Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001984.1 Hibiscus syriacus cultivar Beakdansim tig00004045_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: 222822
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:6614 original size:37 final size:36
Alignment explanation
Indices: 6548--6634 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 36
6538 TGCACATACC
*
6548 ATGCATCGATGCACTGAGGATTTTATGAAAACATCGA
1 ATGCATCGATGCACTCAGGATTTTATG-AAACATCGA
* * *
6585 ATGCATCGATGCACTCTGGCTATTT-TGAAATATCGA
1 ATGCATCGATGCACTCAGGAT-TTTATGAAACATCGA
*
6621 ATGCACTTGATGCA
1 ATGCA-TCGATGCA
6635 TCGATGCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 13 0.30
37 27 0.63
38 3 0.07
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (36 bp):
ATGCATCGATGCACTCAGGATTTTATGAAACATCGA
Found at i:6643 original size:17 final size:19
Alignment explanation
Indices: 6616--6663 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
6606 ATTTTGAAAT
6616 ATCGAATGCACT-TGA-TGC
1 ATCG-ATGCACTCTGAGTGC
*
6634 ATCGATGCACTCTTAGTGC
1 ATCGATGCACTCTGAGTGC
*
6653 ACCGATGCACT
1 ATCGATGCACT
6664 AAGGGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 13 0.50
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (19 bp):
ATCGATGCACTCTGAGTGC
Found at i:13871 original size:21 final size:21
Alignment explanation
Indices: 13829--13872 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
13819 ACCCCGAGAG
* *
13829 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
13850 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
13871 CT
1 CT
13873 CCTCCGGTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:14936 original size:19 final size:19
Alignment explanation
Indices: 14912--14964 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
14902 GAATGTATTT
14912 CATGCATCGATGCACATAC
1 CATGCATCGATGCACATAC
*
14931 CATGCATTGATGCACATAC
1 CATGCATCGATGCACATAC
14950 CATGCATCGATGCAC
1 CATGCATCGATGCAC
14965 TGAGGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (19 bp):
CATGCATCGATGCACATAC
Found at i:15008 original size:65 final size:63
Alignment explanation
Indices: 14932--15074 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 63
14922 TGCACATACC
* *
14932 ATGCATTGATGCACATACCATGCATCGATGCACT-GAGGAT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCGA-GATATTT-TG-AAACATCGAATGCACT
*
14995 TT
62 TG
* * *
14997 ATGCATCGATGCATCAGCCATGCATCGATGCACTCTAGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCGAGATATTTTGAAACATCGAATGCACTTG
*
15061 ATGCATCGCTGCAC
1 ATGCATCGATGCAC
15075 TCTTAGTGCA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
63 1 0.01
64 28 0.41
65 33 0.49
66 6 0.09
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCGAGATATTTTGAAACATCGAATGCACTTG
Found at i:17926 original size:2 final size:2
Alignment explanation
Indices: 17921--17955 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17911 TATACTTTTG
17921 TA TA TA TA TA 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 TA TA TA TA TA T
17956 CTTACACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21929 original size:19 final size:19
Alignment explanation
Indices: 21905--21953 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
21895 TGCAATAAGC
*
21905 AGCAGCGGCAACAAGAAAG
1 AGCAGCAGCAACAAGAAAG
21924 AGCAGCAGCAACAAGAAAG
1 AGCAGCAGCAACAAGAAAG
*
21943 AGCATCAGCAA
1 AGCAGCAGCAA
21954 GCGTATAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.27, T:0.02
Consensus pattern (19 bp):
AGCAGCAGCAACAAGAAAG
Found at i:22835 original size:28 final size:28
Alignment explanation
Indices: 22798--22852 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
22788 TATGATACAA
*
22798 ATATGAGTTTCGTAGAATATTGGAATAC
1 ATATGAGTTTCGGAGAATATTGGAATAC
*
22826 ATATGTGTTTCGGAGAATATTGGAATA
1 ATATGAGTTTCGGAGAATATTGGAATA
22853 ATGCATTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (28 bp):
ATATGAGTTTCGGAGAATATTGGAATAC
Found at i:23818 original size:19 final size:19
Alignment explanation
Indices: 23796--23839 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
23786 GACAATGGAA
*
23796 TGGATCTAAGGGGATGGTT
1 TGGATCTAAGGGGATAGTT
23815 TGGATCTAAGGGGATAGTT
1 TGGATCTAAGGGGATAGTT
*
23834 AGGATC
1 TGGATC
23840 GCGGTTCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.39, T:0.30
Consensus pattern (19 bp):
TGGATCTAAGGGGATAGTT
Found at i:25283 original size:18 final size:18
Alignment explanation
Indices: 25260--25301 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
25250 GCCACTTGCC
25260 AACTTGAATCAAATTGTA
1 AACTTGAATCAAATTGTA
* *
25278 AACTTGAATCAACTTGTC
1 AACTTGAATCAAATTGTA
25296 AACTTG
1 AACTTG
25302 TGTAGCCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (18 bp):
AACTTGAATCAAATTGTA
Found at i:35410 original size:106 final size:106
Alignment explanation
Indices: 35282--35493 Score: 361
Period size: 106 Copynumber: 2.0 Consensus size: 106
35272 TATTTTAACT
* * *
35282 AGTCACATATTTTGTTAAAAAAATCCAAACATGTATAACACATTGCAAAAATAAATGGATGTTGT
1 AGTCACATATTTCGATAAAAAAATCCAAACATGTATAACAAATTGCAAAAATAAATGGATGTTGT
35347 TTATAGGTAGTAAAGTATATATATTAAAATGGTATGAGGTA
66 TTATAGGTAGTAAAGTATATATATTAAAATGGTATGAGGTA
* *
35388 AGTCACATATTTCGATAAAAAAATCCAAACATGTATAACAAATTTCAAATATAAATGGATGTTGT
1 AGTCACATATTTCGATAAAAAAATCCAAACATGTATAACAAATTGCAAAAATAAATGGATGTTGT
* *
35453 TTATAGGTCGTAAAGTATATATATTAAAATGGTTTGAGGTA
66 TTATAGGTAGTAAAGTATATATATTAAAATGGTATGAGGTA
35494 GCGAGGTGGT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (106 bp):
AGTCACATATTTCGATAAAAAAATCCAAACATGTATAACAAATTGCAAAAATAAATGGATGTTGT
TTATAGGTAGTAAAGTATATATATTAAAATGGTATGAGGTA
Found at i:38543 original size:19 final size:19
Alignment explanation
Indices: 38519--38561 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
38509 TGTACCCAAT
*
38519 AATCTAG-TTTCTAACCTAA
1 AATCTAGATTTC-AAACTAA
38538 AATCTAGATTTCAAACTAA
1 AATCTAGATTTCAAACTAA
38557 AATCT
1 AATCT
38562 GAATTCCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCTAGATTTCAAACTAA
Found at i:38575 original size:19 final size:19
Alignment explanation
Indices: 38531--38679 Score: 136
Period size: 19 Copynumber: 7.5 Consensus size: 19
38521 TCTAGTTTCT
* *
38531 AACCTAAAATCTAGATTTC
1 AACCTAAAATCTGGATTCC
* *
38550 AAACTAAAATCTGAATTCC
1 AACCTAAAATCTGGATTCC
*
38569 AACCTAACTTAAAATTTGGATTCC
1 AA-C---C-TAAAATCTGGATTCC
* * *
38593 AACTTAAAATCTAGTTTCC
1 AACCTAAAATCTGGATTCC
*
38612 AACCTAAAATTTGGATTCC
1 AACCTAAAATCTGGATTCC
*
38631 AACCCAAAATCTGGATTCCC
1 AACCTAAAATCTGGATT-CC
* *
38651 AACCTAAAATTTGGATTTC
1 AACCTAAAATCTGGATTCC
38670 AACCTAAAAT
1 AACCTAAAAT
38680 ATTAGGTTCT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
19 70 0.67
20 17 0.16
23 2 0.02
24 15 0.14
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (19 bp):
AACCTAAAATCTGGATTCC
Found at i:38601 original size:43 final size:42
Alignment explanation
Indices: 38529--38679 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
38519 AATCTAGTTT
* * * *
38529 CTAACCTAAAATCTAGATTTCAAACTAAAATCTGAATTCCAAC
1 CTAA-CTAAAATTTGGATTCCAACCTAAAATCTGAATTCCAAC
* *
38572 CTAACTTAAAATTTGGATTCCAACTTAAAATCT-AGTTTCCAA-
1 CTAAC-TAAAATTTGGATTCCAACCTAAAATCTGA-ATTCCAAC
* *
38614 C---CTAAAATTTGGATTCCAACCCAAAATCTGGATT-C--C
1 CTAACTAAAATTTGGATTCCAACCTAAAATCTGAATTCCAAC
*
38650 C-AACCTAAAATTTGGATTTCAACCTAAAAT
1 CTAA-CTAAAATTTGGATTCCAACCTAAAAT
38680 ATTAGGTTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 27 0.30
39 25 0.28
42 3 0.03
43 32 0.36
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (42 bp):
CTAACTAAAATTTGGATTCCAACCTAAAATCTGAATTCCAAC
Found at i:38664 original size:39 final size:38
Alignment explanation
Indices: 38519--38679 Score: 151
Period size: 39 Copynumber: 4.1 Consensus size: 38
38509 TGTACCCAAT
* * * * * *
38519 AATCTAGTTTCTAACCTAAAATCTAGATTTCAAACTAA
1 AATCTAGTTCCCAACCTAAAATTTGGATTCCAACCTAA
* * *
38557 AATCTGAATTCCAACCTAACTTAAAATTTGGATTCCAACTTAA
1 AATCT-AGTT-C--CC-AACCTAAAATTTGGATTCCAACCTAA
* *
38600 AATCTAGTTTCCAACCTAAAATTTGGATTCCAACCCAA
1 AATCTAGTTCCCAACCTAAAATTTGGATTCCAACCTAA
* *
38638 AATCTGGATTCCCAACCTAAAATTTGGATTTCAACCTAA
1 AATCTAG-TTCCCAACCTAAAATTTGGATTCCAACCTAA
38677 AAT
1 AAT
38680 ATTAGGTTCT
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 34 0.34
39 36 0.36
42 4 0.04
43 25 0.25
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (38 bp):
AATCTAGTTCCCAACCTAAAATTTGGATTCCAACCTAA
Found at i:38787 original size:113 final size:113
