Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008038.1 Hibiscus syriacus cultivar Beakdansim tig00110525_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: 73779
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:1950 original size:13 final size:13
Alignment explanation
Indices: 1928--1957 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1918 ACTAAACACC
1928 TTTC-ACATACCT
1 TTTCAACATACCT
1940 TTTCAACATACCT
1 TTTCAACATACCT
1953 TTTCA
1 TTTCA
1958 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:7780 original size:35 final size:37
Alignment explanation
Indices: 7734--7813 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
7724 TTTGAGAATT
*
7734 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
7769 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
7806 TGGGGATG
1 TGGTGATG
7814 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 4 0.10
37 15 0.38
ACGTcount: A:0.28, C:0.04, G:0.39, T:0.30
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:10871 original size:27 final size:27
Alignment explanation
Indices: 10822--10878 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10812 GAAAATTAGA
*
10822 AAAGAAATTGAAGCACTCCAAAAGAAAG
1 AAAGAAATTGAAGCACTCAAAAAG-AAG
* *
10850 AAAGAAATT-CAGCATTCAAAAAGAAG
1 AAAGAAATTGAAGCACTCAAAAAGAAG
10876 AAA
1 AAA
10879 AACAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.23
27 11 0.42
28 9 0.35
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (27 bp):
AAAGAAATTGAAGCACTCAAAAAGAAG
Found at i:29449 original size:13 final size:13
Alignment explanation
Indices: 29431--29455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29421 CCATTACTAT
29431 TTCCATCACCATC
1 TTCCATCACCATC
29444 TTCCATCACCAT
1 TTCCATCACCAT
29456 TATCACGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:29474 original size:36 final size:36
Alignment explanation
Indices: 29434--29548 Score: 196
Period size: 36 Copynumber: 3.2 Consensus size: 36
29424 TTACTATTTC
*
29434 CATCACCATCTTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
*
29470 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
29506 CATCACCATATTCCATCACCA-TATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
*
29541 TATCACCA
1 CATCACCA
29549 ACTTCTAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 21 0.28
36 54 0.72
ACGTcount: A:0.30, C:0.37, G:0.03, T:0.29
Consensus pattern (36 bp):
CATCACCATATTCCATCACCATTATCACGCCTATAT
Found at i:29488 original size:13 final size:11
Alignment explanation
Indices: 29447--29531 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
29437 CACCATCTTC
29447 CATCACCATTAT
1 CATCACCA-TAT
*
29459 CA-CGCCTATAT
1 CATCACC-ATAT
29470 CATCACCATAGT
1 CATCACCATA-T
29482 CCATCACCATTAT
1 -CATCACCA-TAT
*
29495 CA-CGCCTATAT
1 CATCACC-ATAT
29506 CATCACCATATT
1 CATCACCATA-T
29518 CCATCACCATAT
1 -CATCACCATAT
29530 CA
1 CA
29532 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:29947 original size:11 final size:11
Alignment explanation
Indices: 29931--29956 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29921 AGCAATGAGA
29931 AAAAAGAAAAG
1 AAAAAGAAAAG
29942 AAAAAGAAAAG
1 AAAAAGAAAAG
29953 AAAA
1 AAAA
29957 GACTCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:33621 original size:12 final size:13
Alignment explanation
Indices: 33604--33637 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
33594 TCCATCAACA
*
33604 TTCCATTACTAT-
1 TTCCATCACTATC
33616 TTCCATCACTATC
1 TTCCATCACTATC
33629 TTCCATCAC
1 TTCCATCAC
33638 CATTATAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCCATCACTATC
Found at i:33659 original size:36 final size:36
Alignment explanation
Indices: 33630--33700 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
33620 ATCACTATCT
*
33630 TCCATCACCATTATAACGCCTATATCATCACCATAG
1 TCCATCACCATTATAACACCTATATCATCACCATAG
*
33666 TCCATCACCATTATCACACCTATATCATCACCATA
