGAAAACGATTCCCTTGGAACAC
*
18060 GCCTTTCATTTCGAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* * * * *
18125 ATACTTCCCCTTTAATGCGTCTTTCATTTAGGATGGGATGGAATACTATGAAATGATAGAGATTT
66 ATACTTCCCCTATAACGCGCCTTTCATTTAGGATGGGATGGAACACTATGAAATGACAGAGATTT
* * *
18190 TCTGAATAATAATGGAAAACGCTTTCCCTGGAACGAGCCTTTTATTTCGAATAGGATGGAACACT
131 TCTGAATAATAATGGAAAACGCTTCCCCTAGAACGAGCCTTTCATTTCGAATAGGATGGAACACT
* * * * *
18255 ATGACCTGGCAGAGATTTTCTAAATAATAATAGAAAAAGATTCCCTTAGAACAC
196 ATGACATGGCAGAGATTTTCTGAATAATAATGGAAAACGATTCCCTTGGAACAC
* * * *
18309 ACCTTTCATTTAGGATGGGATGGAACACTATGACATGACATAGATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
* * * * **
18374 ATGA-TTCCCCTAAAACGCGCCTTTCATTTTGGATGGGATGAAATACTATGAAATGTTAGAGATT
66 AT-ACTTCCCCTATAACGCGCCTTTCATTTAGGATGGGATGGAACACTATGAAATGACAGAGATT
* * * *
18438 TTCTGAATAATAATGGAAATCGCTTCCCCTAGAATGTA-CCTTTCATTTCGGATGGGATGGAACA
130 TTCTGAATAATAATGGAAAACGCTTCCCCTAGAACG-AGCCTTTCATTTCGAATAGGATGGAACA
*
18502 CTATGACATGGCAGAGATTATCTGAATAATAATGGAAAAC
194 CTATGACATGGCAGAGATTTTCTGAATAATAATGGAAAAC
18542 ACTATGAAAT
Statistics
Matches: 637, Mismatches: 89, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
248 213 0.33
249 422 0.66
250 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (249 bp):
GCCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
ATACTTCCCCTATAACGCGCCTTTCATTTAGGATGGGATGGAACACTATGAAATGACAGAGATTT
TCTGAATAATAATGGAAAACGCTTCCCCTAGAACGAGCCTTTCATTTCGAATAGGATGGAACACT
ATGACATGGCAGAGATTTTCTGAATAATAATGGAAAACGATTCCCTTGGAACAC
Found at i:20373 original size:24 final size:24
Alignment explanation
Indices: 20346--20418 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
20336 GTGCCACTAT
20346 AATTTATCCCGAAGGACCGCATAG
1 AATTTATCCCGAAGGACCGCATAG
* *
20370 AATTTTTCCCGAAGGACCACATAG
1 AATTTATCCCGAAGGACCGCATAG
* * *
20394 -ATTTGTCTCGAAGGACCGCGTAG
1 AATTTATCCCGAAGGACCGCATAG
20417 AA
1 AA
20419 CCCTCAACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 19 0.45
24 23 0.55
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (24 bp):
AATTTATCCCGAAGGACCGCATAG
Found at i:21930 original size:21 final size:21
Alignment explanation
Indices: 21906--21968 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
21896 CATATAAAAT
* **
21906 TATCCCTAAGGACCTTATATA
1 TATCCCGAAGGACCACATATA
21927 TATCCCGAAGGACCACATATA
1 TATCCCGAAGGACCACATATA
* *
21948 TATCCCGAACGACCAAATATA
1 TATCCCGAAGGACCACATATA
21969 ATTCTCCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (21 bp):
TATCCCGAAGGACCACATATA
Found at i:22074 original size:21 final size:21
Alignment explanation
Indices: 21906--22074 Score: 70
Period size: 21 Copynumber: 7.9 Consensus size: 21
21896 CATATAAAAT
* **
21906 TATCCCTAAGGACCTTATATA
1 TATCCCAAAGGACCACATATA
*
21927 TATCCCGAAGGACCACATATA
1 TATCCCAAAGGACCACATATA
* * *
21948 TATCCCGAACGACCAAATATA
1 TATCCCAAAGGACCACATATA
* * *
21969 -ATTCTCCTTAAGAACCATATATATA
1 TA-TC-CC-AAAGGACC--ACATATA
** * *
21994 TATTTCAAAGGACCAAATATT
1 TATCCCAAAGGACCACATATA
* * *
22015 TGTCCCAAAGAACCGCATATA
1 TATCCCAAAGGACCACATATA
* * * **
22036 TGTTCCAAATGATTACATATA
1 TATCCCAAAGGACCACATATA
* *
22057 TGTCCCGAAGGACCACAT
1 TATCCCAAAGGACCACAT
22075 TGAACCCTCG
Statistics
Matches: 109, Mismatches: 33, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.01
21 86 0.79
22 2 0.02
23 11 0.10
24 1 0.01
25 7 0.06
26 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (21 bp):
TATCCCAAAGGACCACATATA
Found at i:22838 original size:20 final size:21
Alignment explanation
Indices: 22793--22848 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
22783 TATTTCCAAA
*
22793 ATGGTATCGATACT-CGCCTC
1 ATGGTATCGATACTACCCCTC
*
22813 ATGGTATCGATACTACCCCTT
1 ATGGTATCGATACTACCCCTC
*
22834 A-GGTACCGATA-TACC
1 ATGGTATCGATACTACC
22849 TTGAATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 23 0.72
21 5 0.16
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGGTATCGATACTACCCCTC
Found at i:28915 original size:21 final size:21
Alignment explanation
Indices: 28877--29040 Score: 87