Alignment explanation
Indices: 38650--38874 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 113
38640 TCTGGATTCC
38650 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
1 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
38715 TATTAATTTTCATTATGATATTTAATTTAATGTGTTTTTTCTTTTATG
66 TATTAATTTTCATTATGATATTTAATTTAATGTGTTTTTTCTTTTATG
38763 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
1 CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
*
38828 TATTAATTTTTATTATGATATTTAATTTAATGTGTTTTTTCTTTTAT
66 TATTAATTTTCATTATGATATTTAATTTAATGTGTTTTTTCTTTTAT
38875 AAAGTTTAGG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.52
Consensus pattern (113 bp):
CAACCTAAAATTTGGATTTCAACCTAAAATATTAGGTTCTGAATATCTAGTTTTATTTCATTATT
TATTAATTTTCATTATGATATTTAATTTAATGTGTTTTTTCTTTTATG
Found at i:44741 original size:33 final size:33
Alignment explanation
Indices: 44699--44764 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
44689 TTGTCCTATT
44699 AAAATTACTTGTCTTGGTAGTTCTGTCTAAGGA
1 AAAATTACTTGTCTTGGTAGTTCTGTCTAAGGA
44732 AAAATTACTTGTCTTGGTAGTTCTGTCTAAGGA
1 AAAATTACTTGTCTTGGTAGTTCTGTCTAAGGA
44765 GAGTTAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (33 bp):
AAAATTACTTGTCTTGGTAGTTCTGTCTAAGGA
Found at i:49819 original size:22 final size:22
Alignment explanation
Indices: 49793--49837 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49783 GGAGGAGGGG
49793 AAATTCTTTTGTTATAAATAGA
1 AAATTCTTTTGTTATAAATAGA
49815 AAATTCTTTTGTTATAAATAGA
1 AAATTCTTTTGTTATAAATAGA
49837 A
1 A
49838 TCCTCATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (22 bp):
AAATTCTTTTGTTATAAATAGA
Found at i:50625 original size:23 final size:23
Alignment explanation
Indices: 50599--50673 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
50589 TAACATGCTT
*
50599 ACGAACATGTTCATAAACGCTAA
1 ACGAACATGTTCATAAACGTTAA
*
50622 ACGAACATGCTCATAAACGTTAA
1 ACGAACATGTTCATAAACGTTAA
50645 ACGAACATGTTCATAAACGTTAA
1 ACGAACATGTTCATAAACGTTAA
50668 ACGAAC
1 ACGAAC
50674 GCTAAACGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.21
Consensus pattern (23 bp):
ACGAACATGTTCATAAACGTTAA
Found at i:50679 original size:57 final size:57
Alignment explanation
Indices: 50614--50740 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 57
50604 CATGTTCATA
* *
50614 AACGCTAAACGAACATGCTCATAAACGTTAAACGAACATGTTCATAAACGTTAAACG
1 AACGCTAAACGAACATGCTCATAAACGCTAAACGAACATGTTCACAAACGTTAAACG
* * * * *
50671 AACGCTAAACGAACATGTTCATGAACGCTAAACGAACATGTTTACAAATGTTAAATG
1 AACGCTAAACGAACATGCTCATAAACGCTAAACGAACATGTTCACAAACGTTAAACG
50728 AACGCTAAACGAA
1 AACGCTAAACGAA
50741 TGTTAAATGA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (57 bp):
AACGCTAAACGAACATGCTCATAAACGCTAAACGAACATGTTCACAAACGTTAAACG
Found at i:50681 original size:34 final size:34
Alignment explanation
Indices: 50637--50707 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
50627 CATGCTCATA
* *
50637 AACGTTAAACGAACATGTTCATAAACGTTAAACG
1 AACGCTAAACGAACATGTTCATAAACGCTAAACG
*
50671 AACGCTAAACGAACATGTTCATGAACGCTAAACG
1 AACGCTAAACGAACATGTTCATAAACGCTAAACG
50705 AAC
1 AAC
50708 ATGTTTACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (34 bp):
AACGCTAAACGAACATGTTCATAAACGCTAAACG
Found at i:50725 original size:23 final size:23
Alignment explanation
Indices: 50671--50718 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
50661 ACGTTAAACG
**
50671 AACGCTAAACGAACATGTTCATG
1 AACGCTAAACGAACATGTTCACA
*
50694 AACGCTAAACGAACATGTTTACA
1 AACGCTAAACGAACATGTTCACA
50717 AA
1 AA
50719 TGTTAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (23 bp):
AACGCTAAACGAACATGTTCACA
Found at i:50757 original size:22 final size:22
Alignment explanation
Indices: 50717--50763 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
50707 CATGTTTACA
*
50717 AATGTTAAATGAACGCTAAACG
1 AATGTTAAATGAACACTAAACG
* *
50739 AATGTTAAATGAGCACTAAATG
1 AATGTTAAATGAACACTAAACG
50761 AAT
1 AAT
50764 ACATTCACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (22 bp):
AATGTTAAATGAACACTAAACG
Found at i:52524 original size:31 final size:32
Alignment explanation
Indices: 52458--52548 Score: 116
Period size: 31 Copynumber: 2.9 Consensus size: 32
52448 GAATGACCTA
* *
52458 TCCATATGTTCC-GAAGAACATATGTAACACTG
1 TCCATATG-TCCTGAAGGACATAGGTAACACTG
52490 TCCATATGTCCTGAAGGACATAGGTAA-ACTG
1 TCCATATGTCCTGAAGGACATAGGTAACACTG
*
52521 TCCATATGT-CTCGAAAGACATAGGTAAC
1 TCCATATGTCCT-GAAGGACATAGGTAAC
52549 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.04
31 30 0.57
32 21 0.40
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (32 bp):
TCCATATGTCCTGAAGGACATAGGTAACACTG
Found at i:57279 original size:18 final size:18
Alignment explanation
Indices: 57253--57287 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57243 TTTAGGGTAA
57253 TTTAAGATTTTTTATTAT
1 TTTAAGATTTTTTATTAT
*
57271 TTTAGGATTTTTTATTA
1 TTTAAGATTTTTTATTA
57288 ATGAAAAGAT
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:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
TTTAAGATTTTTTATTAT
Found at i:58141 original size:22 final size:24
Alignment explanation
Indices: 58116--58165 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
58106 TTTCTTATTC
*
58116 TTTAATTTCCTCATT-TTTT-TAA
1 TTTAATTTCCTAATTGTTTTCTAA
*
58138 TTTAATTTCTTAATTGTTTTCTAA
1 TTTAATTTCCTAATTGTTTTCTAA
58162 TTTA
1 TTTA
58166 TTTATTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 4 0.17
24 7 0.29
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTAATTTCCTAATTGTTTTCTAA
Found at i:60125 original size:35 final size:36
Alignment explanation
Indices: 60079--60149 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
60069 AATCAGAGGA
60079 AAAACTTAGGTTTTTTATGTTTG-TTTTTTTTCCTT
1 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
60114 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
1 AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
60150 CTGAATTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.63
Consensus pattern (36 bp):
AAAACTTAGGTTTTTTATGTTTGTTTTTTTTTCCTT
Found at i:70036 original size:14 final size:14
Alignment explanation
Indices: 70017--70043 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
70007 AAATCTTCAG
70017 CAAAAACCTTTCTC
1 CAAAAACCTTTCTC
70031 CAAAAACCTTTCT
1 CAAAAACCTTTCT
70044 GAAGCTATGG
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:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
CAAAAACCTTTCTC
Found at i:72796 original size:28 final size:28
Alignment explanation
Indices: 72756--72822 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
72746 TATTAATAAC
72756 CATATATTTAACTAAACTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
*
72784 CATATATTTAACTAAATTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
72812 CATATATTTAA
1 CATATATTTAA
72823 AACATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
CATATATTTAACTAAACTCAAATTCATA
Found at i:75379 original size:17 final size:17
Alignment explanation
Indices: 75349--75391 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
75339 TGCATAAAGT
* *
75349 TAGTTTATTGATTAAAC
1 TAGTTCATTCATTAAAC
75366 TAGTTCATTCATTAAAC
1 TAGTTCATTCATTAAAC
75383 TAGTTCATT
1 TAGTTCATT
75392 AACCAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
TAGTTCATTCATTAAAC
Found at i:75399 original size:17 final size:17
Alignment explanation
Indices: 75362--75402 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
75352 TTTATTGATT
* **
75362 AAACTAGTTCATTCATT
1 AAACTAGTTCATTAACC
75379 AAACTAGTTCATTAACC
1 AAACTAGTTCATTAACC
75396 AAACTAG
1 AAACTAG
75403 CTCCTAAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (17 bp):
AAACTAGTTCATTAACC
Found at i:75726 original size:17 final size:17
Alignment explanation
Indices: 75704--75750 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
75694 ACAGTAAGGG
75704 TGTCTACATTCATTCAA
1 TGTCTACATTCATTCAA
75721 TGTCTACATTCATTCAA
1 TGTCTACATTCATTCAA
75738 TGTCTACATTCAT
1 TGTCTACATTCAT
75751 CCCATTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (17 bp):
TGTCTACATTCATTCAA
Found at i:82772 original size:24 final size:23
Alignment explanation
Indices: 82719--82764 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
82709 TTTATAAAAA
*
82719 ATATGTCCTTGTGACACACTTTT
1 ATATGTTCTTGTGACACACTTTT
*
82742 ATATGTTCTTGTGACACGCTTTT
1 ATATGTTCTTGTGACACACTTTT
82765 TCTCTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (23 bp):
