Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003102.1 Hibiscus syriacus cultivar Beakdansim tig00006476_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: 85890
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:843 original size:37 final size:36
Alignment explanation
Indices: 802--876 Score: 114
Period size: 37 Copynumber: 2.1 Consensus size: 36
792 GGAGTTTATA
*
802 TTGAACTCGATTCTCAAGTTACCTCTCTTGGAAGGAT
1 TTGAACTCGATTCTCAAGTTACCTCTC-TGGAAGAAT
* *
839 TTGAACTTGATTCTCAAGTTGCCTCTCTGGAAGAAT
1 TTGAACTCGATTCTCAAGTTACCTCTCTGGAAGAAT
875 TT
1 TT
877 TTGGGTATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (36 bp):
TTGAACTCGATTCTCAAGTTACCTCTCTGGAAGAAT
Found at i:3244 original size:13 final size:13
Alignment explanation
Indices: 3226--3250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3216 ATTATTTAAT
3226 CTTAATAATAAAC
1 CTTAATAATAAAC
3239 CTTAATAATAAA
1 CTTAATAATAAA
3251 TATTAACCTA
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
CTTAATAATAAAC
Found at i:5673 original size:14 final size:15
Alignment explanation
Indices: 5646--5674 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5636 ATACTCACTT
5646 CTCATTTCCATTATC
1 CTCATTTCCATTATC
5661 CTCATTT-CATTATC
1 CTCATTTCCATTATC
5675 AATATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (15 bp):
CTCATTTCCATTATC
Found at i:6700 original size:19 final size:19
Alignment explanation
Indices: 6676--6722 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
6666 TACAGTGTAC
6676 CGATGCA-TCCCTTATGCAT
1 CGATGCACT-CCTTATGCAT
6695 CGATGCACTCCTTATGCAT
1 CGATGCACTCCTTATGCAT
6714 CGATGCACT
1 CGATGCACT
6723 AATTGCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (19 bp):
CGATGCACTCCTTATGCAT
Found at i:11835 original size:20 final size:21
Alignment explanation
Indices: 11810--11850 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11800 CCACGATAGG
11810 GGGTATC-GTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
11830 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACCCCTTCATA
11851 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:11926 original size:32 final size:33
Alignment explanation
Indices: 11884--11945 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
11874 GCAGCCAGGG
* *
11884 GGTATAGATACCCTGGGG-GTATGGATACCCAT
1 GGTATAGATACCATGGGGAGTATAGATACCCAT
*
11916 GGTATCGATACCATGGGGAGTATAGATACC
1 GGTATAGATACCATGGGGAGTATAGATACC
11946 ATCCGAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (33 bp):
GGTATAGATACCATGGGGAGTATAGATACCCAT
Found at i:11943 original size:18 final size:17
Alignment explanation
Indices: 11881--11947 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 17
11871 GTTGCAGCCA
*
11881 GGGGGTATAGATACCCT
1 GGGGGTATAGATACCAT
*
11898 GGGGGTATGGATACCCAT
1 GGGGGTATAGATA-CCAT
*
11916 ---GGTATCGATACCAT
1 GGGGGTATAGATACCAT
11930 GGGGAGTATAGATACCAT
1 GGGG-GTATAGATACCAT
11948 CCGAGCAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
14 4 0.10
15 9 0.22
17 13 0.32
18 15 0.37
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (17 bp):
GGGGGTATAGATACCAT
Found at i:12098 original size:30 final size:29
Alignment explanation
Indices: 12064--12132 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
12054 ATTATTTTTG
*
12064 AAACATTTTAAAACTTCAATTTAAGTCCAA
1 AAACATTTTAAAA-TTCAATTCAAGTCCAA
*
12094 AAACATTTTTTAAATTCAATTCAAGTCCAA
1 AAACA-TTTTAAAATTCAATTCAAGTCCAA
12124 AAACATTTT
1 AAACATTTT
12133 GCCTTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 4 0.11
30 25 0.69
31 7 0.19
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (29 bp):
AAACATTTTAAAATTCAATTCAAGTCCAA
Found at i:12319 original size:24 final size:24
Alignment explanation
Indices: 12287--12335 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12277 ATATATGAAA
*
12287 ATGTTAAGCTCCCCCTTTTTCATT
1 ATGTTAAGCTCCCCCTGTTTCATT
12311 ATGTTAAGCTCCCCCTGTTTCATT
1 ATGTTAAGCTCCCCCTGTTTCATT
12335 A
1 A
12336 AGAAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (24 bp):
ATGTTAAGCTCCCCCTGTTTCATT
Found at i:13464 original size:19 final size:18
Alignment explanation
Indices: 13428--13480 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
13418 CTCTAAATTA
13428 TTTTTCAAAATTTC-ATTTT
1 TTTTTCAAAA--TCAATTTT
13447 GTTTTTCAAAATCAATTTT
1 -TTTTTCAAAATCAATTTT
*
13466 TGCTTTCAAAATCAA
1 T-TTTTCAAAATCAA
13481 ATTATCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 17 0.57
20 10 0.33
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTTCAAAATCAATTTT
Found at i:13512 original size:19 final size:20
Alignment explanation
Indices: 13488--13528 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
13478 CAAATTATCT
13488 TTAATTTTG-AGT-TTTGAAA
1 TTAATTTTGTA-TATTTGAAA
13507 TTAATTTTGTATATTTGAAA
1 TTAATTTTGTATATTTGAAA
13527 TT
1 TT
13529 CATGGTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
TTAATTTTGTATATTTGAAA
Found at i:15442 original size:16 final size:17
Alignment explanation
Indices: 15388--15451 Score: 92
Period size: 17 Copynumber: 3.7 Consensus size: 17
15378 TTGCAGCCAA
* *
15388 GGGGTATAGATACCCTAG
1 GGGGTATCGATACCAT-G
15406 GGGGTATCGATACCATG
