Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_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: 1788856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:510 original size:17 final size:17
Alignment explanation
Indices: 490--522 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
480 GTATGATTAA
490 GAATGT-TTCATGATGTT
1 GAATGTATT-ATGATGTT
507 GAATGTATTATGATGT
1 GAATGTATTATGATGT
523 GTTTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (17 bp):
GAATGTATTATGATGTT
Found at i:1495 original size:2 final size:2
Alignment explanation
Indices: 1488--1515 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1478 TGACTGAAGA
1488 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
1516 GGATAGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3480 original size:2 final size:2
Alignment explanation
Indices: 3473--3502 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3463 CATGAGTAAG
3473 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
3503 CAGAATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6738 original size:21 final size:21
Alignment explanation
Indices: 6712--6751 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6702 CTACGTCCTG
6712 TATGGGGCAACAATAATGGAT
1 TATGGGGCAACAATAATGGAT
*
6733 TATGGGGCAGCAATAATGG
1 TATGGGGCAACAATAATGG
6752 TGGGAGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.23
Consensus pattern (21 bp):
TATGGGGCAACAATAATGGAT
Found at i:6895 original size:20 final size:19
Alignment explanation
Indices: 6872--6933 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
6862 AGGGAGAAAA
6872 AAAGAAGAGAAAAGAGGAAG
1 AAAGAAGA-AAAAGAGGAAG
* *
6892 AAAGAAGATAAATGAGAAAG
1 AAAGAAGA-AAAAGAGGAAG
6912 AAAGAA-AAAGAAGA-GAAG
1 AAAGAAGAAA-AAGAGGAAG
6930 AAAG
1 AAAG
6934 TTAAAGTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.25
19 4 0.11
20 23 0.64
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (19 bp):
AAAGAAGAAAAAGAGGAAG
Found at i:7283 original size:37 final size:37
Alignment explanation
Indices: 7229--7309 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
7219 TTTTACTTGT
*
7229 TTAAATTAAATTAGTTACATAGTAGATTATGTTTAGA
1 TTAAATTAAATTAGTTACATAGTAGATTATGTTTAAA
* * *
7266 TTAAATTAAATTGGTTACTTAGTAGATTATTTTTAAA
1 TTAAATTAAATTAGTTACATAGTAGATTATGTTTAAA
*
7303 TTGAATT
1 TTAAATT
7310 CGTTATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (37 bp):
TTAAATTAAATTAGTTACATAGTAGATTATGTTTAAA
Found at i:9799 original size:19 final size:19
Alignment explanation
Indices: 9775--9852 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 19
9765 TTATACTAAA
*
9775 AAAATACATAAATCATTAT
1 AAAATACATAAATTATTAT
* *
9794 AAAAT--A-AAGTTAAT-T
1 AAAATACATAAATTATTAT
9809 AAAATACATAAATTATTAT
1 AAAATACATAAATTATTAT
*
9828 AAAAT-CAAGTTAATTATTAT
1 AAAATAC-A-TAAATTATTAT
9848 AAAAT
1 AAAAT
9853 CAAATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
15 6 0.13
16 5 0.11
17 2 0.04
18 7 0.15
19 12 0.26
20 15 0.32
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAATACATAAATTATTAT
Found at i:9813 original size:34 final size:34
Alignment explanation
Indices: 9775--9843 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
9765 TTATACTAAA
9775 AAAATACATAAATCATTATAAAATAAAGTTAATT
1 AAAATACATAAATCATTATAAAATAAAGTTAATT
* *
9809 AAAATACATAAATTATTATAAAATCAAGTTAATT
1 AAAATACATAAATCATTATAAAATAAAGTTAATT
9843 A
1 A
9844 TTATAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (34 bp):
AAAATACATAAATCATTATAAAATAAAGTTAATT
Found at i:9843 original size:17 final size:16
Alignment explanation
Indices: 9789--9844 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
9779 TACATAAATC
9789 ATTATAAAATAAAGTTA
1 ATTATAAAAT-AAGTTA
* *
9806 ATTAAAATACATAAATT-
1 ATTATAA-A-ATAAGTTA
9823 ATTATAAAATCAAGTTA
1 ATTATAAAAT-AAGTTA
9840 ATTAT
1 ATTAT
9845 TATAAAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 17 0.55
18 5 0.16
19 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTATAAAATAAGTTA
Found at i:9844 original size:20 final size:21
Alignment explanation
Indices: 9819--9927 Score: 84
Period size: 20 Copynumber: 5.0 Consensus size: 21
9809 AAAATACATA
9819 AATTATTATAAAATCAAGT-T
1 AATTATTATAAAATCAAGTAT
*
9839 AATTATTATAAAATCAAATAT
1 AATTATTATAAAATCAAGTAT
9860 ATATATATATATATATATAT-ATA-TAT
1 A-AT-TAT-TATA-A-A-ATCA-AGTAT
* *
9886 AAATTATTATAAAATTAGGT-T
1 -AATTATTATAAAATCAAGTAT
9907 AATTATTATAAAATCAA-TAT
1 AATTATTATAAAATCAAGTAT
9927 A
1 A
9928 TACATACATA
Statistics
Matches: 73, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
19 1 0.01
20 35 0.48
21 5 0.07
22 5 0.07
23 4 0.05
24 8 0.11
25 4 0.05
26 7 0.10
27 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTATTATAAAATCAAGTAT
Found at i:9863 original size:2 final size:2
Alignment explanation
Indices: 9856--9886 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9846 ATAAAATCAA
9856 AT AT 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 AT AT A
9887 AATTATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9939 original size:51 final size:49
Alignment explanation
Indices: 9839--9968 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 49
9829 AAATCAAGTT
** * * *
9839 AATTATTATAAAATCAAATA-TA-TATATATAT-ATATATATATATATATA
1 AATTATTATAAAATCAGTTATTATTATA-AAATCA-ATATATACATACATA
*
9887 AATTATTATAAAATTAGGTTAATTATTATAAAATCAATATATACATACATA
1 AATTATTATAAAATCA-GTT-ATTATTATAAAATCAATATATACATACATA
9938 AATTATTATAAAATCAGTTATTATTATAAAA
1 AATTATTATAAAATCAGTTATTATTATAAAA
9969 AAATTCAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
48 15 0.21
49 13 0.19
50 4 0.06
51 33 0.47
52 5 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (49 bp):
AATTATTATAAAATCAGTTATTATTATAAAATCAATATATACATACATA
Found at i:14791 original size:20 final size:20
Alignment explanation
Indices: 14763--14803 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14753 TGAGCTTTCA
14763 TGATAGTATCAGTACTACCT
1 TGATAGTATCAGTACTACCT
* *
14783 TGATGGTATCGGTACTACCT
1 TGATAGTATCAGTACTACCT
14803 T
1 T
14804 TGCCTAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TGATAGTATCAGTACTACCT
Found at i:18836 original size:21 final size:21
Alignment explanation
Indices: 18812--18856 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18802 TAGTGCTTTC
18812 CTAAAATGCCTTAGAACTGAA
1 CTAAAATGCCTTAGAACTGAA
* *
18833 CTAAAGTGCCTTAGAATTGAA
1 CTAAAATGCCTTAGAACTGAA
18854 CTA
1 CTA
18857 GAGTATATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
CTAAAATGCCTTAGAACTGAA
Found at i:22566 original size:17 final size:17
Alignment explanation
Indices: 22541--22574 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22531 TTGATAAACT
*
22541 TGGAGAAGAAAAGAAGA
1 TGGAAAAGAAAAGAAGA
*
22558 TGGAAAAGAAATGAAGA
1 TGGAAAAGAAAAGAAGA
22575 AGAAGACAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.09
Consensus pattern (17 bp):
TGGAAAAGAAAAGAAGA
Found at i:33640 original size:10 final size:10
Alignment explanation
Indices: 33617--33648 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33607 GAATGAATAA
33617 TTTATTTA--
1 TTTATTTATT
33625 TTTATTTATT
1 TTTATTTATT
33635 TTTATTTATT
1 TTTATTTATT
33645 TTTA
1 TTTA
33649 GCATCGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTATT
Found at i:34101 original size:31 final size:31
Alignment explanation
Indices: 34044--34102 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
34034 GACCCGAATT
* * *
34044 AAAGCCAATTGTTTCAGTATTGACCCGACCC
1 AAAGCCAACTGTTTCAATATTAACCCGACCC
34075 AAAGCCAACTGATTT-AATATTAACCCGA
1 AAAGCCAACTG-TTTCAATATTAACCCGA
34103 TCTAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (31 bp):
AAAGCCAACTGTTTCAATATTAACCCGACCC
Found at i:37961 original size:17 final size:18
Alignment explanation
Indices: 37941--37974 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37931 TTTATAAGGT
37941 ATATTTTGTTA-TATTTA
1 ATATTTTGTTAGTATTTA
37958 ATATTTTGTTAGTATTT
1 ATATTTTGTTAGTATTT
37975 TATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
ATATTTTGTTAGTATTTA
Found at i:37987 original size:8 final size:8
Alignment explanation
Indices: 37974--37999 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37964 TGTTAGTATT
37974 TTATTTAA
1 TTATTTAA
37982 TTATTTAA
1 TTATTTAA
37990 TTATTTAA
1 TTATTTAA
37998 TT
1 TT
38000 TTTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:38000 original size:13 final size:13
Alignment explanation
Indices: 37970--38030 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
37960 ATTTTGTTAG
37970 TATTTTATTTAAT
1 TATTTTATTTAAT
* *
37983 TA-TTTAATTATT
1 TATTTTATTTAAT
*
37995 TAATTTT-TTTTAT
1 T-ATTTTATTTAAT
*
38008 TATTTTATTTAAA
1 TATTTTATTTAAT
38021 TATTTTATTT
1 TATTTTATTT
38031 TTTTACAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
12 14 0.37
13 21 0.55
14 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:38008 original size:30 final size:30
Alignment explanation
Indices: 37972--38034 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
37962 TTTGTTAGTA
*
37972 TTTTATT-TAATTATTTAATTATTTAATTTT
1 TTTTATTAT-ATTATTTAAATATTTAATTTT
* *
38002 TTTTATTATTTTATTTAAATATTTTATTTT
1 TTTTATTATATTATTTAAATATTTAATTTT
38032 TTT
1 TTT
38035 ACAGTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATTATATTATTTAAATATTTAATTTT
Found at i:38015 original size:38 final size:39
Alignment explanation
Indices: 37952--38025 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 39
37942 TATTTTGTTA
*
37952 TATTTAATATTTTGTTAGTATTTTATTTAATTATTTAAT
1 TATTTAATATTTTGTTAGTATTTTATTTAAATATTTAAT
* *
37991 TATTTAAT-TTTTTTTATTATTTTATTTAAATATTT
1 TATTTAATATTTTGTTAGTATTTTATTTAAATATTT
38026 TATTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 24 0.75
39 8 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (39 bp):
TATTTAATATTTTGTTAGTATTTTATTTAAATATTTAAT
Found at i:49955 original size:9 final size:9
Alignment explanation
Indices: 49941--50002 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
49931 CTCATCCATC
49941 AGAAAAAAG
1 AGAAAAAAG
49950 AG--AAAAG
1 AGAAAAAAG
49957 AGAAAAGAAG
1 AGAAAA-AAG
*
49967 -GAAAAATTG
1 AGAAAAA-AG
* *
49976 AAAAAAAAT
1 AGAAAAAAG
49985 AGAAAAAA-
1 AGAAAAAAG
49993 AGAAAAAAG
1 AGAAAAAAG
50002 A
1 A
50003 AATTGAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
7 7 0.17
8 9 0.21
9 18 0.43
10 8 0.19
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:50760 original size:28 final size:28
Alignment explanation
Indices: 50707--50760 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
50697 CGCAAGGACC
*
50707 TAACCTGAAACACATTACCTCCCCAAAA
1 TAACCTGAAACACATTACCTCACCAAAA
* *
50735 TAACTTGAAACACATTACCTTACCAA
1 TAACCTGAAACACATTACCTCACCAA
50761 GTCAGCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.31, G:0.04, T:0.22
Consensus pattern (28 bp):
TAACCTGAAACACATTACCTCACCAAAA
Found at i:52196 original size:33 final size:33
Alignment explanation
Indices: 52150--52409 Score: 376