ATATGTTCTTGTGACACACTTTT
Found at i:83452 original size:50 final size:50
Alignment explanation
Indices: 83327--83452 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
83317 CATAGCAGAA
* **
83327 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCACCATGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGACACCACATGGGTAT
* ** * *
83377 AGCGCACCCCCTGCCCCGCGATATACGGTGATTTGACACCACATGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGACACCACATGGGTAT
* * *
83427 AGCGTGCCCCCTGATCCGTGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
83453 CTGGGTATCT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGACACCACATGGGTAT
Found at i:83618 original size:12 final size:10
Alignment explanation
Indices: 83576--83616 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
83566 TTTATCACAC
83576 CAAATTCTCT
1 CAAATTCTCT
83586 CAAATTCTCT
1 CAAATTCTCT
83596 -AAATTTCTCT
1 CAAA-TTCTCT
*
83606 CAAATACTCT
1 CAAATTCTCT
83616 C
1 C
83617 TCTTTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:83695 original size:17 final size:18
Alignment explanation
Indices: 83658--83698 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
83648 CTATTATGTA
*
83658 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
83676 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
83693 TTTACT
1 TTTACT
83699 AATATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:83954 original size:111 final size:111
Alignment explanation
Indices: 83760--83981 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
83750 TGGAAATCAT
* * **
83760 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACAATTTGCTGATACAATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
83825 TAACTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAACTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
83871 ATATCTCGACAATTTGCTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACAATTTGCTGATACAATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
*
83936 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAACTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
83982 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (111 bp):
ATATCTCGACAATTTGCTGATACAATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAACTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:85518 original size:18 final size:18
Alignment explanation
Indices: 85492--85528 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
85482 GCAGCCACTA
85492 CAGCCATATATGATGCCG
1 CAGCCATATATGATGCCG
*
85510 CAGCTATATATGATGCCG
1 CAGCCATATATGATGCCG
85528 C
1 C
85529 TATCGCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (18 bp):
CAGCCATATATGATGCCG
Found at i:89477 original size:16 final size:15
Alignment explanation
Indices: 89451--89497 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
89441 AATATTTTTT
89451 AAATAATTATAATAA
1 AAATAATTATAATAA
* *
89466 ACAATAAGTATAATTA
1 A-AATAATTATAATAA
89482 AAA-AATTATAATAA
1 AAATAATTATAATAA
89496 AA
1 AA
89498 TTACCTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATAATTATAATAA
Found at i:89827 original size:51 final size:50
Alignment explanation
Indices: 89727--89850 Score: 135
Period size: 51 Copynumber: 2.4 Consensus size: 50
89717 TGGTACGGCT
* * *
89727 TATAGCGCGG-AGCAGGGGGCGCGCTATACTCAACGTGTAACCTAGTCAGCG
1 TATAGCGCGGTA-CAGGGGGCGCGCTATACTCAACGTG-AACCAAATCAGCA
* *
89778 TATAGCGCGGTACAGAGGGCGCGCTATACTCTACGTG-ACGTCAAATCAGCA
1 TATAGCGCGGTACAGGGGGCGCGCTATACTCAACGTGAAC--CAAATCAGCA
* *
89829 TATAGCGTGGTTCAGGGGGCGC
1 TATAGCGCGGTACAGGGGGCGC
89851 ACTTTACTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
49 2 0.03
51 59 0.95
52 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.19
Consensus pattern (50 bp):
TATAGCGCGGTACAGGGGGCGCGCTATACTCAACGTGAACCAAATCAGCA
Found at i:91064 original size:21 final size:20
Alignment explanation
Indices: 91030--91068 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
91020 CTTTATATTA
*
91030 TTAAAAATATATTTATAAAGC
1 TTAAAAATACATTT-TAAAGC
*
91051 TTAAATATACATTTTAAA
1 TTAAAAATACATTTTAAA
91069 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TTAAAAATACATTTTAAAGC
Found at i:92617 original size:16 final size:17
Alignment explanation
Indices: 92591--92627 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
92581 TTAAATTATT
92591 TTTATTTCAAAATTACA
1 TTTATTTCAAAATTACA
92608 TTTA-TTCAAAATTACA
1 TTTATTTCAAAATTACA
92624 TTTA
1 TTTA
92628 ACGTTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTATTTCAAAATTACA
Found at i:93402 original size:15 final size:15
Alignment explanation
Indices: 93384--93426 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
93374 TTTAAATTAT
*
93384 TTAAATTTAATTCGA
1 TTAAATTTAATTCAA
*
93399 TTAAAATTTAATTTAA
1 TT-AAATTTAATTCAA
*
93415 ATAAATTTAATT
1 TTAAATTTAATT
93427 TAAATTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTAAATTTAATTCAA
Found at i:93427 original size:15 final size:15
Alignment explanation
Indices: 93402--93431 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93392 AATTCGATTA
93402 AAATTTAATTTAAAT
1 AAATTTAATTTAAAT
93417 AAATTTAATTTAAAT
1 AAATTTAATTTAAAT
93432 TCTTAATAAA
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:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTAATTTAAAT
Found at i:97900 original size:15 final size:16
Alignment explanation
Indices: 97880--97909 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97870 CGAAATGCAA
97880 AAAAC-AAATCAAATG
1 AAAACAAAATCAAATG
97895 AAAACAAAATCAAAT
1 AAAACAAAATCAAAT
97910 AACAAAGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAACAAAATCAAATG
Found at i:97901 original size:195 final size:195
Alignment explanation
Indices: 97558--97910 Score: 557
Period size: 195 Copynumber: 1.8 Consensus size: 195
97548 ATAAATCTAT
* *
97558 AGATTCCTACAATTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACATGATTTAACATAG
1 AGATTCCTACAATTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACGATTTAACATAA
*
97623 GAAAATGACAGATCAAGAATAAAAACAAAAAAAAATCCAAAGCAAAACTTGACCAAATACAACAA
66 GAAAATGACAGATCAAGAATAAAAACAAAAAAAAATCCAAAGCAAAACTTGACCAAATACAAAAA
97688 CAAATCAAACGAAAAACAAAATCAAATACTGGAAAAAGAAAAACCTAGAAACGGATTGAATAGAG
131 CAAATCAAACGAAAAACAAAATCAAATACTGGAAAAAGAAAAACCTAGAAACGGATTGAATAGAG
* *
97753 AGATTCCTACAGTTCATAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACGATTTAACATAA
1 AGATTCCTACAATTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACGATTTAACATAA
* ** * * * *
97818 GAGAAATGACAGATCAAGAATAAGAA-ATTAGAAAATCCAAAGCAAAACTTTACGAAATGCAAAA
66 GA-AAATGACAGATCAAGAATAAAAACAAAAAAAAATCCAAAGCAAAACTTGACCAAATAC-AAA
*
97882 AACAAATCAAATG-AAAACAAAATCAAATA
129 AACAAATCAAACGAAAAACAAAATCAAATA
97911 ACAAAGCTGA
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
195 107 0.75
196 36 0.25
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.17
Consensus pattern (195 bp):
AGATTCCTACAATTCACAGGAAAGAAATTTCAGATATGCGAAGACAAAAACACGATTTAACATAA
GAAAATGACAGATCAAGAATAAAAACAAAAAAAAATCCAAAGCAAAACTTGACCAAATACAAAAA
CAAATCAAACGAAAAACAAAATCAAATACTGGAAAAAGAAAAACCTAGAAACGGATTGAATAGAG
Found at i:99380 original size:2 final size:2
Alignment explanation
Indices: 99373--99403 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
99363 CATGAGATTC
99373 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99404 TATCTTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:102146 original size:47 final size:47
Alignment explanation
Indices: 102077--102170 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
102067 CATTGTCCAT
102077 AGGCATAAAAAATTAATGTGAACAACCGGATTTGAAGCTTCTTCAGA
1 AGGCATAAAAAATTAATGTGAACAACCGGATTTGAAGCTTCTTCAGA
102124 AGGCATAAAAAATTAATGTGAACAACCGGATTTGAAGCTTCTTCAGA
1 AGGCATAAAAAATTAATGTGAACAACCGGATTTGAAGCTTCTTCAGA
102171 GGTTTTTGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (47 bp):
AGGCATAAAAAATTAATGTGAACAACCGGATTTGAAGCTTCTTCAGA
Found at i:108369 original size:32 final size:32
Alignment explanation
Indices: 108328--108452 Score: 196
Period size: 32 Copynumber: 3.9 Consensus size: 32
108318 GAGTCGAGGG
* * *
108328 TTACCTATGTCTTTCTGGACATACGGACATGA
1 TTACCTATGTCTTTCGGGACATATGGACATAA
*
108360 TTACCTATGTCTTTCGGGACATATGGACAAAA
1 TTACCTATGTCTTTCGGGACATATGGACATAA
*
108392 TTACCTATGTCTTTAGGGACATATGGACATAA
1 TTACCTATGTCTTTCGGGACATATGGACATAA
*
108424 TTACCTATGTCTTTCGGGACATATAGACA
