Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_2861
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: 21390
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:929 original size:15 final size:16
Alignment explanation
Indices: 911--942 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
901 ATAAAATGTA
911 AATGTATATAT-ATAT
1 AATGTATATATAATAT
926 AATGTATATATAATAT
1 AATGTATATATAATAT
942 A
1 A
943 TATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AATGTATATATAATAT
Found at i:935 original size:11 final size:11
Alignment explanation
Indices: 916--946 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
906 ATGTAAATGT
916 ATATATATATA
1 ATATATATATA
*
927 ATGTATATATA
1 ATATATATATA
938 ATATATATA
1 ATATATATA
947 AAAACTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
ATATATATATA
Found at i:943 original size:18 final size:18
Alignment explanation
Indices: 887--944 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
877 AAAATGAAAG
* * *
887 AATGTATATGTATTATAA
1 AATGTATATATAATATAT
*
905 AATGTAAATGTATATATATAT
1 AATGT--ATATATA-ATATAT
926 AATGTATATATAATATAT
1 AATGTATATATAATATAT
944 A
1 A
945 TAAAAACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 12 0.38
19 6 0.19
20 5 0.16
21 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
AATGTATATATAATATAT
Found at i:2778 original size:44 final size:42
Alignment explanation
Indices: 2637--2872 Score: 142
Period size: 44 Copynumber: 5.5 Consensus size: 42
2627 AATCTGTATA
* * *
2637 TTCGATCTACTTCATGCTAGTACATGAAGACAAGATCTGTATTCC
1 TTCGATCTACTTCACGCCAGTACAT-AAGAC-AGATCTGT-TTTC
* * * * ** *
2682 TTCGATCTGCTT--TGCCACTAGTATGGGAACGAGATCTGTTATC
1 TTCGATCTACTTCACGCCAGTA-CATAAG-AC-AGATCTGTTTTC
* *
2725 TTTGATCTACTTTACGCCAGTACATAAGACAGATCTGCTTTTTC
1 TTCGATCTACTTCACGCCAGTACATAAGACAGATCTG--TTTTC
* * ** * *
2769 TTCGATCTACTTCGCACCAGT--ATGGGAGAGATCTG-TAT-
1 TTCGATCTACTTCACGCCAGTACATAAGACAGATCTGTTTTC
*
2807 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATTC
1 TTCGATCTACTTCACGCCAGTACAT-AAGAC-AGATCTGTTTTC
* * *
2851 TTTGATCTACTTCCCACCAGTA
1 TTCGATCTACTTCACGCCAGTA
2873 TGGGAAGATG
Statistics
Matches: 144, Mismatches: 35, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
38 19 0.13
39 2 0.01
40 2 0.01
41 2 0.01
42 25 0.17
43 22 0.15
44 55 0.38
45 17 0.12
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (42 bp):
TTCGATCTACTTCACGCCAGTACATAAGACAGATCTGTTTTC
Found at i:2813 original size:38 final size:38
Alignment explanation
Indices: 2769--2894 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 38
2759 CTGCTTTTTC
*
2769 TTCGATCTACTTCGCACCAGTATGGGAGAGATCTGTAT-
1 TTCGATCTACTTCACACCAGTATGGGA-AGATCTGTATA
* * *
2807 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATTC
1 TTCGATCTACTTCACACCAGT--ATG--G-GAAGATCTGTA-TA
* *
2851 TTTGATCTACTTCCCACCAGTATGGGAAGA--TGTATA
1 TTCGATCTACTTCACACCAGTATGGGAAGATCTGTATA
2887 TTCGATCT
1 TTCGATCT
2895 GCTACCATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