Period size: 33 Copynumber: 7.8 Consensus size: 33
52140 AGGTAGATCA
* * *
52150 GGATCAACATTCAAATCCATTACAGAAATAGGT
1 GGATCGACATTCAAATCCATCACAGAAAGAGGT
* *
52183 GGATCGACGTTCAAATCCATCATAGAAAGAGGT
1 GGATCGACATTCAAATCCATCACAGAAAGAGGT
* * *
52216 GGATCGACGTTCAAATCCATCATAAAAAGAGGT
1 GGATCGACATTCAAATCCATCACAGAAAGAGGT
* *
52249 GGATCGACGTTCAAATCCATCATAGAAAGAGGT
1 GGATCGACATTCAAATCCATCACAGAAAGAGGT
*
52282 GGATCGACATTCAAATCTATCACAGAAAGAGGT
1 GGATCGACATTCAAATCCATCACAGAAAGAGGT
52315 GGATCGACATTTCAAATCCATCACAGAAAGAGGT
1 GGATCGACA-TTCAAATCCATCACAGAAAGAGGT
*
52349 GGATCAACATTTCAAATCCATCACAGAAAGAGGT
1 GGATCGACA-TTCAAATCCATCACAGAAAGAGGT
**
52383 GGATCGACATTTTAATCCATCACAGAA
1 GGATCGACATTCAAATCCATCACAGAA
52410 GGACTTGGAT
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
33 147 0.70
34 64 0.30
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (33 bp):
GGATCGACATTCAAATCCATCACAGAAAGAGGT
Found at i:57518 original size:41 final size:41
Alignment explanation
Indices: 57493--57742 Score: 328
Period size: 41 Copynumber: 6.1 Consensus size: 41
57483 ATCATGAAAA
* * * * * *
57493 CATGCAATATTTCACCATTCGATTCAATTCAATCATGGCAC
1 CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAG
* *
57534 CATGGAATACTTCACCATTCAACTT-GATTCGATCATGGTAG
1 CATGCAATAATTCACCATTCAA-TTCGATTCGATCATGGTAG
* *
57575 CATACAATAATTCACAATTCAATTCGATTCGATCATGGTAG
1 CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAG
57616 CATGCAATAATTCACCATTCAACTT-GATTCGATCATGGTAG
1 CATGCAATAATTCACCATTCAA-TTCGATTCGATCATGGTAG
57657 CATGCAATAATTCACCATTCAACTT-GATTCGATCATGGTAG
1 CATGCAATAATTCACCATTCAA-TTCGATTCGATCATGGTAG
* *
57698 CATGCAATAATTTACCATTCAACTT-GATTCGATCATGGTAA
1 CATGCAATAATTCACCATTCAA-TTCGATTCGATCATGGTAG
57739 CATG
1 CATG
57743 AATTTATTCA
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 185 0.97
42 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (41 bp):
CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAG
Found at i:57570 original size:82 final size:82
Alignment explanation
Indices: 57493--57742 Score: 376
Period size: 82 Copynumber: 3.0 Consensus size: 82
57483 ATCATGAAAA
* * * * * * * *
57493 CATGCAATATTTCACCATTCGATTCAATTCAATCATGGCACCATGGAATACTTCACCATTCAACT
1 CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
57558 TGATTCGATCATGGTAG
66 TGATTCGATCATGGTAG
* *
57575 CATACAATAATTCACAATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
1 CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
57640 TGATTCGATCATGGTAG
66 TGATTCGATCATGGTAG
*
57657 CATGCAATAATTCACCATTCAACTT-GATTCGATCATGGTAGCATGCAATAATTTACCATTCAAC
1 CATGCAATAATTCACCATTCAA-TTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAAC
*
57721 TTGATTCGATCATGGTAA
65 TTGATTCGATCATGGTAG
57739 CATG
1 CATG
57743 AATTTATTCA
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
82 151 0.99
83 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (82 bp):
CATGCAATAATTCACCATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
TGATTCGATCATGGTAG
Found at i:57752 original size:82 final size:81
Alignment explanation
Indices: 57493--57775 Score: 352
Period size: 82 Copynumber: 3.4 Consensus size: 81
57483 ATCATGAAAA
* * * * * * * * *
57493 CATGCAATATTTCACCATTCGATTCAATTCAATCATGGCACCATGGAATACTTCACCATTCAACT
1 CATG-AATAATTCACAATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
57558 TGATTCGATCATGGTAG
65 TGATTCGATCATGGTAG
*
57575 CATACAATAATTCACAATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
1 CAT-GAATAATTCACAATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACT
57640 TGATTCGATCATGGTAG
65 TGATTCGATCATGGTAG
* *
57657 CATGCAATAATTCACCATTCAACTT-GATTCGATCATGGTAGCATGCAATAATTTACCATTCAAC
1 CATG-AATAATTCACAATTCAA-TTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAAC
*
57721 TTGATTCGATCATGGTAA
64 TTGATTCGATCATGGTAG
* * * * *
57739 CATGAATTTATTCACAAATCAAATCAATTAGATCATG
1 CATGAA-TAATTCACAATTCAATTCGATTCGATCATG
57776 ATAACATGTA
Statistics
Matches: 176, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
81 3 0.02
82 171 0.97
83 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (81 bp):
CATGAATAATTCACAATTCAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACTT
GATTCGATCATGGTAG
Found at i:57753 original size:123 final size:123
Alignment explanation
Indices: 57471--57742 Score: 368
Period size: 123 Copynumber: 2.2 Consensus size: 123
57461 TACTAATTCA
* * ** * * *
57471 CAATTCAATTCAATCATGAAAACATGCAATATTTCACCATTCGA-TTCAATTCAATCATGGCACC
1 CAATTCGATTCGATCATGGTAACATGCAATAATTCACCATTCAACTT-GATTCAATCATGGCACC
* *
57535 ATGGAATACTTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
65 ATGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
* * * *
57594 CAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCA
1 CAATTCGATTCGATCATGGTAACATGCAATAATTCACCATTCAACTTGATTCAATCATGGCACCA
* * *
57659 TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTTACCATT
66 TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
57717 CAACTT-GATTCGATCATGGTAACATG
1 CAA-TTCGATTCGATCATGGTAACATG
57743 AATTTATTCA
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
123 126 0.97
124 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (123 bp):
CAATTCGATTCGATCATGGTAACATGCAATAATTCACCATTCAACTTGATTCAATCATGGCACCA
TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
Found at i:57773 original size:123 final size:123
Alignment explanation
Indices: 57471--57775 Score: 346
Period size: 123 Copynumber: 2.5 Consensus size: 123
57461 TACTAATTCA
* * ** * * * * *
57471 CAATTCAATTCAATCATGAAAACATGCAATATTTCACCATTCGATTCAATTCA-ATCATGGCACC
1 CAATTCGATTCGATCATGGTAACATGCAATAATTCACAAATCAAATCAATT-AGATCATGGCACC
* *
57535 ATGGAATACTTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
65 ATGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
* * * * ** * * *
57594 CAATTCGATTCGATCATGGTAGCATGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCA
1 CAATTCGATTCGATCATGGTAACATGCAATAATTCACAAATCAAATCAATTAGATCATGGCACCA
* * *
57659 TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTTACCATT
66 TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
*
57717 CAACTT-GATTCGATCATGGTAACATG-AATTTATTCACAAATCAAATCAATTAGATCATG
1 CAA-TTCGATTCGATCATGGTAACATGCAA-TAATTCACAAATCAAATCAATTAGATCATG
57776 ATAACATGTA
Statistics
Matches: 153, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
122 2 0.01
123 149 0.97
124 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (123 bp):
CAATTCGATTCGATCATGGTAACATGCAATAATTCACAAATCAAATCAATTAGATCATGGCACCA
TGCAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACAATT
Found at i:66281 original size:41 final size:41
Alignment explanation
Indices: 66236--66428 Score: 196
Period size: 41 Copynumber: 4.8 Consensus size: 41
66226 ATTTGATTCA
* *
66236 ATTCAATCATGGAAACATGCAATACTTCACAATTCAACTTG
1 ATTCAATCATGGTAACATGCAATAATTCACAATTCAACTTG
* * * * *
66277 ATTCAATGC-T--T-GCATACAATAATTCACCATTCAACCTA
1 ATTCAAT-CATGGTAACATGCAATAATTCACAATTCAACTTG
* * *
66315 ATTCGATCATGGTAGCATGCAATAATTCACAATTCTACTTG
1 ATTCAATCATGGTAACATGCAATAATTCACAATTCAACTTG
* * * *
66356 ATTCTATCATGGTAGCATACAATAATTCACCATTCAACTTG
1 ATTCAATCATGGTAACATGCAATAATTCACAATTCAACTTG
* * *
66397 ATTCGATCATGGTAACATGCATTTATTCACAA
1 ATTCAATCATGGTAACATGCAATAATTCACAA
66429 ACCAATTCAA
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 28 0.23
40 1 0.01
41 93 0.75
42 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (41 bp):
ATTCAATCATGGTAACATGCAATAATTCACAATTCAACTTG
Found at i:66318 original size:79 final size:81
Alignment explanation
Indices: 66235--66428 Score: 266
Period size: 82 Copynumber: 2.4 Consensus size: 81
66225 CATTTGATTC
* * * *
66235 AATTCAATCATGGAAACATGCAATACTTCACAATTCAACTTGATTC-A-ATGCTTGCATACAATA
1 AATTCGATCATGGTAACATGCAATAATTCACAATTCAACTTGATTCTACATGCTAGCATACAATA
66298 ATTCACCATTCAACCT
66 ATTCACCATTCAACCT
* * *
66314 AATTCGATCATGGTAGCATGCAATAATTCACAATTCTACTTGATTCTATCATGGTAGCATACAAT
1 AATTCGATCATGGTAACATGCAATAATTCACAATTCAACTTGATTCTA-CATGCTAGCATACAAT
*
66379 AATTCACCATTCAACTT
65 AATTCACCATTCAACCT
* * *
66396 GATTCGATCATGGTAACATGCATTTATTCACAA
1 AATTCGATCATGGTAACATGCAATAATTCACAA
66429 ACCAATTCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 41 0.41
80 1 0.01
82 58 0.58
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (81 bp):
AATTCGATCATGGTAACATGCAATAATTCACAATTCAACTTGATTCTACATGCTAGCATACAATA
ATTCACCATTCAACCT
Found at i:66446 original size:41 final size:41
Alignment explanation
Indices: 66401--66481 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
66391 AACTTGATTC
*
66401 GATCATGGTAACATGCATTTATTCACAAACCAATTCAATTA
1 GATCATGGTAACATGCATTAATTCACAAACCAATTCAATTA
* * * *
66442 GATCATGTTAACATGTATTAATTCACTATCCAATTCAATT
1 GATCATGGTAACATGCATTAATTCACAAACCAATTCAATT
66482 TAAATCAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (41 bp):
GATCATGGTAACATGCATTAATTCACAAACCAATTCAATTA
Found at i:66447 original size:82 final size:82
Alignment explanation
Indices: 66288--66448 Score: 207
Period size: 82 Copynumber: 2.0 Consensus size: 82
66278 TTCAATGCTT
* * * *
66288 GCATACAATAATTCACCATTCAACCTAATTCGATCATGGTAGCATGCAATAATTCACAATTCTAC
1 GCATACAATAATTCACCATTCAACCTAATTCGATCATGGTAACATGCAATAATTCACAATACCAA
* **
66353 TTGATTCTATCATGGTA
66 TTAATTAGATCATGGTA
* * * *
66370 GCATACAATAATTCACCATTCAACTTGATTCGATCATGGTAACATGCATTTATTCACAA-ACCAA
1 GCATACAATAATTCACCATTCAACCTAATTCGATCATGGTAACATGCAATAATTCACAATACCAA
66434 TTCAATTAGATCATG
66 TT-AATTAGATCATG
66449 TTAACATGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 4 0.06
82 63 0.94
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (82 bp):
GCATACAATAATTCACCATTCAACCTAATTCGATCATGGTAACATGCAATAATTCACAATACCAA
TTAATTAGATCATGGTA
Found at i:66606 original size:16 final size:17
Alignment explanation
Indices: 66576--66607 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
66566 CCCCTTAATT
66576 TTAATTTCTAATATTAC
1 TTAATTTCTAATATTAC
66593 TTAATTTC-AATATTA
1 TTAATTTCTAATATTA
66608 GCATACTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTTCTAATATTAC
Found at i:74209 original size:2 final size:2
Alignment explanation
Indices: 74202--74226 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
74192 TAATTAAAAT
74202 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
74227 TAGCTTTAAT
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:79328 original size:58 final size:58
Alignment explanation
Indices: 79223--79335 Score: 156
Period size: 58 Copynumber: 1.9 Consensus size: 58
79213 AATCTAGTTT
* * *
79223 ATGAAATATTAAAGTATGTTCATGGTAGATTTTAATTGAAGTGTTTTTAAACATGGTC
1 ATGAAATATTAAAGTATGTTCATGGTAGATTTTAATTAAACTATTTTTAAACATGGTC
* * *
79281 ATGAAATATTAGA-TCATGTTCATGGTAGATTTTAGTTAAACTATTTTTAAGCATG
1 ATGAAATATTAAAGT-ATGTTCATGGTAGATTTTAATTAAACTATTTTTAAACATG
79336 AAGAATGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 47 0.98
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (58 bp):