Period size: 21 Copynumber: 7.7 Consensus size: 21
28867 TATAAAATTA
* *
28877 TCCCCAAGGACCTCATATATG
1 TCCCGAAGGACCACATATATG
* *
28898 TCCCGAAGGACCAGATATATA
1 TCCCGAAGGACCACATATATG
* * * *
28919 TCACGAAAGACTATATATAAT-
1 TCCCGAAGGACCACATAT-ATG
* *
28940 TCTCCTTAAGGACCACATATATA
1 TC-CC-GAAGGACCACATATATG
* * * *
28963 TTCCAAAGGACCAAATATGTG
1 TCCCGAAGGACCACATATATG
* * **
28984 TCCCAAAGAACTGCATATATG
1 TCCCGAAGGACCACATATATG
* * **
29005 TTCCAAAGGATTACATATATG
1 TCCCGAAGGACCACATATATG
*
29026 TCCTGAAGGACCACA
1 TCCCGAAGGACCACA
29041 CAGAACCCTC
Statistics
Matches: 106, Mismatches: 33, Indels: 8
0.72 0.22 0.05
Matches are distributed among these distances:
21 88 0.83
22 7 0.07
23 11 0.10
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:31259 original size:60 final size:60
Alignment explanation
Indices: 31098--31584 Score: 636
Period size: 60 Copynumber: 8.1 Consensus size: 60
31088 GAAATGCACT
* * *
31098 ACTTTTCATCTATCTTGCATTAGTGGCACCTTTCTACCAATAATGCACCGTTAGGCATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAA-AATGCACCGTTAGGCATTTA
* * * * * * *
31159 ACTTTTCATCTAACTTGAATTACTGGCATCTTTCTTCCAAAATACACAGTTAGGCATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
* * *
31219 ACTTTTCATTTAACATGCATTAGTGACACC-TTCTTGCCAAAATGTACCGTTAGGCATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTC-TGCCAAAATGCACCGTTAGGCATTTA
* * * *
31279 ACTTTTCATCTAACTTGCATTAGTGGCAACTTCCTACCAAAATGCACCGTTAGGCATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
* *
31339 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCTAAATGCACCGTTAGACATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
* * ** * *
31399 ACTTTTCATCTAACTTGCATTAGTGTCACCTTTCAGCCAAAATGCACTATTGGGAATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
* * * *
31459 ATTTTTCATCTAACTTGCATTAGTGACACATTTCTGCCAAAATGTACCGTTAGGTATTTA
1 ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
* * *
31519 ACTTTTCATCTAACTTGCATTAGTGGA-ACCTTTCCGCCAAAATGCATCGTTAGACATTTA
1 ACTTTTCATCTAACTTGCATTAGT-GACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
*
31579 AATTTT
1 ACTTTT
31585 ATTTTAGAGC
Statistics
Matches: 368, Mismatches: 55, Indels: 7
0.86 0.13 0.02
Matches are distributed among these distances:
59 3 0.01
60 326 0.89
61 39 0.11
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (60 bp):
ACTTTTCATCTAACTTGCATTAGTGACACCTTTCTGCCAAAATGCACCGTTAGGCATTTA
Found at i:33066 original size:65 final size:63
Alignment explanation
Indices: 32949--33156 Score: 251
Period size: 65 Copynumber: 3.2 Consensus size: 63
32939 TTTTAAAGTG
* * **
32949 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
33012 TC
62 TC
*
33014 ATGCATCGATGCACATACCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
*
33078 G
63 C
* *
33079 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
33143 ATGCATCGATGCAC
1 ATGCATCGATGCAC
33157 TCTTAGTGCA
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.39
65 68 0.53
66 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:33172 original size:129 final size:130
Alignment explanation
Indices: 32947--33182 Score: 320
Period size: 129 Copynumber: 1.8 Consensus size: 130
32937 TTTTTTAAAG
*
32947 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
* *
33012 TCATGCATCGATGCACATACCATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATT
66 TCATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
* * **
33077 TGATGCATCGATGCACC-AGCCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCA
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCA
* *
33139 TTTTATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGGT
64 TTTCATGCATCGATGCACATAC-CA-TGCACCGATGCACTAAGGGT
33183 CCAACAGTCA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
127 1 0.01
128 7 0.08
129 67 0.72
130 18 0.19
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (130 bp):
TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
TCATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATT
Found at i:37238 original size:67 final size:64
Alignment explanation