1 GGGGTATCGATACCATG
15423 GGGGTATCGATACCATG
1 GGGGTATCGATACCATG
*
15440 GGGGTATAGATA
1 GGGGTATCGATA
15452 TCATTCGAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
17 29 0.67
18 14 0.33
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (17 bp):
GGGGTATCGATACCATG
Found at i:15725 original size:21 final size:21
Alignment explanation
Indices: 15696--15755 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
15686 CCTGTAAAAA
*
15696 ATAAAATAAAATTAAATAAAT-
1 ATAATATAAAA-TAAATAAATC
*
15717 ATAATATAAAA-ATATAAATC
1 ATAATATAAAATAAATAAATC
*
15737 ATAAATATAAAATATATAA
1 AT-AATATAAAATAAATAA
15756 TATTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 19 0.56
22 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATATAAAATAAATAAATC
Found at i:15726 original size:15 final size:13
Alignment explanation
Indices: 15710--15747 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15700 AATAAAATTA
15710 AATAAATATAATAT
1 AATAAATATAA-AT
15724 AA-AAATATAAAT
1 AATAAATATAAAT
*
15736 CATAAATATAAA
1 AATAAATATAAA
15748 ATATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 17 0.77
14 2 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATATAAAT
Found at i:15742 original size:7 final size:6
Alignment explanation
Indices: 15711--15758 Score: 51
Period size: 7 Copynumber: 7.3 Consensus size: 6
15701 ATAAAATTAA
*
15711 ATAAAT ATAATAT AAAAAT ATAAAT CATAAAT ATAAAAT ATATAAT AT
1 ATAAAT ATAA-AT ATAAAT ATAAAT -ATAAAT AT-AAAT ATA-AAT AT
15759 TATTTTTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 14 0.39
7 22 0.61
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:15755 original size:15 final size:14
Alignment explanation
Indices: 15696--15758 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
15686 CCTGTAAAAA
15696 ATAAA-ATA-AAAT
1 ATAAATATATAAAT
*
15708 -TAAATAAATATAAT
1 ATAAATATATA-AAT
*
15722 ATAAAAATATAAAT
1 ATAAATATATAAAT
15736 CATAAATATA-AAAT
1 -ATAAATATATAAAT
15750 ATATAATAT
1 ATA-AATAT
15759 TATTTTTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 4 0.10
14 15 0.37
15 16 0.39
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATATATAAAT
Found at i:15838 original size:26 final size:23
Alignment explanation
Indices: 15745--15867 Score: 93
Period size: 26 Copynumber: 5.4 Consensus size: 23
15735 TCATAAATAT
15745 AAAATATATA-ATATTATTTTTCA
1 AAAATATATATATA-TATTTTTCA
*
15768 GAAA-ATA-A-A-ATA-TTTT-A
1 AAAATATATATATATATTTTTCA
15785 AAAAT-TATATATCATATGTTTTCA
1 AAAATATATATAT-ATAT-TTTTCA
*
15809 AAAACTATATTATATATACTTTTTTA
1 AAAA-TATA-TATATATA-TTTTTCA
15835 AAAAGTATATATTATATATTTTTCA
1 AAAA-TATATA-TATATATTTTTCA
15860 AAAA-ATAT
1 AAAATATAT
15868 TTTCAAAACT
Statistics
Matches: 82, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
17 6 0.07
18 5 0.06
19 3 0.04
20 1 0.01
21 5 0.06
22 3 0.04
23 11 0.13
24 5 0.06
25 13 0.16
26 24 0.29
27 6 0.07
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATATATATATATATTTTTCA
Found at i:15908 original size:36 final size:36
Alignment explanation
Indices: 15830--16058 Score: 201
Period size: 36 Copynumber: 6.0 Consensus size: 36
15820 ATATATACTT
* * *
15830 TTTTAAAAAGTATATATTATATAT-TTTTCAAAAAATA
1 TTTTCAAAACTATATATTATATATATTTT--TAAAATA
*
15867 TTTTCAAAACTATATATTATATATATTTTTAAAATG
1 TTTTCAAAACTATATATTATATATATTTTTAAAATA
* * *
15903 TTTTCAAAACTATATATTATATACATTTTCAAAATG
1 TTTTCAAAACTATATATTATATATATTTTTAAAATA
* *
15939 TTTTCAAAACTATATATTAGATATATTTTTTCAAAAAACA
1 TTTTCAAAACTATATATTATATATA-TTTTT---AAAATA
*
15979 TTTGC-AAACTATATATATATATATATATATATATTCAAAAATCA
1 TTTTCAAAAC--TATATAT-TATATATAT-T-T-TT--AAAAT-A
* *
16023 TTTTCAAAGCTATATAATATATATATTTTTAAAATA
1 TTTTCAAAACTATATATTATATATATTTTTAAAATA
16059 AATTTAAATA
Statistics
Matches: 161, Mismatches: 18, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
36 63 0.39
37 31 0.19
38 4 0.02
39 6 0.04
40 9 0.06
41 9 0.06
42 17 0.11
43 12 0.07
44 7 0.04
45 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAACTATATATTATATATATTTTTAAAATA
Found at i:15993 original size:2 final size:2
Alignment explanation
Indices: 15988--16012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15978 ATTTGCAAAC
15988 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16013 TCAAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16016 original size:44 final size:45
Alignment explanation
Indices: 15949--16048 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 45
15939 TTTTCAAAAC
* * *
15949 TATATAT-TAGATATATTTTTTCAAAAAACATTTGCAAA-CTATA
1 TATATATATATATATATATATTCAAAAAACATTTGCAAAGCTATA
* *
15992 TATATATATATATATATATATTCAAAAATCATTTTCAAAGCTATA
1 TATATATATATATATATATATTCAAAAAACATTTGCAAAGCTATA
16037 TA-ATATATATAT
1 TATATATATATAT
16049 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 7 0.14
44 36 0.72
45 7 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (45 bp):
TATATATATATATATATATATTCAAAAAACATTTGCAAAGCTATA
Found at i:18891 original size:72 final size:72
Alignment explanation
Indices: 18765--18900 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 72
18755 TCTCAACATG
**
18765 CCTCTTTTGCTAAGTGGTCGGCCATCCCATTTTGCGTTCTCAGAATATAAAAGTACTGCAGTGTC