1 TCCATCACCATTATAACACCTATATCATCACCATA
33701 TCACGCCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.35, G:0.03, T:0.28
Consensus pattern (36 bp):
TCCATCACCATTATAACACCTATATCATCACCATAG
Found at i:33702 original size:22 final size:22
Alignment explanation
Indices: 33651--33720 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
33641 TATAACGCCT
33651 ATATCATCACC-ATAGTCCATCACC
1 ATATCA-CACCTATA-T-CATCACC
33675 ATTATCACACCTATATCATCACC
1 A-TATCACACCTATATCATCACC
* *
33698 ATATCACGCCTATATTATCACC
1 ATATCACACCTATATCATCACC
33720 A
1 A
33721 ACTTCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 20 0.48
23 8 0.19
24 6 0.14
25 8 0.19
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (22 bp):
ATATCACACCTATATCATCACC
Found at i:37801 original size:13 final size:13
Alignment explanation
Indices: 37783--37807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37773 CCATTACTAT
37783 TTCCATCACCATC
1 TTCCATCACCATC
37796 TTCCATCACCAT
1 TTCCATCACCAT
37808 TATCACGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:37858 original size:11 final size:11
Alignment explanation
Indices: 37799--37870 Score: 67
Period size: 11 Copynumber: 6.2 Consensus size: 11
37789 CACCATCTTC
37799 CATCACCATTAT
1 CATCACCA-TAT
*
37811 CA-CGCCTATAT
1 CATCACC-ATAT
37822 CATCACCATAGT
1 CATCACCATA-T
37834 CAATCACCATTAT
1 C-ATCACCA-TAT
37847 CA-CACCTATAT
1 CATCACC-ATAT
37858 CATCACCATAT
1 CATCACCATAT
37869 CA
1 CA
37871 CGCCTATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 26 0.51
12 14 0.27
13 9 0.18
14 2 0.04
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:37869 original size:22 final size:22
Alignment explanation
Indices: 37818--37887 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
37808 TATCACGCCT
37818 ATATCATCACC-ATAGTCAATCACC
1 ATATCA-CACCTATA-TC-ATCACC
37842 ATTATCACACCTATATCATCACC
1 A-TATCACACCTATATCATCACC
* *
37865 ATATCACGCCTATATTATCACC
1 ATATCACACCTATATCATCACC
37887 A
1 A
37888 ACTTCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 20 0.48
23 7 0.17
24 7 0.17
25 8 0.19
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.29
Consensus pattern (22 bp):
ATATCACACCTATATCATCACC
Found at i:37879 original size:11 final size:11
Alignment explanation
Indices: 37808--37879 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 11
37798 CCATCACCAT
*
37808 TATCACGCCTA
1 TATCACACCTA
37819 TATCATCACC-A
1 TATCA-CACCTA
37830 TAGTCAATCACC-A
1 TA-TC-A-CACCTA
37843 TTATCACACCTA
1 -TATCACACCTA
37855 TATCATCACC-A
1 TATCA-CACCTA
*
37866 TATCACGCCTA
1 TATCACACCTA
37877 TAT
1 TAT
37880 TATCACCAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
10 3 0.06
11 27 0.52
12 11 0.21
13 9 0.17
14 2 0.04
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.29
Consensus pattern (11 bp):
TATCACACCTA
Found at i:37885 original size:36 final size:36
Alignment explanation
Indices: 37786--37867 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
37776 TTACTATTTC
** * *
37786 CATCACCATCTTCCATCACCATTATCACGCCTATAT
1 CATCACCATAGTCAATCACCATTATCACACCTATAT
37822 CATCACCATAGTCAATCACCATTATCACACCTATAT
1 CATCACCATAGTCAATCACCATTATCACACCTATAT
37858 CATCACCATA
1 CATCACCATA
37868 TCACGCCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.33, C:0.37, G:0.02, T:0.28
Consensus pattern (36 bp):
CATCACCATAGTCAATCACCATTATCACACCTATAT
Found at i:41945 original size:13 final size:13
Alignment explanation
Indices: 41927--41951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41917 CCATTACTAT
41927 TTCCATCACCATC
1 TTCCATCACCATC
41940 TTCCATCACCAT
1 TTCCATCACCAT
41952 TATCAAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:41970 original size:36 final size:36
Alignment explanation
Indices: 41930--42011 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
41920 TTACTATTTC
** *
41930 CATCACCATCTTCCATCACCATTATCA-AGCCTATAT
1 CATCACCATAGTCAATCACCATTATCACA-CCTATAT