1 TTACCTATGTCTTTCGGGACATATGGACA
108453 GTTACCTATG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 85 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACATAA
Found at i:108429 original size:64 final size:62
Alignment explanation
Indices: 108328--108480 Score: 209
Period size: 64 Copynumber: 2.4 Consensus size: 62
108318 GAGTCGAGGG
** * * *
108328 TTACCTATGTCTTTCTGGACATACGGACATGATTACCTATGTCTTTCGGGACATATGGACAAAA
1 TTACCTATGTCTTTAGGGACATATGGACATAATTACCTATGTCTTTCGGGACATATAGAC--AA
*
108392 TTACCTATGTCTTTAGGGACATATGGACATAATTACCTATGTCTTTCGGGACATATAGACAG
1 TTACCTATGTCTTTAGGGACATATGGACATAATTACCTATGTCTTTCGGGACATATAGACAA
*
108454 TTACCTATGT-TCTTAGGAACATATGGA
1 TTACCTATGTCT-TTAGGGACATATGGA
108481 TAGGTCTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 1 0.01
62 25 0.31
64 55 0.68
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (62 bp):
TTACCTATGTCTTTAGGGACATATGGACATAATTACCTATGTCTTTCGGGACATATAGACAA
Found at i:108476 original size:30 final size:31
Alignment explanation
Indices: 108328--108477 Score: 151
Period size: 32 Copynumber: 4.8 Consensus size: 31
108318 GAGTCGAGGG
** ** *
108328 TTACCTATGTCTTTCTGGACATACGGACATGA
1 TTACCTATGTCTTTAGGGACATATAGACA-AA
* *
108360 TTACCTATGTCTTTCGGGACATATGGACAAAA
1 TTACCTATGTCTTTAGGGACATATAGAC-AAA
*
108392 TTACCTATGTCTTTAGGGACATATGGACATAA
1 TTACCTATGTCTTTAGGGACATATAGACA-AA
* *
108424 TTACCTATGTCTTTCGGGACATATAGAC-AG
1 TTACCTATGTCTTTAGGGACATATAGACAAA
*
108454 TTACCTATGT-TCTTAGGAACATAT
1 TTACCTATGTCT-TTAGGGACATAT
108478 GGATAGGTCT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 21 0.20
31 1 0.01
32 82 0.77
33 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (31 bp):
TTACCTATGTCTTTAGGGACATATAGACAAA
Found at i:109266 original size:22 final size:22
Alignment explanation
Indices: 109238--109290 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
109228 CGCCGAAGTT
109238 ACTGTAGCAAGAGTATCGGTAC
1 ACTGTAGCAAGAGTATCGGTAC
109260 ACTGTAGCAAGAGTATCGGTAC
1 ACTGTAGCAAGAGTATCGGTAC
109282 ACTGTAGCA
1 ACTGTAGCA
109291 GGGTATTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (22 bp):
ACTGTAGCAAGAGTATCGGTAC
Found at i:109388 original size:22 final size:22
Alignment explanation
Indices: 109336--109388 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
109326 TAACATTCGG
*
109336 TACTGTTCACGATACTGTTCAT
1 TACTGTTCACGATAATGTTCAT
** *
109358 TACAATTCACGGTAATGTTCAT
1 TACTGTTCACGATAATGTTCAT
109380 TACTGTTCA
1 TACTGTTCA
109389 TATAGTATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (22 bp):
TACTGTTCACGATAATGTTCAT
Found at i:110270 original size:41 final size:41
Alignment explanation
Indices: 110219--110351 Score: 230
Period size: 41 Copynumber: 3.2 Consensus size: 41
110209 GACGTTTACA
* * *
110219 TGACAATTCAAAAACTTACATGTTAATCTACAATATTAATG
1 TGACAGTTCAAAAACTTACATGATAATCTACAATATTGATG
*
110260 TGACAGTTCAAAAACTTATATGATAATCTACAATATTGATG
1 TGACAGTTCAAAAACTTACATGATAATCTACAATATTGATG
110301 TGACAGTTCAAAAACTTACATGATAATCTACAATATTGATG
1 TGACAGTTCAAAAACTTACATGATAATCTACAATATTGATG
110342 TGACAGTTCA
1 TGACAGTTCA
110352 CAATTCTATT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (41 bp):
TGACAGTTCAAAAACTTACATGATAATCTACAATATTGATG
Found at i:110788 original size:20 final size:20
Alignment explanation
Indices: 110744--110800 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
110734 AAAAATATTA
*
110744 ATTTTTTATATTTTCACTTAT
1 ATTTTTTAT-TTTTCACTAAT
110765 -TTTTTTATTTTTCA-TAAAT
1 ATTTTTTATTTTTCACT-AAT
*
110784 ATTTTTTAGTTTT-ACTA
1 ATTTTTTATTTTTCACTA
110801 TAAATTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 10 0.32
20 20 0.65
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTTATTTTTCACTAAT
Found at i:110803 original size:22 final size:20
Alignment explanation
Indices: 110765--110805 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
110755 TTTCACTTAT
*
110765 TTTTTTATTTTTCATAAATA
1 TTTTTTATTTTACATAAATA
110785 TTTTTTAGTTTTACTATAAAT
1 TTTTTTA-TTTTAC-ATAAAT
110806 TAGGTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTTATTTTACATAAATA
Found at i:110998 original size:14 final size:14
Alignment explanation
Indices: 110979--111033 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
110969 GTTCGTGAAC
110979 GTTCGGTTATGTTT
1 GTTCGGTTATGTTT
110993 GTTCGGTTA----T
1 GTTCGGTTATGTTT
* *
111003 GTTCGTTTATGTTC
1 GTTCGGTTATGTTT
111017 GTTCGGTTATGTTT
1 GTTCGGTTATGTTT
111031 GTT
1 GTT
111034 TATGTTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
10 9 0.27
14 24 0.73
ACGTcount: A:0.07, C:0.09, G:0.27, T:0.56
Consensus pattern (14 bp):
GTTCGGTTATGTTT
Found at i:111006 original size:24 final size:24
Alignment explanation
Indices: 110979--111040 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
110969 GTTCGTGAAC
* *
110979 GTTCGGTTATGTTTGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
111003 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
111027 GTTTGTTTATGTTC
1 GTTCGTTTATGTTC
111041 ATTCATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.08, C:0.10, G:0.26, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:111050 original size:24 final size:24
Alignment explanation
Indices: 110998--111054 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
110988 TGTTTGTTCG
* * *
110998 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTTGTTTATGTTCATTCA
111022 GTTATGTTTGTTTATGTTCATTCA
1 GTTATGTTTGTTTATGTTCATTCA
*
111046 TTTATGTTT
1 GTTATGTTT
111055 AACTCAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (24 bp):
GTTATGTTTGTTTATGTTCATTCA
Found at i:111050 original size:38 final size:37
Alignment explanation
Indices: 110978--111053 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
110968 CGTTCGTGAA
* *
110978 CGTTCGGTTATGTTTGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTTGTTAGGTTA-GTTCATTTATGTT
*
111016 CGTTCGGTTATGTTTGTTTATGTTCA-TTCATTTATGTT
1 CGTTCGGTTATGTTTG-TTAGGTT-AGTTCATTTATGTT
111054 TAACTCAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 27 0.82
39 5 0.15
40 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.57
Consensus pattern (37 bp):
CGTTCGGTTATGTTTGTTAGGTTAGTTCATTTATGTT
Found at i:111437 original size:22 final size:22
Alignment explanation
Indices: 111409--111452 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
111399 TCCAACGTTT
111409 ATGTTCGTGTTCATTTATGTTC
1 ATGTTCGTGTTCATTTATGTTC
*
111431 ATGTTCGTGTTCGTTTATGTTC
1 ATGTTCGTGTTCATTTATGTTC
111453 GTTTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (22 bp):
ATGTTCGTGTTCATTTATGTTC
Found at i:111450 original size:16 final size:16
Alignment explanation
Indices: 111404--111458 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
111394 TGGTCTCCAA
*
111404 CGTTTATGTTCGTGTT
1 CGTTTATGTTCATGTT
*
111420 CATTTATGTTCATGTT
1 CGTTTATGTTCATGTT
* *
111436 CGTGTT-CGTTTATGTT
1 CGT-TTATGTTCATGTT
111452 CGTTTAT
1 CGTTTAT
111459 TATTAAATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 2 0.06
16 27 0.87
17 2 0.06
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCATGTT
Found at i:117039 original size:15 final size:16
Alignment explanation
Indices: 117019--117048 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
117009 TGTTGATTGA
117019 GATTCTCC-AAGTACC
1 GATTCTCCTAAGTACC
117034 GATTCTCCTAAGTAC
1 GATTCTCCTAAGTAC
117049 AAAAATCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (16 bp):
GATTCTCCTAAGTACC
Found at i:117292 original size:20 final size:20
Alignment explanation
Indices: 117269--117307 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
117259 AAACCGCATC
117269 ATCAACAATCAAACCACACT
1 ATCAACAATCAAACCACACT
117289 ATCAACAATCAAACCACAC
1 ATCAACAATCAAACCACAC
117308 CATATGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (20 bp):
ATCAACAATCAAACCACACT
Found at i:121882 original size:33 final size:33
Alignment explanation
Indices: 121859--121927 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
121849 GCTATGCCCT
*
121859 TGTGTTATTGGTACTGTGCAGCTGTCACTGCAG
1 TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
*
121892 TGTGTTATTGGTACTATGCAGCTGTTACTGCAG
1 TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
121925 TGT
1 TGT
121928 TCCTTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (33 bp):
TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
Found at i:122199 original size:17 final size:17
Alignment explanation
Indices: 122177--122213 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
