Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008540.1 Hibiscus syriacus cultivar Beakdansim tig00111429_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: 255285
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:2207 original size:24 final size:22
Alignment explanation
Indices: 2191--2253 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
2181 ACTGAATATT
* *
2191 TGTCTCGAATGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
2213 TGTCCCGAAGGACCAC----TA
1 TGTCCCGAAGGACCACTGTATA
* *
2231 TGTCTCGAAGGACCATTGTATA
1 TGTCCCGAAGGACCACTGTATA
2253 T
1 T
2254 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 16 0.48
22 17 0.52
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:2234 original size:18 final size:18
Alignment explanation
Indices: 2211--2245 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2201 GACCACTGTA
2211 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
2229 TATGTCTCGAAGGACCA
1 TATGTCCCGAAGGACCA
2246 TTGTATATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:5741 original size:24 final size:25
Alignment explanation
Indices: 5697--5746 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
5687 TAAATTATGC
*
5697 ATTATATTTAAACTATCAATTTTAA
1 ATTATATTTAAACTATAAATTTTAA
5722 ATTAT-TTTAATAC-ATAAATTTTAA
1 ATTATATTTAA-ACTATAAATTTTAA
5746 A
1 A
5747 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATATTTAAACTATAAATTTTAA
Found at i:11669 original size:33 final size:33
Alignment explanation
Indices: 11632--11694 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
11622 TTAGTTAAAA
* *
11632 AGTTTGTACCATTAAATAAAAAACATAGAAAGT
1 AGTTTATACCATTAAATAAAAAACAAAGAAAGT
*
11665 AGTTTATACCATTAAATGAAAAACAAAGAA
1 AGTTTATACCATTAAATAAAAAACAAAGAA
11695 TGTGTAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.54, C:0.10, G:0.11, T:0.25
Consensus pattern (33 bp):
AGTTTATACCATTAAATAAAAAACAAAGAAAGT
Found at i:14157 original size:19 final size:21
Alignment explanation
Indices: 14113--14157 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
14103 GTATATGCTG
* *
14113 GAAATTAGATGTTAGAATGTT
1 GAAATTAGATGTTAAAATGAT
14134 G-AATTA-ATGTTAAAAT-AT
1 GAAATTAGATGTTAAAATGAT
14152 GAAATT
1 GAAATT
14158 GGATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 13 0.62
20 5 0.24
21 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
GAAATTAGATGTTAAAATGAT
Found at i:15991 original size:2 final size:2
Alignment explanation
Indices: 15984--16023 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
15974 CGAATCATAC
15984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
16024 TTTTTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17099 original size:26 final size:29
Alignment explanation
Indices: 17035--17103 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
17025 GAATATTGAG
*
17035 CTTAATGAGCAACGAGTCAAGCAACAAGTTTT
1 CTTAACGAGC-ACGAGTCAAGCAACAA--TTT
17067 CTTAACGAGCACGAGTCAAGCAA-AA-TT
1 CTTAACGAGCACGAGTCAAGCAACAATTT
17094 -TTAACGAGCA
1 CTTAACGAGCA
17104 AAGAGTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 10 0.28
27 2 0.06
30 2 0.06
31 13 0.36
32 9 0.25
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (29 bp):
CTTAACGAGCACGAGTCAAGCAACAATTT
Found at i:17345 original size:6 final size:6
Alignment explanation
Indices: 17336--19274 Score: 3376
Period size: 6 Copynumber: 328.5 Consensus size: 6
17326 TTCCCTTTCC
*
17336 ACACAT ACACAT ACACAT ATACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17384 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17432 ACACAT --ACAT ACACAT ACACAT ACACAT ACACA- ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17477 AC-CAT ACACAT ACACAT ACACA- ACACAT ACACAT AC-CAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17522 ACACAT ACACAT ACACAT ACAC-- ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17568 AC-CAT ACACAT AC-CAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17614 ACACAT ACACAT ACACAT ACACAT ACACAT AC-C-- ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
* *
17659 --ACAG ACACAT ACACAT ACAC-- ACACAT ACACAG AC-CAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17702 ACACAT ACACAT ACACAT ACACAT ACAC-- A-ACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
*
17747 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAG ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17795 ACACAT ACACAT ACACAT ACACAT ACACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT --ACACAT ACACAT ACACAT ACACAT
17845 ACACAT ACACAT AC-CAT ACACAT ACAC-T ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
17891 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACAACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC-ACAT ACACAT
17940 ACACAT ACACAT --ACAT ACACAT ACACAT ACACAT ACACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT --ACACAT ACACAT
17988 A-ACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18035 ACAC-- ACACAT ACACAT AC-CAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18080 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18128 ACACAT ACACAT ACACAT ACACAT ACACAT ACACA- ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18175 ACACAT ACACAT ACACAT ACACAT ACACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT --ACACAT ACACAT ACACAT ACACAT
*
18225 ACACAT ACACAT ACACAT ACAACAA ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT AC-ACAT ACACAT ACACAT ACACAT ACACAT
18274 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18322 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18370 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT --ACACAT
18420 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC-CAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18467 ACACAT --ACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18513 ACACAT ACACAT ACACAT ACACACAT ACACAT ACACAT --ACAT ACACAT
1 ACACAT ACACAT ACACAT --ACACAT ACACAT ACACAT ACACAT ACACAT
*
18561 ACACAT ACACAT --ACAT ACACAT ACACAT ACACAC ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18607 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACAC--
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18653 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18701 ACACAT --ACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18747 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18795 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18843 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18891 ACACAT ACACAT --ACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18937 ACACAT ACACAT ACACAT ACA-AT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
18984 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
19032 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
19080 --ACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
19126 ACACAT ACACAT ACACAT ACACAT ACACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT --ACACAT ACACAT ACACAT ACACAT
19176 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
19224 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
19272 ACA
1 ACA
19275 AAGGCTGTAA
Statistics
Matches: 1861, Mismatches: 12, Indels: 120
0.93 0.01 0.06
Matches are distributed among these distances:
3 4 0.00
4 53 0.03
5 71 0.04
6 1686 0.91
7 11 0.01
8 36 0.02
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
ACACAT
Found at i:21789 original size:19 final size:21
Alignment explanation
Indices: 21745--21789 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
21735 TAATATGCTG
* *
21745 GAAATTAGATGTTAGAATGTT
1 GAAATTAGATGTTAAAATGAT
21766 G-AATTA-ATGTTAAAAT-AT
1 GAAATTAGATGTTAAAATGAT
21784 GAAATT
1 GAAATT
21790 GGATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 13 0.62
20 5 0.24
21 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
GAAATTAGATGTTAAAATGAT
Found at i:23745 original size:2 final size:2
Alignment explanation
Indices: 23659--23727 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
23649 TAAGCGAATC
23659 AT 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 AT
23701 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23728 ATTTAAATAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25764 original size:20 final size:19
Alignment explanation
Indices: 25737--25775 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
25727 ATCAAAATAA
*
25737 TTAAAATAAATATAAAATT
1 TTAAAATAAATAAAAAATT
*
25756 TTAATAATATATAAAAAATT
1 TTAA-AATAAATAAAAAATT
25776 ATATGATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATAAATAAAAAATT
Found at i:25800 original size:15 final size:15
Alignment explanation
Indices: 25760--25801 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
25750 AAAATTTTAA
*
25760 TAATATATAAAAAAT
1 TAATATATATAAAAT
25775 T-ATATGATATAAAAT
1 TAATAT-ATATAAAAT
*
25790 TAATATCTATAA
1 TAATATATATAA
25802 TATATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
TAATATATATAAAAT
Found at i:25824 original size:22 final size:23
Alignment explanation
Indices: 25776--25845 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 23
25766 ATAAAAAATT
*
25776 ATATGATATAAAATTAATATCTATA
1 ATAT-ATAAAAAATTAATAT-TATA
25801 ATATATAAAAAATTAATATT-TA
1 ATATATAAAAAATTAATATTATA
*
25823 ATTTATTTAAAAAATTAATATTA
1 A--TATATAAAAAATTAATATTA
25846 AAATTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.08
23 1 0.03
24 32 0.80
25 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATATAAAAAATTAATATTATA
Found at i:25850 original size:12 final size:12
Alignment explanation
Indices: 25833--25927 Score: 65
Period size: 12 Copynumber: 7.8 Consensus size: 12
25823 ATTTATTTAA
25833 AAAATTAATATT
1 AAAATTAATATT
25845 AAAATTAATATCT
1 AAAATTAATAT-T
*
25858 -ATATATAATA-T
1 AAAAT-TAATATT
25869 AAATATTAATATT
1 AAA-ATTAATATT
* *
25882 -TAATTTAT-TT
1 AAAATTAATATT
25892 AAAAAATTAATATT
1 --AAAATTAATATT
*
25906 AAAATTAA-AAT
1 AAAATTAATATT
25917 AAAATATAATA
1 AAAAT-TAATA
25928 AAATTAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
10 2 0.03
11 13 0.20
12 32 0.49
13 16 0.25
14 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:25885 original size:19 final size:19
Alignment explanation
Indices: 25836--25885 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
25826 TATTTAAAAA
* *
25836 ATTAATA-TTAAAATTAAT
1 ATTAATATTTAATATAAAT
*
25854 ATCT-ATATATAATATAAAT
1 AT-TAATATTTAATATAAAT
25873 ATTAATATTTAAT
1 ATTAATATTTAAT
25886 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATATTTAATATAAAT
Found at i:25889 original size:61 final size:60
Alignment explanation
Indices: 25767--25913 Score: 233
Period size: 61 Copynumber: 2.4 Consensus size: 60
25757 TAATAATATA
25767 TAAAAAATTATATGATATAAAATTAATATCTATAATATATAAAAAATTAATATTTAATTTATT
1 TAAAAAATTA-AT-AT-TAAAATTAATATCTATAATATATAAAAAATTAATATTTAATTTATT
*
25830 TAAAAAATTAATATTAAAATTAATATCTAT-ATATAATATAAATATTAATATTTAATTTATT
1 TAAAAAATTAATATTAAAATTAATATCTATAATAT-ATA-AAAAATTAATATTTAATTTATT
25891 TAAAAAATTAATATTAAAATTAA
1 TAAAAAATTAATATTAAAATTAA
25914 AATAAAATAT
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
59 4 0.05
60 19 0.23
61 46 0.57
62 2 0.02
63 10 0.12
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (60 bp):
TAAAAAATTAATATTAAAATTAATATCTATAATATATAAAAAATTAATATTTAATTTATT
Found at i:25929 original size:10 final size:10
Alignment explanation
Indices: 25894--25940 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
25884 ATTTATTTAA