1 CCTCTTTTGCTAAGTGGTCGGCCATCCCATTAGGCGTTCTCAGAATATAAAAGTACTGCAGTGTC
18830 GAGCATA
66 GAGCATA
* * *
18837 CCTCTTTTGCTAAGTGGTCGGCCATCCCGTTAGGCGTTCTCAGATTATAGAAGTACTGCAGTGT
1 CCTCTTTTGCTAAGTGGTCGGCCATCCCATTAGGCGTTCTCAGAATATAAAAGTACTGCAGTGT
18901 TGAAATTGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (72 bp):
CCTCTTTTGCTAAGTGGTCGGCCATCCCATTAGGCGTTCTCAGAATATAAAAGTACTGCAGTGTC
GAGCATA
Found at i:29287 original size:15 final size:15
Alignment explanation
Indices: 29267--29296 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29257 TACATGAAAG
*
29267 AAATATTTTTAAAAT
1 AAATATTTGTAAAAT
29282 AAATATTTGTAAAAT
1 AAATATTTGTAAAAT
29297 CTAATCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AAATATTTGTAAAAT
Found at i:33464 original size:19 final size:20
Alignment explanation
Indices: 33440--33485 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
33430 AAATTTGATT
33440 TTTATATTAATTCA-AATTC
1 TTTATATTAATTCATAATTC
*
33459 TTTATATT-ATTTATAATTC
1 TTTATATTAATTCATAATTC
33478 -TTATATTA
1 TTTATATTA
33486 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATATTAATTCATAATTC
Found at i:33484 original size:37 final size:36
Alignment explanation
Indices: 33370--33485 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 36
33360 AATTTAGTTT
*
33370 TTATATTAATTACAATTCTTTATATTTTTTATAATTC
1 TTATATTAATTA-AATTCTTTATATTATTTATAATTC
* ** * *
33407 TTACATT-A-T-AATT-TGAATATTATAAATT-TGATTT
1 TTATATTAATTAAATTCTTTATATTAT---TTATAATTC
33441 TTATATTAATTCAAATTCTTTATATTATTTATAATTC
1 TTATATTAATT-AAATTCTTTATATTATTTATAATTC
33478 TTATATTA
1 TTATATTA
33486 TAAATTTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
32 7 0.12
33 4 0.07
34 10 0.17
35 4 0.07
36 4 0.07
37 18 0.31
38 4 0.07
39 8 0.14
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (36 bp):
TTATATTAATTAAATTCTTTATATTATTTATAATTC
Found at i:33499 original size:13 final size:14
Alignment explanation
Indices: 33465--33501 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
33455 ATTCTTTATA
33465 TTATTTAT-AATTC
1 TTATTTATAAATTC
33478 TTATATTATAAATT-
1 TTAT-TTATAAATTC
33492 TTATTTATAA
1 TTATTTATAA
33502 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:34122 original size:23 final size:23
Alignment explanation
Indices: 34092--34151 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
34082 TAGCAACCGG
*
34092 CAAGCATCAATGTACCAATTCAA
1 CAAGCATCATTGTACCAATTCAA
* * *
34115 CAAGCATCATTGCATCAATTCAG
1 CAAGCATCATTGTACCAATTCAA
34138 CAAGCATCATTGTA
1 CAAGCATCATTGTA
34152 ATACGAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (23 bp):
CAAGCATCATTGTACCAATTCAA
Found at i:34206 original size:18 final size:18
Alignment explanation
Indices: 34173--34220 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
34163 AATACGAATA
** *
34173 AAATACAGATGCAGATGC
1 AAATACAGATATAGATAC
*
34191 AGATACAGATATAGATAC
1 AAATACAGATATAGATAC
*
34209 AAATACAAATAT
1 AAATACAGATAT
34221 CAATATAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (18 bp):
AAATACAGATATAGATAC
Found at i:34292 original size:9 final size:9
Alignment explanation
Indices: 34259--34333 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
34249 ACCATATTAC
34259 TATATATATA
1 TATATATA-A
34269 TATATATAA
1 TATATATAA
34278 -ACTATATAA
1 TA-TATATAA
* *
34287 TTTATACAA
1 TATATATAA
34296 TATATAT--
1 TATATATAA
*
34303 TATTTATAA
1 TATATATAA
*
34312 TTATACATAA
1 -TATATATAA
34322 TATATA-AA
1 TATATATAA
34330 TATA
1 TATA
34334 AATTGTATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.12
8 7 0.13
9 24 0.46
10 15 0.29
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATATAA
Found at i:34431 original size:18 final size:17
Alignment explanation
Indices: 34393--34449 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
34383 AAACCCTAAA
*
34393 ATATATTACTATATATAT
1 ATATA-TACTATATATTT
34411 ATATATACTATATAATTT
1 ATATATACTATAT-ATTT
*
34429 ATACAATA-TATATTATTT
1 ATA-TATACTATA-TATTT
34447 ATA
1 ATA
34450 ATTATACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.24
18 22 0.65
19 4 0.12
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATACTATATATTT
Found at i:34445 original size:139 final size:140
Alignment explanation
Indices: 34216--34665 Score: 690
Period size: 139 Copynumber: 3.1 Consensus size: 140
34206 TACAAATACA
* * *
34216 AATATCAATATAAATATAAACTCTAAACCCTGAACCATATTACTATATATATATATATATAAACT
1 AATATCAATATAAATATAAACCCTAAACCCTAAAACATATTAC-ATATATATATATATAT--ACT
34281 ATATAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTT
63 ATATAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTT
34346 TATATACAATATC
128 TATATACAATATC
*
34359 AATATCAATATAAATATAAACCCTAAACCCTAAAATATATTAC-TATATATATATATATACTATA
1 AATATCAATATAAATATAAACCCTAAACCCTAAAACATATTACATATATATATATATATACTATA
34423 TAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTAT
66 TAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTAT
34488 ATACAATATC
131 ATACAATATC
* *
34498 AATATCAATATCAATATAAACCCTAAACCTTGAACCTTGAACCATATTACTATATATATATATAT
1 AATATCAATATAAATATAAACCCTAAACCCT-AA-----AA-CATATTAC-ATATATATATATAT
34563 ATACTATATAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTA
58 ATACTATATAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTA
*
34628 TAGTTTATATATAAT-TC
123 TAGTTTATATACAATATC
* *
34645 ATATAT-AATTTATATATAAAC
1 A-ATATCAATATAAATATAAAC
34666 TATGTAGTTT
Statistics
Matches: 286, Mismatches: 11, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
139 110 0.38
140 2 0.01
141 15 0.05
143 39 0.14
145 2 0.01
146 7 0.02
147 15 0.05
148 96 0.34
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (140 bp):
AATATCAATATAAATATAAACCCTAAACCCTAAAACATATTACATATATATATATATATACTATA
TAATTTATACAATATATATTATTTATAATTATACATAATATATAAATATAAATTGTATAGTTTAT
ATACAATATC
Found at i:34508 original size:12 final size:13
Alignment explanation
Indices: 34486--34515 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
34476 TGTATAGTTT
34486 ATATACAATATCA
1 ATATACAATATCA
34499 ATAT-CAATATCA
1 ATATACAATATCA
34511 ATATA
1 ATATA
34516 AACCCTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATACAATATCA
Found at i:34555 original size:2 final size:2
Alignment explanation
Indices: 34548--34803 Score: 95
Period size: 2 Copynumber: 126.0 Consensus size: 2
34538 ACCATATTAC
* *
34548 TA TA TA TA TA TA TA TA TA CTA TA TA -A TT TA TA CA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
34589 T- TA TT TA TA -A T- TA TA CA TA -A TA TA TA AA TA TA AA T- TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
34626 TA TA GTT TA TA TA TA -A T- TCA TA TA TA -A TT TA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA
* * * *
34668 TG TA GTT TC TA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * ** *
34710 TA GTA TA TA AA TA TA AA CTA TA GTA TA TA TA TA TA GG TCA TA TG
1 TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA T-A TA TA
* *
34754 TA AA CTA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA TA TA TA
34798 TA TA TA
1 TA TA TA
34804 GGTCATATGT
Statistics
Matches: 187, Mismatches: 39, Indels: 56
0.66 0.14 0.20
Matches are distributed among these distances:
1 12 0.06
2 153 0.82
3 22 0.12
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:34579 original size:14 final size:15
Alignment explanation
Indices: 34548--34803 Score: 67
Period size: 15 Copynumber: 17.3 Consensus size: 15
34538 ACCATATTAC
34548 TATA-TATATATATA
1 TATACTATATATATA
*
34562 TATACTATATA-ATT
1 TATACTATATATATA
*
34576 TATACAATATATAT-
1 TATACTATATATATA
*
34590 TAT-TTATA-ATTATA
1 TATACTATATA-TATA
* * *
34604 CATAATATATAAATA
1 TATACTATATATATA
* * * *
34619 TAAATTGTATAGTTTA
1 TATACTATATA-TATA
34635 TATA-TA-AT-TCATA
1 TATACTATATAT-ATA
*
34648 TATA--ATTTATATA
1 TATACTATATATATA
* * * *
34661 TAAACTATGTAGTTTC
1 TATACTATATA-TATA
34677 TATA-TAGTATATATA
1 TATACTA-TATATATA
*
34692 GTTTA-TATATATAATA
1 -TATACTATATAT-ATA
* *
34708 TATAGTATATAAATA
1 TATACTATATATATA
*
34723 TAAACTATAGTATATA
1 TATACTATA-TATATA
** *
34739 TATA-TAGGTCATATG
1 TATACTATAT-ATATA
*
34754 TAAACTATATAGTATA
1 TATACTATATA-TATA
*
34770 TA-AATATCA-ACTATA
1 TATACTAT-ATA-TATA
34785 GTATA-TATATATATA
1 -TATACTATATATATA
34800 TATA
1 TATA
34804 GGTCATATGT
Statistics
Matches: 176, Mismatches: 41, Indels: 50
0.66 0.15 0.19
Matches are distributed among these distances:
12 3 0.02
13 19 0.11
14 29 0.16
15 73 0.41
16 51 0.29
17 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (15 bp):
TATACTATATATATA
Found at i:34658 original size:9 final size:10
Alignment explanation
Indices: 34582--34663 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
34572 AATTTATACA
34582 ATATAT-ATT
1 ATATATAATT
*
34591 ATTTATAATT
1 ATATATAATT
*
34601 ATACATAATAT
1 ATATATAAT-T
34612 ATAAATATAAATT
1 AT--ATAT-AATT
*
34625 GTATAGT--TT
1 ATATA-TAATT
34634 ATATATAATT
1 ATATATAATT
34644 CATATATAATTT
1 -ATATATAA-TT
34656 ATATATAA
1 ATATATAA
34664 ACTATGTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:34709 original size:148 final size:142
Alignment explanation
Indices: 34252--34719 Score: 563
Period size: 139 Copynumber: 3.2 Consensus size: 142
34242 ACCCTGAACC
34252 ATATTACTATATATATATATATATAAACTATATAATTTATACAATATATATTATTTATAATTATA
1 ATATTACTATATATATATATATAT--ACTATATAATTTATACAATATATATTATTTATAATTATA
* **
34317 CATAATATATAAATATAAATTGTATAGTTTATATACAATATCAATATCAATATAAATATAAACCC
64 CATAATATATAAATATAAATTGTATAGTTTATATACAATATCAATATCAAT-TTAATATAAACTA
** **
34382 TAAACCCTA-A-AAT
128 TATTCAATATAGAAT
34395 ATATTAC--TATATATATATATATACTATATAATTTATACAATATATATTATTTATAATTATACA
1 ATATTACTATATATATATATATATACTATATAATTTATACAATATATATTATTTATAATTATACA
*
34458 TAATATATAAATATAAATTGTATAGTTTATATACAATATCAATATCAATATCAATATAAACCCTA
66 TAATATATAAATATAAATTGTATAGTTTATATACAATATCAATATCAAT-TTAATATAAA--CTA
* * ** * *
34523 AACCTTGAACCTTGAACC
128 TA--TTCAATATAGAA-T
34541 ATATTACTATATATATATATATATACTATATAATTTATACAATATATATTATTTATAATTATACA
1 ATATTACTATATATATATATATATACTATATAATTTATACAATATATATTATTTATAATTATACA
*
34606 TAATATATAAATATAAATTGTATAGTTTATATATAAT-TCATATAT-AATTTATATATAAACTAT
66 TAATATATAAATATAAATTGTATAGTTTATATACAATATCA-ATATCAATTTA-ATATAAACTA-
* *
34669 GTAGTTTCTATATAGTAT
128 -TA--TTCAATATAGAAT
* * *
34687 ATA-TAGTTTATATATATAATATATAGTATATAA
1 ATATTACTATATATATAT-ATATATACTATATAA
34720 ATATAAACTA
Statistics