Indices: 37114--37317 Score: 227
Period size: 64 Copynumber: 3.1 Consensus size: 64
37104 AGTGATACAC
* * ** * *
37114 CGATGCACCAATCCATGCATCAATGCAC-CATGGAATAAATTG-AACATCGAATTCATTTCATGC
1 CGATGCACCAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATACATTTGATGC
37177 AT
63 AT
* *
37179 CGATGCA-TATACCATGCATCGATGCACTCAGAGAGT-TTTATGAAAACATCGAATACATTTGAT
1 CGATGCACCA-ACCATGCATCGATGCACTCAG-G-CTATTT-TG-AAACATCGAATACATTTGAT
37242 GCAT
61 GCAT
*
37246 CGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTGATGCAT
1 CGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATACATTTGATGCAT
37310 CGATGCAC
1 CGATGCAC
37318 TCTTAGTGCA
Statistics
Matches: 121, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
64 49 0.40
65 18 0.15
66 4 0.03
67 49 0.40
68 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (64 bp):
CGATGCACCAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATACATTTGATGCAT
Found at i:38996 original size:21 final size:21
Alignment explanation
Indices: 38970--39011 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38960 CCAGAATGGG
*
38970 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
38991 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
39012 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:39146 original size:15 final size:15
Alignment explanation
Indices: 39126--39181 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
39116 ACCACGCAGG
39126 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
39141 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
39157 TGGGGGAATCTGTTCCC
1 --GGGGAATCTGTACCC
39174 GGGGAATC
1 GGGGAATC
39182 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:39204 original size:35 final size:34
Alignment explanation
Indices: 39124--39208 Score: 145
Period size: 33 Copynumber: 2.5 Consensus size: 34
39114 AAACCACGCA
*
39124 GGGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 GGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
39158 -GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
39192 GGGGGGAATCTGTTCCC
1 GGGGGGAATCTGTTCCC
39209 CCTGGGGGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 27 0.56
34 5 0.10
35 16 0.33
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (34 bp):
GGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:39209 original size:19 final size:20
Alignment explanation
Indices: 39174--39230 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
39164 ATCTGTTCCC
39174 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
39194 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
39214 GGGGAATCTGTACCCCC
1 GGGGAATCTGTACCCCC
39231 CCGGACAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:42255 original size:34 final size:32
Alignment explanation
Indices: 42202--42271 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
42192 CCTTACAAAC
* *
42202 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
42234 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
42268 TCCC
1 TCCC
42272 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:42580 original size:21 final size:21
Alignment explanation
Indices: 42554--42595 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
42544 CCTAGAATAG
*
42554 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
42575 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
42596 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:42752 original size:34 final size:34
Alignment explanation
Indices: 42709--42789 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
42699 AACCATGTAG
42709 GGGGGAATCTGTACCCGGGGAATCGAT-ACCCCT-
1 GGGGGAATCTGT-CCCGGGGAATCGATAACCCCTA
*
42742 GGGGGAAATCTACTCCCGGGGAATCGATAACCCCTA
1 GGGGG-AATCT-GTCCCGGGGAATCGATAACCCCTA
42778 GGGGGAATCTGT
1 GGGGGAATCTGT
42790 TCCCCCTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 5 0.12
34 20 0.48
35 12 0.29
36 5 0.12
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (34 bp):
GGGGGAATCTGTCCCGGGGAATCGATAACCCCTA
Found at i:42795 original size:20 final size:20