25894 AAAATTAATATT
1 AAAATTAA-A-T
25906 AAAATTAAAAT
1 AAAATT-AAAT
25917 AAAA-TATAAT
1 AAAATTA-AAT
25927 AAAATTAAAT
1 AAAATTAAAT
25937 AAAA
1 AAAA
25941 CCTCTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.03
10 15 0.47
11 7 0.22
12 7 0.22
13 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:26833 original size:22 final size:21
Alignment explanation
Indices: 26808--26861 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
26798 AACTTTTATC
*
26808 TTATGACATGTTTTCTTTGTTT
1 TTATGACATGTTTT-TTTGTCT
* * *
26830 TTATAATACGTTTTTTTGTCT
1 TTATGACATGTTTTTTTGTCT
26851 TT-TGACATGTT
1 TTATGACATGTT
26862 ATTGATCTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 6 0.24
21 8 0.32
22 11 0.44
ACGTcount: A:0.17, C:0.09, G:0.13, T:0.61
Consensus pattern (21 bp):
TTATGACATGTTTTTTTGTCT
Found at i:28009 original size:24 final size:23
Alignment explanation
Indices: 27957--28010 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
27947 TAAATATGAT
* *
27957 TTTAAAAAATTTAAAAGTTTAAG
1 TTTAAAAAAATTAAAACTTTAAG
27980 TATTAAAACAAATTAAAACTGTT-AG
1 T-TTAAAA-AAATTAAAACT-TTAAG
28005 TTTAAA
1 TTTAAA
28011 TATTAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 11 0.42
25 12 0.46
26 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (23 bp):
TTTAAAAAAATTAAAACTTTAAG
Found at i:28373 original size:12 final size:12
Alignment explanation
Indices: 28352--28385 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28342 ATAATAATAT
*
28352 TAAAATTAAAAC
1 TAAAATTAAAAA
*
28364 TAAAACTAAAAA
1 TAAAATTAAAAA
28376 TAAAATTAAA
1 TAAAATTAAA
28386 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:28839 original size:2 final size:2
Alignment explanation
Indices: 28832--28856 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28822 ATTTATTAAT
28832 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
28857 TATGTTATTT
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:34013 original size:10 final size:10
Alignment explanation
Indices: 34000--34061 Score: 51
Period size: 12 Copynumber: 6.2 Consensus size: 10
33990 GTATATGTAT
*
34000 ATGCATATGC
1 ATGCATACGC
34010 ATGCATACGC
1 ATGCATACGC
34020 AT--ATACGC
1 ATGCATACGC
34028 ATACGCATACGC
1 AT--GCATACGC
34040 ATACGCATACGC
1 AT--GCATACGC
34052 AT--ATACGC
1 ATGCATACGC
34060 AT
1 AT
34062 ACAAAGGCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
8 16 0.34
10 11 0.23
12 20 0.43
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (10 bp):
ATGCATACGC
Found at i:34057 original size:26 final size:25
Alignment explanation
Indices: 34012--34063 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
34002 GCATATGCAT
34012 GCATACGCATATACGCATACGCATAC
1 GCATACGCA-ATACGCATACGCATAC
34038 GCATACGC-ATACGCATATACGCATAC
1 GCATACGCAATACGC--ATACGCATAC
34064 AAAGGCCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
26 18 0.75
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (25 bp):
GCATACGCAATACGCATACGCATAC
Found at i:34063 original size:6 final size:6
Alignment explanation
Indices: 34012--34054 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
34002 GCATATGCAT
34012 GCATAC GCATATAC GCATAC GCATAC GCATAC GCATAC GCATA
1 GCATAC GC--ATAC GCATAC GCATAC GCATAC GCATAC GCATA
34055 TACGCATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 29 0.83
8 6 0.17
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (6 bp):
GCATAC
Found at i:35041 original size:35 final size:35
Alignment explanation
Indices: 34994--35061 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
34984 GATCAAGTTA
*
34994 CTAATTAATTGTCTCAATTACTACAAGAAATGTTG
1 CTAATTAATTGTCTCAATGACTACAAGAAATGTTG
* *
35029 CTAATTACTTGTCTCAATGACTACAGGAAATGT
1 CTAATTAATTGTCTCAATGACTACAAGAAATGT
35062 CTTAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (35 bp):
CTAATTAATTGTCTCAATGACTACAAGAAATGTTG
Found at i:36083 original size:64 final size:64
Alignment explanation
Indices: 35956--36075 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
35946 AATGTTATAT
* *
35956 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATAAAATAGG
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAATAAAATAGG
* *
36020 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAGCTCTTATATAAT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAAT
36076 GTAATAGGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (64 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGATAACACTTATATAATAAAATAGG
Found at i:36709 original size:200 final size:198
Alignment explanation
Indices: 36225--36712 Score: 542
Period size: 200 Copynumber: 2.4 Consensus size: 198
36215 GCATTCATAT
* * *
36225 TTCATTCTGGAA-AAAAATATCGACACAAACTAACAACGTGTCGATACATTAT-TTAGACCTATT
1 TTCATCCTGGAACAAAAGTATCGACACAAATTAACAA-GTGTCGATACATTATGTT-GACCTATT
* * * * * *
36288 ATCTCATAAAACTGGTATATTTATATCGATTACATTGAACATTTACCTATTACATTATACTTATG
64 TTCTCATAAAAC-CGTATATTTATATCGATTACATTGAACATTAACCTAATACATTATAATTATC
* *
36353 GGTTTCGATGTTTCCGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTT
128 GGTTTCGATGTTTCCGGGATCGATACTTTTAATAAATATATCGACACTTTATGGTTGCACCCTTT
* *
36418 TTGGTA
193 GTGGCA
** * * * * *
36424 TTCATTTTGGACCAAAAGTATCGACAAAAAATTAGCAAGTGTCGACAC-TTGATGCTGACCTATT
1 TTCATCCTGGAACAAAAGTATCGAC-ACAAATTAACAAGTGTCGATACATT-ATGTTGACCTATT
* * *
36488 TTATCATAAAACCGATATATTTATATCGGTTACATTTTAA-ATTAACCTAATACATTATAATTAT
64 TTCTCATAAAACCG-TATATTTATATCGATTACA-TTGAACATTAACCTAATACATTATAATTAT
**
36552 CGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATATATCGACACTTTAT-GTGTGCACCTC
127 CGGTTTCGATGTTTCCGGGATCGATACTTTTAATAAATATATCGACACTTTATGGT-TGCACC-C
36616 GTTTGT-GCA
190 -TTTGTGGCA
* *
36625 TTCATCCT-GAATAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACCTGTT
1 TTCATCCTGGAACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTGACCTATT
* *
36689 TTCTAAT-TAACCAGTATATTTATA
64 TTCTCATAAAACC-GTATATTTATA
36713 CTTGTATAAA
Statistics
Matches: 241, Mismatches: 35, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
199 15 0.06
200 158 0.66
201 62 0.26
202 6 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (198 bp):
TTCATCCTGGAACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTGACCTATTTT
CTCATAAAACCGTATATTTATATCGATTACATTGAACATTAACCTAATACATTATAATTATCGGT
TTCGATGTTTCCGGGATCGATACTTTTAATAAATATATCGACACTTTATGGTTGCACCCTTTGTG
GCA
Found at i:42497 original size:20 final size:21
Alignment explanation
Indices: 42443--42505 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
42433 GATTCCCCTG
42443 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
42467 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
42487 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
42506 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:46347 original size:22 final size:21
Alignment explanation
Indices: 46305--46344 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46295 GAGTTTGTTT
*
46305 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
46326 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
46345 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:49297 original size:201 final size:197
Alignment explanation
Indices: 48822--49380 Score: 780
Period size: 201 Copynumber: 2.8 Consensus size: 197
48812 TTTATTTACA
* * *
48822 AAGTGCCGATACATGTTGTAAACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTATATTA
*
48887 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTCGGTATCGACACTTTTAATAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGT-TCGACACTTTTAATAAAT
* * *
48952 GTATCGACACTTTGTGCGTTCATCCTTTTTGGCATCCATTCGGAAAAAAGTATCGGCACAAATTT
130 GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCGGAAAAAAGTATCGACACAAATTT
49017 AAC
195 AAC
* * * *
49020 AAGTGTCGCTACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGATTACATTG
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTATATTA
* * *
49085 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGCTTTTTGGCTTCGACACTTTT-TTAAA
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATG-TTTTTGG-TTCGACACTTTTAAT-AA
* * * *
49149 ATGTATCTACACTTTATGCGTTCACCCTTTTTGGTATCCATTCTGGACATAAATTATCGACAC-A
128 ATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTC-GGA-AAAAAGTATCGACACAA
*
49213 ATATTAAG
191 AT-TTAAC
* * * *
49221 AAGTGTCGATACATATTATAGACATATTCTCTCATAAAATCGGTATATGTATACCGGTTATATTA
1 AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTATATTA
* * *
49286 CAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT-GGTTCGACACTTTTAATAAAT
*
49351 GTATCGACACTTTATGCGTGTAACCCTTTT
130 GTATCGACACTTTATGCGT-TCACCCTTTT
49381 GGATCGACAC
Statistics
Matches: 317, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
198 95 0.30
199 58 0.18
200 44 0.14
201 120 0.38
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (197 bp):
AAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTATATTA
CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGTTCGACACTTTTAATAAATG
TATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCGGAAAAAAGTATCGACACAAATTTA
AC
Found at i:49387 original size:51 final size:51
Alignment explanation
Indices: 49325--49430 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
49315 GTTTCGATGT
* *
49325 TTTTGGGATCGATACT-TTTAATAAATGTATCGACACTTTAT-GCGTGTAACCC
1 TTTTGGGATCGACACTCTATAA-AAATGTATCGACACTTTATAG-GT-TAACCC
* *
49377 TTTT-GGATCGACACTCTATGAAAATGTATCGACACTTTGTAGGTTAACCC
1 TTTTGGGATCGACACTCTATAAAAATGTATCGACACTTTATAGGTTAACCC
49427 TTTT
1 TTTT
49431 TGGCATCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
50 10 0.21
51 30 0.62
52 8 0.17
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (51 bp):
TTTTGGGATCGACACTCTATAAAAATGTATCGACACTTTATAGGTTAACCC
Found at i:50884 original size:15 final size:15
Alignment explanation
Indices: 50859--50905 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
50849 ACTTGTTTGG
* *
50859 ATCATCATCATCGTC
1 ATCATCTTCATCATC
*
50874 GTCATCTTCATCATC
1 ATCATCTTCATCATC
*
50889 ATCATCTTCATCTTC
1 ATCATCTTCATCATC
50904 AT
1 AT
50906 TGACCGCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.04, T:0.40
Consensus pattern (15 bp):
ATCATCTTCATCATC
Found at i:52716 original size:200 final size:201
Alignment explanation
Indices: 52373--52907 Score: 939
Period size: 200 Copynumber: 2.7 Consensus size: 201
52363 ATATTTAAAT
* *
52373 TCGACACAAAATCAAAAAAGTATCGATACATGTTGTAGACCTATTCTCTAATAAAACCGGTATAT
1 TCGACACAAAATCAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATAT
*
52438 TTATACTGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
66 TTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
52503 -GATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCA
131 CGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCA
52567 AAAGTA
196 AAAGTA
* *
52573 TCGACACAAAATCAAAAAAGTGCCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATAT
1 TCGACACAAAATCAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATAT
*
52638 TTATACCGGTTACATTAAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
66 TTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
*
52703 CGATAC-TTTTATAAATGTATCGATACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCA
131 CGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCA
52767 AAAGTA
196 AAAGTA
* * * * *
52773 TCGCCAAAAAATTAAAATAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAACCGGTATAT
1 TCGACACAAAATCAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATAT
*
52838 TTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTAGGAT
66 TTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
52903 CGATA
131 CGATA
52908 AATTTTACCT
Statistics
Matches: 318, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
200 313 0.98
201 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (201 bp):
TCGACACAAAATCAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATAT
TTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGAT
CGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCA
AAAGTA
Found at i:53194 original size:19 final size:19
Alignment explanation
Indices: 53170--53218 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
53160 TTATATTCAC
53170 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
53189 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
53208 ATACAAAATTA
1 ATACAAAATTA
53219 ACCCTACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:55045 original size:33 final size:33
Alignment explanation
Indices: 55008--55073 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
54998 CATCTTAAGA
*
55008 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
55041 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
55074 CCATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:55132 original size:21 final size:21
Alignment explanation
Indices: 55107--55171 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
55097 CCCCTTATGC
* *
55107 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
55128 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
55149 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
55170 CT
1 CT
55172 TGATTGTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.15, C:0.32, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:64996 original size:29 final size:30
Alignment explanation
Indices: 64940--65000 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
64930 CTTTTGAATA
*
64940 GTTTGGTTGTTGTTTCTCTCTCTATCTTTT
1 GTTTGGTTGTTGTTTCTCTCCCTATCTTTT
*
64970 GTTTGGTT-TTGTTTCTC-CCCTGTTCTTTT
1 GTTTGGTTGTTGTTTCTCTCCCT-ATCTTTT
64999 GT
1 GT
65001 CCTCTATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.61
30 8 0.29
ACGTcount: A:0.02, C:0.18, G:0.18, T:0.62
Consensus pattern (30 bp):
GTTTGGTTGTTGTTTCTCTCCCTATCTTTT
Found at i:65748 original size:55 final size:55
Alignment explanation
Indices: 65655--65815 Score: 198
Period size: 55 Copynumber: 2.9 Consensus size: 55
65645 TCAGATCAAA
* * * * *
65655 TTTGAAAATGGGTCAGCTCCATTATTCTTTCAGTGGAGATAAGATTCGAGAAATC-
1 TTTGAAAACGGGTCTGCTCCAATCTTCTTTCAG-GGAGATAAGACTCGAGAAATCT
* * * *
65710 TTTGAAAAACGGGTTTGTTCCAATCTTCTTTTAGGGAGAAAAGACTCGAGAAATCT
1 TTTG-AAAACGGGTCTGCTCCAATCTTCTTTCAGGGAGATAAGACTCGAGAAATCT
* *
65766 TTTGAAAACGGGTCTGCTCCACTCTTCTTTCAGGGATATAAGACTCGAGA
1 TTTGAAAACGGGTCTGCTCCAATCTTCTTTCAGGGAGATAAGACTCGAGA
65816 TTGATTTGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
55 63 0.71
56 26 0.29
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (55 bp):
TTTGAAAACGGGTCTGCTCCAATCTTCTTTCAGGGAGATAAGACTCGAGAAATCT
Found at i:65937 original size:89 final size:89
Alignment explanation
Indices: 65797--66117 Score: 380
Period size: 89 Copynumber: 3.6 Consensus size: 89
65787 CTCTTCTTTC
* * * * * *
65797 AGGGATATAAGACTCGAGATTGATTTGCTTCACTACT-TCTTCAGGAGGACCAGATCTGAAATAA
1 AGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCT-TTCAGGAAGACCAAATCTGACATAA
*
65861 GAAAAATCTGCTCCTCTACTCTTCT
65 GAAGAATCTGCTCCTCTACTCTTCT
* * ** *
65886 AGGGAGATCAGACTCGATATTGATTTGCTTTGCTACTCTTTTGGGAAGACCAAATATGACATAAG
1 AGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCTTTCAGGAAGACCAAATCTGACATAAG
65951 AAGAATCTGCTCCTCTACTCTTAC-
66 AAGAATCTGCTCCTCTACTCTT-CT
* *
65975 GGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCTTTCAGGAAGACCAAACCTGACATAAG
1 AGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCTTTCAGGAAGACCAAATCTGACATAAG
* * *
66040 AAGAATTTGTTCCACTACTCTT-T
66 AAGAATCTGCTCCTCTACTCTTCT
* * ** * *
66063 CGGGGAGATCAGACTCAAGATTGATTTGCTTCAATATTCTTTC-GGAAGGCCAAAT
1 -AGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCTTTCAGGAAGACCAAAT
66118 TTGAAATATT
Statistics
Matches: 200, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
88 10 0.05
89 188 0.94
90 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (89 bp):
AGGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTCTTTCAGGAAGACCAAATCTGACATAAG
AAGAATCTGCTCCTCTACTCTTCT
Found at i:66243 original size:62 final size:62
Alignment explanation
Indices: 66129--66458 Score: 443
Period size: 62 Copynumber: 5.3 Consensus size: 62
66119 TGAAATATTA
* *
66129 ACTTCTCTTCACGAGGAAGTCAAGAATTGACTCTACTG-GGGAGTCAGGAATAATAAAGGTTG
1 ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGG-GTCAGAAATAATAAAGGTTG
* * * * *
66191 ACTTCTCTACATGAGGAAGTCAAGGATTGACTCTATTGAGGGGTCAAAAATAAAAAAGGTTG
1 ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGGGTCAGAAATAATAAAGGTTG
* * * * *
66253 AATTCTCTTCACGAGGAAGTCAAGGATTGACTTTATTG-GGGAGTCAGAAATAACAAAGGTTT
1 ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGG-GTCAGAAATAATAAAGGTTG
* * *
66315 ACTTCTCTTCTCGAGGAAGTCAAGGATTGACTCTACTGAGGAGTCAGAAATAATAAAGGTTA
1 ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGGGTCAGAAATAATAAAGGTTG
* *
66377 ACTTCTCTTCACGAGGAAGACAAGGATTGACTCTACTGAGGAGTCA-AGAATAATAAAGGTTG
1 ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGGGTCAGA-AATAATAAAGGTTG
66439 ACTTCTCTTCAC-AGAGAAGT
1 ACTTCTCTTCACGAG-GAAGT
66459 AACAAATGTT
Statistics
Matches: 238, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
61 6 0.03
62 227 0.95
63 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (62 bp):
ACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTGAGGGGTCAGAAATAATAAAGGTTG
Found at i:66626 original size:42 final size:41
Alignment explanation
Indices: 66529--66634 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 41
66519 CCCAAAGGTT
* *
66529 TTACGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGAC
1 TTACAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGAC
** * *
66570 AGACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGAC
1 TTACAGATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGAC
* *
66612 TTACTGATGGCCCGAATGACTTA
1 TTACAGATGGCCCGAAGGACTTA
66635 CAAATTTTGA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 18 0.35
42 34 0.65
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGAC
Found at i:66889 original size:136 final size:136
Alignment explanation
Indices: 66640--66900 Score: 416
Period size: 136 Copynumber: 1.9 Consensus size: 136
66630 ACTTACAAAT
*
66640 TTTGAAAATAATTTAATGGGTAAGAAACTTTAGTAATCACTTTCTTAGTTTTCAAAAATTTCATT
1 TTTGAAAATAATTTAATGGGTAAGAAACTTTAGTAATCACTTTCTTACTTTTCAAAAATTTCATT
* *
66705 TTCATAAAAGATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATTAATG
66 TTCATAAAAGATTAAATGAGAAAATCTGGTAATCGCTTTCTCATTTTCATGTGAAAACATTAATG
66770 AGAAAC
131 AGAAAC
* * * * *
66776 TTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTC-AATATTTCATT
1 TTTGAAAATAATTTAATGGGTAAGAAACTTTAGTAATCACTTTCTTACTTTTCAAAAATTTCA-T
* *
66840 TTTCATAAAAGATTAAATGAGAAAATCTGGTAGTCGTTTTCTCATTTTCATGTGAAAACAT
65 TTTCATAAAAGATTAAATGAGAAAATCTGGTAATCGCTTTCTCATTTTCATGTGAAAACAT
66901 CCTACCCGAA
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
135 8 0.07
136 106 0.93
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.40
Consensus pattern (136 bp):
TTTGAAAATAATTTAATGGGTAAGAAACTTTAGTAATCACTTTCTTACTTTTCAAAAATTTCATT
TTCATAAAAGATTAAATGAGAAAATCTGGTAATCGCTTTCTCATTTTCATGTGAAAACATTAATG
AGAAAC
Found at i:67218 original size:250 final size:250
Alignment explanation
Indices: 66776--67531 Score: 978
Period size: 250 Copynumber: 3.0 Consensus size: 250
66766 AATGAGAAAC
* *
66776 TTTGGAAATAATTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTC-AATATTTCATT
1 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATT
* * * * *
66840 TTTCATAAAAGATTAAATGAGAAAATCTGGTAGTCGTTTTCTCATTTTCATGTGAAAACATCCTA
66 TTTAAT-AAAGATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTA
* * * *
66905 CCCGAAGGTCTTACGGATGGCCCAAATGACTTATCATTTTGTTCGAAAGACTTACAGATGACCCG
130 CCCTAAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCG
* *
66970 AAGGATTTAATTATCATGCTCAAAAGACTTACTGATGGCCCGAAAGACTTACAAAT
195 AAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAAAT
* * * *
67026 TTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTCCATT
1 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATT
* * *
67091 TTTAATCAAGATTAAATGGGAAACTTTGGTAATCACTTTCTCATTTTCATGTGAAAACATCCTAC
66 TTTAATAAAGATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTAC
* *
67156 CCTAAGGTCTTACGGATGACCCGAATGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGA
131 CCTAAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGA
* * *
67221 ATGATTTAATCATCATTCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
196 AGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAAAT
67276 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATT
1 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATT
* * * *
67341 TTCAGA-AAAGATTTACATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTAGAAAATCACGTGA
66 TTTA-ATAAAGA-TTAAATGAGAAACTTTGGTAATCGCTTTCTCA---TTT------TCATGTGA
** * ** * * * *
67405 AAACAT-CTTGCCTGAAGGTTTTATAGATGGCCCGAAGGACTTATCATCTTACTTGAAAGACTGA
120 AAACATCCTACCCT-AAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTTA
* * * * **
67469 CAGATGATCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAACCCGAAGGACTTAC
184 CAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTAC
67532 TAAGTAATTA
Statistics
Matches: 438, Mismatches: 55, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
250 278 0.63
251 43 0.10
254 3 0.01
259 5 0.01
260 109 0.25
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (250 bp):
TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTTCATT
TTTAATAAAGATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTAC
CCTAAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGA
AGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAAAT
Found at i:67246 original size:42 final size:41
Alignment explanation
Indices: 67171--67270 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
67161 GGTCTTACGG
*
67171 ATGACCCGAATGACTTATCATCTTGCTCGAAAGACTTACAA
1 ATGACCCGAATGACTTATCATCTTGCTCAAAAGACTTACAA
* **
67212 ATGACCCGAATGATTTAATCATCATT-CTCAAAAGACTTACTG
1 ATGACCCGAATGACTT-ATCATC-TTGCTCAAAAGACTTACAA
* *
67254 ATGGCCCGAAGGACTTA
1 ATGACCCGAATGACTTA
67271 CCAATTTTGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 16 0.32
42 32 0.64
43 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (41 bp):
ATGACCCGAATGACTTATCATCTTGCTCAAAAGACTTACAA
Found at i:69986 original size:24 final size:23
Alignment explanation
Indices: 69956--70018 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 23
69946 ACTTGATTCG
69956 TTTTCTTTATTCTTTCTT-TATCTT
1 TTTTCTTT-TTCTTTCTTATAT-TT
*
69980 TTTTCTTTTTTTCTTCTTATATTT
1 TTTTCTTTTTCT-TTCTTATATTT
70004 TTTTCTCTTTTCTTT
1 TTTTCT-TTTTCTTT
70019 TTGGATGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.09
24 23 0.68
25 8 0.24
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTCTTTCTTATATTT
Found at i:70757 original size:25 final size:26
Alignment explanation
Indices: 70739--70788 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
70729 AAAAGTATGG
70739 ATTTGATGCCTTGAAAAAAAGATAAT
1 ATTTGATGCCTTGAAAAAAAGATAAT
*
70765 ATTTGATGTCTTG-AAAAAAGATAA
1 ATTTGATGCCTTGAAAAAAAGATAA