41966 CATCACCATAGTCAATCACCATTATCACACCTATAT
1 CATCACCATAGTCAATCACCATTATCACACCTATAT
42002 CATCACCATA
1 CATCACCATA
42012 TCACGCCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.34, C:0.35, G:0.02, T:0.28
Consensus pattern (36 bp):
CATCACCATAGTCAATCACCATTATCACACCTATAT
Found at i:42013 original size:22 final size:22
Alignment explanation
Indices: 41962--42031 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
41952 TATCAAGCCT
41962 ATATCATCACC-ATAGTCAATCACC
1 ATATCA-CACCTATA-TC-ATCACC
41986 ATTATCACACCTATATCATCACC
1 A-TATCACACCTATATCATCACC
* *
42009 ATATCACGCCTATATTATCACC
1 ATATCACACCTATATCATCACC
42031 A
1 A
42032 ACTTCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 20 0.48
23 7 0.17
24 7 0.17
25 8 0.19
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.29
Consensus pattern (22 bp):
ATATCACACCTATATCATCACC
Found at i:46119 original size:13 final size:13
Alignment explanation
Indices: 46101--46125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46091 CCATTACTAT
46101 TTCCATCACCATC
1 TTCCATCACCATC
46114 TTCCATCACCAT
1 TTCCATCACCAT
46126 TATCACCCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:46155 original size:36 final size:36
Alignment explanation
Indices: 46104--46185 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
46094 TTACTATTTC
** *
46104 CATCACCATCTTCCATCACCATTATCACCCCTATAT
1 CATCACCATAGTCCATCACCATTATCACACCTATAT
*
46140 CATCGCCATAGTCCATCACCATTATCACACCTATAT
1 CATCACCATAGTCCATCACCATTATCACACCTATAT
46176 CATCACCATA
1 CATCACCATA
46186 TCACGCCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (36 bp):
CATCACCATAGTCCATCACCATTATCACACCTATAT
Found at i:46194 original size:22 final size:22
Alignment explanation
Indices: 46136--46205 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
46126 TATCACCCCT
46136 ATATCATCGCC-ATAGTCCATCACC
1 ATATCA-CGCCTATA-T-CATCACC
*
46160 ATTATCACACCTATATCATCACC
1 A-TATCACGCCTATATCATCACC
*
46183 ATATCACGCCTATATTATCACC
1 ATATCACGCCTATATCATCACC
46205 A
1 A
46206 ACTTCTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 20 0.49
23 8 0.20
24 5 0.12
25 8 0.20
ACGTcount: A:0.33, C:0.34, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATCACGCCTATATCATCACC
Found at i:46826 original size:16 final size:15
Alignment explanation
Indices: 46800--46851 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
46790 GAGTTGTAAG
46800 TTATC-TTCATTTTT
1 TTATCTTTCATTTTT
*
46814 TTATCATTTCATTTCT
1 TTATC-TTTCATTTTT
46830 TTATTCTTTCATCTTTT
1 TTA-TCTTTCAT-TTTT
46847 CTTAT
1 -TTAT
46852 TTCATTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
16 17 0.55
17 6 0.19
18 3 0.10
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATCTTTCATTTTT
Found at i:51949 original size:13 final size:13
Alignment explanation
Indices: 51931--51955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51921 CCATTACTAT
51931 TTCCATCACCATC
1 TTCCATCACCATC
51944 TTCCATCACCAT
1 TTCCATCACCAT
51956 TATCACGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCCATCACCATC
Found at i:51974 original size:36 final size:36
Alignment explanation
Indices: 51934--52040 Score: 189
Period size: 36 Copynumber: 3.0 Consensus size: 36
51924 TTACTATTTC
*
51934 CATCACCATCTTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
*
51970 CATCACCATAGTCCATCACCATTATCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
52006 CATCACCATATTCCATCACCATT-TCACGCCTATAT
1 CATCACCATATTCCATCACCATTATCACGCCTATAT
52041 TATAACCAAC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 12 0.18
36 56 0.82
ACGTcount: A:0.29, C:0.37, G:0.04, T:0.30
Consensus pattern (36 bp):
CATCACCATATTCCATCACCATTATCACGCCTATAT
Found at i:51988 original size:13 final size:11
Alignment explanation
Indices: 51947--52027 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 11
51937 CACCATCTTC
51947 CATCACCATTAT
1 CATCACCA-TAT
*
51959 CA-CGCCTATAT
1 CATCACC-ATAT