122167 AGACATGTTG
122177 TTTTTGATGAGTTTAAC
1 TTTTTGATGAGTTTAAC
122194 TTTTTGATGAGTTTAAC
1 TTTTTGATGAGTTTAAC
122211 TTT
1 TTT
122214 CCATTTGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.16, T:0.57
Consensus pattern (17 bp):
TTTTTGATGAGTTTAAC
Found at i:127683 original size:18 final size:17
Alignment explanation
Indices: 127662--127725 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 17
127652 AGATTCAATC
127662 AAGAATAAAAAAGAAAAG
1 AAGAA-AAAAAAGAAAAG
*
127680 AAGAAAAAAAAGAAAAAAC
1 AAGAAAAAAAAG--AAAAG
127699 AAGAACAAAAAAGAAAAG
1 AAGAA-AAAAAAGAAAAG
127717 AAGCAAAAA
1 AAG-AAAAA
127726 TCAAAAGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.17
18 15 0.38
19 11 0.28
20 7 0.17
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAAGAAAAG
Found at i:127697 original size:19 final size:20
Alignment explanation
Indices: 127661--127715 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
127651 AAGATTCAAT
*
127661 CAAGAATAAAAAAG--AAAA
1 CAAGAACAAAAAAGAAAAAA
*
127679 GAAGAA-AAAAAAGAAAAAA
1 CAAGAACAAAAAAGAAAAAA
127698 CAAGAACAAAAAAGAAAA
1 CAAGAACAAAAAAGAAAA
127716 GAAGCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 7 0.22
18 5 0.16
19 9 0.28
20 11 0.34
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (20 bp):
CAAGAACAAAAAAGAAAAAA
Found at i:127725 original size:10 final size:9
Alignment explanation
Indices: 127662--127715 Score: 65
Period size: 9 Copynumber: 5.8 Consensus size: 9
127652 AGATTCAATC
127662 AAGAATAAAA
1 AAGAA-AAAA
*
127672 AAG-AAAAG
1 AAGAAAAAA
127680 AAGAAAAAA
1 AAGAAAAAA
127689 AAGAAAAAA
1 AAGAAAAAA
127698 CAAGAACAAAA
1 -AAGAA-AAAA
127709 AAGAAAA
1 AAGAAAA
127716 GAAGCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 6 0.15
9 16 0.41
10 13 0.33
11 4 0.10
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:128800 original size:18 final size:18
Alignment explanation
Indices: 128777--128812 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
128767 TCAACATCAA
*
128777 ATATTGGGACATTTTTGG
1 ATATTGGGACATCTTTGG
*
128795 ATATTGGGGCATCTTTGG
1 ATATTGGGACATCTTTGG
128813 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGGGACATCTTTGG
Found at i:129362 original size:38 final size:36
Alignment explanation
Indices: 129286--129355 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
129276 GTGCTCACCA
* *
129286 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAACT
129322 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAA
1 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAA
129356 ACCTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAACT
Found at i:130378 original size:106 final size:106
Alignment explanation
Indices: 130226--130647 Score: 659
Period size: 106 Copynumber: 4.0 Consensus size: 106
130216 GCGTCACCCG
*
130226 AGACAACACAAGTTCAAGTTCACAACGAAGGGAC-GACTGGTTGTCAACAAACAATTTCCCAATT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAG-CTGGTTGTCAACAAACAATTTCCCAATT
* *
130290 TCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCA
65 TCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
130332 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAATAAAAAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* ** *
130397 CAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGGACTTA
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
130438 AGACAGCACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* *
130503 CAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCG
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * *
130544 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTT-TCAACAAACAATTTCCCAGTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* *
130608 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTC
130648 TAAACAATAC
Statistics
Matches: 290, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
105 57 0.20
106 232 0.80
107 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:132102 original size:16 final size:16
Alignment explanation
Indices: 132083--132131 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
132073 TATTATTTAC
* *
132083 TTATTTTATTTATATG
1 TTATATTATATATATG
*
132099 TTATATTATATATATA
1 TTATATTATATATATG
132115 TATATATATATATATAT
1 T-TATAT-TATATATAT
132132 ATATATTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 5 0.18
18 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATATTATATATATG
Found at i:132112 original size:2 final size:2
Alignment explanation
Indices: 132100--132137 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
132090 ATTTATATGT
132100 TA TA T- TA TA TA TA 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 TA TA TA TA TA TA TA T
132138 TACATTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:133117 original size:14 final size:14
Alignment explanation
Indices: 133100--133138 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
133090 GAACGTTCAA
*
133100 TTATGTTCGTTCGT
1 TTATGTTCGTTCGG
133114 TTATGTTCGTTCGG
1 TTATGTTCGTTCGG
133128 TTATGTTCGTT
1 TTATGTTCGTT
133139 TATGTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (14 bp):
TTATGTTCGTTCGG
Found at i:133155 original size:24 final size:24
Alignment explanation
Indices: 133108--133158 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
133098 AATTATGTTC
* *
133108 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
*
133132 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
133156 GTT
1 GTT
133159 TAACCCAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCAGTTAT
Found at i:134235 original size:16 final size:16
Alignment explanation
Indices: 134210--134275 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
134200 CCAACGTTTA
134210 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
134226 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
134242 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
**
134258 TGCGCGTTTTATGTTCG
1 TGTTCG-TTTATGTTCG
134275 T
1 T
134276 TTATTTAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
16 34 0.76
17 11 0.24
ACGTcount: A:0.08, C:0.14, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:134367 original size:16 final size:16
Alignment explanation
Indices: 134346--134376 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
134336 AAAAAAAATT
134346 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
134362 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
134377 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:137792 original size:17 final size:18
Alignment explanation
Indices: 137768--137812 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
137758 TTTTTTACAT
*
137768 TAATAAAAAATATGAATA
1 TAATAAAAAATATGAAAA
* *
137786 T-ATAAAACATATTAAAA
1 TAATAAAAAATATGAAAA
137803 TAATAAAAAA
1 TAATAAAAAA
137813 AATATTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAATAAAAAATATGAAAA
Found at i:137844 original size:15 final size:15
Alignment explanation
Indices: 137826--137856 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
137816 ATTTTAAGTT
137826 AATATATTTTTAAAA
1 AATATATTTTTAAAA
137841 AATATATTTTTAAAA
1 AATATATTTTTAAAA
137856 A
1 A
137857 TTAAGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:137928 original size:31 final size:30
Alignment explanation
Indices: 137836--137937 Score: 111
Period size: 31 Copynumber: 3.3 Consensus size: 30
137826 AATATATTTT
*
137836 TAAAAAATATATTTTTAAAAATTAAGATAAAAA
1 TAAAATATATATTTTT---AATTAAGATAAAAA
*
137869 TAAAA-ATATA--TTTAAGTGAAGATAAAAA
1 TAAAATATATATTTTTAA-TTAAGATAAAAA
*
137897 TAAAATATATATTTTTACATTAAAATAAAAA
1 TAAAATATATATTTTTA-ATTAAGATAAAAA
137928 TAAAATATAT
1 TAAAATATAT
137938 TAAAAATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.03
28 16 0.26
29 5 0.08
30 3 0.05
31 24 0.39
32 6 0.10
33 5 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
TAAAATATATATTTTTAATTAAGATAAAAA
Found at i:137989 original size:31 final size:30
Alignment explanation
Indices: 137839--137990 Score: 91
Period size: 31 Copynumber: 5.0 Consensus size: 30
137829 ATATTTTTAA
* *
137839 AAAATATATTTTTAA-AAATTAAGATAAAAAT
1 AAAATATA--TTTAATAATTTAAAATAAAAAT
* * *
137870 AAAA-ATATATT--TAAGTGAAGATAAAAAT
1 AAAATATAT-TTAATAATTTAAAATAAAAAT
**
137898 AAAATATATATTTTTACA-TTAAAATAAAAAT
1 AAAATATAT-TTAATA-ATTTAAAATAAAAAT
* * *
137929 AAAATATA-TTAAAAATATTGACATAAAAAAT
1 AAAATATATTTAATAAT-TTAAAAT-AAAAAT