ATGAAATATTAAAGTATGTTCATGGTAGATTTTAATTAAACTATTTTTAAACATGGTC
Found at i:81514 original size:21 final size:22
Alignment explanation
Indices: 81488--81530 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
81478 ATCAACCATG
81488 TATCAAAGATATCA-AT-ATTGA
1 TATCAAA-ATATCATATAATTGA
81509 TATCAAAATATCATATAATTGA
1 TATCAAAATATCATATAATTGA
81531 GCATTGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
TATCAAAATATCATATAATTGA
Found at i:85426 original size:26 final size:26
Alignment explanation
Indices: 85373--85426 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
85363 GCCGAGGTTC
*
85373 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCACACCA
* *
85399 TAATACACATAAGGTTGTGCACATCA
1 TAATACACATAAGGTCGTGCACACCA
85425 TA
1 TA
85427 TGCACTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCACACCA
Found at i:91880 original size:26 final size:26
Alignment explanation
Indices: 91844--91949 Score: 187
Period size: 26 Copynumber: 4.1 Consensus size: 26
91834 ACATTGGTGC
91844 TAATACACATAAGGGT-GTGCCCACCA
1 TAATACACATAA-GGTCGTGCCCACCA
*
91870 TAATACACATAAGGTCATGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
91896 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
91922 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
91948 TA
1 TA
91950 TGCACTTAGT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 3 0.04
26 74 0.96
ACGTcount: A:0.36, C:0.29, G:0.15, T:0.20
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:92187 original size:22 final size:22
Alignment explanation
Indices: 92162--92204 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
92152 CGAAATATCT
* *
92162 TTCATGTTAAATATCATATATG
1 TTCATGATAAACATCATATATG
92184 TTCATGATAAACATCATATAT
1 TTCATGATAAACATCATATAT
92205 AATGATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
TTCATGATAAACATCATATATG
Found at i:96991 original size:20 final size:21
Alignment explanation
Indices: 96961--97003 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
96951 TCTTTCATCA
96961 TCTTCTCTTCTTC-CTTGTCTT
1 TCTTCTCTTCTTCTCTT-TCTT
96982 TCTT-TCTTCTTCTCTTTCTT
1 TCTTCTCTTCTTCTCTTTCTT
97002 TC
1 TC
97004 CACCCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (21 bp):
TCTTCTCTTCTTCTCTTTCTT
Found at i:96997 original size:16 final size:17
Alignment explanation
Indices: 96963--97003 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
96953 TTTCATCATC
*
96963 TTCTCTTCTTCCTTGTCT
1 TTCT-TTCTTCCTTCTCT
96981 TTCTTTCTT-CTTCTCT
1 TTCTTTCTTCCTTCTCT
96997 TTCTTTC
1 TTCTTTC
97004 CACCCAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 5 0.23
18 4 0.18
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (17 bp):
TTCTTTCTTCCTTCTCT
Found at i:99028 original size:27 final size:27
Alignment explanation
Indices: 98998--99050 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
98988 ACCTATACAT
*
98998 TCTATGTGGCACTAAAAGTGCATATTA
1 TCTATGTGGCACTAAAACTGCATATTA
*
99025 TCTATGTGGCAGTAAAACTGCATATT
1 TCTATGTGGCACTAAAACTGCATATT
99051 GCTAACACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (27 bp):
TCTATGTGGCACTAAAACTGCATATTA
Found at i:102351 original size:2 final size:2
Alignment explanation
Indices: 102344--102374 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
102334 CGTATAGTTA
102344 AT AT 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 AT AT A
102375 GTTTTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102392 original size:20 final size:20
Alignment explanation
Indices: 102364--102522 Score: 142
Period size: 20 Copynumber: 7.5 Consensus size: 20
102354 ATATATATAT
102364 ATATATATATAGTTTTGAAA
1 ATATATATATAGTTTTGAAA
* * * *
102384 ACATGTATATGATTTTTAAAATA
1 ATATATATAT-AGTTTT-GAA-A
102407 TATATATGATATAGTTTTG--A
1 -ATATAT-ATATAGTTTTGAAA
102427 ATATATATATAGTTTTGAAAATA
1 ATATATATATAGTTTTG--AA-A
*
102450 TATAATATATATAGTTTTGAAT
1 -AT-ATATATATAGTTTTGAAA
102472 ATATATATATAGTTTTAGAAA
1 ATATATATATAGTTTT-GAAA
102493 ATATAATATATAGTTTTGAAA
1 ATAT-ATATATAGTTTTGAAA
*
102514 ACATATATA
1 ATATATATA
102523 ATATATAGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 28
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.10
19 6 0.05
20 28 0.25
21 21 0.18
22 14 0.12
23 4 0.04
24 11 0.10
25 19 0.17
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (20 bp):
ATATATATATAGTTTTGAAA
Found at i:102424 original size:25 final size:24
Alignment explanation
Indices: 102360--102547 Score: 131
Period size: 25 Copynumber: 8.4 Consensus size: 24
102350 ATATATATAT
*
102360 ATATATATATATATAG-TTTTGAA
1 ATATATATATATATAGTTTTTAAA
* * *
102383 A-ACATGTATAT-GA-TTTTTAAA
1 ATATATATATATATAGTTTTTAAA
102404 ATATATATATGATATAG-TTTT---
1 ATATATATAT-ATATAGTTTTTAAA
* *
102425 -GA-ATATATATATAGTTTTGAAA
1 ATATATATATATATAGTTTTTAAA
*
102447 ATATATAATATATATAG-TTTT--G
1 ATATAT-ATATATATAGTTTTTAAA
102469 A-ATATATATATATAG-TTTTAGAA
1 ATATATATATATATAGTTTTTA-AA
*
102492 A-ATATA-ATATATAGTTTTGAAA
1 ATATATATATATATAGTTTTTAAA
* *
102514 ACATATATAATATATAGTTTTTGAA
1 ATATATAT-ATATATAGTTTTTAAA
102539 ATATATATA
1 ATATATATA
102548 GCTTTGAAAT
Statistics
Matches: 129, Mismatches: 17, Indels: 37
0.70 0.09 0.20
Matches are distributed among these distances:
18 6 0.05
19 9 0.07
20 15 0.12
21 12 0.09
22 26 0.20
23 19 0.15
24 11 0.09
25 31 0.24
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (24 bp):
ATATATATATATATAGTTTTTAAA
Found at i:102450 original size:16 final size:18
Alignment explanation
Indices: 102408--102522 Score: 86
Period size: 18 Copynumber: 5.6 Consensus size: 18
102398 TTTAAAATAT
102408 ATATATGATATAGTTTTGA
1 ATATAT-ATATAGTTTTGA
102427 ATATATATATAGTTTTGAAAATA
1 ATATATATATAGTTTTG-----A
102450 TATAATATATATAGTTTTGAA
1 -AT-ATATATATAGTTTTG-A
102471 TATATATATATAGTTTTAGAAA
1 -ATATATATATAGTTTT-G--A
102493 ATATAATATATAGTTTTGA
1 ATAT-ATATATAGTTTTGA
* *
102512 AAACATATATA
1 ATATATATATA
102523 ATATATAGTT
Statistics
Matches: 83, Mismatches: 3, Indels: 21
0.78 0.03 0.20
Matches are distributed among these distances:
18 18 0.22
19 9 0.11
20 14 0.17
21 10 0.12
22 14 0.17
23 1 0.01
24 2 0.02
25 15 0.18
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (18 bp):
ATATATATATAGTTTTGA
Found at i:102450 original size:43 final size:41
Alignment explanation
Indices: 102360--102522 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 41
102350 ATATATATAT
*
102360 ATATATATATATATAGTTTTGAAAACATGTATATGATTTTTAAA
1 ATATATATATATATAGTTTTGAAAACA--TATAT-AGTTTTAAA
* *
102404 ATATATATATGATATAGTTTTGAATATATATATAGTTTTGAAA
1 ATATATATAT-ATATAGTTTTGAAAACATATATAGTTTT-AAA
*
102447 ATATATAATATATATAGTTTTGAATATATATATATAGTTTTAGAA
1 ATATAT-ATATATATAGTTTTGAA-A-ACATATATAGTTTTA-AA
102492 A-ATATA-ATATATAGTTTTGAAAACATATATA
1 ATATATATATATATAGTTTTGAAAACATATATA
102523 ATATATAGTT
Statistics
Matches: 108, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
40 8 0.07
41 1 0.01
42 20 0.19
43 28 0.26
44 19 0.18
45 32 0.30
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (41 bp):
ATATATATATATATAGTTTTGAAAACATATATAGTTTTAAA
Found at i:102521 original size:110 final size:106
Alignment explanation
Indices: 102362--102567 Score: 283
Period size: 110 Copynumber: 1.9 Consensus size: 106
102352 ATATATATAT
* * *
102362 ATATATATATATAGTTTTGAAAACATGTATATGATTTTTAAAATATATAT-ATGATATAG-TTTT
1 ATATATATATATAGTTTTGAAAACATATATATGATTTTGAAAACATATATAAT-ATATAGTTTTT
*
102425 GAATATATATATAGTTTTGAAAATATATAATATATATAGTTTTGA
65 GAA-ATATATATAGCTTTG-AAAT-TATAATATATATAGTTTTGA
*
102470 ATATATATATATAGTTTTAGAAAATATAATATAT-AGTTTTGAAAACATATATAATATATAGTTT
1 ATATATATATATAGTTTT-GAAAACAT-ATATATGA-TTTTGAAAACATATATAATATATAGTTT
102534 TTGAAATATATATAGCTTTGAAATTATAATATAT
63 TTGAAATATATATAGCTTTGAAATTATAATATAT
102568 TGTAACCCCC
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
108 28 0.32
109 12 0.14
110 39 0.44
111 9 0.10
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.45
Consensus pattern (106 bp):
ATATATATATATAGTTTTGAAAACATATATATGATTTTGAAAACATATATAATATATAGTTTTTG
AAATATATATAGCTTTGAAATTATAATATATATAGTTTTGA
Found at i:102548 original size:18 final size:17
Alignment explanation
Indices: 102523--102561 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
102513 AACATATATA
*
102523 ATATATAGTTTTTGAAAT
1 ATATATAG-CTTTGAAAT
102541 ATATATAGCTTTGAAAT
1 ATATATAGCTTTGAAAT
102558 -TATA
1 ATATA
102562 ATATATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (17 bp):
ATATATAGCTTTGAAAT
Found at i:107092 original size:18 final size:18
Alignment explanation
Indices: 107071--107125 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
107061 TCCTTTTTCC
107071 TTTATTATTTTATTTTAT
1 TTTATTATTTTATTTTAT
* *
107089 TTTACTATTCTATTTTTAT
1 TTTATTATTTTA-TTTTAT
107108 TTTGATTATTATTATTTT
1 TTT-ATTATT-TTATTTT
107126 TCAGATTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 10 0.33
19 9 0.30
20 9 0.30
21 2 0.07
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTATTTTATTTTAT
Found at i:109058 original size:87 final size:88
Alignment explanation
Indices: 108961--109150 Score: 242
Period size: 90 Copynumber: 2.1 Consensus size: 88
108951 AGTCACTAGA
* *
108961 TATTAACCTAATTAATTATGTCAAACGAATATCTACCT-AAAAATTAAAGGACT-AAATTGTAAA
1 TATTAACCTAATTAATTATGTCAAAAGAATATCTAACTAAAAAATTAAAGGACTAAAATTGTAAA
109024 GAATATAAAATTGAAGG-ACTAAT
66 GAATATAAAATT-AAGGCACTAAT
* * * *
109047 TATTAACCCTAATTAATTATGTTAAAAGAGTATCTAATTAAAAAATTAAAGGACTAAAAATTGTG
1 TATTAA-CCTAATTAATTATGTCAAAAGAATATCTAACTAAAAAATTAAAGGACT-AAAATTGTA
* * *
109112 AAGAGTCTAAAATTAAGGCTCTAAT
64 AAGAATATAAAATTAAGGCACTAAT
109137 TATTAATCCTAATT
1 TATTAA-CCTAATT
109151 TATTTTAACC
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
86 6 0.07
87 27 0.30
88 15 0.17
89 4 0.04
90 37 0.42
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (88 bp):
TATTAACCTAATTAATTATGTCAAAAGAATATCTAACTAAAAAATTAAAGGACTAAAATTGTAAA
GAATATAAAATTAAGGCACTAAT
Found at i:115814 original size:77 final size:77
Alignment explanation
Indices: 115728--115969 Score: 313
Period size: 77 Copynumber: 3.1 Consensus size: 77
115718 ATGAAATACA
* *
115728 GTTGCGTCCAATAATGTCATGGTTCACTAAGAAATTGGTTGTGATCTGTAATGCTAATATTTTTA
1 GTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTGTAATGCTAATATTTTTA
115793 TTAATAAAATAG
66 TTAATAAAATAG
*
115805 GTTGCGTCCAAGAATGTTATGGTTCACTAAGAAAGTAGGTTGTGATCTATAATGTAATGCTAATA
1 GTTGCGTCCAAGAATGTCATGGTTCACTAAGAAA-TAGGTTGTGATC-----TGTAATGCTAATA
* *
115870 TTTTTTTTCATAAAATAG
60 TTTTTATTAATAAAATAG
* * * * * * *
115888 GCTGCGCCCAAGAATGTCATGGTTCACTAATAAATAGGTTGTGATATATTATGTTAATATTTTTA
1 GTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTGTAATGCTAATATTTTTA
115953 TTAATAAAATAG
66 TTAATAAAATAG
*
115965 ATTGC
1 GTTGC
115970 ATCAAAAAAA
Statistics
Matches: 142, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
77 61 0.43
78 11 0.08
82 11 0.08
83 59 0.42
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (77 bp):
GTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTGTAATGCTAATATTTTTA
TTAATAAAATAG
Found at i:115859 original size:38 final size:37
Alignment explanation
Indices: 115738--115859 Score: 86
Period size: 38 Copynumber: 3.2 Consensus size: 37
115728 GTTGCGTCCA
* *
115738 ATAATGTCATGGTTCACTAAGAAATTGGTTGTGATCT
1 ATAATGTTATGGTTCACTAAGAAATAGGTTGTGATCT
* * * * * * *
115775 GTAATGCTAATAT-TTTTATTAATAAAATAGGTTGCG-TCCA
1 ATAATG-T--TATGGTTCACTAA-GAAATAGGTTGTGAT-CT
*
115815 AGAATGTTATGGTTCACTAAGAAAGTAGGTTGTGATCT
1 ATAATGTTATGGTTCACTAAGAAA-TAGGTTGTGATCT
115853 ATAATGT
1 ATAATGT
115860 AATGCTAATA
Statistics
Matches: 59, Mismatches: 18, Indels: 15
0.64 0.20 0.16
Matches are distributed among these distances:
37 11 0.19
38 22 0.37
39 9 0.15
40 17 0.29
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (37 bp):
ATAATGTTATGGTTCACTAAGAAATAGGTTGTGATCT
Found at i:115899 original size:83 final size:81
Alignment explanation
Indices: 115730--115964 Score: 315
Period size: 83 Copynumber: 3.0 Consensus size: 81
115720 GAAATACAGT
* *
115730 TGCGTCCAATAATGTCATGGTTCACTAAGAAATTGGTTGTGATC----TGTAATGCTAATATTTT
1 TGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTATATGTAATGCTAATATTTT
*
115791 TATTAATAAAATAGGT
66 TATTAATAAAATAGGC
*
115807 TGCGTCCAAGAATGTTATGGTTCACTAAGAAAGTAGGTTGTGATCTATAATGTAATGCTAATATT
1 TGCGTCCAAGAATGTCATGGTTCACTAAGAAA-TAGGTTGTGATCTAT-ATGTAATGCTAATATT
* *
115872 TTTTTTCATAAAATAGGC
64 TTTATTAATAAAATAGGC
* * *
115890 TGCGCCCAAGAATGTCATGGTTCACTAATAAATAGGTTGTGA--TATAT-T-ATGTTAATATTTT
1 TGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTATATGTAATGCTAATATTTT
115951 TATTAATAAAATAG
66 TATTAATAAAATAG
115965 ATTGCATCAA
Statistics
Matches: 140, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
77 54 0.39
78 12 0.09
79 2 0.01
80 3 0.02
82 10 0.07
83 59 0.42
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (81 bp):
TGCGTCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATCTATATGTAATGCTAATATTTT
TATTAATAAAATAGGC
Found at i:121247 original size:23 final size:23
Alignment explanation
Indices: 121201--121247 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
121191 GAACTAATGA
* * *
121201 AACATGCAGTTACATATTTTCAT
1 AACATACAGTTACATACTTGCAT
121224 AACATACAGTTACATACTTGCAT
1 AACATACAGTTACATACTTGCAT
121247 A
1 A
121248 TTTTACCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (23 bp):
AACATACAGTTACATACTTGCAT
Found at i:126150 original size:198 final size:200
Alignment explanation
Indices: 125804--126170 Score: 508
Period size: 198 Copynumber: 1.8 Consensus size: 200
125794 ACCTATTATA
* *
125804 TTATCATGAAAAACATGTTTTGTCTTACTTTTACATAATATAAACGTTTTCATACTTATAACTTA
1 TTATCATGAAAAACATGTTTTGTCTTACTTTGACATAATATAAACGATTTCATACTTATAACTTA
* * * * *
125869 GACGATTAACATTTAAAAAAAGGCGTTAACTAGTACGTTATAATGAGCAACATGTTTTGTCTTAC
66 AAAGATTAACA-TTAAAAAAAGGCGTTAACTACTACGTTATAATAAACAACATGTTTTGTCTTAC
*
125934 TTTTGCATAATATAAACAGTTTCATACTTATAATTTAAATGGTTAACATTAAAAAAATGTTATCT
130 TTTTGCATAATATAAACAGTTTCATACTTATAACTTAAATGGTTAACATTAAAAAAATGTTATCT
125999 AATACG
195 AATACG
** * * *
126005 TTATCATGAGCAACTTGTTTTGTCTTACTTTGGCATATTATAAACGATTTCATACTTATAACTTA
1 TTATCATGAAAAACATGTTTTGTCTTACTTTGACATAATATAAACGATTTCATACTTATAACTTA
* * * *
126070 AAAGGTTGACA-T-AAAAAAGGC-TCTACCTACTACGTTATCATTAAAC-ACATGTTTTGTCTTA
66 AAAGATTAACATTAAAAAAAGGCGT-TAACTACTACGTTAT-AATAAACAACATGTTTTGTCTTA
* *
126131 CTTTTGCATCATATAAACAGTTTTATACTTATAACTTAAA
129 CTTTTGCATAATATAAACAGTTTCATACTTATAACTTAAA
126171 CATATGACAT
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
197 1 0.01
198 74 0.51
199 5 0.03
201 65 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (200 bp):
TTATCATGAAAAACATGTTTTGTCTTACTTTGACATAATATAAACGATTTCATACTTATAACTTA
AAAGATTAACATTAAAAAAAGGCGTTAACTACTACGTTATAATAAACAACATGTTTTGTCTTACT
TTTGCATAATATAAACAGTTTCATACTTATAACTTAAATGGTTAACATTAAAAAAATGTTATCTA
ATACG
Found at i:126179 original size:99 final size:99
Alignment explanation
Indices: 125804--126212 Score: 411
Period size: 99 Copynumber: 4.1 Consensus size: 99
125794 ACCTATTATA
* *
125804 TTATCATGAAA-AACATGTTTTGTCTTACTTTTACATAATATAAACGTTTTCATACTTATAACTT
1 TTATCATTAAACAACATGTTTTGTCTTACTTTTGCATAATATAAACG-TTTCATACTTATAACTT
* * *
125868 AGACGATTAACATTTAAAAAAAGGCGTTAACTAGTACG
65 AAAC-ATTAACA-TTAAAAAAAGGC-TTACCTACTACG
* * * *
125906 TTAT-AATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAACAGTTTCATACTTATAATTT
1 TTATCATTAAACAACATGTTTTGTCTTACTTTTGCATAATATAAAC-GTTTCATACTTATAACTT
** * * *
125970 AAATGGTTAACATTAAAAAAATG-TTATCTAATACG
65 AAA-CATTAACATTAAAAAAAGGCTTACCTACTACG
* * * * *
126005 TTATCA-TGAGCAACTTGTTTTGTCTTACTTTGGCATATTATAAACGATTTCATACTTATAACTT
1 TTATCATTAAACAACATGTTTTGTCTTACTTTTGCATAATATAAACG-TTTCATACTTATAACTT
*
126069 AAA-AGGTTGACA-T-AAAAAAGGCTCTACCTACTACG
65 AAACA--TTAACATTAAAAAAAGGCT-TACCTACTACG
* *
126104 TTATCATTAAAC-ACATGTTTTGTCTTACTTTTGCATCATATAAACAGTTTTATACTTATAACTT
1 TTATCATTAAACAACATGTTTTGTCTTACTTTTGCATAATATAAAC-GTTTCATACTTATAACTT
* * *
126168 AAACATATGACATTAAAAAAAAGGTTCTACCTGCTACG
65 AAACAT-TAACATT-AAAAAAAGGCT-TACCTACTACG
126206 TTATCAT
1 TTATCAT
126213 AAGTATAAAA
Statistics
Matches: 261, Mismatches: 30, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
97 7 0.03
98 4 0.02
99 142 0.54
100 7 0.03
101 12 0.05
102 88 0.34
103 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (99 bp):
TTATCATTAAACAACATGTTTTGTCTTACTTTTGCATAATATAAACGTTTCATACTTATAACTTA
AACATTAACATTAAAAAAAGGCTTACCTACTACG
Found at i:126850 original size:77 final size:77
Alignment explanation
Indices: 126723--127132 Score: 343
Period size: 77 Copynumber: 5.3 Consensus size: 77
126713 ATACTTTCAA
* ** * * * *
126723 ATTTTA-TAATAGAAATATTAGGATTCTAGATAGCAACTTGCTTTCTTAGTGAACCAT-ATTATT
1 ATTTTATTAATAAAAATATTAACATTCCATATAGCAACCT-ATTTCTTAGTGAACCATGA-TATT
*
126786 CTTGTGCACGTCCC
64 CTTGTGCACATCCC
* * *
126800 ATTTTATTAATAAAAATATTAGCATTCCATATAACAACCTATTTCTTAGTGAACTATGATATTCT
1 ATTTTATTAATAAAAATATTAACATTCCATATAGCAACCTATTTCTTAGTGAACCATGATATTCT
* **
126865 TGGGTG-AAAT-TG
66 T--GTGCACATCCC
* * * * * *
126877 ATTTTATTAAT-AAAATATTAACATTCTAAATCGCAATCTATTTCTTAATAAACCATG-TCATTC
1 ATTTTATTAATAAAAATATTAACATTCCATATAGCAACCTATTTCTTAGTGAACCATGAT-ATTC
* *
126940 TTGGGCGCAAT-CC
65 TTGTGCAC-ATCCC
* * * *
126953 ATTTTATTAATAAAAATATTAACATTCCATATCA-CAATCTATTTCATAGTGAACTATGACATTC
1 ATTTTATTAATAAAAATATTAACATTCCATAT-AGCAACCTATTTCTTAGTGAACCATGATATTC
* * *
127017 TTGTGCGCAACTC
65 TTGTGCACATCCC
* * * *
127030 ATTTTATTAATAAAAAATATTAACATTCCATATTGGAACATCTTTCTTAGTGAACCATGATATT-
1 ATTTTATTAAT-AAAAATATTAACATTCCATATAGCAACCTATTTCTTAGTGAACCATGATATTC
*** *
127094 TTCAACACAACCC
65 TTGTGCACATCCC
*
127107 ATTTTATTAATAAAAATGTTAACATT
1 ATTTTATTAATAAAAATATTAACATT
127133 TCAGAAGTGA
Statistics
Matches: 269, Mismatches: 51, Indels: 27
0.78 0.15 0.08
Matches are distributed among these distances:
74 2 0.01
75 1 0.00
76 71 0.26
77 119 0.44
78 73 0.27
79 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (77 bp):
ATTTTATTAATAAAAATATTAACATTCCATATAGCAACCTATTTCTTAGTGAACCATGATATTCT
TGTGCACATCCC
Found at i:127868 original size:38 final size:37
Alignment explanation
Indices: 127794--127869 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
127784 GTTGAAAAAT
*
127794 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* * *
127831 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
127869 A
1 A
127870 AAGGTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 21 0.64
39 4 0.12
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:130637 original size:24 final size:25
Alignment explanation
Indices: 130570--130637 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 25
130560 AATGCTTAAT
* *
130570 TAAAAATTAATATATGTTTTAAAAAA
1 TAAATATTAAAATAT-TTTTAAAAAA
* *
130596 TCAATATTAAATTA-TTTT-AAAAA
1 TAAATATTAAAATATTTTTAAAAAA
130619 TGAAAT-TTAAAATATTTTT
1 T-AAATATTAAAATATTTTT
130638 TAAGACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 13 0.38
24 11 0.32
26 10 0.29
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (25 bp):
TAAATATTAAAATATTTTTAAAAAA
Found at i:131939 original size:63 final size:64
Alignment explanation
Indices: 131867--131995 Score: 251
Period size: 63 Copynumber: 2.0 Consensus size: 64
131857 AAAAATAACC
131867 TTTATTTTTTTCAAGTTAATTGCATATTATCTTTACTTTAAATTGATTCTTAAACTTTTGAACA
1 TTTATTTTTTTCAAGTTAATTGCATATTATCTTTACTTTAAATTGATTCTTAAACTTTTGAACA
131931 TTTA-TTTTTTCAAGTTAATTGCATATTATCTTTACTTTAAATTGATTCTTAAACTTTTGAACA
1 TTTATTTTTTTCAAGTTAATTGCATATTATCTTTACTTTAAATTGATTCTTAAACTTTTGAACA
131994 TT
1 TT
131996 CTAATTTAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 61 0.94
64 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.53
Consensus pattern (64 bp):
TTTATTTTTTTCAAGTTAATTGCATATTATCTTTACTTTAAATTGATTCTTAAACTTTTGAACA
Found at i:132074 original size:60 final size:60
Alignment explanation
Indices: 131978--132134 Score: 169
Period size: 60 Copynumber: 2.6 Consensus size: 60
131968 TAAATTGATT
* ** *
131978 CTTAAACTTTTGAACA-TTCTAATTTAATCCTTAAATTATGACTC-TCATTTTAAATTAGTC
1 CTTAAACTTTTGAACATTTC-AATTTCATCCCCAAATTATGAC-CATCATTCTAAATTAGTC
* * * *
132038 CTTAAACTTTTGAGCATTTCAATGTCATCCCCAAATTATGTCCATCATTCTAAATTGGTC
1 CTTAAACTTTTGAACATTTCAATTTCATCCCCAAATTATGACCATCATTCTAAATTAGTC
*
132098 CTTAAACTTTT-ATATC-TTTCAATTTCATCTCCAAATT
1 CTTAAACTTTTGA-A-CATTTCAATTTCATCCCCAAATT
132135 CATCCAAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.02
60 76 0.93
61 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (60 bp):
CTTAAACTTTTGAACATTTCAATTTCATCCCCAAATTATGACCATCATTCTAAATTAGTC
Found at i:133187 original size:21 final size:20
Alignment explanation
Indices: 133163--133213 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
133153 AGTATTTTAG
133163 TTATTTATTAAAATAAGTATA
1 TTATTTATTAAAATAA-TATA
*
133184 TTATATTAGTAAAATAATATA
1 TTAT-TTATTAAAATAATATA
133205 -TATTT-TTAA
1 TTATTTATTAA
133214 TTATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
20 3 0.11
21 8 0.30
22 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TTATTTATTAAAATAATATA
Found at i:133292 original size:20 final size:20
Alignment explanation
Indices: 133242--133299 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
133232 AAAATAAGAA
*
133242 TATAATATT--ATACATTAT
1 TATAATATTGAATATATTAT
133260 TATAATATAATTGAATATATTAT
1 TAT-A-AT-ATTGAATATATTAT
*
133283 TATAATATTGAAAATAT
1 TATAATATTGAATATAT
133300 AATATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 3 0.09
19 1 0.03
20 12 0.36
21 5 0.15
22 1 0.03
23 11 0.33
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (20 bp):
TATAATATTGAATATATTAT
Found at i:139038 original size:26 final size:25
Alignment explanation
Indices: 139004--139068 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
138994 TATTTAATAT
139004 ATATAATATATATAAAAATTTTTCGAA
1 ATAT-ATATATATAAAAATTTTT-GAA
* *
139031 ATATATATA-ATATATAGTTTTTGAA
1 ATATATATATATA-AAAATTTTTGAA
*