Matches: 283, Mismatches: 28, Indels: 25
0.84 0.08 0.07
Matches are distributed among these distances:
139 100 0.35
141 17 0.06
143 7 0.02
145 17 0.06
146 26 0.09
147 20 0.07
148 96 0.34
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (142 bp):
ATATTACTATATATATATATATATACTATATAATTTATACAATATATATTATTTATAATTATACA
TAATATATAAATATAAATTGTATAGTTTATATACAATATCAATATCAATTTAATATAAACTATAT
TCAATATAGAAT
Found at i:34712 original size:20 final size:20
Alignment explanation
Indices: 34556--34744 Score: 110
Period size: 20 Copynumber: 9.5 Consensus size: 20
34546 ACTATATATA
* *
34556 TATATATATACTATATAATT
1 TATATATATAATATATAGTT
*
34576 TATACA-AT-ATATATTA-TT
1 TATATATATAATATA-TAGTT
*
34594 TATA-ATTATACATA-ATA-TA
1 TATATA-TATA-ATATATAGTT
* *
34613 TAAATATA-AATTGTATAGTT
1 TATATATATAA-TATATAGTT
* *
34633 TATATATAATTCATATATAATT
1 TATATAT-A-TAATATATAGTT
*
34655 TATATATA-AACTATGTAGTT
1 TATATATATAA-TATATAGTT
*
34675 TCTATATAGT-ATATATAGTT
1 TATATATA-TAATATATAGTT
*
34695 TATATATATAATATATAGTA
1 TATATATATAATATATAGTT
* *
34715 TATAAATATAA-ACTATAGTA
1 TATATATATAATA-TATAGTT
34735 TATATATATA
1 TATATATATA
34745 GGTCATATGT
Statistics
Matches: 133, Mismatches: 19, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
17 2 0.02
18 12 0.09
19 20 0.15
20 78 0.59
21 6 0.05
22 14 0.11
23 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATATATAATATATAGTT
Found at i:34762 original size:20 final size:19
Alignment explanation
Indices: 34739--34907 Score: 65
Period size: 18 Copynumber: 8.9 Consensus size: 19
34729 ATAGTATATA
*
34739 TATATAGGTCATATGTAAAC
1 TATATAGGT-ATATATAAAC
34759 TATATA-GTATATAAATATCAAC
1 TATATAGGTATAT--ATA--AAC
*
34781 TATAGTA--TATATATATA-
1 TATA-TAGGTATATATAAAC
*
34798 TATATAGGTCATATGTAAAC
1 TATATAGGT-ATATATAAAC
*
34818 TATATA-GT-T-TATATA-
1 TATATAGGTATATATAAAC
* *
34833 TATATAGTTCATATGTAAAC
1 TATATAGGT-ATATATAAAC
*
34853 --TATAGTTAGTATATAAAC
1 TATATAGGTA-TATATAAAC
* *
34871 TATATAGTTTATATGTAAA-
1 TATATAG-GTATATATAAAC
*
34890 -ATATAGTTCATATATAAA
1 TATATAGGT-ATATATAAA
34908 TATCAACTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 40
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.05
16 7 0.06
17 8 0.07
18 36 0.31
19 15 0.13
20 29 0.25
21 3 0.03
22 12 0.10
23 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (19 bp):
TATATAGGTATATATAAAC
Found at i:34831 original size:35 final size:35
Alignment explanation
Indices: 34792--34905 Score: 142
Period size: 35 Copynumber: 3.2 Consensus size: 35
34782 ATAGTATATA
*
34792 TATATATATATAGGTCATATGTAAACTATATAGTT
1 TATATATATATAGTTCATATGTAAACTATATAGTT
*
34827 TATATATATATAGTTCATATGTAAACTATAGTTAGTA
1 TATATATATATAGTTCATATGTAAACTATA--TAGTT
* *
34864 TATAAACTATATAGTTTATATGTAAA--ATATAGTT
1 TATATA-TATATAGTTCATATGTAAACTATATAGTT
*
34898 CATATATA
1 TATATATA
34906 AATATCAACT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.03
34 8 0.12
35 29 0.42
36 3 0.04
37 9 0.13
38 18 0.26
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (35 bp):
TATATATATATAGTTCATATGTAAACTATATAGTT
Found at i:35000 original size:33 final size:31
Alignment explanation
Indices: 34937--35037 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 31
34927 AGTTCATATG
34937 TAAACTATAGTTTATATATAATATATAAATA
1 TAAACTATAGTTTATATATAATATATAAATA
*
34968 TAAACTATAGTTTATATAAATAGTATATAAATA
1 TAAACTATAGTTTATAT--ATAATATATAAATA
*
35001 TAAATTATAGTATGTAGTTTATATAA-ATATAAATA
1 TAAACTATAGT-T-TA---TATATAATATATAAATA
35036 TA
1 TA
35038 CACCCTAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
31 17 0.28
33 23 0.38
34 1 0.02
35 13 0.22
36 3 0.05
38 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (31 bp):
TAAACTATAGTTTATATATAATATATAAATA
Found at i:35216 original size:33 final size:33
Alignment explanation
Indices: 35149--35222 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
35139 ATTAATAAAC
* *
35149 TATATAATTTATACAATATATATTATATAATTA
1 TATATAATATATACAATATAAATTATATAATTA
* *
35182 TATATAATATATA-AATATAAATTGTATAGTTTA
1 TATATAATATATACAATATAAATTATATA-ATTA
35215 TATATAAT
1 TATATAAT
35223 TCATATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 13 0.36
33 23 0.64
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
TATATAATATATACAATATAAATTATATAATTA
Found at i:35220 original size:2 final size:2
Alignment explanation
Indices: 35091--35200 Score: 83
Period size: 2 Copynumber: 57.5 Consensus size: 2
35081 ATCCTAAACC
*
35091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA ACT AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * * *
35135 TT AT AT -T A- AT AA ACT AT AT A- AT TT AT AC A- AT AT AT AT -T
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
35173 AT AT A- AT -T AT AT AT A- AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35201 AATTGTATAG
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
1 8 0.09
2 75 0.87
3 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35329 original size:18 final size:18
Alignment explanation
Indices: 35292--35331 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35282 TATATAGTAT
**
35292 TATAGTTTATACATGGTA
1 TATAGTTTATACATAATA
35310 TATAGTTTATACATAATA
1 TATAGTTTATACATAATA