*
137960 AAAATATATTTAATAATTTAATATGAAAAAT
1 AAAATATATTTAATAATTTAAAAT-AAAAAT
137991 TTTAAATTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
28 20 0.20
29 12 0.12
30 8 0.08
31 50 0.51
32 8 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATATATTTAATAATTTAAAATAAAAAT
Found at i:142147 original size:58 final size:57
Alignment explanation
Indices: 142073--142191 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 57
142063 ACTTTATGTG
* * *
142073 ATCATTTAAAATTCTCAAAAAAATAAAATGAACGATTTATTTTCCATACAAATTTAGA
1 ATCATTCAAAATTCTCAAAAAAAT-AAATGAACAATTTATTTTCCATACAAAGTTAGA
* ** * * *
142131 ATCATTCAAGATTCTCAAGGAAATGAATTAACAATTTATTTTCCTTACAAAGTTAGA
1 ATCATTCAAAATTCTCAAAAAAATAAATGAACAATTTATTTTCCATACAAAGTTAGA
142188 ATCA
1 ATCA
142192 ACGCAAACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 32 0.62
58 20 0.38
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (57 bp):
ATCATTCAAAATTCTCAAAAAAATAAATGAACAATTTATTTTCCATACAAAGTTAGA
Found at i:142914 original size:44 final size:44
Alignment explanation
Indices: 142751--143012 Score: 168
Period size: 45 Copynumber: 5.8 Consensus size: 44
142741 TAATTTTAGC
* * * * * * *
142751 AACCAAATAACCAAAAGGAACTAACCCTTTGATTTTGATTATCGT
1 AACCCAATAATCAAAAGGAATTAATCATTTGATTTTAATT-TCGA
** * * *
142796 AATTCAATAATCAAAAGGAACTAAT-ACTTTGATTTTAATTTTGGC
1 AACCCAATAATCAAAAGGAATTAATCA-TTTGATTTTAA-TTTCGA
* * * *
142841 AGCCCAAAAATCCAAAGGAATTCATCATTTGATTTTAATTTCGA
1 AACCCAATAATCAAAAGGAATTAATCATTTGATTTTAATTTCGA
* *
142885 AACCCAATAATCAAAATGG-ATTAATCATTTGATTCTAATTTTTGA
1 AACCCAATAATCAAAA-GGAATTAATCATTTGATTTTAA-TTTCGA
* * * * * * * *
142930 TAACCTAGTGATTAAAAGGAATTAATCCTTTTATTTTACTTTTGA
1 -AACCCAATAATCAAAAGGAATTAATCATTTGATTTTAATTTCGA
* ** * *
142975 CGACATAATAATAAAAAGGAATCAATCATTTGATTTTA
1 -AACCCAATAATCAAAAGGAATTAATCATTTGATTTTA
143013 TCTTTGGCAA
Statistics
Matches: 169, Mismatches: 41, Indels: 14
0.75 0.18 0.06
Matches are distributed among these distances:
44 34 0.20
45 105 0.62
46 30 0.18
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (44 bp):
AACCCAATAATCAAAAGGAATTAATCATTTGATTTTAATTTCGA
Found at i:143035 original size:45 final size:44
Alignment explanation
Indices: 142854--143035 Score: 113
Period size: 45 Copynumber: 4.0 Consensus size: 44
142844 CCAAAAATCC
* *
142854 AAAGGAATTC-ATCATTTGATTTTAATTTCGA-AACCCAATAATCAA
1 AAAGGAA-TCAATCATTTGATTTTACTTT-GACAA-CCAATAATTAA
* * * * * * *
142899 AATGG-ATTAATCATTTGATTCTAATTTTTGATAACCTAGTGATT-A
1 AAAGGAATCAATCATTTGATT-TTA-CTTTGACAACC-AATAATTAA
* * * * *
142944 AAAGGAATTAATCCTTTTATTTTACTTTTGACGACATAATAA-TAA
1 AAAGGAATCAATCATTTGATTTTAC-TTTGACAAC-CAATAATTAA
*
142989 AAAGGAATCAATCATTTGATTTTATCTTTGGCAACCAATAATTAA
1 AAAGGAATCAATCATTTGATTTTA-CTTTGACAACCAATAATTAA
143034 AA
1 AA
143036 GCTTTGGATT
Statistics
Matches: 103, Mismatches: 23, Indels: 22
0.70 0.16 0.15
Matches are distributed among these distances:
43 1 0.01
44 18 0.17
45 61 0.59
46 23 0.22
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (44 bp):
AAAGGAATCAATCATTTGATTTTACTTTGACAACCAATAATTAA
Found at i:146226 original size:15 final size:15
Alignment explanation
Indices: 146206--146239 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
146196 ATTATCGATG
146206 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
146221 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
146236 AATT
1 AATT
146240 AGAATTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:149138 original size:4 final size:4
Alignment explanation
Indices: 149124--149177 Score: 99
Period size: 4 Copynumber: 13.2 Consensus size: 4
149114 CCGATACGTA
149124 CTTT GCTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
149173 CTTT C
1 CTTT C
149178 GGGTTTTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 45 0.92
5 4 0.08
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:152804 original size:18 final size:19
Alignment explanation
Indices: 152755--152804 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
152745 TAAACATGTT
152755 AAAATATAATAATTTACAAA
1 AAAATATAA-AATTTACAAA
**
152775 AAAA-ATTTAATTTA-AAA
1 AAAATATAAAATTTACAAA
*
152792 AAAATATCAAATT
1 AAAATATAAAATT
152805 GATTAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.28
18 12 0.48
19 2 0.08
20 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATAAAATTTACAAA
Found at i:158102 original size:16 final size:16
Alignment explanation
Indices: 158076--158113 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
158066 TCTACTAAAG
158076 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
158093 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
158109 CATGT
1 CATGT
158114 GAATAAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:168083 original size:13 final size:12
Alignment explanation
Indices: 168067--168129 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
168057 AAAAATAATG
*
168067 AAAAAATGAAAT
1 AAAAAATGAAAA
* *
168079 AAAAAAGGAGAA
1 AAAAAATGAAAA
168091 AAAAAATGAAAA
1 AAAAAATGAAAA
168103 AGAAAAATG-AAA
1 A-AAAAATGAAAA
**
168115 AATGAATGAAAA
1 AAAAAATGAAAA
168127 AAA
1 AAA
168130 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 5 0.12
12 29 0.71
13 7 0.17
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:168099 original size:32 final size:30
Alignment explanation
Indices: 168054--168138 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 30
168044 TATTTTGCTT
*
168054 GAAAAAAATAATGAAAAAATGAAATAAAAAAG
1 GAAAAAAA-AATGAAAAAA-AAAATAAAAAAG
* *
168086 GAGAAAAAAAATGAAAAAGAAAAATGAAAAAT
1 GA-AAAAAAAATGAAAAA-AAAAATAAAAAAG
168118 GAATGAAAAAAATGAAAAAAA
1 GAA--AAAAAAATGAAAAAAA
168139 GAAGGGTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 1 0.02
32 24 0.52
33 21 0.46
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (30 bp):
GAAAAAAAAATGAAAAAAAAAATAAAAAAG
Found at i:168115 original size:20 final size:20
Alignment explanation
Indices: 168092--168136 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
168082 AAAGGAGAAA
168092 AAAAATGAA-AAAGAAAAATG
1 AAAAATGAATAAA-AAAAATG
*
168112 AAAAATGAATGAAAAAAATG
1 AAAAATGAATAAAAAAAATG
168132 AAAAA
1 AAAAA
168137 AAGAAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAATGAATAAAAAAAATG
Found at i:168116 original size:24 final size:24
Alignment explanation
Indices: 168067--168129 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
168057 AAAAATAATG
*
168067 AAAAAATGAAATAAAAAAGGAGAA
1 AAAAAATGAAAAAAAAAAGGAGAA
*
168091 AAAAAATGAAAAAGAAAAATGA-AA
1 AAAAAATGAAAAA-AAAAAGGAGAA
**
168115 AATGAATGAAAAAAA
1 AAAAAATGAAAAAAA
168130 TGAAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.06
24 25 0.74
25 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (24 bp):
AAAAAATGAAAAAAAAAAGGAGAA
Found at i:168136 original size:7 final size:7
Alignment explanation
Indices: 168092--168120 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
168082 AAAGGAGAAA
168092 AAAAATG
1 AAAAATG
168099 AAAAA-G
1 AAAAATG
168105 AAAAATG
1 AAAAATG
168112 AAAAATG
1 AAAAATG
168119 AA
1 AA
168121 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:169226 original size:55 final size:55
Alignment explanation
Indices: 169141--169848 Score: 960
Period size: 55 Copynumber: 12.9 Consensus size: 55
169131 AGATTTCCCA
* *
169141 ACGATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
169196 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
169251 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* ** * *
169306 ACGATTGTTGAAAATCATTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
169361 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
169416 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAAT-GGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
169470 ACGATTGATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
169525 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
169580 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
169635 ACGATTGATGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
169690 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * ** * *
169746 ACGATTGATGAAGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAGC-GAAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-AC
* ** * * *
169799 CCG-TTGACAGAAGATTGTTCGAGT-TCTATACTCCCCGAAGAAAGAGGGAG
1 ACGATTG-TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAG
169849 TGAACTCGTT
Statistics