139056 A-ACATATATATAA
1 ATATATATATATAA
139069 TATATAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 7 0.21
25 10 0.30
26 12 0.36
27 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (25 bp):
ATATATATATATAAAAATTTTTGAA
Found at i:139071 original size:28 final size:28
Alignment explanation
Indices: 139031--139166 Score: 117
Period size: 28 Copynumber: 5.1 Consensus size: 28
139021 ATTTTTCGAA
139031 ATATATATAATATATAGTTTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAAC
139059 ATATATATAATATATAGTTTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAAC
* * * *
139087 AT-TTTA-AAAATATA-TTTTTG-ATAT
1 ATATATATAATATATAGTTTTTGAAAAC
* * * *
139111 ATAGTTTTTGAA-A-ACA--TTTTGAAAAT
1 ATA-TATAT-AATATATAGTTTTTGAAAAC
*
139137 ATATATATGATATATAGTTTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAAC
139165 AT
1 AT
139167 TTTGAATATA
Statistics
Matches: 87, Mismatches: 12, Indels: 18
0.74 0.10 0.15
Matches are distributed among these distances:
24 5 0.06
25 15 0.17
26 20 0.23
27 4 0.05
28 43 0.49
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (28 bp):
ATATATATAATATATAGTTTTTGAAAAC
Found at i:139100 original size:37 final size:38
Alignment explanation
Indices: 139049--139434 Score: 458
Period size: 39 Copynumber: 9.8 Consensus size: 38
139039 AATATATAGT
139049 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAA-ATATATATAATATATAGTTTTTGAAAACA
* *
139088 TTTT-AAAAATATATTTTTGATATATAGTTTTTGAAAACA
1 TTTTGAAAAATATA--TATAATATATAGTTTTTGAAAACA
*
139127 TTTTGAAAATATATATATGATATATAGTTTTTGAAAACA
1 TTTTGAAAA-ATATATATAATATATAGTTTTTGAAAACA
* *
139166 TTTTG-AATATATATATAATAAATAGTTTTTGAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
139203 TTTTGAAAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTG-AAAAATATATATAATATATAGTTTTTGAAAACA
*
139242 TTTTG-AAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
*
139279 TTTTGAATATATATATATATATAATATATAGTTTTTGGAAACA
1 TTTTG-A-A-A-A-ATATATATAATATATAGTTTTTGAAAACA
*
139322 TTTTGAAAAAATATATATAATATAGAG-TTTTGAAAACA
1 TTTTG-AAAAATATATATAATATATAGTTTTTGAAAACA
* * *
139360 TTTTGAATATATATATATATATATATATATATATAGTTTTAAAACGT
1 TTTTGAA-A-A-ATATATATA-ATATATA-GT-T--TTTGAAAAC-A
139407 TTTTG-AAAATATATATAATATATAGTTT
1 TTTTGAAAAATATATATAATATATAGTTT
139435 GATGTATAGG
Statistics
Matches: 307, Mismatches: 18, Indels: 45
0.83 0.05 0.12
Matches are distributed among these distances:
37 75 0.24
38 23 0.07
39 110 0.36
40 16 0.05
41 14 0.05
42 9 0.03
43 43 0.14
44 2 0.01
45 1 0.00
46 9 0.03
47 5 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (38 bp):
TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:139141 original size:76 final size:77
Alignment explanation
Indices: 139049--139386 Score: 436
Period size: 76 Copynumber: 4.3 Consensus size: 77
139039 AATATATAGT
* * *
139049 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTAAAAATATATTTTTGATATATA
1 TTTTGAAAA-ATATATATAATATATAGTTTTTGAAAACATTTTAAAAATATATATATAATATATA
139114 GTTTTTGAAAACA
65 GTTTTTGAAAACA
* * *
139127 TTTTGAAAATATATATATGATATATAGTTTTTGAAAACATTTT--GAATATATATATAATAAATA
1 TTTTGAAAA-ATATATATAATATATAGTTTTTGAAAACATTTTAAAAATATATATATAATATATA
139190 GTTTTTGAAAACA
65 GTTTTTGAAAACA
* *
139203 TTTTGAAAAAATATATATAATATATAGTTTTTGAAAACATTTT-GAAA-ACATATATAATATATA
1 TTTTG-AAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAATATATATATAATATATA
139266 GTTTTTGAAAACA
65 GTTTTTGAAAACA
*
139279 TTTTGAATATATATATATATATAATATATAGTTTTTGGAAACATTTTGAAAAA-ATATATATAAT
1 TTTTG-A-A-A-A-ATATATATAATATATAGTTTTTGAAAACATTTT-AAAAATATATATATAAT
*
139343 ATAGAG-TTTTGAAAACA
60 ATATAGTTTTTGAAAACA
*
139360 TTTTGAATATATATATATATATATATA
1 TTTTGAA-AAATATATATA-ATATATA
139387 TATATATAGT
Statistics
Matches: 235, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
76 99 0.42
77 16 0.07
78 49 0.21
79 4 0.02
80 33 0.14
81 16 0.07
82 18 0.08
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (77 bp):
TTTTGAAAAATATATATAATATATAGTTTTTGAAAACATTTTAAAAATATATATATAATATATAG
TTTTTGAAAACA
Found at i:139373 original size:2 final size:2
Alignment explanation
Indices: 139366--139394 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
139356 AACATTTTGA
139366 AT 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 AT A
139395 GTTTTAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:139399 original size:47 final size:45
Alignment explanation
Indices: 139331--139430 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 45
139321 ATTTTGAAAA
*
139331 AATATATATAATATAGAGTTTTGAAAAC-ATTTTGAATATATATAT
1 AATATATATAATATAGAGTTTT-AAAACGATTTTGAAAATATATAT
* *
139376 ATATATATATATATATATAGTTTTAAAACGTTTTTGAAAATATATAT
1 A-ATATATATA-ATATAGAGTTTTAAAACGATTTTGAAAATATATAT
139423 AATATATA
1 AATATATA
139431 GTTTGATGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 1 0.02
46 21 0.43
47 27 0.55
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (45 bp):
AATATATATAATATAGAGTTTTAAAACGATTTTGAAAATATATAT
Found at i:139496 original size:4 final size:4
Alignment explanation
Indices: 139487--139523 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
139477 AGTATATTTC
139487 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
139524 TCATTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:140767 original size:472 final size:469
Alignment explanation
Indices: 139845--140791 Score: 1750
Period size: 472 Copynumber: 2.0 Consensus size: 469
139835 TACACCACCC
*
139845 AGGATTCCCAACCACGTGAACGACGGAAGCCCGAAAGAGGGAACAACCACTTCAAGTTCGGCAAC
1 AGGATTCCCAACCACGTGAACGACGGAAGCCCGAAAGAGGGAACAACCACTTCAAGTTCGACAAC
139910 AGACCCCCGAAGGATCCATATAAATACCTCCGGTGAGGCACACAAAACGATAACAATGATCGGAG
66 AGACCCCCGAAGGATCCATATAAATACCTCCGGTGAGGCACACAAAACGATAACAATGATCGGAG
* * *
139975 CCACAATAACGATAAAGCAACCCAAGTCAACCAAGAAATAGAGCCAAAACCCAATAAATATACCA
131 CCACAAAAACGATAAAGCAACCCAAGTAAACCAAGAAATAGAGCCAAAACCCAACAAATATACCA
* *
140040 TGAAAAGAAACAAAATAGCCAAGGATACAAAAAACTGAAAACAAACCACAAGAAAATCGAAATCA
196 TGAAAAGAAACAAAATAGCCAAGGATACAAAAAACCGAAAACAAAACACAAGAAAATCGAAATCA
* * *
140105 AGCAAAGCATTTACGCAAGCAAAATGAATATAAAAGTAACGTTAGTCTCTACTCGGGAAGGAAAC
261 AGCAAAGCATTTACGCAAGAAAAATAAATATAAAAGCAACGTTAGTCTCTACTCGGGAAGGAAAC
140170 GTCCCCAAGAAGTTGTAGAGGCGCGCTAGAAAAGGTAAAATCGAAACTTTCACATTAGATCTATG
326 GTCCCCAAGAAGTTGTAGAGGCGCGCTAGAAAAGGTAAAATCGAAACTTTCACATTAGATCTATG
*
140235 CCGTTTAGGGGATATTTAGGGGAATTGGGGTTTGGTTTCGATATGGGGGTGGCGAGAGGAACGTT
391 CCGTTTAGGGGATATTTAGGGGAATTGGGGTTTGGTTTCGACATGGGGGTGGCGAGAGGAACGTT
140300 CTGGGTAGGGGTTT
456 CTGGGTAGGGGTTT
140314 AGGATTCCCAACCACGTGAACGACGGTAAGCCCGAAACGAGGGGAACAACCACTTCAAGTTCGAC
1 AGGATTCCCAACCACGTGAACGACGG-AAGCCCGAAA-GA-GGGAACAACCACTTCAAGTTCGAC
*
140379 AACAGACCCCCGAAGGATCCATATAAATACCTCCGGTGAGGCACACAGAACGATAACAATGATCG
63 AACAGACCCCCGAAGGATCCATATAAATACCTCCGGTGAGGCACACAAAACGATAACAATGATCG
140444 GAGCCACAAAAACGATAAAGCAACCCAAGTAAACCAAGAAATAGAGCCAAAACCCAACAAATATA
128 GAGCCACAAAAACGATAAAGCAACCCAAGTAAACCAAGAAATAGAGCCAAAACCCAACAAATATA
140509 CCATGAAAAGAAACAAAATAGCCAAGGATACAAAAAACCGAAAACAAAACACAAGAAAATCGAAA
193 CCATGAAAAGAAACAAAATAGCCAAGGATACAAAAAACCGAAAACAAAACACAAGAAAATCGAAA
140574 TCAAGCAAAGCATTTACGCAAGAAAAATAAATATAAAAGCAACGTTAGTCTCTACTCGGGAAGGA
258 TCAAGCAAAGCATTTACGCAAGAAAAATAAATATAAAAGCAACGTTAGTCTCTACTCGGGAAGGA
*
140639 AACGTCCCGAAGAAGTTGTAGAGGCGCGCTAGAAAAGGTAAAATCGAAACTTTCACATTAGATCT
323 AACGTCCCCAAGAAGTTGTAGAGGCGCGCTAGAAAAGGTAAAATCGAAACTTTCACATTAGATCT
*
140704 ATGTCGTTTAGGGGATATTTAGGGGAATTGGGGTTTGGTTTCGACATGGGGGTGGCGAGAGGAAC
388 ATGCCGTTTAGGGGATATTTAGGGGAATTGGGGTTTGGTTTCGACATGGGGGTGGCGAGAGGAAC
140769 GTTCTGGGTAGGGGTTT
453 GTTCTGGGTAGGGGTTT
140786 AGGATT
1 AGGATT
140792 TCAACCGCCG
Statistics
Matches: 462, Mismatches: 13, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
469 26 0.06
470 10 0.02
471 2 0.00
472 424 0.92
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (469 bp):
AGGATTCCCAACCACGTGAACGACGGAAGCCCGAAAGAGGGAACAACCACTTCAAGTTCGACAAC
AGACCCCCGAAGGATCCATATAAATACCTCCGGTGAGGCACACAAAACGATAACAATGATCGGAG
CCACAAAAACGATAAAGCAACCCAAGTAAACCAAGAAATAGAGCCAAAACCCAACAAATATACCA
TGAAAAGAAACAAAATAGCCAAGGATACAAAAAACCGAAAACAAAACACAAGAAAATCGAAATCA
AGCAAAGCATTTACGCAAGAAAAATAAATATAAAAGCAACGTTAGTCTCTACTCGGGAAGGAAAC
GTCCCCAAGAAGTTGTAGAGGCGCGCTAGAAAAGGTAAAATCGAAACTTTCACATTAGATCTATG
CCGTTTAGGGGATATTTAGGGGAATTGGGGTTTGGTTTCGACATGGGGGTGGCGAGAGGAACGTT
CTGGGTAGGGGTTT
Found at i:141331 original size:5 final size:5
Alignment explanation
Indices: 141321--141345 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
141311 TAATATCTTC
141321 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
141346 TTTCTCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:160313 original size:19 final size:19
Alignment explanation
Indices: 160289--160327 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
160279 TCGAATGCAT
*
160289 TCCATGTACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
160308 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
160327 T
1 T
160328 GAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:160452 original size:64 final size:65
Alignment explanation
Indices: 160275--160437 Score: 188
Period size: 65 Copynumber: 2.5 Consensus size: 65
160265 GAATTAATTG
* * * *
160275 AACATCGAATGCATTCCATGTACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
* * * ** * *
160340 AACATCGAATGCATTTGATGCATTGATACACAAGCCATGAATCGATGCAC-CATG-CTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTC-TGAATA-TTTTC
160403 -A
64 AA
160404 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
160438 TGGTGCACCG
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
64 33 0.41
65 47 0.59
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
Found at i:167976 original size:64 final size:65
Alignment explanation
Indices: 167824--167984 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
167814 GAATTAATTG
* *** * *
167824 AACATCGAATGCATTTCATGCACCGATGCACTCTCTATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
167889 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
167952 A
65 A
167953 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
167985 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:173872 original size:25 final size:27
Alignment explanation
Indices: 173825--173877 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
173815 TCTATTTAAT
**
173825 ATATATATATATATAATTTTTTTTGAA
1 ATATATATATATATAATAGTTTTTGAA
173852 ATATATATA-ATAT-ATAGTTTTTGAA
1 ATATATATATATATAATAGTTTTTGAA
173877 A
1 A
173878 ACACTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.46
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
ATATATATATATATAATAGTTTTTGAA
Found at i:173903 original size:39 final size:36
Alignment explanation
Indices: 173845--174048 Score: 226
Period size: 39 Copynumber: 5.7 Consensus size: 36
173835 ATATAATTTT
173845 TTTTG-AAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTG-AAACA