70789 AGGCATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (26 bp):
ATTTGATGCCTTGAAAAAAAGATAAT
Found at i:77034 original size:3 final size:3
Alignment explanation
Indices: 77026--77053 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
77016 ATTAATATTA
77026 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
77054 TATTATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:82246 original size:24 final size:24
Alignment explanation
Indices: 82210--82255 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
82200 ACCCCAATGC
82210 TTTTGATTAATAATGTTAAATCAT
1 TTTTGATTAATAATGTTAAATCAT
* *
82234 TTTTTATTGATAATGTTAAATC
1 TTTTGATTAATAATGTTAAATC
82256 TATTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTTGATTAATAATGTTAAATCAT
Found at i:82438 original size:23 final size:21
Alignment explanation
Indices: 82394--82433 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82384 CTAAAAAATT
* *
82394 ATATATAAATTTTATTATAAA
1 ATATATAAATTTAATAATAAA
82415 ATATATAAATTTAA-AATAA
1 ATATATAAATTTAATAATAA
82434 TAAAACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAATTTAATAATAAA
Found at i:84547 original size:3 final size:3
Alignment explanation
Indices: 84519--84601 Score: 112
Period size: 3 Copynumber: 27.7 Consensus size: 3
84509 TTAATATATT
* * * * *
84519 TAA TAA TTA TAA TGA TAA TGA TAA TAA TAA TAA TAA TTA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
84567 TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
84602 TTTATAATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:85058 original size:112 final size:111
Alignment explanation
Indices: 84931--85484 Score: 959
Period size: 112 Copynumber: 5.0 Consensus size: 111
84921 TATGCAAAAA
* * *
84931 GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * *
84996 TC-TTCTCTGGAAATGCTGATCCATCAATTGATGAATTCATGTA-AAAG
66 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATT--TG-ACAAAG
* *
85043 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
85108 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAG
66 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA-CAAAG
85155 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
85220 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAG
66 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA-CAAAG
85267 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
85332 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAG
66 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA-CAAAG
85379 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
85444 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
85485 ATCTTTGCTA
Statistics
Matches: 432, Mismatches: 7, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
110 1 0.00
111 2 0.00
112 397 0.92
113 32 0.07
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (111 bp):
GTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGACAAAG
Found at i:86343 original size:83 final size:83
Alignment explanation
Indices: 86204--86613 Score: 723
Period size: 83 Copynumber: 4.9 Consensus size: 83
86194 GTAGTTCCTA
*
86204 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
*
86269 ATTTAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
86287 CCAAACCATATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
86352 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
86370 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
86435 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
86453 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
86518 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * ** *
86536 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCCA-ATTCATCTTTCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTA-TGAACACATTCATCTTCCA
*
86600 AATTCAATGTTTGG
65 AATTCAATGATTGG
86614 ACTAGGATAT
Statistics
Matches: 316, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
83 312 0.99
84 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAACACATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:87752 original size:10 final size:9
Alignment explanation
Indices: 87735--87778 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
87725 CTTGACCCCC
87735 CTTTTTTTT
1 CTTTTTTTT
87744 CTTTCTTTTT
1 CTTT-TTTTT
*
87754 TTTTCTTTTT
1 CTTT-TTTTT
87764 CTTTTTCTTT
1 CTTTTT-TTT
87774 CTTTT
1 CTTTT
87779 CTTCAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 6 0.19
10 25 0.81
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:87757 original size:16 final size:16
Alignment explanation
Indices: 87736--87778 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
87726 TTGACCCCCC
87736 TTTTTTTTC--TTTCT
1 TTTTTTTTCTTTTTCT
87750 TTTTTTTTCTTTTTCT
1 TTTTTTTTCTTTTTCT
*
87766 TTTTCTTTCTTTT
1 TTTTTTTTCTTTT
87779 CTTCAAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 9 0.35
16 17 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCT
Found at i:99165 original size:15 final size:17
Alignment explanation
Indices: 99129--99167 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
99119 TAAAAATATT
99129 TAAAAATATAAAACAAG
1 TAAAAATATAAAACAAG
99146 T-AAAAT-TAAAACAA-
1 TAAAAATATAAAACAAG
99160 TAAAAATA
1 TAAAAATA
99168 CAAATAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.05
15 13 0.65
16 5 0.25
17 1 0.05
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAATATAAAACAAG
Found at i:100493 original size:3 final size:3
Alignment explanation
Indices: 100485--100582 Score: 133
Period size: 3 Copynumber: 32.7 Consensus size: 3
100475 TTAATATATT
* * * *
100485 TAA TAA TAA TAA TAA TAA TGA TAA TGA TAA TGA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
100533 TAA TAA TAA TAA TAA TAA TTA TAG TAA TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
100581 TA
1 TA
100583 TTTATAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:102871 original size:15 final size:15
Alignment explanation
Indices: 102853--102882 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102843 TCCACATCCC
102853 AAAATTCAACATCAT
1 AAAATTCAACATCAT
102868 AAAATTCAACATCAT
1 AAAATTCAACATCAT
102883 TTCTTGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATTCAACATCAT
Found at i:105471 original size:49 final size:49
Alignment explanation
Indices: 105411--105504 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
105401 GGCTTCAATT
**
105411 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCGGGCAACCCCTCATC
1 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
* * *
105460 CAGGGGTGGACCTCCATGGTGCCTGGGGTATCCCAAGCAACCCCT
1 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCT
105505 ACACAAGTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (49 bp):
CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
Found at i:105530 original size:16 final size:17
Alignment explanation
Indices: 105499--105537 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
105489 ATCCCAAGCA
*
105499 ACCCCTACACAAGTGCC
1 ACCCCTACAAAAGTGCC
105516 ACCCCT-CAAAAGTGCC
1 ACCCCTACAAAAGTGCC
105532 ACCCCT
1 ACCCCT
105538 GGGGCTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.28, C:0.49, G:0.10, T:0.13
Consensus pattern (17 bp):
ACCCCTACAAAAGTGCC
Found at i:106445 original size:20 final size:19
Alignment explanation
Indices: 106401--106470 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
106391 ACCCAGTTTC
106401 CAAATTCGCAACTGAATTT
1 CAAATTCGCAACTGAATTT
*
106420 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACT-GAATTT
* * *
106440 CGAATTCACAACACGAATTT
1 CAAATTCGCAAC-TGAATTT
*
106460 -AATTTCGCAAC
1 CAAATTCGCAAC
106471 AGGTTTTAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 21 0.51
20 20 0.49
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (19 bp):
CAAATTCGCAACTGAATTT
Found at i:107280 original size:12 final size:12
Alignment explanation
Indices: 107259--107292 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107249 ACCACATTTC
*
107259 CAATACCAAACA
1 CAATATCAAACA
107271 CAATATCAAACA
1 CAATATCAAACA
*
107283 CAATCTCAAA
1 CAATATCAAA
107293 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:118300 original size:19 final size:20
Alignment explanation
Indices: 118264--118301 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118254 TTAAATTCAC
118264 AACGCGAAAATGAAAATCGA
1 AACGCGAAAATGAAAATCGA
*
118284 AACGCGAAACT-AAAATCG
1 AACGCGAAAATGAAAATCG
118302 CGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (20 bp):
AACGCGAAAATGAAAATCGA
Found at i:118326 original size:20 final size:20
Alignment explanation
Indices: 118299--118349 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
118289 GAAACTAAAA
118299 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
* *
118319 TTGCGTTGCGATTTTTATTT
1 TCGCGTTGCGATTTTCATTT
118339 TCGCGTTGCGA
1 TCGCGTTGCGA
118350 ATTTAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.49
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:118360 original size:20 final size:20
Alignment explanation
Indices: 118299--118360 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
118289 GAAACTAAAA
*
118299 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTAATTT
* *
118319 TTGCGTTGCGATTTTTATTT
1 TCGCGTTGCGATTTTAATTT
* *
118339 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGATTTTAATTT
118359 TC
1 TC
118361 AAAAACTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATTT
Found at i:118731 original size:22 final size:21
Alignment explanation
Indices: 118693--118739 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
118683 GATAGAGATA
118693 GACGGATTTCGCGGGAGATGAG
1 GACGGATTTCGCGGGAGATG-G
*
118715 GACGGATTTCATC-GGAGATGG
1 GACGGATTTC-GCGGGAGATGG
118736 GACG
1 GACG
118740 AATGTCGCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 17 0.74
23 1 0.04
ACGTcount: A:0.23, C:0.15, G:0.43, T:0.19
Consensus pattern (21 bp):
GACGGATTTCGCGGGAGATGG
Found at i:120461 original size:55 final size:55
Alignment explanation
Indices: 120254--120547 Score: 401
Period size: 55 Copynumber: 5.3 Consensus size: 55
120244 TTCTTTGAGA
* * * * *
120254 TGCACACGTAATGCCGATACGGTTGTTCATAAACATATTATGAATTATGTGG-GT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* * ** * *
120308 TGCACAATCAGTGCCGATATAGTCGTTCATAAACATATTATGAATTGCATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* *
120363 TGCACACTTAGTGCCCGATACGGTCTTTCATAAACATATTATGAATTACATGGTTT
1 TGCACACTTAGTG-CCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* *
120419 TGCAAACTTAGTGCCGATACGGTCGTTCATAAATATATTATGAATTACGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
* * *
120474 TGCACACTTAGTGCCGATACAGTCTTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
*
120529 TGCACACTTAGTGTCGATA
1 TGCACACTTAGTGCCGATA
120548 ATACACATAG
Statistics
Matches: 211, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
54 42 0.20
55 119 0.56
56 50 0.24
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACGTGGTTT
Found at i:127102 original size:55 final size:55
Alignment explanation
Indices: 127035--127326 Score: 392
Period size: 55 Copynumber: 5.3 Consensus size: 55
127025 TTCTTTGATG
* * * * **
127035 TGCACACGTAGTGCCGACACGGTTGTTCATAAACACATTATGAATTCTGTGGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * *
127090 TGCACACTTAGTGTCGATATGATCGTTCATAAACATATTATGAATT-TGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * *
127144 TGCACACTTAGTGTCGATACGGTCATTCATAAACATATTATGAATT-TCATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCT-GTGGTTT