36 8 0.11
37 4 0.06
38 19 0.26
39 4 0.06
40 4 0.06
42 13 0.18
43 2 0.03
44 18 0.25
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (38 bp):
TTCGATCTACTTCACACCAGTATGGGAAGATCTGTATA
Found at i:2826 original size:82 final size:84
Alignment explanation
Indices: 2628--2894 Score: 323
Period size: 82 Copynumber: 3.2 Consensus size: 84
2618 TGGGAAGCGA
* * * * *
2628 ATCTGTATATTCGATCTACTTCATGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCT
1 ATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCTTCGATCTACT
* *
2693 TTGCCACTAGTATGGGAACGAG
66 TCG-CACCAGTATGGG-A-GAG
* * *
2715 ATCTGTTATCTTTGATCTACTTTACGCCAGTACAT-AAGAC-AGATCTGCTTTTTCTTCGATCTA
1 ATCTG-TATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTTCTTCGATCTA
2778 CTTCGCACCAGTATGGGAGAG
64 CTTCGCACCAGTATGGGAGAG
* *
2799 ATCTGTAT-TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TATTCTTTGATCTACT
1 ATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCTTCGATCTACT
*
2862 TCCCACCAGTATGGGA-AG
66 TCGCACCAGTATGGGAGAG
2880 A--TGTATATTCGATCT
1 ATCTGTATATTCGATCT
2895 GCTACCATAT
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
79 5 0.03
80 8 0.05
81 3 0.02
82 52 0.32
83 8 0.05
84 15 0.09
85 1 0.01
86 18 0.11
87 26 0.16
88 24 0.15
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (84 bp):
ATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCTTCGATCTACT
TCGCACCAGTATGGGAGAG
Found at i:2880 original size:44 final size:43
Alignment explanation
Indices: 2662--2880 Score: 143
Period size: 44 Copynumber: 5.1 Consensus size: 43
2652 GCTAGTACAT
* *
2662 GAAGACAAGATCTGTATTCCTTCGATCTGCTTTGC-CACTAGTATGG
1 GAAGAC-AGATCTGTATT-CTTCGATCTAC-TT-CACACCAGTATGG
* * * **
2708 G-A-ACGAGATCTGT-TATCTTTGATCTACTTTACGCCAGTA-CA
1 GAAGAC-AGATCTGTAT-TCTTCGATCTACTTCACACCAGTATGG
* * *
2749 TAAGACAGATCTGCTTTTTCTTCGATCTACTTCGCACCAGTATGG
1 GAAGACAGATCTG--TATTCTTCGATCTACTTCACACCAGTATGG
* ***
2794 G-AG--AGATCTGTA-T-TTCGATCTACTTCACGCCAGTACAT
1 GAAGACAGATCTGTATTCTTCGATCTACTTCACACCAGTATGG
* *
2832 GAAGACAAGATCTGTATTCTTTGATCTACTTCCCACCAGTATGG
1 GAAGAC-AGATCTGTATTCTTCGATCTACTTCACACCAGTATGG
2876 GAAGA
1 GAAGA
2881 TGTATATTCG
Statistics
Matches: 131, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
38 21 0.16
39 3 0.02
40 1 0.01
42 32 0.24
43 13 0.10
44 58 0.44
45 2 0.02
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
GAAGACAGATCTGTATTCTTCGATCTACTTCACACCAGTATGG
Found at i:3037 original size:44 final size:43
Alignment explanation
Indices: 2918--3133 Score: 186
Period size: 44 Copynumber: 4.9 Consensus size: 43
2908 ACATTTTATC
* *
2918 TTGATCTACTTCACGCCA-TACATGAAGACAAGATCTTTTTTCTT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATC-TGTTAC-T
* * *** *
2962 TTCGA-CTACTCCACCACCAGTATGGGGAGACAAGATCTGTTGACT
1 TT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTT-ACT
*
3007 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTACT
* * * *** * *
3050 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA-T