*
173881 CTTTGAAAATTTATATATAATATATAGTTTTTGGAAACA
1 TTTTGAAAA--TATATATAATATATAGTTTTT-GAAACA
* **
173920 TTTTGAAAAAATATATATGATATATAGTTTTTGAAATT
1 TTTTG--AAAATATATATAATATATAGTTTTTGAAACA
173958 TTTTGAAAATATATAT-A-ATATAGTTTTTGAAA-A
1 TTTTGAAAATATATATAATATATAGTTTTTGAAACA
*
173991 TTTTTAAAA-ATATAT-A-ATATA-TTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTG-AAACA
*
174024 TTTTGAATATATATATATATATATA
1 TTTTGAAAATATATATA-ATATATA
174049 TATATATATA
Statistics
Matches: 147, Mismatches: 9, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
31 6 0.04
32 15 0.10
33 16 0.11
34 21 0.14
35 1 0.01
36 16 0.11
37 8 0.05
38 9 0.06
39 50 0.34
40 1 0.01
41 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAACA
Found at i:174033 original size:30 final size:30
Alignment explanation
Indices: 173932--174045 Score: 93
Period size: 32 Copynumber: 3.4 Consensus size: 30
173922 TTGAAAAAAT
**
173932 ATATATGATATATAGTTTTTGAAATTTTTTGAAAA
1 ATATAT-A-ATATA-TTTTTGAAAAATTTT--AAA
*
173967 TATATATAATATAGTTTTTGAAAATTTTTAAAA
1 -ATATATAATATA-TTTTTGAAAAATTTT-AAA
*
174000 ATATATAATATATTTTTGAAAACATTTTGAAT
1 ATATATAATATATTTTTGAAAA-ATTTT-AAA
174032 ATATATATATATAT
1 ATATATA-ATATAT
174046 ATATATATAT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
31 10 0.14
32 25 0.35
33 10 0.14
34 20 0.28
35 1 0.01
36 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (30 bp):
ATATATAATATATTTTTGAAAAATTTTAAA
Found at i:174088 original size:2 final size:2
Alignment explanation
Indices: 174030--174068 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
174020 AACATTTTGA
*
174030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
174069 ATACATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:174112 original size:29 final size:29
Alignment explanation
Indices: 174050--174145 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
174040 ATATATATAT
* *
174050 ATATATATATA-TTTATATAATACATTTT-T
1 ATATATATATAGTTT-TAAAAT-CATTTTGA
*
174079 TTATATATATAGTTTTGAAAA-CATTTTGA
1 ATATATATATAGTTTT-AAAATCATTTTGA
**
174108 ATATATATATAGTTTTAAAATGTTTTTGA
1 ATATATATATAGTTTTAAAATCATTTTGA
*
174137 AAATATATA
1 ATATATATA
174146 ATATATAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
28 10 0.18
29 40 0.71
30 6 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (29 bp):
ATATATATATAGTTTTAAAATCATTTTGA
Found at i:174241 original size:13 final size:13
Alignment explanation
Indices: 174219--174252 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
174209 CTATTTATTT
174219 TTTTTGTTTGTTTG
1 TTTTT-TTTGTTTG
174233 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
174246 TTATTTT
1 TT-TTTT
174253 CATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:174846 original size:4 final size:4
Alignment explanation
Indices: 174837--175256 Score: 531
Period size: 4 Copynumber: 107.8 Consensus size: 4
174827 TTTGTGTATG
*
174837 TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TATA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
174884 TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
174930 -GTA TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTAA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-A
*
174978 TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
175026 TGTA TGTA TGTA TGTA TATA TGTA --TA TGTA TGTA TGTA TGTA -GTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
175071 TGTA TGTG TGTG TGTG TGTG TGTG TATA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
175119 TTTA TGTA TGTA -GTA TGTA TGTC TGTG TGTG TGTG TGTG TGTA --TA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * *
175164 TATA TGTG TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTG TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * *
175212 TG-- TGTA TGTA TATA TGTG TGTA TGTA TGTA TATG TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
175257 GTGTGTGGTG
Statistics
Matches: 371, Mismatches: 32, Indels: 26
0.86 0.07 0.06
Matches are distributed among these distances:
2 8 0.02
3 12 0.03
4 347 0.94
5 4 0.01
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:175082 original size:2 final size:2
Alignment explanation
Indices: 175075--175531 Score: 385
Period size: 2 Copynumber: 233.0 Consensus size: 2
175065 GTAGTATGTA
* * * * * *
175075 TG TG TG TG TG TG TG TG TG TG TA TA TG TA TG TA TG TA TG TA TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * * *
175117 TA TT TA TG TA TG TAG TA TG TA TG TC TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG T-G TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * * * * * * * *
175160 TA TA TA TA TG TG TG TA TG TA TG TA TA TA TG TA TG TA TG TA TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * * * * * *
175202 TA TG TG TG TA TG TG TA TG TA TA TA TG TG TG TA TG TA TG TA TA
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
175244 TG TG TA TG TA TG TG TG TG TG -G TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
175285 TG T- TG TG TG TG TG TG TG TG -G TG TG TG TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * *
175325 TG TG TA TA TG TG TA TG TG TG TG TG TG -G TG TG T- TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
175365 TG TG TG TG TG -G TG T- TG TG T- TG TG TG TG TG -G TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * *
175403 TC TG TG TG TG TG TG TG TG TG T- TA TG TG TA TA TG TG TA TG TA
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
175444 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
175486 TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
175528 TG TG
1 TG TG
175532 CGTGCGTGCG
Statistics
Matches: 371, Mismatches: 73, Indels: 22
0.80 0.16 0.05
Matches are distributed among these distances:
1 10 0.03
2 359 0.97
3 2 0.01
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (2 bp):
TG
Found at i:175259 original size:12 final size:12
Alignment explanation
Indices: 174835--175522 Score: 452
Period size: 12 Copynumber: 57.4 Consensus size: 12
174825 AGTTTGTGTA
174835 TGTGTATGTATG
1 TGTGTATGTATG
*
174847 TATGTATGTATG
1 TGTGTATGTATG
* *
174859 TATGTA-GTATA
1 TGTGTATGTATG
*
174870 TATGTATGTATG
1 TGTGTATGTATG
*
174882 TATGTATGTA--
1 TGTGTATGTATG
174892 TGTGTATGTATG
1 TGTGTATGTATG
*
174904 TATGTATGTATG
1 TGTGTATGTATG
*
174916 TATGTATGTATG
1 TGTGTATGTATG
*
174928 T-AGTATGTATG
1 TGTGTATGTATG
*
174939 TATGTATGTATG
1 TGTGTATGTATG
* *
174951 TATGTATATATG
1 TGTGTATGTATG
*
174963 TATGTATGTATG
1 TGTGTATGTATG
*
174975 TAATGTATGTATG
1 T-GTGTATGTATG
* *
174988 TATATATGTATG
1 TGTGTATGTATG
*
175000 TATGTATGTATG
1 TGTGTATGTATG
*
175012 TATGTATGTATG
1 TGTGTATGTATG
*
175024 TATGTATGTATG
1 TGTGTATGTATG
* *
175036 TATGTA--TATA
1 TGTGTATGTATG
*
175046 TGTATATGTATG
1 TGTGTATGTATG
*
175058 TATGTATGTA-G
1 TGTGTATGTATG
* *
175069 TATGTATGTGTG
1 TGTGTATGTATG
* *
175081 TGTGTGTGTGTG
1 TGTGTATGTATG
*
175093 TGTATATGTATG
1 TGTGTATGTATG
*
175105 TATGTATGTATG
1 TGTGTATGTATG
* *
175117 TATTTATGTATG
1 TGTGTATGTATG
*
175129 TAGTATGTATGTCTG
1 T-G--TGTATGTATG
* *
175144 TGTGTGTGTGTG
1 TGTGTATGTATG
*
175156 TGTGTATATATATG
1 TGTG--TATGTATG
175170 TGTGTATGTATG
1 TGTGTATGTATG
* *
175182 TATATATGTATG
1 TGTGTATGTATG
*
175194 TATGTATGTATG
1 TGTGTATGTATG
175206 TGTGTATGTGTATG
1 TGTGTA--TGTATG
* * *
175220 TATATATGTGTG
1 TGTGTATGTATG
* *
175232 TATGTATGTATA
1 TGTGTATGTATG
175244 TGTGTATGTATG
1 TGTGTATGTATG
* *
175256 TGTGTGTG-GTG
1 TGTGTATGTATG
* *
175267 TGTGTGTGTGTG
1 TGTGTATGTATG
*
175279 TGTGTGTGT-TG
1 TGTGTATGTATG
* *
175290 TGTGTGTGTGTG
1 TGTGTATGTATG
* *
175302 TG-GTGTGTGTG
1 TGTGTATGTATG
*
175313 TGTGTATGTGTG
1 TGTGTATGTATG
175325 TGTGTA--TATG
1 TGTGTATGTATG
* * *
175335 TGTATGTGTGTG
1 TGTGTATGTATG
*
175347 TGTGGTGTGT-TG
1 TGT-GTATGTATG
* *
175359 TGTGTGTGTGTG
1 TGTGTATGTATG
*
175371 TGTG-GTGT-TG
1 TGTGTATGTATG
* *
175381 TGTTGTGTGTGTGG
1 TG-TGTATGTAT-G
* *
175395 TGTGTGTGTCTG
1 TGTGTATGTATG
* *
175407 TGTGTGTGTGTG
1 TGTGTATGTATG
*
175419 TGTGTTATGTGTATA
1 TGTG-TA--TGTATG
175434 TGTGTATGTATG
1 TGTGTATGTATG
* *
175446 TGTGTGTGTGTG
1 TGTGTATGTATG
* *
175458 TGTGTGTGTGTG
1 TGTGTATGTATG
* *
175470 TGTGTGTGTATA
1 TGTGTATGTATG
*
175482 TGTGTATGTGTG
1 TGTGTATGTATG
* *
175494 TGTGTGTGTGTG
1 TGTGTATGTATG
* *
175506 TGTGTGTGTGTG
1 TGTGTATGTATG
175518 TGTGT
1 TGTGT
175523 GTGTGTGTGC
Statistics
Matches: 578, Mismatches: 69, Indels: 58
0.82 0.10 0.08
Matches are distributed among these distances:
10 27 0.05
11 74 0.13
12 408 0.71
13 27 0.05
14 25 0.04
15 17 0.03
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.50
Consensus pattern (12 bp):
TGTGTATGTATG
Found at i:175536 original size:4 final size:4
Alignment explanation
Indices: 175529--175930 Score: 265
Period size: 4 Copynumber: 103.8 Consensus size: 4
175519 GTGTGTGTGT
* * *
175529 GTGC GTGC GTGC GTGC GTGC GCGT GCGC GTGC GTGC GTGTAC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG--C GTGC GTGC
* * *
175579 GTGC GTGC GTGC GTGC GT-T GTG- GTGT GTGC GTGC GTGT GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* * *
175625 GTGT GTGC GTGC GTGC GTGC --GC GTGT GTGC GTAC GTGC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
*
175671 GTGC GTGC TGTGC GTGC GGGC GT-- GTGC GTGC GTGC -TGC GGTGC GTGC
1 GTGC GTGC -GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC -GTGC GTGC
*
175718 GTGC GTGC --GC GTGC GTTC GTTGC GTGC GTGC GT-- GTGC GTGC GT--
1 GTGC GTGC GTGC GTGC GTGC G-TGC GTGC GTGC GTGC GTGC GTGC GTGC
* *
175761 GTGC GTGTTT GTGC GTGC GT-- GTGC GTGC GT-- GTGC GCGC GTGC --GC
1 GTGC GTG--C GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* * ** * * * * *
175805 GAGC GTGT GTGC --GC GTAT GTGC GCGT GTGT GTGC GTGT GTGC GCATGT
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC G--TGC
* * * * * * * *
175853 GTGC GCGT GTGC GCGC GT-- GTGC GCGC GTGT GTGC GCGC GTGT GCGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* *
175899 TGTGT GTGC GTGC GTGC GTGC GTGC GCGC GTG
1 -GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG
175931 TGCCCGTGTG
Statistics
Matches: 308, Mismatches: 57, Indels: 66
0.71 0.13 0.15
Matches are distributed among these distances:
2 20 0.06
3 8 0.03
4 258 0.84
5 12 0.04
6 10 0.03
ACGTcount: A:0.01, C:0.22, G:0.49, T:0.28
Consensus pattern (4 bp):
GTGC
Found at i:175811 original size:30 final size:30
Alignment explanation
Indices: 175527--175916 Score: 161
Period size: 30 Copynumber: 12.8 Consensus size: 30
175517 GTGTGTGTGT
*
175527 GTGTGCGTGC--GTGCGTGCGTGCGCGTGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * *
175555 GCGTGCGTGCGTGTACGTGCGT--GCGTGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * *
175583 GTGCGTGCGTGCGT-TGTG-GTGTGTGCGTGC
1 GT--GTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * * *
175613 GTGTGTGCGTGCGTGTGTGCGTGCGTGCGTGC
1 --GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * *
175645 GCGTGTGTGCGTACGTGCGTGCGTGCGTGCGTGC