* ** *
127199 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATTGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* *
127254 TGCACACTTAGTGCTGATACGGTCGTTCATAAACATATTATGAATTC-GTGGGTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
127308 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
127327 GTACACATAG
Statistics
Matches: 213, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
54 72 0.34
55 141 0.66
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
Found at i:127208 original size:109 final size:108
Alignment explanation
Indices: 127035--127326 Score: 406
Period size: 109 Copynumber: 2.7 Consensus size: 108
127025 TTCTTTGATG
* * * * *
127035 TGCACACGTAGTGCCGACACGGTTGTTCATAAACACATTATGAATTCTGTGGGGTTGCACACTTA
1 TGCACACTTAGTG-CGATACGGTCGTTCATAAACATATTATGAATTC-GTGGGTTTGCACACTTA
* **
127100 GTGTCGATATGATCGTTCATAAACATATTATGAATT-TGTGGTTT
64 GTGTCGATACGATCGTTCATAAACATATTATGAATTCCATGGTTT
* * *
127144 TGCACACTTAGTGTCGATACGGTCATTCATAAACATATTATGAATTTCATGGTTTTGCACACTTA
1 TGCACACTTAGTG-CGATACGGTCGTTCATAAACATATTATGAA-TTCGTGGGTTTGCACACTTA
* *
127209 GTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATTGTTT
64 GTGTCGATACGATCGTTCATAAACATATTATGAATTCCATGGTTT
127254 TGCACACTTAGTGCTGATACGGTCGTTCATAAACATATTATGAATTCGTGGGTTTGCACACTTAG
1 TGCACACTTAGTGC-GATACGGTCGTTCATAAACATATTATGAATTCGTGGGTTTGCACACTTAG
*
127319 TGCCGATA
65 TGTCGATA
127327 GTACACATAG
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
109 113 0.70
110 49 0.30
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (108 bp):
TGCACACTTAGTGCGATACGGTCGTTCATAAACATATTATGAATTCGTGGGTTTGCACACTTAGT
GTCGATACGATCGTTCATAAACATATTATGAATTCCATGGTTT
Found at i:128307 original size:18 final size:18
Alignment explanation
Indices: 128284--128318 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
128274 ACTAAATATT
128284 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
*
128302 TGTCCCGAAGGACCACT
1 TGTCCCGAAAGACCACT
128319 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:130894 original size:20 final size:20
Alignment explanation
Indices: 130869--130919 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
130859 GGAATCCATG
130869 GTATCGATACCTTCCTCTTA
1 GTATCGATACCTTCCTCTTA
130889 GTATCGATACCTTCCTCTTA
1 GTATCGATACCTTCCTCTTA
130909 GTATCGATACC
1 GTATCGATACC
130920 CACAGTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (20 bp):
GTATCGATACCTTCCTCTTA
Found at i:135092 original size:20 final size:19
Alignment explanation
Indices: 135057--135107 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
135047 TAGACAGCTC
*
135057 GGTCTCCATAACGAAAGACT
1 GGTCTCCAT-ACGAAAAACT
*
135077 GGTCTCCATACTGAAAAATT
1 GGTCTCCATAC-GAAAAACT
*
135097 TGTCTCCATAC
1 GGTCTCCATAC
135108 CAAATAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (19 bp):
GGTCTCCATACGAAAAACT
Found at i:152000 original size:3 final size:3
Alignment explanation
Indices: 151992--152040 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
151982 GAACTTATTA
151992 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
152040 C
1 C
152041 CCTTCCCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:152255 original size:15 final size:15
Alignment explanation
Indices: 152234--152271 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
152224 CGAAATTAAC
152234 AATAATAAATAAA-A
1 AATAATAAATAAATA
152248 ATATAATAAATAAATA
1 A-ATAATAAATAAATA
152264 AATAATAA
1 AATAATAA
152272 GGGAACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.86
16 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:160958 original size:602 final size:602
Alignment explanation
Indices: 159799--160985 Score: 2130
Period size: 602 Copynumber: 2.0 Consensus size: 602
159789 TCTTATTATG
* *
159799 CTTTTTTATTAGTAACTACGTGTAAAACAATCACACACTAAGTTTTCACTTAGTGAGACAAACAT
1 CTTTCTTACTAGTAACTACGTGTAAAACAATCACACACTAAGTTTTCACTTAGTGAGACAAACAT
159864 AGAAATATTTAAAGCAATGCAACACAAAAATATAAATAACAATGTTTAATGCATTATGATCATTT
66 AGAAATATTTAAAGCAATGCAACACAAAAATATAAATAACAATGTTTAATGCATTATGATCATTT
159929 TACCTATAATTTCAATCATGTTACTATATATTAACATGATATAATCTACATATAAAATTTATTAC
131 TACCTATAATTTCAATCATGTTACTATATATTAACATGATATAATCTACATATAAAATTTATTAC
* *
159994 CAATATACTTGTCATTTATTCCATAAGCTCACATTCTTATTCATTTGTATATCATTTATTAACCA
196 CAATATACTTGTCATTTATTCCATAAGCTCAAATTCTTATTCACTTGTATATCATTTATTAACCA
160059 ATAAACCAAAACCCAAATATAAACCTATGAGGACCTTGGGTACACGAGTCAAATATGCATTGAAG
261 ATAAACCAAAACCCAAATATAAACCTATGAGGACCTTGGGTACACGAGTCAAATATGCATTGAAG
* *
160124 TGTCAATACACATATGGTTGTGCCCATCATATGCACTAAATGTCTTTTATATACACTATAGTGCT
326 TGTCAATACACATAAGGTTGTGCCCATCATATGCACTAAATGTCCTTTATATACACTATAGTGCT
*
160189 AAACCGAATATGTAGCCTAACTGCTAGACTTTATGGCATGCCAACTATACCATTGTCCCTCAATG
391 AAACCGAATATGTAGCCTAACTGCTAGACTCTATGGCATGCCAACTATACCATTGTCCCTCAATG
160254 ACATACTTGGACATATAGTATATATTTATTTCATCCATGACAATGTATATCAATATAATTTAACA
456 ACATACTTGGACATATAGTATATATTTATTTCATCCATGACAATGTATATCAATATAATTTAACA
*
160319 TTGGACAGTTCATACCCAAAATAACATTCATGGTATAACATCATATATAAACTA-GTGATCAATG
521 TTAGACAGTTCATACCCAAAATAACATTCATGGTATAACATCATATATAAACTAGGT-ATCAATG
160383 CCAACTAAACCGAATATA
585 CCAACTAAACCGAATATA
* * * *
160401 CTTTCTTACTAGTACCTACGTGTGAAACAATTACACGCTAAGTTTTCACTTAGTGAGACAAACAT
1 CTTTCTTACTAGTAACTACGTGTAAAACAATCACACACTAAGTTTTCACTTAGTGAGACAAACAT
* *
160466 AGAAATATTCT-AGGCAATGCAACACATAAATATAAATAACAATGTTTAATGCATTATGATCATT
66 AGAAATATT-TAAAGCAATGCAACACAAAAATATAAATAACAATGTTTAATGCATTATGATCATT
160530 TTACCTATAATTTCAAGT-ATGTTACTATATATTAACATGATATAATCTACATATAAAATTTATT
130 TTACCTATAATTTCAA-TCATGTTACTATATATTAACATGATATAATCTACATATAAAATTTATT
160594 ACCAATATACTTGTCATTTATTCCATAAGCTCAAATTCTTATTCACTTGTATATCATTTATTAAC
194 ACCAATATACTTGTCATTTATTCCATAAGCTCAAATTCTTATTCACTTGTATATCATTTATTAAC
*
160659 CAATAAACCAAAACTCAAATATAAACCTATGAGGACCTTGGGTACACGAGTCAAATATGCATTGA
259 CAATAAACCAAAACCCAAATATAAACCTATGAGGACCTTGGGTACACGAGTCAAATATGCATTGA
*
160724 AGTGTCAATACGCATAAGGTCT-TGCCCATCATATGCACTAAATGTCCTTTATATACACTATAGT
324 AGTGTCAATACACATAAGGT-TGTGCCCATCATATGCACTAAATGTCCTTTATATACACTATAGT
* *
160788 GCTAAACCGAATATGTAGCCTTACTGCTAGACTCTGTGGCATGCCAACTATACCATTGTCCCTCA
388 GCTAAACCGAATATGTAGCCTAACTGCTAGACTCTATGGCATGCCAACTATACCATTGTCCCTCA
*
160853 ATGACATACTTGGACATATAGTCTATATTTATTTCATCCATGACAATGTATATCAATATAATTTA
453 ATGACATACTTGGACATATAGTATATATTTATTTCATCCATGACAATGTATATCAATATAATTTA
*
160918 ACATTAGACAGTTCATACCCGAAATAACATTCATGGTATAACATCATATATAAACTAGGTATCAA
518 ACATTAGACAGTTCATACCCAAAATAACATTCATGGTATAACATCATATATAAACTAGGTATCAA
160983 TGC
583 TGC
160986 ATTTTATAGT
Statistics
Matches: 561, Mismatches: 20, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
602 556 0.99
603 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (602 bp):
CTTTCTTACTAGTAACTACGTGTAAAACAATCACACACTAAGTTTTCACTTAGTGAGACAAACAT
AGAAATATTTAAAGCAATGCAACACAAAAATATAAATAACAATGTTTAATGCATTATGATCATTT
TACCTATAATTTCAATCATGTTACTATATATTAACATGATATAATCTACATATAAAATTTATTAC
CAATATACTTGTCATTTATTCCATAAGCTCAAATTCTTATTCACTTGTATATCATTTATTAACCA
ATAAACCAAAACCCAAATATAAACCTATGAGGACCTTGGGTACACGAGTCAAATATGCATTGAAG
TGTCAATACACATAAGGTTGTGCCCATCATATGCACTAAATGTCCTTTATATACACTATAGTGCT
AAACCGAATATGTAGCCTAACTGCTAGACTCTATGGCATGCCAACTATACCATTGTCCCTCAATG
ACATACTTGGACATATAGTATATATTTATTTCATCCATGACAATGTATATCAATATAATTTAACA
TTAGACAGTTCATACCCAAAATAACATTCATGGTATAACATCATATATAAACTAGGTATCAATGC
CAACTAAACCGAATATA
Found at i:161253 original size:2 final size:2
Alignment explanation
Indices: 161248--161302 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
161238 ATAAAAAATC
* *
161248 AT AT AT AT GT -T AT AA 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 AT
161289 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
161303 CAAAGCAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:161263 original size:21 final size:21
Alignment explanation
Indices: 161237--161298 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
161227 TATCACGGTC
161237 TATAAA-AAATCATATATATGT
1 TATAAATAAAT-ATATATATGT
* *
161258 TATAAATATATATATATATAT
1 TATAAATAAATATATATATGT
* *
161279 ATATATATATATATATATAT
1 -TATAAATAAATATATATAT
161299 ATATCAAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.42
22 21 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAAATAAATATATATATGT
Found at i:162176 original size:20 final size:20
Alignment explanation
Indices: 162136--162176 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
162126 AATTTGATCC
*
162136 AAATCAACATCCTAACCTCA
1 AAATCAACATCCTAACATCA
* *
162156 AAATCAACATTCTAATATCA
1 AAATCAACATCCTAACATCA
162176 A
1 A
162177 TATATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATCAACATCCTAACATCA
Found at i:162379 original size:446 final size:446
Alignment explanation
Indices: 161289--162623 Score: 2358
Period size: 441 Copynumber: 3.0 Consensus size: 446
161279 ATATATATAT
* *
161289 ATATATATATATATCAAAGCAAAATATAATAAATAAATCCATAAAATTCTTTTGATACTTGTTCG
1 ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCCATAAAATTCTTTTGATACTTGTTCG
*
161354 ATACAAATATCATTTCACAACTAAATATCAACCTTAACATTCCAAAATGACACTTTAATTCCTTT
66 ATACAAATATCATTTCACAACTCAATATCAACCTTAACATTCCAAAATGACACTTTAATTCCTTT
*
161419 AGTATTCATATTCACCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
131 AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
* *
161484 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAATGGT-ACTTTGTCATTTCAATTT
196 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAATGGTCA-TTTGCCATTTCACTTT
* * *
161548 AAATTAAATTCCAAACGCCAAATTTCCAGAATCCTAACAATGTATTCAAACTAGTACCTTTACAA
260 AAATTAAATTCCAAACGCCAAATTTCCAGAATCTTAACAATGTATTCAAACTAGTACCTTCACAC
*
161613 TTGCATAATTGCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTTCCAAACTTTA-CA
325 TTGCATAATTGCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCCAAACTTTAGCA
*
161677 AACTTAAAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCT-A-AT--
390 AACTTACAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCTAATATCA
* *
161730 ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCAATAAAATTCTTATGATACTTGTTCG
1 ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCCATAAAATTCTTTTGATACTTGTTCG
* * * *
161795 ATACAAATGTCATTTCACAGCTCAATATAAACCATAACATTCCAAAATGACACTTTAATTCCTTT
66 ATACAAATATCATTTCACAACTCAATATCAACCTTAACATTCCAAAATGACACTTTAATTCCTTT
161860 AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
131 AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
161925 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAATGGTCATTTGCCATTTCACTTTA
196 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAATGGTCATTTGCCATTTCACTTTA
*
161990 AATTAAATTCCAAAAGCCAAATTTCCAGAATCTTAACAATGTATTCAAACTAGTACCTTCACACT
261 AATTAAATTCCAAACGCCAAATTTCCAGAATCTTAACAATGTATTCAAACTAGTACCTTCACACT
*
162055 TGCATAATTTCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCCAAACTTTAGCAA
326 TGCATAATTGCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCCAAACTTTAGCAA
162120 ACTTACAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCTAATATCA
391 ACTTACAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCTAATATCA
*
162176 ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCCATAAAATTCTTTTGTTACTTGTTCG
1 ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCCATAAAATTCTTTTGATACTTGTTCG
*
162241 ATACAAATATCATTTCACAACTCAATATCAACCTTAACATTCCAAAATGACACTTTATTTCCTTT
66 ATACAAATATCATTTCACAACTCAATATCAACCTTAACATTCCAAAATGACACTTTAATTCCTTT
*
162306 AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCATCATTTATGA
131 AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
*
162371 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAAATGGTCCTTTGCCATTTCACTTT
196 ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTC-AAAATGGTCATTTGCCATTTCACTTT
*
162436 AAATTAAATTCCAAACGCCAAATTTCCAGAATCTTAACATTGTATTCAAACTAGTACCTTCACAC
260 AAATTAAATTCCAAACGCCAAATTTCCAGAATCTTAACAATGTATTCAAACTAGTACCTTCACAC
* *
162501 TTGCATAATTGCAATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCTAAACTTTAGCA
325 TTGCATAATTGCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCCAAACTTTAGCA
* *
162566 AACTTACAATTTTATCCAAATCAACATCCTAACCTCAAAATCAACATTCCAATATCA
390 AACTTACAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCTAATATCA
162623 A
1 A
162624 ATTCCAGTAC
Statistics
Matches: 851, Mismatches: 36, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
441 366 0.43
442 52 0.06
443 1 0.00
444 2 0.00
446 224 0.26
447 206 0.24
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (446 bp):
ATATATATATATTTCAAAGCAAAATTTAATAAATAAATCCATAAAATTCTTTTGATACTTGTTCG
ATACAAATATCATTTCACAACTCAATATCAACCTTAACATTCCAAAATGACACTTTAATTCCTTT
AGTATTCATATTCATCACTAATCCACATAATTTCCACAACTTTACATTTCAACCACCATTTATGA
ATTCTTTTAGAATCTATCCTAACTTTTCCAATTCATTCAAAATGGTCATTTGCCATTTCACTTTA
AATTAAATTCCAAACGCCAAATTTCCAGAATCTTAACAATGTATTCAAACTAGTACCTTCACACT
TGCATAATTGCCATTTAACTCTCACACTTTCCAATATTCATGATTTAATTCCCAAACTTTAGCAA
ACTTACAATTTGATCCAAATCAACATCCTAACCTCAAAATCAACATTCTAATATCA
Found at i:162623 original size:20 final size:20
Alignment explanation
Indices: 162578--162624 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
162568 CTTACAATTT
*
162578 TATCCAAATCAACATCCTAA
1 TATCAAAATCAACATCCTAA
**
162598 CCTCAAAATCAACATTCC-AA
1 TATCAAAATCAACA-TCCTAA
162618 TATCAAA
1 TATCAAA
162625 TTCCAGTACA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
TATCAAAATCAACATCCTAA
Found at i:170641 original size:3 final size:3
Alignment explanation
Indices: 170628--170661 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
170618 AACGAAAAGA
170628 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
170662 ATGTTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:172897 original size:14 final size:14
Alignment explanation
Indices: 172878--172906 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
172868 GGTGCTGCAC
172878 TGGCTTTTTCAATG
1 TGGCTTTTTCAATG
172892 TGGCTTTTTCAATG
1 TGGCTTTTTCAATG
172906 T
1 T
172907 TAATTGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.52
Consensus pattern (14 bp):
TGGCTTTTTCAATG
Found at i:179502 original size:15 final size:15
Alignment explanation
Indices: 179479--179508 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
179469 CCATCTCTGA
179479 GGAGCATGAAACGAC
1 GGAGCATGAAACGAC
*
179494 GGAGGATGAAACGAC
1 GGAGCATGAAACGAC
179509 AGACTCATGG
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:0.40, C:0.17, G:0.37, T:0.07
Consensus pattern (15 bp):
GGAGCATGAAACGAC
Found at i:182960 original size:30 final size:31
Alignment explanation
Indices: 182904--182962 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
182894 AACTTGATTC
182904 AATATTAATTTGACATCTAAAATTTAGATGA
1 AATATTAATTTGACATCTAAAATTTAGATGA
* *
182935 AATATTATTTTGAC-TCTAAATTTTAGAT
1 AATATTAATTTGACATCTAAAATTTAGAT
182963 AAAGTATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (31 bp):
AATATTAATTTGACATCTAAAATTTAGATGA
Found at i:191612 original size:14 final size:14
Alignment explanation
Indices: 191593--191619 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
191583 CAATACTGAA
191593 ATTTAAAATAAATT
1 ATTTAAAATAAATT
191607 ATTTAAAATAAAT
1 ATTTAAAATAAAT
191620 CAATCCATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAATAAATT
Found at i:191691 original size:14 final size:14
Alignment explanation
Indices: 191674--191726 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
191664 AAATCCATAC
191674 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
191688 AAATAAATCAATCCATA
1 AAATAAAT-TAT--TTA
*
191705 TAATAAATTATTTA
1 AAATAAATTATTTA
191719 AAATAAAT
1 AAATAAAT
191727 CAATCCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 17 0.57
15 2 0.07
16 2 0.07
17 9 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:191815 original size:18 final size:18
Alignment explanation
Indices: 191740--191818 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
191730 TCCATTTTAA
*
191740 AATAAATCAATCTATACT
1 AATAAATCAATTTATACT
* *
191758 AATAAAT-TATTTAAACT
1 AATAAATCAATTTATACT
* *
191775 AAATCAATCCATATTT-TA-A
1 -AATAAAT-CA-ATTTATACT
191794 AATAAATCAATTTATACT
1 AATAAATCAATTTATACT
191812 AATAAAT
1 AATAAAT
191819 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
16 4 0.09
17 11 0.24
18 26 0.57
20 1 0.02
21 4 0.09
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTTATACT
Found at i:191815 original size:54 final size:54
Alignment explanation
Indices: 191684--192172 Score: 406
Period size: 54 Copynumber: 8.8 Consensus size: 54
191674 AAATAAATTA
**
191684 TTTAAAATAAATCAATCCATA-TAATAAATTATTTAAAATAAATCAATCC--AT
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
191735 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAACTAAATCAATCCATAT
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
191789 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** ** * ** * * *
191846 TACAAAATAAATCAATCTATATTTTAAAATAAATTAATCCATACAAAT-AAT--TTA-
1 TTTAAAATAAATCAAT-T-TATACT--AATAAATTATTTAAAATAAATCAATCCATAT
*
191900 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAT
** * * *
191954 TTTAAAATAAATCAATTTATTTTAAAGTAAATCAATCCATACTAAAATTATTTAATAAATCAATC
1 TTTAAAATAAATCAATTTATACT-AA-TAAAT---T--AT-TTAAAA-TA---AATCAATCCAT-
192019 AT
53 AT
* ** *
192021 TTTAAAGTAAATCAATCCATACTAATAAATTA-TTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** **
192077 TACAATAATAAATCAATCCATACT-A-AAATTATTT-AAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAT
**
192129 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAAT
192173 TATTTTAAAA
Statistics
Matches: 356, Mismatches: 48, Indels: 65
0.76 0.10 0.14
Matches are distributed among these distances:
50 16 0.04
51 41 0.12
52 35 0.10
53 12 0.03
54 103 0.29
55 25 0.07
56 12 0.03
57 34 0.10
58 7 0.02
59 5 0.01
60 4 0.01
61 18 0.05
62 6 0.02
63 2 0.01
65 5 0.01
66 11 0.03
67 20 0.06
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:191827 original size:32 final size:32
Alignment explanation
Indices: 191670--191836 Score: 115
Period size: 31 Copynumber: 4.9 Consensus size: 32
191660 AAAAAAATCC
* **
191670 ATACAAATAAATTATTTAAAATAAATCAATCC
1 ATACTAATAAATTATTTAAAATAAATCAATTT
191702 ATA-TAATAAATTATTTAAAATAAATCAATCCATT
1 ATACTAATAAATTATTTAAAATAAATCAAT---TT
* * * * *
191736 TTA-AAATAAATCAATCTATACTAATAAAT-TATTT
1 ATACTAATAAAT-TAT-T-TA-AAATAAATCAATTT
* *
191770 AAACTAAATCAATCCATATTTTAAAATAAATCAATTT
1 ATACT-AATAAAT---TA-TTTAAAATAAATCAATTT
191807 ATACTAATAAATTATTTAAAATAAATCAAT
1 ATACTAATAAATTATTTAAAATAAATCAAT
191837 CCATACAACT
Statistics
Matches: 104, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
31 25 0.24
32 19 0.18
33 2 0.02
34 12 0.12
35 2 0.02
36 20 0.19
37 14 0.13
38 9 0.09
39 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (32 bp):
ATACTAATAAATTATTTAAAATAAATCAATTT
Found at i:191829 original size:14 final size:15
Alignment explanation
Indices: 191789--191836 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
191779 CAATCCATAT
191789 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
*
191804 TTTATACTAATAAAT-TA
1 TTTA-A--AATAAATCAA
191821 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
191836 T
1 T
191837 CCATACAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 2 0.07
17 5 0.19
18 7 0.26
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAAAATAAATCAA
Found at i:191869 original size:79 final size:81
Alignment explanation
Indices: 191774--191973 Score: 260
Period size: 79 Copynumber: 2.4 Consensus size: 81
191764 TTATTTAAAC
*
191774 TAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCC
1 TAAATCAATCCATATTTTAAAATAAATCAATTTATACAAATAAATTATTTAAAATAAATCAATCC
191839 ATAC-AACTA-CAAAA
66 ATACAAACTATCAAAA
* * ** * *
191853 TAAATCAATCTATATTTTAAAATAAATTAATCCATACAAATAATTTATTTAAAATAAATCAATTC
1 TAAATCAATCCATATTTTAAAATAAATCAATTTATACAAATAAATTATTTAAAATAAATCAATCC
* *
191918 ATACTAATAAATTATTTAAAA
66 ATAC----AAACTA-TCAAAA
191939 TAAATCAATCCATATTTTAAAATAAATCAATTTAT
1 TAAATCAATCCATATTTTAAAATAAATCAATTTAT
191974 TTTAAAGTAA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 62 0.61
84 4 0.04
86 35 0.35
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (81 bp):
TAAATCAATCCATATTTTAAAATAAATCAATTTATACAAATAAATTATTTAAAATAAATCAATCC
ATACAAACTATCAAAA
Found at i:191895 original size:133 final size:131
Alignment explanation
Indices: 191608--191920 Score: 349
Period size: 133 Copynumber: 2.4 Consensus size: 131
191598 AAATAAATTA
* *
191608 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCATATTTTAAAAAAAAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCATATTTTAAAAAAAAA
* *
191667 TCCATACAAATAAATTATTTAAAATAAATCAATCCATATAATAAATTATTTAAAATAAATCAATC
66 TCCATACAAATAAATTATTTAAAATAAATCAATCCA-ATAATAAACTA-TCAAAATAAATCAATC
191732 CAT
129 CAT
* * *
191735 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAACTAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAA-AAA
** * *
191800 TCAATTTATACTAATAAATTATTTAAAATAAATCAATCC-AT-A-CAACTA-CAAAATAAATCAA
64 --AATCCATACAAATAAATTATTTAAAATAAATCAATCCAATAATAAACTATCAAAATAAATCAA
*
191861 TCTATAT
127 TC--CAT
* *
191868 TTTAAAATAAATTAATCCATACAAATAATTTATTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAA-TCATA
191921 CTAATAAATT
Statistics
Matches: 156, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
127 25 0.16
129 1 0.01
131 15 0.10
133 62 0.40
134 14 0.09
135 5 0.03
137 34 0.22
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (131 bp):
TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCATATTTTAAAAAAAAA
TCCATACAAATAAATTATTTAAAATAAATCAATCCAATAATAAACTATCAAAATAAATCAATCCA
T
Found at i:191904 original size:32 final size:32
Alignment explanation
Indices: 191868--191952 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
191858 CAATCTATAT
* *
191868 TTTAAAATAAATTAATCCATACAAATAATTTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
191900 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
191932 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
191953 TTTTAAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:191911 original size:111 final size:108
Alignment explanation
Indices: 191599--192017 Score: 460
Period size: 111 Copynumber: 3.9 Consensus size: 108
191589 TGAAATTTAA
191599 AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATC-ATATTTTAAAA-
1 AATAAATTATTTAAAATAAATCAATCCAT---ACTACAA-AATAAATCAATCTATATTTTAAAAT
* *
191662 AAA--AATCCATACAAATAAATTATTTAAAATAAATCAATCCATA-T
62 AAATTAATCCATACAAATAATTTATTTAAAATAAATCAATTCATACT
** *
191706 AATAAATTATTTAAAATAAATCAATCCAT--TTTAAAATAAATCAATCTATA--CT--AATAAAT
1 AATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCTATATTTTAAAATAAAT
** * * *
191765 T-ATTTAAACTAAATCAATCCATATTTTAAAATAAATCAATTTATACT
66 TAATCCATAC-AAAT-AAT--TTA-TTTAAAATAAATCAATTCATACT
191812 AATAAATTATTTAAAATAAATCAATCCATACAACTACAAAATAAATCAATCTATATTTTAAAATA
1 AATAAATTATTTAAAATAAATCAATCCAT---ACTACAAAATAAATCAATCTATATTTTAAAATA
191877 AATTAATCCATACAAATAATTTATTTAAAATAAATCAATTCATACT