51970 CATCACCATAGT
1 CATCACCATA-T
51982 CCATCACCATTAT
1 -CATCACCA-TAT
*
51995 CA-CGCCTATAT
1 CATCACC-ATAT
52006 CATCACCATATT
1 CATCACCATA-T
52018 CCATCACCAT
1 -CATCACCAT
52028 TTCACGCCTA
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
11 22 0.39
12 14 0.25
13 18 0.32
14 2 0.04
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:62603 original size:21 final size:22
Alignment explanation
Indices: 62553--62604 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
62543 TGCTGCCATG
62553 ATATGTAAATGATATGCAAAAC
1 ATATGTAAATGATATGCAAAAC
*
62575 ATA-ATAAATGA-AT-CTAAAAC
1 ATATGTAAATGATATGC-AAAAC
62595 ATATGTAAAT
1 ATATGTAAAT
62605 ATAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 10 0.38
21 12 0.46
22 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.29
Consensus pattern (22 bp):
ATATGTAAATGATATGCAAAAC
Found at i:65867 original size:19 final size:20
Alignment explanation
Indices: 65827--65879 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
65817 GAAACCCCTT
65827 TGAAAATACATGATTTTTTTAA
1 TGAAAATACATGA--TTTTTAA
65849 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
65868 TGAAGATACATG
1 TGAAAATACATG
65880 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.57
22 13 0.43
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:66783 original size:21 final size:22
Alignment explanation
Indices: 66733--66783 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
66723 TACTGCCATG
66733 ATATGTAAATGATATACAAAAC
1 ATATGTAAATGATATACAAAAC
*
66755 ATA-ATAAATGA-AT-CTAAAAC
1 ATATGTAAATGATATAC-AAAAC
66775 ATATGTAAA
1 ATATGTAAA
66784 CATAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 11 0.44
22 3 0.12
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (22 bp):
ATATGTAAATGATATACAAAAC
Found at i:71608 original size:36 final size:36
Alignment explanation
Indices: 71556--71667 Score: 165
Period size: 36 Copynumber: 3.2 Consensus size: 36
71546 GATACTATTT
*
71556 TCATCACCATAATCCATCTCCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
71592 TCATCACCATAGTCCATCACCATTATCACGCCTATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
* *
71628 TCATCACCATATTCCATCACCA-TATCATGCC-ATA
1 TCATCACCATAATCCATCACCATTATCACGCCTATA
*
71662 ACATCA
1 TCATCA
71668 TCCTTCCATT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 8 0.11
35 8 0.11
36 55 0.77
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
TCATCACCATAATCCATCACCATTATCACGCCTATA
Found at i:71611 original size:13 final size:11
Alignment explanation
Indices: 71556--71693 Score: 70
Period size: 11 Copynumber: 11.9 Consensus size: 11
71546 GATACTATTT
71556 TCATCACCATAA
1 TCATCACCAT-A
*
71568 TCCATCTCCATTA
1 T-CATCACCA-TA
*
71581 TCA-CGCCTATA
1 TCATCACC-ATA
71592 TCATCACCATA
1 TCATCACCATA
71603 GTCCATCACCATTA
1 -T-CATCACCA-TA
*
71617 TCA-CGCCTATA
1 TCATCACC-ATA
71628 TCATCACCATA
1 TCATCACCATA
71639 TTCCATCACCATA
1 -T-CATCACCATA
*
71652 TCAT-GCCATA
1 TCATCACCATA
*
71662 ACATCATCC-T-
1 TCATCA-CCATA
* *
71672 TCCATTACCATT
1 T-CATCACCATA
71684 TCATCACCAT
1 TCATCACCAT
71694 TAAATCATCC
Statistics
Matches: 99, Mismatches: 11, Indels: 33
0.69 0.08 0.23
Matches are distributed among these distances:
10 10 0.10
11 39 0.39
12 19 0.19
13 28 0.28
14 3 0.03
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.30
Consensus pattern (11 bp):
TCATCACCATA
Found at i:71682 original size:32 final size:33
Alignment explanation
Indices: 71639--71706 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
71629 CATCACCATA
*
71639 TTCCATCACCATATCAT-GCCA-TAACATCATCC
1 TTCCATCACCATATCATCACCATTAA-ATCATCC
* *
71671 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCATTAAATCATCC
71704 TTC
1 TTC
71707 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 15 0.48
33 13 0.42
34 3 0.10
ACGTcount: A:0.29, C:0.35, G:0.01, T:0.34
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCATTAAATCATCC
Done.