1 TT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGT-TACT
3095 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
3134 ATCTTTTCAT
Statistics
Matches: 132, Mismatches: 32, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
43 24 0.18
44 51 0.39
45 42 0.32
46 15 0.11
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTACT
Found at i:3115 original size:88 final size:88
Alignment explanation
Indices: 2918--3139 Score: 315
Period size: 89 Copynumber: 2.5 Consensus size: 88
2908 ACATTTTATC
*
2918 TTGATCTACTTCACGCCA-TACATGAAGACAAGATCTTTTTTCTTTTCGACTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATC-TGTTTC-TTTCGACTACTCCACCACCAG
*
2982 TATGGGGAGACAAGATCTGTTGACT
64 TATGGGAAGACAAGATCTGTTGACT
* * *
3007 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTTCGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTTCGA-CTACTCCACCACCAGT
* *
3072 ATGGGAAGGCGAGATCTGTAT-A-T
65 ATGGGAAGACAAGATCTGT-TGACT
*
3095 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATCTTT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTT
3140 TCATTGCCCA
Statistics
Matches: 122, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
88 51 0.42
89 53 0.43
90 18 0.15
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (88 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTTCGACTACTCCACCACCAGTA
TGGGAAGACAAGATCTGTTGACT
Found at i:4415 original size:49 final size:49
Alignment explanation
Indices: 4323--4416 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
4313 TTTTTTTTAC
* * * *
4323 CTCAAGGCTCCCTTTGTAGGGTTCACCTAGATCCTCTTTTTTTTTGTGA
1 CTCAAAGCGCCCTTTGTAGGGTTCACCTAGAGCCTCTTATTTTTTGTGA
*
4372 CTCAAAGCGCCCTTTGTAGGGGTTTCACCTTG-GCC-CTTATTTTTT
1 CTCAAAGCGCCCTTTGTA-GGG-TTCACCTAGAGCCTCTTATTTTTT
4417 AAAGCAGAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
49 25 0.66
50 5 0.13
51 8 0.21
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (49 bp):
CTCAAAGCGCCCTTTGTAGGGTTCACCTAGAGCCTCTTATTTTTTGTGA
Found at i:9898 original size:26 final size:26
Alignment explanation
Indices: 9869--9937 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 26
9859 TATAATACAA
* * *
9869 ATTAATAATATAATATAATATAAAAT
1 ATTAATAAGATAATATAAAAGAAAAT
*
9895 ATTAATGATAGAAAATATAAAAGAAAAT
1 ATTAAT-A-AGATAATATAAAAGAAAAT
*
9923 ATAAATAAGATAATA
1 ATTAATAAGATAATA
9938 AGTAGATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 13 0.37
27 2 0.06
28 20 0.57
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (26 bp):
ATTAATAAGATAATATAAAAGAAAAT
Found at i:9900 original size:23 final size:25
Alignment explanation
Indices: 9833--9916 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 25
9823 GAACTAAAGG
*
9833 TATAATGAGTAAATATAAT-ATGAT-TA
1 TATAAT-A-TAAA-ATAATAATGATAGA
* *
9859 TATAATACAAATTAATAAT-ATA-A
1 TATAATATAAAATAATAATGATAGA
*
9882 TATAATATAAAATATTAATGATAGA
1 TATAATATAAAATAATAATGATAGA
9907 -A-AATATAAAA
1 TATAATATAAAA
9917 GAAAATATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 32 0.65