63 AATTAATCCATACAAATAATTTATTTAAAATAAATCAATTCATACT
* ** *
191923 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-T-TATTTTAAAGTAAAT
1 AATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCTATATTTTAAAATAAAT
* *
191986 CAATCCATACTAA-AA-TTATTT--AATAAATCAAT
66 TAATCCATACAAATAATTTATTTAAAATAAATCAAT
192018 CATTTTAAAG
Statistics
Matches: 268, Mismatches: 24, Indels: 45
0.80 0.07 0.13
Matches are distributed among these distances:
98 2 0.01
99 3 0.01
100 6 0.02
101 16 0.06
102 19 0.07
104 8 0.03
105 21 0.08
106 55 0.21
107 30 0.11
108 15 0.06
111 70 0.26
112 2 0.01
113 1 0.00
114 3 0.01
115 12 0.04
116 5 0.02
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (108 bp):
AATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCTATATTTTAAAATAAAT
TAATCCATACAAATAATTTATTTAAAATAAATCAATTCATACT
Found at i:191958 original size:22 final size:22
Alignment explanation
Indices: 191932--191994 Score: 94
Period size: 20 Copynumber: 3.0 Consensus size: 22
191922 TAATAAATTA
191932 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
191954 TTTAAAATAAATCAAT--TTAT
1 TTTAAAATAAATCAATCCATAT
*
191974 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
191995 CTAAAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 18 0.50
22 18 0.50
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:191978 original size:153 final size:152
Alignment explanation
Indices: 191821--192196 Score: 365
Period size: 153 Copynumber: 2.4 Consensus size: 152
191811 TAATAAATTA
*
191821 TTTAAAATAAATCAATCCATAC-AACTACAAAATAAATCAATCTATATTTTAAAATAAATTAATC
1 TTTAAAATAAATCAATCCATACAAACTACAAAATAAATCAATC---ATTTTAAAATAAATCAATC
* * *
191885 CATACAAATAATTTATTTAAAATAAATCAATTCATACTAA-TA-AATTATTTAAAATAAATCAAT
63 CATACAAATAAATTA-TTAAAATAAATCAATCCATAC-AACTACAA-TA-AT-AAATAAATCAAT
* * *
191948 -C-CATATT-TTAAAATAAATCAAT-TTAT
123 ACTAAAATTATTAAAATAAATCAATCATAT
* * *** *
191974 TTTAAAGTAAATCAATCCATACTAAAATTATTTAATAAATCAATCATTTTAAAGTAAATCAATCC
1 TTTAAAATAAATCAATCCATAC--AAACTACAAAATAAATCAATCATTTTAAAATAAATCAATCC
* * *
192039 ATACTAATAAATTATTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATACTAAA
64 ATACAAATAAATTATTAAAATAAATCAATCCATACAACTACAATAATAAATAAATCAATACTAAA
*
192104 ATTATTTAAATAAATCAATCCATAT
129 ATTATTAAAATAAATCAAT-CATAT
* * * *
192129 TTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAAAATAAATTATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAAACTACAA--A-AT-AAATCAATCATTTTAAAATAAATCAAT
192192 CCATA
62 CCATA
192197 TTTTATAATA
Statistics
Matches: 184, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
150 10 0.05
151 4 0.02
152 30 0.16
153 70 0.38
154 1 0.01
155 53 0.29
156 16 0.09
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.35
Consensus pattern (152 bp):
TTTAAAATAAATCAATCCATACAAACTACAAAATAAATCAATCATTTTAAAATAAATCAATCCAT
ACAAATAAATTATTAAAATAAATCAATCCATACAACTACAATAATAAATAAATCAATACTAAAAT
TATTAAAATAAATCAATCATAT
Found at i:191999 original size:20 final size:20
Alignment explanation
Indices: 191716--192001 Score: 78
Period size: 22 Copynumber: 15.3 Consensus size: 20
191706 AATAAATTAT
*
191716 TTAAAATAAATCAATCCATT
1 TTAAAATAAATCAATCCATA
*
191736 TTAAAATAAATCAATCTATA
1 TTAAAATAAATCAATCCATA
*
191756 CT--AATAAAT---T--AT-
1 TTAAAATAAATCAATCCATA
*
191768 TTAAACTAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
**
191788 TTTTAAAATAAATCAATTTATA
1 --TTAAAATAAATCAATCCATA
*
191810 CT--AATAAAT---T--AT-
1 TTAAAATAAATCAATCCATA
191822 TTAAAATAAATCAATCCATACAA
1 TTAAAATAAATCAATCCAT---A
* *
191845 CTACAAAATAAATCAATCTATA
1 -T-TAAAATAAATCAATCCATA
*
191867 TTTTAAAATAAATTAATCCATA
1 --TTAAAATAAATCAATCCATA
* *
191889 --CAAAT-AAT---T-TAT-
1 TTAAAATAAATCAATCCATA
*
191901 TTAAAATAAATCAATTCATA
1 TTAAAATAAATCAATCCATA
*
191921 CT--AATAAAT---T--AT-
1 TTAAAATAAATCAATCCATA
191933 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
** *
191953 TTTTAAAATAAATCAATTTATT
1 --TTAAAATAAATCAATCCATA
*
191975 TTAAAGTAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
*
191995 CTAAAAT
1 TTAAAAT
192002 TATTTAATAA
Statistics
Matches: 193, Mismatches: 31, Indels: 84
0.63 0.10 0.27
Matches are distributed among these distances:
12 3 0.02
13 8 0.04
14 25 0.13
15 6 0.03
17 6 0.03
18 26 0.13
19 8 0.04
20 42 0.22
22 51 0.26
23 1 0.01
24 1 0.01
25 16 0.08
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAATAAATCAATCCATA
Found at i:192029 original size:47 final size:49
Alignment explanation
Indices: 191959--192196 Score: 245
Period size: 47 Copynumber: 4.7 Consensus size: 49
191949 CATATTTTAA
* *
191959 AATAAATCAATTTATTTTAAAGTAAATCAATCCATACT-A-AAATTATTT
1 AATAAATCAA-TCATTTTAAAATAAATCAATCCATACTAATAAATTATTT
* *
192007 AATAAATCAATCATTTTAAAGTAAATCAATCCATACTAATAAATTATTAA
1 AATAAATCAATCATTTTAAAATAAATCAATCCATACTAATAAATTATT-T
**
192057 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATACT-A-AAATTATTT
1 AATAAATCAAT-CAT-----TTTAA-AATAAATCAATCCATACTAATAAATTATTT
192111 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 -AATAAATCAAT-C--ATTTTAAAATAAATCAATCCATACTAATAAATTATTT
* *
192164 -A-AAATAAATTATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCATTTTAAAATAAATCAATCCATA
192197 TTTTATAATA
Statistics
Matches: 165, Mismatches: 10, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
47 49 0.30
48 11 0.07
49 8 0.05
50 18 0.11
51 22 0.13
52 4 0.02
53 9 0.05
55 21 0.13
56 4 0.02
57 19 0.12
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (49 bp):
AATAAATCAATCATTTTAAAATAAATCAATCCATACTAATAAATTATTT
Found at i:192063 original size:31 final size:31
Alignment explanation
Indices: 192022--192172 Score: 138
Period size: 31 Copynumber: 5.4 Consensus size: 31
192012 ATCAATCATT
*
192022 TTAAAGTAAATCAATCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
192053 TTAAAATAAATCAATCCATAC-AACTACA--A
1 TTAAAATAAATCAATCCATACTAA-TAAATTA
192082 -T--AATAAATCAATCCATACT-A-AAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
*
192108 TTTAAATAAATCAAT-C---C--AT--ATT-
1 TTAAAATAAATCAATCCATACTAATAAATTA
192130 TTAAAATAAATCAATCCATACTAATAAATTA
1 TTAAAATAAATCAATCCATACTAATAAATTA
192161 TTTAAAATAAAT
1 -TTAAAATAAAT
192173 TATTTTAAAA
Statistics
Matches: 98, Mismatches: 4, Indels: 35
0.72 0.03 0.26
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
24 3 0.03
25 1 0.01
26 20 0.20
27 1 0.01
28 4 0.04
29 12 0.12
30 5 0.05
31 23 0.23
32 11 0.11
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (31 bp):
TTAAAATAAATCAATCCATACTAATAAATTA
Found at i:192120 original size:55 final size:53
Alignment explanation
Indices: 191981--192172 Score: 220
Period size: 55 Copynumber: 3.7 Consensus size: 53
191971 TATTTTAAAG
** *
191981 TAAATCAATCCATACT-A-AAATTATTT-AATAAATCAAT-CAT--TTTAAAG
1 TAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATACTACAAAA
*
192028 TAAATCAATCCATACTAATAAATTATTAAAATAAATCAATCCATACAACTACAATAA
1 TAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCAT---ACTACAA-AA
* **
192085 TAAATCAATCCATACT-A-AAATTATTTAAATAAATCAATCCATATTTTAAAA
1 TAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATACTACAAAA
192136 TAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TAAATCAATCCATACTAATAAATTATTT-AAATAAAT
192173 TATTTTAAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
47 16 0.13
48 1 0.01
49 8 0.06
50 11 0.09
51 21 0.17
52 5 0.04
53 9 0.07
54 8 0.06
55 24 0.19
56 4 0.03
57 17 0.14
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (53 bp):
TAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATACTACAAAA
Found at i:192139 original size:22 final size:22
Alignment explanation
Indices: 192111--192207 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 22
192101 AAAATTATTT
192111 AAATAAATCAATCCATATTTTA
1 AAATAAATCAATCCATATTTTA
**
192133 AAATAAATCAATCCATACTAATA
1 AAATAAATCAATCCATA-TTTTA
* ** * **
192156 AATTATTTAAAATAAATTATTTTA
1 AAATAAAT-CAATCCA-TATTTTA
192180 AAATAAATCAATCCATATTTTA
1 AAATAAATCAATCCATATTTTA
*
192202 TAATAA
1 AAATAA
192208 TATTATAATA
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
22 29 0.53
23 12 0.22
24 12 0.22
25 2 0.04
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAAATCAATCCATATTTTA
Found at i:192181 original size:15 final size:15
Alignment explanation
Indices: 192152--192307 Score: 117
Period size: 15 Copynumber: 10.5 Consensus size: 15
192142 AATCCATACT
192152 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
192166 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* ** *
192181 AATAAATCAATCCATAT
1 AATAAAT-TAT-TTTAA
** * * *
192198 TTTATAATAATATTAT
1 AATA-AATTATTTTAA
192214 AATAAATTATTTT--
1 AATAAATTATTTTAA
*
192227 -ATAAATTA-TTTAT
1 AATAAATTATTTTAA
192240 AATAAATT-TTTTAA
1 AATAAATTATTTTAA
192254 AATAAATTATTTTATA
1 AATAAATTATTTTA-A
* *
192270 ATTAAATAATTTTTAA
1 AATAAATTA-TTTTAA
192286 AATAAATTATTTTAA
1 AATAAATTATTTTAA
192301 AATAAAT
1 AATAAAT
192308 AACCTTATTA
Statistics
Matches: 114, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.03
12 8 0.07
14 28 0.25
15 37 0.32
16 23 0.20
17 12 0.11
18 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:192224 original size:26 final size:26
Alignment explanation
Indices: 192195--192263 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
192185 AATCAATCCA
192195 TATTTTATAATAATATTATAATAAAT
1 TATTTTATAATAATATTATAATAAAT
*
192221 TATTTTATAA-ATTATTTATAATAAAT
1 TATTTTATAATAATA-TTATAATAAAT
*
192247 T-TTTTAAAATAA-ATTAT
1 TATTTTATAATAATATTAT
192264 TTTATAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 4 0.11
25 11 0.29
26 23 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTTATAATAATATTATAATAAAT
Found at i:192225 original size:48 final size:47
Alignment explanation
Indices: 192083--192232 Score: 144
Period size: 47 Copynumber: 3.1 Consensus size: 47
192073 CAACTACAAT
* *
192083 AATAAATCAATCCATACT-A-AAATTATTTAAATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATACTAATAAAATATTT--A-AAATAAAT---TATTTTAA
*
192134 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATTATTTTAA
1 AATAAATCAATCCATACTAATAAAATATTTAAAATAAATTATTTTAA
* * *
192181 AATAAATCAATCCATATTTTATAATAATA-TTATAATAAATTATTTTATA
1 AATAAATCAATCCATA-CTAATAA-AATATTTAAAATAAATTATTTTA-A
192230 AAT
1 AAT
192233 TATTTATAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
47 24 0.27
48 22 0.25
49 7 0.08
50 7 0.08
51 19 0.21
52 1 0.01
53 9 0.10
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.39
Consensus pattern (47 bp):
AATAAATCAATCCATACTAATAAAATATTTAAAATAAATTATTTTAA
Found at i:192240 original size:11 final size:12
Alignment explanation
Indices: 192195--192270 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 12
192185 AATCAATCCA
*
192195 TATTTTATAATAA
1 TATTTTATAA-AT
*
192208 TATTATAATAAAT
1 TATT-TTATAAAT
192221 TATTTTATAAAT
1 TATTTTATAAAT
192233 TATTTATAATAAAT
1 TATTT-T-ATAAAT
192247 T-TTTTAAAATAAAT
1 TATTTT---ATAAAT
192261 TATTTTATAA
1 TATTTTATAA
192271 TTAAATAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
12 17 0.31
13 13 0.24
14 20 0.37
15 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTTTATAAAT
Found at i:192288 original size:32 final size:31
Alignment explanation
Indices: 192227--192309 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 31
192217 AAATTATTTT
192227 ATAAATTA-TTTATAATAAAT--TTTTTAAA
1 ATAAATTATTTTATAATAAATAATTTTTAAA
192255 ATAAATTATTTTATAATTAAATAATTTTTAAA
1 ATAAATTATTTTATAA-TAAATAATTTTTAAA
*
192287 ATAAATTATTTTAAAATAAATAA
1 ATAAATTATTTTATAATAAATAA
192310 CCTTATTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