35328 TATA
1 TATA
35332 TAAACTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
TATAGTTTATACATAATA
Found at i:35404 original size:20 final size:21
Alignment explanation
Indices: 35325--35405 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 21
35315 TTTATACATA
*
35325 ATATATATAAACTATATAGTTT
1 ATATATATATA-TATATAGTTT
* *
35347 ATATATA-ATACATATACTTT
1 ATATATATATATATATAGTTT
35367 ATATATA-A-ACTATATAGTTT
1 ATATATATATA-TATATAGTTT
35387 ATATATATATATAT-TAGTT
1 ATATATATATATATATAGTT
35406 ATTTTAATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 36 0.71
21 6 0.12
22 8 0.16
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (21 bp):
ATATATATATATATATAGTTT
Found at i:36172 original size:216 final size:214
Alignment explanation
Indices: 35483--36178 Score: 1095
Period size: 210 Copynumber: 3.3 Consensus size: 214
35473 TGATCCCTTT
* *
35483 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCATCTACA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCAAC-
* * *
35548 TTTTATTTGCATATGAAATTAACCCATACTTATTACTTATTTCTATTTATTATTTGGCCCATAAC
65 TTTTATTTGCATATGAAATTGA-CCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
* * *
35613 TTTTTAAATGAGTATAATTTAGTA-TATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATT
129 TTTTTAAATGGGTATAATTTAGTACT-TTTTTGTATTAATTTCAACATCACAATTTAAAATTATT
35677 TCGATTTGATCCCT--T---T-
193 TCGATTTGATCCCTCATCAATG
* * *
35693 TGTGTTGTTTAGTTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTACAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCT-CAAC
* *
35758 TTTTATTTGCATTTGAAATTGACACATACTTATTACTTATTTCTATTTTTAAATTGG-CCATAAC
65 TTTTATTTGCATATGAAATTGAC-CATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
35822 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
129 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
35887 CGATTTGATCCCTCATCAATG
194 CGATTTGATCCCTCATCAATG
*
35908 TGTGTTGTTTAATTAATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAC
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCT-CAAC
* * *
35973 TTTTATTTGCATATGAAATTGATCCAGACTTTTTACTTAATTCTATTTTTTTAATTGGCCCATAA
65 TTTTATTTGCATATGAAATTGA-CCATACTTATTACTTATTTCTA-TTTTTTAATTGGCCCATAA
36038 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTA-T
128 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATT
36102 TCGATTTGATCCCTCATCAATG
193 TCGATTTGATCCCTCATCAATG
*
36124 TGTGTTGTTTAATTTATTTAAATTTTTATTTGCAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
36179 ATTCTTAAAT
Statistics
Matches: 449, Mismatches: 25, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
209 81 0.18
210 108 0.24
211 3 0.01
214 1 0.00
215 99 0.22
216 88 0.20
217 69 0.15
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCAACT
TTTATTTGCATATGAAATTGACCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACTT
TTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCG
ATTTGATCCCTCATCAATG
Found at i:38200 original size:22 final size:22
Alignment explanation
Indices: 38175--38217 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
38165 ATTTCGATTT
*
38175 ATAAATCTATATTTGTATATAA
1 ATAAATCTATATTTCTATATAA
38197 ATAAATCTATATTTCTATATA
1 ATAAATCTATATTTCTATATA
38218 GAATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATCTATATTTCTATATAA
Found at i:38234 original size:19 final size:19
Alignment explanation
Indices: 38210--38264 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
38200 AATCTATATT
38210 TCTATATAGAATTATTAAG
1 TCTATATAGAATTATTAAG
*
38229 TCTATATAGTATTATTAAG
1 TCTATATAGAATTATTAAG
*
38248 -ATATATA-AGATTATTAA
1 TCTATATAGA-ATTATTAA
38265 TATATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (19 bp):
TCTATATAGAATTATTAAG
Found at i:38324 original size:16 final size:15
Alignment explanation
Indices: 38282--38398 Score: 91
Period size: 16 Copynumber: 7.7 Consensus size: 15
38272 TTAAGAATAA
38282 TATAATA-ATATATTT
1 TATAATATATA-ATTT
*
38297 TATTATTATATAATTCT
1 TA-TAATATATAATT-T
*
38314 TATAATATATATTATT
1 TATAATATATAAT-TT
*
38330 TATATTATATAATTCT
1 TATAATATATAATT-T
*
38346 TATAATATATATTATT
1 TATAATATATAAT-TT
38362 TAT-ATAT-TAATTT
1 TATAATATATAATTT
38375 TAT-ATAT-TAATTAT
1 TATAATATATAATT-T
*
38389 TATTATATAT
1 TATAATATAT
38399 TATTATTTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 17
0.77 0.07 0.15
Matches are distributed among these distances:
13 14 0.16
14 7 0.08
15 11 0.13
16 45 0.53
17 8 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAATATATAATTT
Found at i:38372 original size:21 final size:21
Alignment explanation
Indices: 38319--38436 Score: 84
Period size: 21 Copynumber: 5.5 Consensus size: 21
38309 ATTCTTATAA
* *
38319 TATATATTATTTA-TATTATA
1 TATATATTATATATTATTATT
*
38339 TA-ATTCTTATAATATATATTATT
1 TATA-TATTAT-ATAT-TATTATT
*
38362 TATATATTA-ATTTTATATATT
1 TATATATTATATATTAT-TATT
*
38383 AATTATTATTATATATTATTATT
1 TA-TA-TATTATATATTATTATT
38406 TA-ATTATTATATATTATTATT
1 TATA-TATTATATATTATTATT
38427 TA-ATTATTAT
1 TATA-TATTAT
38437 TTAAATAATA
Statistics
Matches: 81, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.01
20 10 0.12
21 39 0.48
22 2 0.02
23 22 0.27