24 9 0.18
25 2 0.04
26 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (25 bp):
TATAATATAAAATAATAATGATAGA
Found at i:11067 original size:1 final size:1
Alignment explanation
Indices: 11061--11087 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
11051 GTCATTGGTA
11061 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
11088 CTTTCTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11888 original size:14 final size:15
Alignment explanation
Indices: 11859--11906 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
11849 TATGTCTAAG
11859 TTTATTGTATTTATT
1 TTTATTGTATTTATT
11874 TTTATTGTA-TTATT
1 TTTATTGTATTTATT
11888 TTTATTGTATTTATT
1 TTTATTGTATTTATT
11903 TTTA
1 TTTA
11907 AGGTCATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
TTTATTGTATTTATT
Found at i:12021 original size:20 final size:20
Alignment explanation
Indices: 11998--12039 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11988 TTTTAAAATG
*
11998 AAATATTTAAAT-TTAACTAT
1 AAATATATAAATATTAA-TAT
12018 AAATATATAAATATTAATAT
1 AAATATATAAATATTAATAT
12038 AA
1 AA
12040 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATATAAATATTAATAT
Found at i:12867 original size:4 final size:4
Alignment explanation
Indices: 12853--12999 Score: 90
Period size: 4 Copynumber: 36.0 Consensus size: 4
12843 CTCCCTTCCA
* * * * * *
12853 CTTT TTTT CTTT CTTT CTTT TTTT CTCT GTTC CTTT CTTT CCTT C-TT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
12900 -TTT CTTT CTTT -TTT CTTCT CCTTT CCTTTT CTTTT CCTT C-TT -TTT
1 CTTT CTTT CTTT CTTT CTT-T -CTTT -C-TTT C-TTT CTTT CTTT CTTT
* *
12945 CTTT CTTT CCTCT CATTT CCTTT CTTT CCTT -TTT CTTT CTTT CTTT CTTCT
1 CTTT CTTT -CTTT C-TTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T
12996 CTTT
1 CTTT
13000 TCCCTCTCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
3 13 0.11
4 72 0.63
5 22 0.19
6 7 0.06
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:12902 original size:42 final size:40
Alignment explanation
Indices: 12856--12999 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 40
12846 CCTTCCACTT
12856 TTTTTCTTTCTTTCTTTTTTTCTCTGTTCCTTTCTTTCCTTC
1 TTTTTCTTTCTTTC-TTTTTTCTCT-TTCCTTTCTTTCCTTC
*
12898 TTTTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTTCCTTC
1 TTTTTCTTTCTTTCTTTTTTCT-CTTTCC-TTTC-TTTCCTTC
*
12940 TTTTTCTTTCTTTC----CTCTCATTTCCTTTCTTT-C--C
1 TTTTTCTTTCTTTCTTTTTTCTC-TTTCCTTTCTTTCCTTC
*
12974 TTTTTCTTTCTTTCTTTCTTCTCTTT
1 TTTTTCTTTCTTTCTTTTTTCTCTTT
13000 TCCCTCTCAT
Statistics
Matches: 90, Mismatches: 3, Indels: 23
0.78 0.03 0.20
Matches are distributed among these distances:
34 15 0.17
36 1 0.01
37 6 0.07
38 9 0.10
39 8 0.09
40 11 0.12
41 6 0.07
42 34 0.38
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.71
Consensus pattern (40 bp):
TTTTTCTTTCTTTCTTTTTTCTCTTTCCTTTCTTTCCTTC
Found at i:13002 original size:38 final size:38
Alignment explanation
Indices: 12856--13002 Score: 172
Period size: 38 Copynumber: 3.8 Consensus size: 38