28 8 0.16
29 7 0.14
30 5 0.10
31 7 0.14
32 23 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATAAATTATTTTATAATAAATAATTTTTAAA
Found at i:223016 original size:15 final size:15
Alignment explanation
Indices: 222995--223048 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
222985 TACATTTCAT
222995 ACTATGTGATAT-TG
1 ACTATGTGATATATG
223009 ATCTATGTGATTATATG
1 A-CTATGTGA-TATATG
* *
223026 AATATGTGATATAAG
1 ACTATGTGATATATG
223041 -CTATGTGA
1 ACTATGTGA
223049 AATGTGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 13 0.38
16 10 0.29
17 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (15 bp):
ACTATGTGATATATG
Found at i:230054 original size:23 final size:23
Alignment explanation
Indices: 230024--230116 Score: 120
Period size: 23 Copynumber: 4.1 Consensus size: 23
230014 GAGACGAGGG
230024 TTCTACGTGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
230047 TTCTACGTGGTCCTTCAGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
230070 TTCTAC-TCGGTCCTTCGGGAC-A
1 TTCTACGT-GGTCCTTCGGGACAA
*
230092 TATCTATGTGGTCCTTCGGGA-AA
1 T-TCTACGTGGTCCTTCGGGACAA
230115 TT
1 TT
230117 TTTATGTGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
22 3 0.05
23 57 0.93
24 1 0.02
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:230091 original size:46 final size:46
Alignment explanation
Indices: 230024--230132 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
230014 GAGACGAGGG
*
230024 TTCTACGTGGTCCTTCGGGACA-ATTCTACGTGGTCCTTCAGGACAT
1 TTCTACGTGGTCCTTCGGGACATA-TCTACGTGGTCCTTCAGGAAAT
* *
230070 TTCTAC-TCGGTCCTTCGGGACATATCTATGTGGTCCTTCGGGAAAT
1 TTCTACGT-GGTCCTTCGGGACATATCTACGTGGTCCTTCAGGAAAT
* * *
230116 TTTTATGTGGTACTTCG
1 TTCTACGTGGTCCTTCG
230133 ATGCATATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.02
46 51 0.94
47 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (46 bp):
TTCTACGTGGTCCTTCGGGACATATCTACGTGGTCCTTCAGGAAAT
Found at i:230122 original size:23 final size:23
Alignment explanation
Indices: 230024--230132 Score: 105
Period size: 23 Copynumber: 4.7 Consensus size: 23
230014 GAGACGAGGG
*
230024 TTCTACGTGGTCCTTCGGGACAA-
1 TTCTATGTGGTCCTTCGGGA-AAT
* * *
230047 TTCTACGTGGTCCTTCAGGACAT
1 TTCTATGTGGTCCTTCGGGAAAT
* *
230070 TTCTACT-CGGTCCTTCGGGACAT
1 TTCTA-TGTGGTCCTTCGGGAAAT
*
230093 ATCTATGTGGTCCTTCGGGAAAT
1 TTCTATGTGGTCCTTCGGGAAAT
* *
230116 TTTTATGTGGTACTTCG
1 TTCTATGTGGTCCTTCG
230133 ATGCATATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
22 2 0.03
23 70 0.97
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGGGAAAT
Found at i:232548 original size:20 final size:20
Alignment explanation
Indices: 232510--232549 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
232500 AAAATTATGA
* * *
232510 AAGAAATGGATTAATGAAAT
1 AAGAAATGAATGAAAGAAAT
232530 AAGAAATGAATGAAAGAAAT
1 AAGAAATGAATGAAAGAAAT
232550 GAAATGATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (20 bp):
AAGAAATGAATGAAAGAAAT
Found at i:233123 original size:19 final size:20
Alignment explanation
Indices: 233085--233129 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
233075 GAAACCCTTT
233085 TGAAAATACATGATTTTTTTAA
1 TGAAAATACATGA--TTTTTAA
233107 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
233126 TGAA
1 TGAA
233130 GATATATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
22 13 0.57
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:234603 original size:23 final size:23
Alignment explanation
Indices: 234577--234622 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
234567 TGTTAAACTG
*
234577 TAAA-ATGAAATAAAATGAAATAA
1 TAAATATGAAAT-AAATAAAATAA
*
234600 TAAATATTAAATAAATAAAATAA
1 TAAATATGAAATAAATAAAATAA
234623 AAAGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAATATGAAATAAATAAAATAA
Found at i:234644 original size:14 final size:13
Alignment explanation
Indices: 234584--234644 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
234574 CTGTAAAATG
*
234584 AAATAAAATGAAA
1 AAATAAAATTAAA
*
234597 TAATAAATATTAAA
1 AAATAAA-ATTAAA
234611 TAAATAAAA-TAAA
1 -AAATAAAATTAAA
*
234624 AAGA-AAATTTAAA
1 AA-ATAAAATTAAA
234637 AAATAAAA
1 AAATAAAA
234645 AGGACTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.16
13 20 0.53
14 6 0.16
15 6 0.16
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAAATTAAA
Found at i:235498 original size:5 final size:5
Alignment explanation
Indices: 235488--235753 Score: 122
Period size: 5 Copynumber: 53.6 Consensus size: 5
235478 ATAAATAAAA
*
235488 ATAAT ATAAT ATAAT ATATT AATAAT ATAAT ACTAAT AT-AT A-ATAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT A-TAAT ATAAT ATA-AT
*
235534 ATAACT AT-AT AT-AT ATATAT ATAATAT ATAAT ATAACT ATATT AT-AT
1 ATAA-T ATAAT ATAAT ATA-AT AT-A-AT ATAAT ATAA-T ATAAT ATAAT
*
235581 ATAAT AATAA- AT-AT ATATT ATAAT AT-AT A-AAT ATAAT ATAAT AT--T
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
235626 ATATT ATATT ATAAT AT-AT ATAAT AGAAT AGT-AT A-ATAT ATAAT ACT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATA-AT ATAAT A-TAAT
* ** *
235675 A-ATAT ATAAG ACT-AT ATAAT AT-AT AGCAT ATACTAT ATAA- ATACT
1 ATA-AT ATAAT A-TAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT
* *
235720 ATAAT ATACAAT ATAAA ATAAT AT-AT AGAAT ATA
1 ATAAT AT--AAT ATAAT ATAAT ATAAT ATAAT ATA
235754 GCATATATTA
Statistics
Matches: 205, Mismatches: 20, Indels: 72
0.69 0.07 0.24
Matches are distributed among these distances:
3 4 0.02
4 37 0.18
5 118 0.58
6 30 0.15
7 16 0.08
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:235525 original size:32 final size:30
Alignment explanation
Indices: 235487--235745 Score: 152
Period size: 28 Copynumber: 8.7 Consensus size: 30
235477 AATAAATAAA
235487 AATA-ATATAATATAATATATTAATAATAT
1 AATATATATAATATAATATATTAATAATAT
235516 AATACTA-AT-ATATAATATA-TAACT-ATAT
1 AATA-TATATAATATAATATATTAA-TAATAT
*
235544 -ATATATAT-ATATAATATATAATATAACTAT
1 AATATATATAATATAATATATTA-ATAA-TAT
* *
235574 ATTATATATAATAATAA-ATA-T-ATATTAT
1 AATATATATAAT-ATAATATATTAATAATAT
* *
235602 AATATATA-AATATAATATAAT-ATTATAT
1 AATATATATAATATAATATATTAATAATAT
* * *
235630 TATAT-TATAATAT-ATATAATAGAATAGTAT
1 AATATATATAATATAATAT-AT-TAATAATAT
* *
235660 AATATATAATACTATAATATA-TAAGACTATAT
1 AATATAT-ATAATATAATATATTAATA--ATAT
** * * *
235692 AATATATAGCATATACTATATAAATACTAT
1 AATATATATAATATAATATATTAATAATAT
*
235722 AATATACAATATAAAATAATATAT
1 AATAT---ATATAATATAATATAT
235746 AGAATATAGC
Statistics
Matches: 176, Mismatches: 28, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
26 6 0.03
27 27 0.15
28 35 0.20
29 20 0.11
30 25 0.14
31 18 0.10
32 25 0.14
33 20 0.11
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
AATATATATAATATAATATATTAATAATAT
Found at i:235566 original size:47 final size:45
Alignment explanation
Indices: 235488--235746 Score: 230
Period size: 47 Copynumber: 5.6 Consensus size: 45
235478 ATAAATAAAA
235488 ATAATATA-ATATAATATAT-TAATAATATAATACTAATATATAATAT
1 ATAATATATATAT-ATATATATAAT-ATATAATA-TAATATATAATAT
*
235534 ATAACTATATATATATATATATAATATATAATATAACTATATTATAT
1 ATAA-TATATATATATATATATAATATATAATATAA-TATATAATAT
* *
235581 ATAATA-ATAAATATATATTATAATATATAAATATAATATAATATTAT
1 ATAATATATATATATATA-TATAATATAT-AATATAATAT-ATAATAT
* * *
235628 ATTATAT-TATA-ATATATATAATAGAATAGTATAATATATAATACT
1 ATAATATATATATATATATATAATA-TATAATATAATATATAATA-T
* * *
235673 ATAATATATA-AGA-CTATATAATATATAGCATATACTATATAAATACT
1 ATAATATATATATATATATATAATATATA--ATATAATATAT-AATA-T
* *
235720 ATAATATACA-ATATA-AAATAATATATA
1 ATAATATATATATATATATATAATATATA
235747 GAATATAGCA
Statistics
Matches: 179, Mismatches: 18, Indels: 31
0.79 0.08 0.14
Matches are distributed among these distances:
44 8 0.04
45 43 0.24
46 41 0.23
47 79 0.44
48 8 0.04
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (45 bp):
ATAATATATATATATATATATAATATATAATATAATATATAATAT
Found at i:235667 original size:99 final size:102
Alignment explanation
Indices: 235481--235683 Score: 244
Period size: 99 Copynumber: 2.0 Consensus size: 102
235471 TAAACAAATA
235481 AATAAAAATAATATAATATAATATATTAATAATATAATACTAATATATAATATATAACTATATAT
1 AATAAAAATAATATAATATAATATATTAATAATATAATACTAATATATAATATATAACTATATAT
* *
235546 ATATATATATAATATATAATATAACTA-TATTATATAT
66 ATATATATAGAATATATAATATAA-TACTATAATATAT
* * *
235583 AATAATAAAT-ATATATTATAATATA-T-A-AATATAATA-TAATATTATATTATATTA-TA-AT
1 AATAA-AAATAATATAATATAATATATTAATAATATAATACTAATA-TATAATATATAACTATAT
235641 ATATATA-ATAGAATAGTATAATATATAATACTATAATATAT
64 ATATATATATAGAATA-TAT-A-ATATAATACTATAATATAT
235682 AA
1 AA
235684 GACTATATAA
Statistics
Matches: 90, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
96 7 0.08
97 12 0.13
98 10 0.11
99 36 0.40
100 1 0.01
101 1 0.01
102 19 0.21
103 4 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (102 bp):
AATAAAAATAATATAATATAATATATTAATAATATAATACTAATATATAATATATAACTATATAT
ATATATATAGAATATATAATATAATACTATAATATAT
Found at i:235733 original size:54 final size:54
Alignment explanation
Indices: 235660--235766 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
235650 AGAATAGTAT
* * *
235660 AATATATAATACTATAATATATAAGACTATATA-ATATATAGCATATACTATATA
1 AATATATAATACTACAATATAAAAGAATATATAGA-ATATAGCATATACTATATA
* *
235714 AATACTATAATA-TACAATATAAAATAATATATAGAATATAGCATATATTATAT
1 AATA-TATAATACTACAATATAAAAGAATATATAGAATATAGCATATACTATAT
235767 GAAAGAATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 38 0.83
55 8 0.17
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (54 bp):
AATATATAATACTACAATATAAAAGAATATATAGAATATAGCATATACTATATA
Found at i:235754 original size:7 final size:6
Alignment explanation
Indices: 235478--235753 Score: 83
Period size: 7 Copynumber: 40.5 Consensus size: 6
235468 AATTAAACAA
* *
235478 ATAAAT AAAAAT AATATAAT ATAATAT ATTAAT AATATAAT ACTAATAT
1 ATAAAT ATAAAT -ATA-AAT ATAA-AT ATAAAT -ATA-AAT A-TAA-AT
* * * * *
235527 ATAATAT ATAACT ATATAT ATATAT ATATAAT ATATAAT ATAACT ATATTAT
1 ATAA-AT ATAAAT ATAAAT ATAAAT ATA-AAT ATA-AAT ATAAAT ATA-AAT
* *
235579 ATATAAT AATAAAT ATATATT ATAATAT ATAAAT AT-AAT AT-AAT AT-TAT
1 ATA-AAT -ATAAAT ATA-AAT ATAA-AT ATAAAT ATAAAT ATAAAT ATAAAT
* *
235628 ATTATATT ATAATAT ATATAAT AGAATAGT ATAATAT ATAATACT ATAATAT
1 A-TA-AAT ATAA-AT ATA-AAT ATAA-A-T ATAA-AT ATAA-A-T ATAA-AT
*
235680 ATAAGACT ATATAAT ATATAGCAT ATACTAT ATAAAT ACTATAAT ATACAAT
1 ATAA-A-T ATA-AAT ATA-A--AT ATA-AAT ATAAAT A-TA-AAT ATA-AAT
235732 ATAAA- ATAATAT ATAGAAT ATA
1 ATAAAT ATAA-AT ATA-AAT ATA
235754 GCATATATTA
Statistics
Matches: 216, Mismatches: 25, Indels: 57
0.72 0.08 0.19
Matches are distributed among these distances:
5 17 0.08
6 44 0.20
7 109 0.50
8 40 0.19
9 6 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (6 bp):
ATAAAT
Found at i:235760 original size:47 final size:47
Alignment explanation
Indices: 235638--235761 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 47
235628 ATTATATTAT
* *
235638 AATATATATAATAGAATAGTATAATATATAATACTATAATATATAAGACTA
1 AATA-ATAT-ATAGAATA-TA-CATATATAATACTATAATATACAAGACTA
* * *
235689 TATAATATATAGCATATAC-TATATAAATACTATAATATACAATA-TAA
1 AATAATATATAGAATATACATATAT-AATACTATAATATACAAGACT-A
235736 AATAATATATAGAATATAGCATATAT
1 AATAATATATAGAATATA-CATATAT
235762 TATATGAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
46 6 0.10
47 34 0.55
48 3 0.05
49 12 0.19
50 4 0.06
51 3 0.05
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (47 bp):
AATAATATATAGAATATACATATATAATACTATAATATACAAGACTA
Done.