Matches: 588, Mismatches: 59, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
52 4 0.01
53 30 0.05
54 66 0.11
55 437 0.74
56 51 0.09
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:169814 original size:274 final size:275
Alignment explanation
Indices: 169143--169848 Score: 958
Period size: 274 Copynumber: 2.6 Consensus size: 275
169133 ATTTCCCAAC
* * * * *
169143 GATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAA
1 GATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGATGAA
*
169208 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGA
66 GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGA
* *
169273 GTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAAATCATTCGAGTCTTATACT
131 GTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATGAAAATCATTCAAGTCTTATACT
* * *
169338 CTATGCAGAAATAGGGAGCAGACACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAA
196 CTATGAAGAAATAGGGAGCAGACACGACTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA
*
169403 ATAGGGAGCAGACAC
261 ATAGGGAGCAGACAA
*
169418 GATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGG-AAT-GGGAGCAGACACGATTGATGA
1 GATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AGGAAATAGGGAGCAGACACGATTGATGA
* * * *
169481 AAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACTGTTGAAGATTGTTGG
65 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCG
* * **
169546 AGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATGAAGATTGTTCAAGTCTTATAC
130 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATGAAAATCATTCAAGTCTTATAC
* * * * *
169611 TCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAGATTGTTCGGGTCTTATACTCTCTGAAGA
195 TCTATGAAGAAATAGGGAGCAGACACGACTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGA
169676 AATAGGGAGCAGACAA
260 AATAGGGAGCAGACAA
* *
169692 GATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGATGA
1 GA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGATGA
* * ** * * * **
169757 AGATTCTTCAAGT-TCCTACTCCCT-AAGAAAGAGGGAGC-GAACCCG-TTGACAGAAGATTGTT
65 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTG-TTGAAGATTGTT
* * *
169818 CGAGT-TCTATACTCCCCGAAGAAAGAGGGAG
128 CGAGTCT-TATACTCTCTGAAGAAATAGGGAG
169849 TGAACTCGTT
Statistics
Matches: 378, Mismatches: 46, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
273 4 0.01
274 265 0.70
275 76 0.20
276 33 0.09
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (275 bp):
GATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGATGAA
GATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGA
GTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATGAAAATCATTCAAGTCTTATACT
CTATGAAGAAATAGGGAGCAGACACGACTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA
ATAGGGAGCAGACAA
Found at i:169865 original size:55 final size:55
Alignment explanation
Indices: 169755--169912 Score: 191
Period size: 55 Copynumber: 2.9 Consensus size: 55
169745 CACGATTGAT
* * * *
169755 GAAGATTCTTCAAGTTC-CTACT-CCCTAAGAAAGAGGGAGCGAACCCGTTGACA
1 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTGACA
* *
169808 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCG-CA
1 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTT-GACA
* *
169863 GAAAATTGTTCGAGTTCTATACT-CCCTAA-AAATGAGGGAGCGAACCCGTT
1 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAA-GAGGGAGCGAACCCGTT
169913 TTCCGAATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
53 18 0.20
54 24 0.26
55 48 0.53
56 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGCGAACCCGTTGACA
Found at i:169886 original size:219 final size:219
Alignment explanation
Indices: 169141--169848 Score: 957
Period size: 219 Copynumber: 3.2 Consensus size: 219
169131 AGATTTCCCA
* * * *
169141 ACGATT-ATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTT
1 ACGATTGA-TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCAGACACGATTGAT
*
169205 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTT
65 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
*
169270 CGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAA-AATCATTCGAGTCTTA
130 CGAGTCTTATACTCTCTG-AGAAATAGGGAGCAGACACGATTGTTGAAGATTC-TTCGAGTCTTA
*
169334 TACTCTATGCAGAAATAGGGAGCAGAC
193 TACTCTCTGCAGAAATAGGGAGCAGAC
* * * *
169361 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTGATG
1 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCAGACACGATTGATG
* * *
169426 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAAT-GGGAGCAGACACGATTGATGAAAATTGTTC
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
* * *
169490 GAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACTGTTGAAGATTGTTGGAGTCTTATA
131 GAGTCTTATACTCTCTG-AGAAATAGGGAGCAGACACGATTGTTGAAGATTCTTCGAGTCTTATA
169555 CTCTCTGCAGAAATAGGGAGCAGAC
195 CTCTCTGCAGAAATAGGGAGCAGAC
* *
169580 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATG-GGGAGCAGACACGATTGAT
1 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAA-GAAAGAGGGAGCAGACACGATTGAT
* *
169644 GAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGATTTGTTGAAGATTGT
65 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGTTGAAGATTGT
* * * * **
169709 TTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGACACGATTGATGAAGATTCTTCAAGT-TCC
129 TCGAGTCTTATACTCTCTGA-GAAATAGGGAGCAGACACGATTGTTGAAGATTCTTCGAGTCTTA
* * *
169773 TACTCCCT-AAGAAAGAGGGAGC-GAAC
193 TACTCTCTGCAGAAATAGGGAGCAG-AC
* * * *
169799 CCG-TTGACAGAAGATTGTTCGAGT-TCTATACTCCCCGAAGAAAGAGGGAG
1 ACGATTGA-TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAAGAGGGAG
169849 TGAACTCGTT
Statistics
Matches: 433, Mismatches: 45, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
218 10 0.02
219 241 0.56
220 118 0.27
221 64 0.15
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (219 bp):
ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAGAGGGAGCAGACACGATTGATG
AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
GAGTCTTATACTCTCTGAGAAATAGGGAGCAGACACGATTGTTGAAGATTCTTCGAGTCTTATAC
TCTCTGCAGAAATAGGGAGCAGAC
Found at i:185581 original size:21 final size:22
Alignment explanation
Indices: 185557--185604 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
185547 AATAATTAAA
185557 AAAATATATTTA-TAATATTAT
1 AAAATATATTTATTAATATTAT
* * *
185578 AAAAAATATTTATTAATTTTTT
1 AAAATATATTTATTAATATTAT
185600 AAAAT
1 AAAAT
185605 CCAATTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATATTTATTAATATTAT
Found at i:185770 original size:16 final size:16
Alignment explanation
Indices: 185721--185775 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
185711 GGTTCCACAC
185721 AATATTATTTAAAATT
1 AATATTATTTAAAATT
*
185737 AAATAGATAATTTAAAATT
1 -AAT--ATTATTTAAAATT
* *
185756 AATATTATTTCAAATA
1 AATATTATTTAAAATT
185772 AATA
1 AATA
185776 AATGAGATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 14 0.44
17 3 0.09
18 3 0.09
19 12 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AATATTATTTAAAATT
Found at i:185851 original size:23 final size:22
Alignment explanation
Indices: 185817--185880 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 22
185807 TTTTTAAAAT
185817 ATTTTCAT-AATATTATAAATAA
1 ATTTT-ATAAATATTATAAATAA
185839 ACTTTTA-AGAATAATT-TAATATAA
1 A-TTTTATA-AAT-ATTATAA-ATAA
185863 ATTTTATAAATA-TATAAA
1 ATTTTATAAATATTATAAA
185881 AATAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 18 0.51
24 9 0.26
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTATAAATATTATAAATAA
Found at i:202314 original size:2 final size:2
Alignment explanation
Indices: 202307--202333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
202297 AATCATAACT
202307 TA 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 TA T
202334 TCATGGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:202642 original size:6 final size:6
Alignment explanation
Indices: 202631--202667 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
202621 GAATGGCAAC
202631 GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GGG-CG GG
1 GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GG
202668 TTTTGCTCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.16, G:0.70, T:0.14
Consensus pattern (6 bp):
GGGTCG
Found at i:206157 original size:45 final size:46
Alignment explanation
Indices: 206091--206197 Score: 173
Period size: 45 Copynumber: 2.3 Consensus size: 46
206081 GGTGCACTAA
*
206091 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCCT
*