1 GTGTGCGTGCGT--GTGCGCGCGTGC--GCGTGC
* * * * *
175679 -TGTGCGTGCGGGCGTGTGCGTGCGTGCTGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCG-TGC
* *
175709 G-GTGCGTGCGTGCGTGCGCGTGCGTTCGTTGC
1 GTGTGCGTGCGTGTGCGCGCGTGCG--CG-TGC
* * *
175741 --GTGCGTGCGTGTGCGTGCGTGTGCGTGT
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * * *
175769 TTGTGCGTGCGTGTGCGTGCGTGTGCGCGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * * ** * *
175799 GTGCGCGAGCGTGTGTGCGCGTATGTGCGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * * * * *
175829 GTGTGTGTGCGTGTGTGCGCATGTGTGCGC
1 GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
* * *
175859 GTGTGCGCGCGTGTGCGCGCGTGTGTGCGCGC
1 GTGTGCGTGCGTGTGCGCGC--GTGCGCGTGC
* *
175891 GTGTGCGCTGTGTGTGCGTGCGTGCG
1 GTGTGCG-TGCGTGTGCGCGCGTGCG
175917 TGCGTGCGCG
Statistics
Matches: 287, Mismatches: 52, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
28 21 0.07
29 6 0.02
30 160 0.56
31 37 0.13
32 39 0.14
33 18 0.06
34 6 0.02
ACGTcount: A:0.01, C:0.22, G:0.48, T:0.28
Consensus pattern (30 bp):
GTGTGCGTGCGTGTGCGCGCGTGCGCGTGC
Found at i:175941 original size:10 final size:10
Alignment explanation
Indices: 175601--175952 Score: 171
Period size: 10 Copynumber: 34.7 Consensus size: 10
175591 GTGCGTTGTG
175601 GTGTGTGCGTGC
1 GTGTGTGC--GC
175613 GTGTGTGCGTGC
1 GTGTGTGC--GC
175625 GTGTGTGCGTGC
1 GTGTGTGC--GC
*
175637 GTGCGTGCGC
1 GTGTGTGCGC
175647 GTGTGTGCGTAC
1 GTGTGTGCG--C
*
175659 GTGCGTGCGTGC
1 GTGTGTGC--GC
* *
175671 GTGCGTGC-T
1 GTGTGTGCGC
*
175680 GTGCGTGCG-
1 GTGTGTGCGC
* *
175689 G-GCGTGTGC
1 GTGTGTGCGC
*
175698 GTGCGTGCTGC
1 GTGTGTGC-GC
* *
175709 G-GTGCGTGC
1 GTGTGTGCGC
*
175718 GTGCGTGCGC
1 GTGTGTGCGC
* *
175728 GTGCGTTCG-
1 GTGTGTGCGC
* * *
175737 TTGCGTGCGT
1 GTGTGTGCGC
* *
175747 GCGTGTGCGT
1 GTGTGTGCGC
* *
175757 GCGTGTGCGT
1 GTGTGTGCGC
*
175767 GTTTGTGCGTGC
1 GTGTGTGC--GC
* *
175779 GTGTGCGTGC
1 GTGTGTGCGC
*
175789 GTGTGCGCGC
1 GTGTGTGCGC
* * *
175799 GTGCGCGAGC
1 GTGTGTGCGC
175809 GTGTGTGCGC
1 GTGTGTGCGC
*
175819 GTATGTGCGC
1 GTGTGTGCGC
*
175829 GTGTGTGTGC
1 GTGTGTGCGC
175839 GTGTGTGCGC
1 GTGTGTGCGC
*
175849 ATGTGTGCGC
1 GTGTGTGCGC
*
175859 GTGTGCGCGC
1 GTGTGTGCGC
*
175869 GTGTGCGCGC
1 GTGTGTGCGC
175879 GTGTGTGCGC
1 GTGTGTGCGC
*
175889 GCGTGTGCGC
1 GTGTGTGCGC
*
175899 -TGTGTGTGC
1 GTGTGTGCGC
*
175908 GTGCGT--GC
1 GTGTGTGCGC
*
175916 GTGCGTGCGC
1 GTGTGTGCGC
* *
175926 GCGTGTGCCC
1 GTGTGTGCGC
* *
175936 GTGTGTGTGT
1 GTGTGTGCGC
175946 GTGTGTG
1 GTGTGTG
175953 TATGTTATAA
Statistics
Matches: 276, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
8 14 0.05
9 27 0.10
10 177 0.64
11 3 0.01
12 54 0.20
14 1 0.00
ACGTcount: A:0.01, C:0.22, G:0.48, T:0.29
Consensus pattern (10 bp):
GTGTGTGCGC
Found at i:183190 original size:2 final size:2
Alignment explanation
Indices: 183183--183245 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
183173 TTATTATTAT
183183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
183225 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
183246 TAAAAAAAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:184726 original size:2 final size:2
Alignment explanation
Indices: 184719--184775 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
184709 GTATTTAAAT
184719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
184761 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
184776 GAATCATATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:184798 original size:50 final size:50
Alignment explanation
Indices: 184760--184862 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 50
184750 ATATATATAT
*
184760 ATATATATATATATATGAATCATATCAATTTAAAATATAATAAATTTAAAAA
1 ATAT-TAT-TATATATGAATCATATCAATTTAAAATATAATAAATATAAAAA
* ** *
184812 ATATTATTATATATGAATTATATCAATTTAAGCTATAAAAAATTATAAAAA
1 ATATTATTATATATGAATCATATCAATTTAAAATATAATAAA-TATAAAAA
184863 GTACAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 31 0.69
51 10 0.22
52 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (50 bp):
ATATTATTATATATGAATCATATCAATTTAAAATATAATAAATATAAAAA
Found at i:185722 original size:30 final size:30
Alignment explanation
Indices: 185608--185977 Score: 229
Period size: 30 Copynumber: 12.6 Consensus size: 30
185598 TTAATTTTAC
* * *
185608 ATCTTAACATTAAAAA-ATGTATTTCATTTTT
1 ATCTTAAC-TTAAAAATATAT-TTTTATTCTT
* *
185639 ATATTAACTTATTAAATATA-TTTTATTCTT
1 ATCTTAACTTA-AAAATATATTTTTATTCTT
* * *
185669 GTCTTTACTAAAAAATATA-TTTTATTCTT
1 ATCTTAACTTAAAAATATATTTTTATTCTT
*
185698 ATTTTAACTTAAAAATATATTTTTAGTAT-TT
1 ATCTTAACTTAAAAATATATTTTTA-T-TCTT
185729 ATCTTAACTTAAAAA-ATATATTTTATTCTT
1 ATCTTAACTTAAAAATATAT-TTTTATTCTT
** *
185759 ATCTTAACTT-ATTATATAATTTATATTCTT
1 ATCTTAACTTAAAAATAT-ATTTTTATTCTT
* * * *
185789 AACTTAAATTATTAAATATA-TTATATTCTT
1 ATCTTAACTTA-AAAATATATTTTTATTCTT
* * * * *
185819 ACCTTAAATTATTAAATATA-ATTAATTCTT
1 ATCTTAACTTA-AAAATATATTTTTATTCTT
* * *
185849 ATTTTAACTTAAAACATAT-CTTTTATTTTT
1 ATCTTAACTTAAAA-ATATATTTTTATTCTT
185879 ATCTTAACTTAAAAATATATTTTTATT-TT
1 ATCTTAACTTAAAAATATATTTTTATTCTT
* *
185908 A-C----C-AAAAAATATA-TTTTATTTTT
1 ATCTTAACTTAAAAATATATTTTTATTCTT
* * *
185931 ATCTTAAC-TAGAAAAAATA-TATTATTTTT
1 ATCTTAACTTA-AAAATATATTTTTATTCTT
* *
185960 ATCTTAAATTATAAATAT
1 ATCTTAACTTAAAAATAT
185978 TATTAGATTA
Statistics
Matches: 274, Mismatches: 43, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
22 7 0.03
23 12 0.04
24 2 0.01
28 3 0.01
29 72 0.26
30 136 0.50
31 35 0.13
32 7 0.03
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (30 bp):
ATCTTAACTTAAAAATATATTTTTATTCTT
Found at i:185746 original size:90 final size:88
Alignment explanation
Indices: 185608--185977 Score: 287
Period size: 90 Copynumber: 4.2 Consensus size: 88
185598 TTAATTTTAC
* * * *
185608 ATCTTAACATTAAAAA-ATGTATTTCATTTTTATATTAACTTATTAAATATATTTTATTCTTGTC
1 ATCTTAAC-TTAAAAATATAT-TTTTA-TTTTATCTTAACTTATTAAATATATTTTATTCTTATC
185672 TTTACTAAAAAATATATTTTATTCTT
63 TTTACTAAAAAATATATTTTATTCTT
* **
185698 ATTTTAACTTAAAAATATATTTTTAGTATTTATCTTAACTTAAAAAATATATTTTATTCTTATCT
1 ATCTTAACTTAAAAATATATTTTTA-T-TTTATCTTAACTTATTAAATATATTTTATTCTTATCT
* * **
185763 TAACT-TATTATATAATTTATATTCTT
64 TTACTAAAAAATAT-ATTT-TATTCTT
* * * * * * * *
185789 AACTTAAATTATTAAATATA-TTATATTCTTACCTTAAATTATTAAATATAATTAATTCTTAT-T
1 ATCTTAACTTA-AAAATATATTTTTATT-TTATCTTAACTTATTAAATATATTTTATTCTTATCT
* * *
185852 TTAACTTAAAACATATCTTTTATTTTT
64 TT-AC-TAAAAAATATATTTTATTCTT
* * *
185879 ATCTTAACTTAAAAATATATTTTTATTTTA-C-CAA---A--AAATATATTTTATTTTTATCTTA
1 ATCTTAACTTAAAAATATATTTTTATTTTATCTTAACTTATTAAATATATTTTATTCTTATCTTT
* *
185937 ACTAGAAAAA-ATATATTATTTTT
66 ACTA-AAAAATATATTTTATTCTT
* *
185960 ATCTTAAATTATAAATAT
1 ATCTTAACTTAAAAATAT
185978 TATTAGATTA
Statistics
Matches: 225, Mismatches: 43, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
81 29 0.13
82 22 0.10
83 2 0.01
84 1 0.00
87 2 0.01
88 1 0.00
89 30 0.13
90 103 0.46
91 23 0.10
92 12 0.05
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (88 bp):
ATCTTAACTTAAAAATATATTTTTATTTTATCTTAACTTATTAAATATATTTTATTCTTATCTTT
ACTAAAAAATATATTTTATTCTT
Found at i:185751 original size:120 final size:120
Alignment explanation
Indices: 185608--185901 Score: 310
Period size: 120 Copynumber: 2.5 Consensus size: 120
185598 TTAATTTTAC
* * * **
185608 ATCTTAACATTAAAAAATGTATTTCATTTTTATATTAACTTATTAAATATATTTTATTCTTGTCT
1 ATCTTAAC-TTAAAAAATATATTTTATTTTTATCTTAACTTATTAAATATATTTTATTCTTAACT
* * ** * * *
185673 T-TACTAAAAAATATATTTTATTCTTATTTTAACTTA-AAAATATATTTTTAGTAT-TT
65 TAAACTAAAAAATATATTATATTCTTACCTTAAATTATAAAATATA--ATTAAT-TCTT
* *
185729 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTATTATATA-ATTTATATTCTTAACT
1 ATCTTAACTTAAAAAATATATTTTATTTTTATCTTAACTTATTAAATATATTT-TATTCTTAACT
* ** *
185793 TAAATTATTAAATATATTATATTCTTACCTTAAATTATTAAATATAATTAATTCTT
65 TAAACTAAAAAATATATTATATTCTTACCTTAAATTATAAAATATAATTAATTCTT
* * * *
185849 ATTTTAACTTAAAACATATCTTTTATTTTTATCTTAACTTA-AAAATATATTTT
1 ATCTTAACTTAAAAAATATATTTTATTTTTATCTTAACTTATTAAATATATTTT
185902 TATTTTACCA
Statistics
Matches: 144, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
119 10 0.07
120 92 0.64
121 35 0.24
122 7 0.05
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (120 bp):
ATCTTAACTTAAAAAATATATTTTATTTTTATCTTAACTTATTAAATATATTTTATTCTTAACTT
AAACTAAAAAATATATTATATTCTTACCTTAAATTATAAAATATAATTAATTCTT
Found at i:185899 original size:24 final size:23
Alignment explanation
Indices: 185872--185928 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
185862 ACATATCTTT
**
185872 TATTTTTATCTTAACTTAAAAATA
1 TATTTTTAT-TTAACCAAAAAATA
*
185896 TATTTTTATTTTACCAAAAAATA
1 TATTTTTATTTAACCAAAAAATA
185919 TA-TTTTATTT
1 TATTTTTATTT
185929 TTATCTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 8 0.27
23 13 0.43
24 9 0.30
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTTTATTTAACCAAAAAATA
Found at i:185960 original size:52 final size:52
Alignment explanation
Indices: 185859--185960 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
185849 ATTTTAACTT
* * * *
185859 AAAACATATCTTTTATTTTTATCTTAACTTAAAAATATATTTTTATTTTACC
1 AAAAAATATATTTTATTTTTATCTTAACTAAAAAATATATTTATATTTTACC
185911 AAAAAATATATTTTATTTTTATCTTAACTAGAAAAA-ATATATTAT-TTTTA
1 AAAAAATATATTTTATTTTTATCTTAACTA-AAAAATATAT-TTATATTTTA
185961 TCTTAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 36 0.82
53 8 0.18
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (52 bp):
AAAAAATATATTTTATTTTTATCTTAACTAAAAAATATATTTATATTTTACC
Found at i:185978 original size:22 final size:22
Alignment explanation
Indices: 185953--186001 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
185943 AAAAATATAT
** * *
185953 TATTTTTATCTTAAATTATAAA
1 TATTTTTAGATTAAAATAAAAA
*
185975 TATTATTAGATTAAAATAAAAA
1 TATTTTTAGATTAAAATAAAAA
185997 TATTT
1 TATTT
186002 AAGTTAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTTTAGATTAAAATAAAAA
Found at i:186042 original size:30 final size:30
Alignment explanation
Indices: 185999--186132 Score: 126
Period size: 30 Copynumber: 4.5 Consensus size: 30
185989 AATAAAAATA
*
185999 TTTAAGTTAATATAAGAATAAATTATATTT
1 TTTAAGTTAATATAAGAATAAAATATATTT
* * *
186029 TTTAATTTCATATAAGATTAAAATATATTT
1 TTTAAGTTAATATAAGAATAAAATATATTT
** * *
186059 TTGCAGTTAAGATAAAAATAAAATATA-TT
1 TTTAAGTTAATATAAGAATAAAATATATTT
* ** *
186088 TTTAGGTTACGAGAAGAATAAAATATATTT
1 TTTAAGTTAATATAAGAATAAAATATATTT
** *
186118 AATAAGTTAAGATAA
1 TTTAAGTTAATATAA
186133 AAAATATTTT
Statistics
Matches: 81, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
29 23 0.28
30 58 0.72
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTAAGTTAATATAAGAATAAAATATATTT
Found at i:186107 original size:29 final size:29
Alignment explanation
Indices: 186042--186117 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
186032 AATTTCATAT
* *
186042 AAGATTAAAATATATTTTTGCAGTTAAGAT
1 AAGAATAAAATATATTTTTG-AGTTAAGAG
* *