12846 CCTTCCACTT
* *
12856 TTTTTCTTTCTTTCTTTTTTTCTCTGTTCCTTTCTTTCCTTC
1 TTTTTCTTTCTTTC-TTTCTTCTCTTTTCCTTTCTTT-C--C
*
12898 TTTTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTTCC
1 TTTTTCTTTCTTTCTTTCTTCTCTTTTCC-TTTC-TTTCC
* * *
12937 TTCTT-TTTCTTTCTTTCCTCTCATTTCCTTTCTTTCC
1 TTTTTCTTTCTTTCTTTCTTCTCTTTTCCTTTCTTTCC
12974 TTTTTCTTTCTTTCTTTCTTCTCTTTTCC
1 TTTTTCTTTCTTTCTTTCTTCTCTTTTCC
13003 CTCTCATTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
37 9 0.10
38 32 0.35
39 18 0.20
40 12 0.13
41 5 0.05
42 16 0.17
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.70
Consensus pattern (38 bp):
TTTTTCTTTCTTTCTTTCTTCTCTTTTCCTTTCTTTCC
Found at i:19030 original size:38 final size:34
Alignment explanation
Indices: 18988--19081 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 34
18978 TCCTTCCCAC
18988 TTCTTTCTTCTCTTTCTTTTTTTTTCTTCTCCGTTCTT
1 TTCTTTCTTCT-TTTCTTTTTTTTTC-TCT-C-TTCTT
* * *
19026 TTCTTCCTTCTTTT-TTTCTTTTTCTCTCTTTTT
1 TTCTTTCTTCTTTTCTTTTTTTTTCTCTCTTCTT
19059 TTCTTTCCTTCTTTTTCTTTTTT
1 TTCTTT-CTTC-TTTTCTTTTTT
19082 CCTCTCTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
33 9 0.19
34 5 0.10
35 7 0.15
36 14 0.29
37 3 0.06
38 10 0.21
ACGTcount: A:0.00, C:0.24, G:0.01, T:0.74
Consensus pattern (34 bp):
TTCTTTCTTCTTTTCTTTTTTTTTCTCTCTTCTT
Found at i:19041 original size:33 final size:32
Alignment explanation
Indices: 18987--19088 Score: 109
Period size: 34 Copynumber: 3.1 Consensus size: 32
18977 TTCCTTCCCA
*
18987 CTTC-TTTCTTCTCTTTCTTTTTTTTTCTTCTC-
1 CTTCTTTTCTTC-C-TTCTTTTTTTTTTTTCTCT
19019 CGTTCTTTTCTTCCTTCTTTTTTTCTTTTTCTCT
1 C-TTCTTTTCTTCCTTCTTTTTTT-TTTTTCTCT
* *
19053 CTTTTTTTCTTTCCTTCTTTTTCTTTTTTCCTCT
1 CTTCTTTTC-TTCCTTCTTTTT-TTTTTTTCTCT
19087 CT
1 CT
19089 GTTACACCAT
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
32 11 0.18
33 18 0.30
34 30 0.49
35 2 0.03
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (32 bp):
CTTCTTTTCTTCCTTCTTTTTTTTTTTTCTCT
Found at i:20178 original size:104 final size:104
Alignment explanation
Indices: 19992--20201 Score: 275
Period size: 104 Copynumber: 2.0 Consensus size: 104
19982 AAACCCATAC
*
19992 TTTGAAGTTTTAAGAGGATATTTGCCATTTGGTTCAACGAGAAATGAAAACCAGCACATTAGGGC
1 TTTGAAGTTTTAAAAGGATATTTGCCATTTGGTTCAACGAGAAATGAAAACCAGCACATTAGGGC
* *
20057 ACGTTTGCTCGAATTTCC-AATGCAAAATATCGCTTTAT
66 ACGTTTGCTCGAATTTCCAAACGCAAAATATCGCCTTAT
* * *
20095 TTTGAA-TTTTAAAAGGATATTTTAGCTATTTGG-TCTAACGA-AAATCGAAACCCAGCACGTTA
1 TTTGAAGTTTTAAAAGGATA-TTT-GCCATTTGGTTC-AACGAGAAAT-GAAAACCAGCACATTA
* * *
20157 GGGCACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTAT
62 GGGCACGTTTGCTCGAATTTCCAAACGCAAAATATCGCCTTAT
20200 TT
1 TT
20202 AGAAAAATTT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
102 12 0.13
103 15 0.16
104 47 0.51
105 19 0.20
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (104 bp):
TTTGAAGTTTTAAAAGGATATTTGCCATTTGGTTCAACGAGAAATGAAAACCAGCACATTAGGGC
ACGTTTGCTCGAATTTCCAAACGCAAAATATCGCCTTAT
Done.