206136 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
206182 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
206198 GGTATGTGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
45 30 0.52
46 25 0.43
47 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
Found at i:206272 original size:65 final size:64
Alignment explanation
Indices: 206138--206283 Score: 172
Period size: 65 Copynumber: 2.2 Consensus size: 64
206128 AATAGCCTGA
*
206138 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAACCATGAGTGCATCGATGCATGGTAT
* * **
206203 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-A-TAAAACCATGAGTGCATCGATGCATGGTA
206265 TT
64 -T
*
206267 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
206284 CTTTAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
63 4 0.06
64 18 0.26
65 48 0.69
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:209052 original size:20 final size:20
Alignment explanation
Indices: 209011--209052 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
209001 TGCATGATTA
*
209011 TATGTGTTGATATGTTTTTG
1 TATGTGTTGATATGTTTATG
209031 TATGTGTT-ATATGATTTATG
1 TATGTGTTGATATG-TTTATG
209051 TA
1 TA
209053 AAAAGACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (20 bp):
TATGTGTTGATATGTTTATG
Found at i:212699 original size:15 final size:16
Alignment explanation
Indices: 212681--212748 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
212671 AATTATAATT
212681 TAAAA-AGAAAAATAA
1 TAAAATAGAAAAATAA
*
212696 TAAAATAAATAATAATAAA
1 TAAAATAGA-AA-AAT-AA
*
212715 TAAAA-AGGGAAAATAA
1 TAAAATA-GAAAAATAA
*
212731 TAAAATA-ATAAATAA
1 TAAAATAGAAAAATAA
212746 TAA
1 TAA
212749 CAGTAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
15 14 0.33
16 9 0.21
17 6 0.14
18 6 0.14
19 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAATAGAAAAATAA
Found at i:212700 original size:35 final size:35
Alignment explanation
Indices: 212659--212748 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
212649 GATATAATAA
* *
212659 AATAAAATAAATAATTATAATTTAAAAA-GAAAAAT
1 AATAAAATAAATAATAATAA-ATAAAAAGGAAAAAT
*
212694 AATAAAATAAATAATAATAAATAAAAAGGGAAAAT
1 AATAAAATAAATAATAATAAATAAAAAGGAAAAAT
212729 AATAAAAT-AATAAATAATAA
1 AATAAAATAAAT-AATAATAA
212749 CAGTAAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 9 0.18
35 41 0.82
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (35 bp):
AATAAAATAAATAATAATAAATAAAAAGGAAAAAT
Found at i:212704 original size:20 final size:20
Alignment explanation
Indices: 212652--212742 Score: 60
Period size: 20 Copynumber: 4.4 Consensus size: 20
212642 TTGAAAAGAT
*
212652 ATAATAAAATAAAATAAATA
1 ATAATAAAATAAAATAAAAA
* **
212672 ATTATAATTTAAAA-AGAAAA
1 ATAATAAAATAAAATA-AAAA
*
212692 ATAATAAAATAAATAATAATAA
1 ATAATAAAAT-AA-AATAAAAA
**
212714 ATAA-AAAGGGAAAATAATAAA
1 ATAATAAA-ATAAAATAA-AAA
212735 ATAATAAA
1 ATAATAAA
212743 TAATAACAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 1 0.02
20 26 0.49
21 13 0.25
22 12 0.23
23 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
ATAATAAAATAAAATAAAAA
Found at i:212812 original size:18 final size:18
Alignment explanation
Indices: 212789--212831 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
212779 TTATTTTTTA
212789 AAATAAAAGATAAA-AATT
1 AAATAAAAGA-AAATAATT
212807 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
212825 AAATAAA
1 AAATAAA
212832 TAATCTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:213529 original size:71 final size:75
Alignment explanation
Indices: 213402--213597 Score: 213
Period size: 76 Copynumber: 2.7 Consensus size: 75
213392 AAAATAAGCT
* * * * * *
213402 ATAACATCTTAAATCCTAATTAAAACACTTAAAA-CAATTTAAACTAAAATATCT-AA-AAA-AT
1 ATAATATCCTAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAACACCTAAACAAAGAT
* *
213463 AATAT-TTAAA
65 AAAATATAAAA
* * *
213473 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTGAAGCACCTAAAACAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCT-AAACAAAGAT
213538 AAAATATAAAA
65 AAAATATAAAA
* * *
213549 ATAATATCCTAAAACTTAATTAAATTACTAAAACCTATTTAAACTAAAA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAA
213598 TACAAAGATA
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
70 5 0.05
71 39 0.38
73 2 0.02
74 3 0.03
75 6 0.06
76 47 0.46
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAACAAAGATA
AAATATAAAA
Found at i:213624 original size:76 final size:76
Alignment explanation
Indices: 213402--213636 Score: 209
Period size: 76 Copynumber: 3.2 Consensus size: 76
213392 AAAATAAGCT
* * * * * * *
213402 ATAACATCTTAAATCCTAATTAAAACACTTAAAA-CAATTTAAACTAAAATATCT---A-AAAA-
1 ATAATATCCTAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAACACCTAAAATAAAAT
213461 ATAATATTTAAA
65 ATAATATTTAAA
* * * * *
213473 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTGAAGCACCTAAAACAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAATAAA-AT
* *
213538 AAAATA-TAAAA
65 ATAATATTTAAA
* * *
213549 ATAATATCCTAAAACTTAATTAAATTACTAAAACCTATTTAAACTAAAATA-C-AAAGATAAAAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAA-ATAAAAT
*
213612 ATAATGTTTAAA
65 ATAATATTTAAA
*
213624 ATATTATCCTAAA
1 ATAATATCCTAAA
213637 CTTGGGTTTA
Statistics
Matches: 132, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
70 5 0.04
71 39 0.30
74 10 0.08
75 24 0.18
76 49 0.37
77 5 0.04
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAATAAAATA
TAATATTTAAA
Found at i:215325 original size:5 final size:5
Alignment explanation
Indices: 215315--215365 Score: 75
Period size: 5 Copynumber: 9.8 Consensus size: 5
215305 AAGTTTGCTA
*
215315 AAAAT AAAAT AAAAAT AAAAT GAAAAT AAAAT GAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
215366 AAATAGAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 32 0.76
6 10 0.24
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:215366 original size:11 final size:10
Alignment explanation
Indices: 215315--215365 Score: 75
Period size: 11 Copynumber: 4.9 Consensus size: 10
215305 AAGTTTGCTA
215315 AAAATAAAAT
1 AAAATAAAAT
215325 AAAAATAAAAT
1 -AAAATAAAAT
215336 GAAAATAAAAT
1 -AAAATAAAAT
*
215347 GAAATAAAAT
1 AAAATAAAAT
215357 AAAATAAAA
1 AAAATAAAA
215366 AAATAGAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
10 17 0.46
11 20 0.54
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:218932 original size:16 final size:16
Alignment explanation
Indices: 218909--218955 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
218899 ATTTTTTTCG
*
218909 TATTTTTATATTTAAT
1 TATTTTTATATTTAAA
*
218925 TTTTTTTAATATTTAAA
1 TATTTTT-ATATTTAAA
*
218942 TAATTTTATATTTA
1 TATTTTTATATTTA
218956 TAAACTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTTATATTTAAA
Found at i:218989 original size:24 final size:24
Alignment explanation
Indices: 218925--218989 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
218915 TATATTTAAT
**
218925 TTTTTTTAATATTTAAATAATTTTA
1 TTTTTTTAA-ATCAAAATAATTTTA
* * *
218950 TATTTATAAA-CTAAAATATTTTTA
1 TTTTTTTAAATC-AAAATAATTTTA
218974 TTTTTTTAAATCAAAA
1 TTTTTTTAAATCAAAA
218990 AAGCCCTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTTTAAATCAAAATAATTTTA
Found at i:220353 original size:15 final size:15
Alignment explanation
Indices: 220333--220375 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
220323 GAATATAATA
* *
220333 TAATATTTTTATATT
1 TAATATTATAATATT
*
220348 TAATATTATAATTTT
1 TAATATTATAATATT
220363 TAATATTATAATA
1 TAATATTATAATA
220376 ATACTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTATAATATT
Found at i:220359 original size:23 final size:23
Alignment explanation
Indices: 220326--220375 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
220316 ATTTTCAGAA
*
220326 TATAATATAAT-ATTTTT-ATAT
1 TATAATATTATAATTTTTAATAT
220347 T-TAATATTATAATTTTTAATAT
1 TATAATATTATAATTTTTAATAT
220369 TATAATA
1 TATAATA
220376 ATACTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 5 0.20
23 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATAATATTATAATTTTTAATAT
Found at i:221846 original size:15 final size:15
Alignment explanation
Indices: 221826--221857 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
221816 ATCAATTAGA
221826 GAGATTGAGCATTTG
1 GAGATTGAGCATTTG
221841 GAGATTGAGCATTTG
1 GAGATTGAGCATTTG
221856 GA
1 GA
221858 ACACCATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.31
Consensus pattern (15 bp):
GAGATTGAGCATTTG
Done.