24 7 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATTATATATTATTATT
Found at i:38438 original size:32 final size:33
Alignment explanation
Indices: 38282--38440 Score: 161
Period size: 32 Copynumber: 4.9 Consensus size: 33
38272 TTAAGAATAA
* *
38282 TATAATA-ATA-TATTTTATTATTATATAATTCT
1 TATAATATATATTA-TTTATTATTATTTAATTAT
* *
38314 TATAATATATATTATTTA-TATTATATAATTCT
1 TATAATATATATTATTTATTATTATTTAATTAT
*
38346 TATAATATATATTATTTATATATTAATTTTATATAT
1 TATAATATATATTATTTAT-TATT-ATTTAAT-TAT
* *
38382 TA-ATTAT-TATTATATATTATTATTTAATTAT
1 TATAATATATATTATTTATTATTATTTAATTAT
38413 TAT-ATAT-TATTATTTAATTATTATTTAA
1 TATAATATATATTATTT-ATTATTATTTAA
38441 ATAATATTAA
Statistics
Matches: 111, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
31 15 0.14
32 57 0.51
33 11 0.10
34 15 0.14
35 9 0.08
36 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (33 bp):
TATAATATATATTATTTATTATTATTTAATTAT
Found at i:38449 original size:14 final size:11
Alignment explanation
Indices: 38381--38440 Score: 86
Period size: 11 Copynumber: 5.4 Consensus size: 11
38371 ATTTTATATA
38381 TTAATTATTAT
1 TTAATTATTAT
38392 TATATATTATTAT
1 T-TA-ATTATTAT
38405 TTAATTATTAT
1 TTAATTATTAT
*
38416 AT-ATTATTAT
1 TTAATTATTAT
38426 TTAATTATTAT
1 TTAATTATTAT
38437 TTAA
1 TTAA
38441 ATAATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
10 9 0.20
11 22 0.50
12 4 0.09
13 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTAATTATTAT
Found at i:38450 original size:21 final size:21
Alignment explanation
Indices: 38378--38450 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 21
38368 TTAATTTTAT
*
38378 ATATTAATTATTA-TTATATA
1 ATATTAATTATTATTTAAATA
* * *
38398 TTATTATTTAATTATTATATATTA
1 ATATTAATT-ATTATT-TA-AATA
*
38422 TTATTTAATTATTATTTAAATA
1 ATA-TTAATTATTATTTAAATA
38444 ATATTAA
1 ATATTAA
38451 ATAATAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
20 7 0.17
21 8 0.20
22 6 0.15
23 4 0.10
24 11 0.27
25 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTAATTATTATTTAAATA
Found at i:45868 original size:23 final size:23
Alignment explanation
Indices: 45838--45892 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
45828 TTAGAGTCAA
45838 GCTTCGACTTCAGGATGAAGGCT
1 GCTTCGACTTCAGGATGAAGGCT
45861 GCTTCGACTTCAGGATGAAGGCT
1 GCTTCGACTTCAGGATGAAGGCT
*
45884 AC-TCGACTT
1 GCTTCGACTT
45893 GTAAGCGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GCTTCGACTTCAGGATGAAGGCT
Found at i:46276 original size:43 final size:43
Alignment explanation
Indices: 46215--46370 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 43
46205 CAGAGTCTAT
*
46215 TTCAACTACACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *** ** * * * * *
46258 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
46309 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
46352 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
46371 GACCGCTGGT
Statistics
Matches: 81, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
43 37 0.46
44 3 0.04
45 3 0.04
46 6 0.07
48 6 0.07
49 3 0.04
50 3 0.04
51 20 0.25
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:46374 original size:94 final size:97
Alignment explanation
Indices: 46213--46749 Score: 726
Period size: 106 Copynumber: 5.3 Consensus size: 97
46203 TTCAGAGTCT
*
46213 ATTTCAACTACACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
46278 ACCGCTGGTTGTCAAT-AA-AA-AATTTCCCA
66 ACCGCTGGTTGTCAATAAACAACAATTTCCCA
46307 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
46372 ACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAAAGCCA
66 ACCGCTGGTTGTCAATAAACAA-----CAATTTC----CCA
*
46413 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
46478 ACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAA-----CAATTTC----CCA
*
46519 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
46584 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTTAGAGCCA
66 ACCGCTGGTTGTCAATAAACAA-----CAA-TTT---CCCA
46625 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
46690 ACCGCTGGTTGTCAAT--A-AACAATTTCCCA
66 ACCGCTGGTTGTCAATAAACAACAATTTCCCA
** *
46719 ATTTCAACTTCACGGCGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
46750 TGGAACAATA
Statistics
Matches: 414, Mismatches: 13, Indels: 32
0.90 0.03 0.07
Matches are distributed among these distances:
94 111 0.27
95 2 0.00
96 2 0.00
97 3 0.01
98 3 0.01
102 6 0.01
103 2 0.00
104 1 0.00
106 281 0.68
107 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (97 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAATAAACAACAATTTCCCA
Found at i:46489 original size:106 final size:106
Alignment explanation
Indices: 46304--46725 Score: 763
Period size: 106 Copynumber: 4.0 Consensus size: 106
46294 AAAAAATTTC
46304 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
46369 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAAAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAAAG
*
46410 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
46475 GGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAAAG
*
46516 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
46581 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTTAGAG
66 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAAAG
46622 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
46687 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAA
66 GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAA
46726 CTTCACGGCG
Statistics
Matches: 306, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 306 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAAAG
Found at i:51494 original size:21 final size:21
Alignment explanation
Indices: 51470--51510 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51460 AGGAACAACC
*
51470 AGAACCAAGAGGAGTTCGAGG
1 AGAACCAAGAAGAGTTCGAGG
* *
51491 AGAACGATGAAGAGTTCGAG
1 AGAACCAAGAAGAGTTCGAG
51511 CCATGAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.37, T:0.12
Consensus pattern (21 bp):
AGAACCAAGAAGAGTTCGAGG
Found at i:54533 original size:27 final size:29
Alignment explanation
Indices: 54471--54533 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
54461 TGTGTATATT
54471 TTGATT-TTAATTAAATTAATCGATCTAA
1 TTGATTATTAATTAAATTAATCGATCTAA
* *
54499 TTGA--ATTAATTTAATTAATTGATC-AA
1 TTGATTATTAATTAAATTAATCGATCTAA
54525 -TGATTATTA
1 TTGATTATTA
54534 TAACTTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 3 0.10
26 2 0.07
27 21 0.70
28 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (29 bp):
TTGATTATTAATTAAATTAATCGATCTAA
Found at i:56535 original size:17 final size:17
Alignment explanation
Indices: 56513--56547 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
56503 AGTGGACGAG
56513 TCTCCCAACAAGAATTT
1 TCTCCCAACAAGAATTT
*
56530 TCTCCCAACAAGGATTT
1 TCTCCCAACAAGAATTT
56547 T
1 T
56548 ATACATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (17 bp):
TCTCCCAACAAGAATTT
Found at i:63107 original size:16 final size:17
Alignment explanation
Indices: 63057--63108 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
63047 AAAATTATTA
63057 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
63074 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
63089 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
63105 AATT
1 AATT
63109 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:65206 original size:52 final size:52
Alignment explanation
Indices: 65100--65206 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
65090 GATTCATAAT
* * *
65100 ATCAATGTGATGAGTTTTAATAAAAAATATTTTTTTTATTTAAACTTATTAC
1 ATCAAAGTGATGAGTTTTAATAAAAAATAATTTTTTTATTTAAACTTATCAC
** *
65152 ATCAAAGTGATGAGTTTTAA-AAAGTTATAATTTTTTTA-TTAAATTTTATCAC
1 ATCAAAGTGATGAGTTTTAATAAA-AAATAATTTTTTTATTTAAA-CTTATCAC
65204 ATC
1 ATC
65207 GTGACAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 8 0.17
52 39 0.83
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (52 bp):
ATCAAAGTGATGAGTTTTAATAAAAAATAATTTTTTTATTTAAACTTATCAC
Found at i:68264 original size:17 final size:18
Alignment explanation
Indices: 68242--68275 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68232 TCAGCCGGTC
68242 CGGTTC-GAACGGTTCAA
1 CGGTTCTGAACGGTTCAA
*
68259 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
68276 CTAATAGCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAA
Found at i:75374 original size:45 final size:45
Alignment explanation
Indices: 75282--75374 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 45
75272 GGTGGCATTC
* * * *
75282 CCACAATTGCCCCACTACCCTCTTGCAAGGCATTATCCGAAGTCT
1 CCACAATTACCCCACTACCCTCCTGCAAGGCATTAACCGAAGCCT
* * * * *
75327 CCACAATTACCTCACTGCCCTCCTGCAAGTCTTTAACTGAAGCCT
1 CCACAATTACCCCACTACCCTCCTGCAAGGCATTAACCGAAGCCT
75372 CCA
1 CCA
75375 TAGCAGTACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.39, G:0.12, T:0.25
Consensus pattern (45 bp):
CCACAATTACCCCACTACCCTCCTGCAAGGCATTAACCGAAGCCT
Found at i:76797 original size:23 final size:23
Alignment explanation
Indices: 76771--76839 Score: 104
Period size: 22 Copynumber: 3.0 Consensus size: 23
76761 AACGAACGAA
* * *
76771 AAAAATGAACGTGTCACAAAGAT
1 AAAAATAAACATGTCTCAAAGAT
76794 AAAAATAAACATGTCTCAAAGAT
1 AAAAATAAACATGTCTCAAAGAT
76817 -AAAATAAACATGTCTCAAAGAT
1 AAAAATAAACATGTCTCAAAGAT
76839 A
1 A
76840 GAGATATACA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 22 0.52
23 20 0.48
ACGTcount: A:0.55, C:0.13, G:0.12, T:0.20
Consensus pattern (23 bp):
AAAAATAAACATGTCTCAAAGAT
Found at i:80627 original size:31 final size:31
Alignment explanation
Indices: 80592--80650 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
80582 TAAAAATTTA
*
80592 GGTACTAAAATGAAACAAAAAGTTAACAATG
1 GGTACTAAAATGAAACAAAAAGTAAACAATG
80623 GGTACTAAAATGAAACAAAAAGTAAACA
1 GGTACTAAAATGAAACAAAAAGTAAACA
80651 TTAGATATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (31 bp):
GGTACTAAAATGAAACAAAAAGTAAACAATG
Found at i:80900 original size:25 final size:25
Alignment explanation
Indices: 80872--80921 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
80862 TCTTACAAAG
* *
80872 AATATAATGACTAAACTCAAAATAA
1 AATAAAATAACTAAACTCAAAATAA
80897 AATAAAATAACTAAACTCAAAATAA
1 AATAAAATAACTAAACTCAAAATAA
80922 TGAAGATCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (25 bp):
AATAAAATAACTAAACTCAAAATAA
Done.