Alignment explanation
Indices: 42759--42818 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
42749 ATCTACTCCC
*
42759 GGGGAATC-GATAACCCCTAG
1 GGGGAATCTG-TACCCCCTAG
* *
42779 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTAG
42799 GGGGAATCTGTACCCCCTAG
1 GGGGAATCTGTACCCCCTAG
42819 ACAATCTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTAG
Found at i:46136 original size:21 final size:21
Alignment explanation
Indices: 46110--46151 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46100 CCCAGAATGG
*
46110 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
46131 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
46152 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:46302 original size:33 final size:34
Alignment explanation
Indices: 46263--46342 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
46253 AAACCATGCA
*
46263 GGGGGAATCTGTACCTGGGAATCGATA-CCCCTG
1 GGGGGAATCTGTACCGGGGAATCGATACCCCCTG
* *
46296 GGGGGAATATGTTCCCGGGGAATCGATACCCCCTG
1 GGGGGAATCTG-TACCGGGGAATCGATACCCCCTG
*
46331 GTGGGAATCTGT
1 GGGGGAATCTGT
46343 TCCCCCTGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
33 10 0.25
34 15 0.38
35 15 0.38
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (34 bp):
GGGGGAATCTGTACCGGGGAATCGATACCCCCTG
Found at i:46320 original size:34 final size:35
Alignment explanation
Indices: 46279--46346 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
46269 ATCTGTACCT
46279 GGGAATCGATA-CCCCTGGGGGGAATATGTTCCCG
1 GGGAATCGATACCCCCTGGGGGGAATATGTTCCCG
* *
46313 GGGAATCGATACCCCCTGGTGGGAATCTGTTCCC
1 GGGAATCGATACCCCCTGGGGGGAATATGTTCCC
46347 CCTGGGGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.22
Consensus pattern (35 bp):
GGGAATCGATACCCCCTGGGGGGAATATGTTCCCG
Found at i:46338 original size:20 final size:20
Alignment explanation
Indices: 46312--46367 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
46302 ATATGTTCCC
46312 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
* *
46332 TGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
*
46352 GGGGAATCTGCACCCC
1 GGGGAATCTGTACCCC
46368 TGGACAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:55350 original size:17 final size:17
Alignment explanation
Indices: 55347--55395 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
55337 CTTTTTTTTT
55347 TTTTTTTTTTTTTTGCC
1 TTTTTTTTTTTTTTGCC
*
55364 TTTTTTGTTTTTTTGCC
1 TTTTTTTTTTTTTTGCC
*
55381 TTTTTTTGTTTTTTG
1 TTTTTTTTTTTTTTG
55396 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTGCC
Found at i:55352 original size:26 final size:26
Alignment explanation
Indices: 55323--55385 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
55313 TTTTTTGAAA
* *
55323 TTTTGGCTTTTTGG-CTTTTTTTTTT
1 TTTTGCCTTTTTGGCCTTTTTTGTTT
*** *
55348 TTTTTTTTTTTTTGCCTTTTTTGTTT
1 TTTTGCCTTTTTGGCCTTTTTTGTTT
55374 TTTTGCCTTTTT
1 TTTTGCCTTTTT
55386 TTGTTTTTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.00, C:0.10, G:0.11, T:0.79
Consensus pattern (26 bp):
TTTTGCCTTTTTGGCCTTTTTTGTTT
Found at i:55361 original size:34 final size:34
Alignment explanation
Indices: 55323--55395 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
55313 TTTTTTGAAA
* ** *
55323 TTTTGGCTTTTTGGCTTTTTTT-TTTTTTTTTTTT
1 TTTTGCCTTTTTGG-TTTTTTTGCCTTTTTTTGTT
*
55357 TTTTGCCTTTTTTGTTTTTTTGCCTTTTTTTGTT
1 TTTTGCCTTTTTGGTTTTTTTGCCTTTTTTTGTT
55391 TTTTG
1 TTTTG
55396 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.79
Consensus pattern (34 bp):
TTTTGCCTTTTTGGTTTTTTTGCCTTTTTTTGTT
Found at i:55392 original size:8 final size:8
Alignment explanation
Indices: 55338--55394 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
55328 GCTTTTTGGC
*
55338 TTTTTTTT
1 TTTTTTTG
*
55346 TTTTTTTT
1 TTTTTTTG
55354 TTTTTTTG
1 TTTTTTTG
*
55362 CCTTTTTTG
1 -TTTTTTTG
55371 TTTTTTTG
1 TTTTTTTG
55379 CCTTTTTTTG
1 --TTTTTTTG
55389 TTTTTT
1 TTTTTT
55395 GAAAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
8 28 0.65
9 7 0.16
10 8 0.19
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Done.