186072 AAAAATAAAATATATTTTT-AGGTTACGAG
1 AAGAATAAAATATATTTTTGA-GTTAAGAG
186101 AAGAATAAAATATATTT
1 AAGAATAAAATATATTT
186118 AATAAGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 1 0.03
29 22 0.55
30 17 0.43
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (29 bp):
AAGAATAAAATATATTTTTGAGTTAAGAG
Found at i:186139 original size:24 final size:25
Alignment explanation
Indices: 186105--186155 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
186095 TACGAGAAGA
*
186105 ATAAAATATATTTAATAA-GTTAAG
1 ATAAAAAATATTTAATAATGTTAAG
**
186129 ATAAAAAATATTTTTTAATGTTAAG
1 ATAAAAAATATTTAATAATGTTAAG
186154 AT
1 AT
186156 GTGAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (25 bp):
ATAAAAAATATTTAATAATGTTAAG
Found at i:186175 original size:18 final size:19
Alignment explanation
Indices: 186143--186193 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
186133 AAAATATTTT
186143 TTAATGTTAAGATGTGAAA
1 TTAATGTTAAGATGTGAAA
* *
186162 TTAAT-TTAATATGTGAAT
1 TTAATGTTAAGATGTGAAA
*
186180 TTAA-GTAAAGATGT
1 TTAATGTTAAGATGT
186194 ATAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (19 bp):
TTAATGTTAAGATGTGAAA
Found at i:188223 original size:3 final size:3
Alignment explanation
Indices: 188215--188270 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
188205 AATATTAATA
188215 TAT TAT TAT TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
188261 TAT TAT TAT T
1 TAT TAT TAT T
188271 TAATTACATT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:190817 original size:25 final size:22
Alignment explanation
Indices: 190772--190818 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
190762 ATTAAAGTCA
*
190772 TAATTATTTTTAAAATAATATT
1 TAATTATTTTTAAAAAAATATT
190794 TAATTATTTTTCCAAAAAAAATATT
1 TAATTATTTTT---AAAAAAATATT
190819 ATGGCCGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
25 10 0.48
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATTATTTTTAAAAAAATATT
Found at i:193589 original size:2 final size:2
Alignment explanation
Indices: 193584--193813 Score: 442
Period size: 2 Copynumber: 115.0 Consensus size: 2
193574 TATATCTTTT
193584 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
193626 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
193668 CA CA CA CA CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
193710 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
193752 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
193794 CA CA CA CA CT CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA
193814 TACATATATC
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 224 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:196371 original size:54 final size:54
Alignment explanation
Indices: 196305--196779 Score: 577
Period size: 54 Copynumber: 8.8 Consensus size: 54
196295 CTATACAATC
* * ** * * **
196305 ATTCATAAACATATTATGAATTCTGTGGGTTGTACACATAGTGCCGAAATTGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTT
*
196359 ATTCATCAACATATGATGAATT-TCGTGAATTGCACACTTAGTGCCGAAACGATT
1 ATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGGTT
* *
196413 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAAC--TAT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGT-T
* *
196466 ATTCATCAACATATAATGAATTATGTGAATTGCACACTTAGTGCC-AAGACGGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAA-ACGGTT
* *
196520 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGTAATGGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
196574 ATTCATCAACATATGATGAATTCCGGGAATTGCACACTTAGTGCCGAAACGGTT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTT
* * * ** * *
196628 ATTCCTCAACATAAGATGAATT-TCGTGAATTGCACAGTTAGTGTTGAAATGATT
1 ATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGGTT
* * * * *
196682 ATTCATTAACATATGATGAACT-TGTGAATTGCACACTTAGTGCCAAAATGGGT
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
196735 ATTCATCAATATATGATAAATT-TCGTGAATTGCACACTTAGTGCC
1 ATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCC
196780 TATTTGGTAA
Statistics
Matches: 366, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
52 3 0.01
53 88 0.24
54 273 0.75
55 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGGTT
Found at i:196578 original size:161 final size:158
Alignment explanation
Indices: 196305--196779 Score: 612
Period size: 161 Copynumber: 2.9 Consensus size: 158
196295 CTATACAATC
* * ** * * *
196305 ATTCATAAACATATTATGAATTCTGTGGGTTGTACACATAGTGCCGAAATTGTTATTCATCAACA
1 ATTCATCAACATATAATGAATT-TGTGAATTGCACACTTAGTGCC-AAATGGTTATTCATCAACA
* *
196370 TATGATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGATGAATT
64 TATGATGAATTT-GTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATT
*
196435 CCGTGAATTGCACACTTAGTGTCGAAAC-TAT
128 CCGTGAATTGCACACTTAGTGCCGAAACGT-T
*
196466 ATTCATCAACATATAATGAATTATGTGAATTGCACACTTAGTGCCAAGACGGTTATTCATCAACA
1 ATTCATCAACATATAATGAATT-TGTGAATTGCACACTTAGTGCCAA-ATGGTTATTCATCAACA
*
196531 TATGATGAATTCTGTGAATTGCACACTTAGTGCCGTAATGGTTATTCATCAACATATGATGAATT
64 TATGATGAATT-TGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATT
*
196596 CCGGGAATTGCACACTTAGTGCCGAAACGGTT
128 CCGTGAATTGCACACTTAGTGCCGAAAC-GTT
* * ** * *
196628 ATTCCTCAACATA-AGATGAATTTCGTGAATTGCACAGTTAGTGTTGAAATGATTATTCATTAAC
1 ATTCATCAACATATA-ATGAATTT-GTGAATTGCACACTTAGTG-CCAAATGGTTATTCATCAAC
* * * * *
196692 ATATGATGAACTTGTGAATTGCACACTTAGTGCCAAAATGGGTATTCATCAATATATGATAAATT
63 ATATGATGAATTTGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATT
*
196757 TCGTGAATTGCACACTTAGTGCC
128 CCGTGAATTGCACACTTAGTGCC
196780 TATTTGGTAA
Statistics
Matches: 278, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
160 2 0.01
161 210 0.76
162 63 0.23
163 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (158 bp):
ATTCATCAACATATAATGAATTTGTGAATTGCACACTTAGTGCCAAATGGTTATTCATCAACATA
TGATGAATTTGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATTCCG
TGAATTGCACACTTAGTGCCGAAACGTT
Found at i:196657 original size:215 final size:215
Alignment explanation
Indices: 196305--196779 Score: 686
Period size: 215 Copynumber: 2.2 Consensus size: 215
196295 CTATACAATC
* * ** * * *
196305 ATTCATAAACATATTATGAATTCTGTGGGTTGTACACATAGTGCCGAAATTGTTATTCATCAACA
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACA
* * *
196370 TATGATGAATTTCGTGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATATGATGAATT
66 TATGATGAATTCCGGGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATAAGATGAATT
*
196435 CCGTGAATTGCACACTTAGTGTCGAAACT-A-TATTCATCAACATATAATGAATTATGTGAATTG
131 CCGTGAATTGCACACTTAGTGTCGAAA-TGATTATTCATCAACATATAATGAACT-TGTGAATTG
* *
196498 CACACTTAGTGCCAAGACGGTT
194 CACACTTAGTGCCAAAACGGGT
*
196520 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGTAATGGTTATTCATCAACA
1 ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACA
* *
196585 TATGATGAATTCCGGGAATTGCACACTTAGTGCCGAAACGGTTATTCCTCAACATAAGATGAATT
66 TATGATGAATTCCGGGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATAAGATGAATT
* * * * *
196650 TCGTGAATTGCACAGTTAGTGTTGAAATGATTATTCATTAACATATGATGAACTTGTGAATTGCA
131 CCGTGAATTGCACACTTAGTGTCGAAATGATTATTCATCAACATATAATGAACTTGTGAATTGCA
*
196715 CACTTAGTGCCAAAATGGGT
196 CACTTAGTGCCAAAACGGGT
* *
196735 ATTCATCAATATATGATAAATT-TCGTGAATTGCACACTTAGTGCC
1 ATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCC
196780 TATTTGGTAA
Statistics
Matches: 233, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
214 2 0.01
215 211 0.91
216 20 0.09
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (215 bp):
ATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAATGGTTATTCATCAACA
TATGATGAATTCCGGGAATTGCACACTTAGTGCCGAAACGATTATTCATCAACATAAGATGAATT
CCGTGAATTGCACACTTAGTGTCGAAATGATTATTCATCAACATATAATGAACTTGTGAATTGCA
CACTTAGTGCCAAAACGGGT
Found at i:197144 original size:22 final size:19
Alignment explanation
Indices: 197119--197170 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 19
197109 TGCCCCTACC
197119 ATGGTATCGATACTACTATACT
1 ATGGTATCGATAC-ACTAT--T
197141 ATGGTATCGATACACTATT
1 ATGGTATCGATACACTATT
*
197160 ACGGTATCGAT
1 ATGGTATCGAT
197171 GCCATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.38
21 5 0.17
22 13 0.45
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGGTATCGATACACTATT
Found at i:197167 original size:19 final size:21
Alignment explanation
Indices: 197121--197170 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
197111 CCCCTACCAT
*
197121 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
197143 GGTATCGATAC-ACTAT-TAC
1 GGTATCGATACTACTATATAC
197162 GGTATCGAT
1 GGTATCGAT
197171 GCCATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.41
21 5 0.19
22 11 0.41
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:198090 original size:13 final size:13
Alignment explanation
Indices: 198072--198102 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
198062 CCCCTTAAGA
198072 AATTTCATCCTCG
1 AATTTCATCCTCG
*
198085 AATTTCGTCCTCG
1 AATTTCATCCTCG
198098 AATTT
1 AATTT
198103 AAAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.42
Consensus pattern (13 bp):
AATTTCATCCTCG
Found at i:203733 original size:2 final size:2
Alignment explanation
Indices: 203726--203751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
203716 AACAAGTATT
203726 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
203752 AAAAATAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:206320 original size:90 final size:89
Alignment explanation
Indices: 206054--206437 Score: 597
Period size: 90 Copynumber: 4.3 Consensus size: 89
206044 TTATAGATGA
* * * *
206054 CCGAAGGATTTAAAAATCAAGAAACCCCAAAGGCTTAGTTTCTTAAAATCTCATTTAAAAACATC
1 CCGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTC-TAAAATCTCATTTGAAAACATC
* *
206119 TTGCACTGAAGGTCTTATGGATGGT
65 CTGCACTGAAGGTCTTATGGATGGC
* *
206144 CCAAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTAAAATCTCTTTTGAAAACATCC
1 CCGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCC
206209 TGCACTGAAGGTCTTATGGATGGC
66 TGCACTGAAGGTCTTATGGATGGC
* * *
206233 CCGAAGTATTTATAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAAAATCTCATTTGAAAACATC
1 CCGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTC-TAAAATCTCATTTGAAAACATC
206298 CTGCACTGAAGGTCTTATGGATGGC
65 CTGCACTGAAGGTCTTATGGATGGC
*
206323 CCGAAGGACTTACAAATCAAGAAACCCCCGAAGGATTAGTTTCTAAAATCTCATTTGAAAACATC
1 CCGAAGGACTTACAAATCAAGAAA-CCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATC
* *
206388 CTGTACTGAAGGTATTATGGATGGC
65 CTGCACTGAAGGTCTTATGGATGGC
**
206413 CCGAAGGACTTACTCATCAAGAAAC
1 CCGAAGGACTTACAAATCAAGAAAC
206438 TCTTAAAAAT
Statistics
Matches: 271, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
89 82 0.30
90 172 0.63
91 17 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (89 bp):
CCGAAGGACTTACAAATCAAGAAACCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCC
TGCACTGAAGGTCTTATGGATGGC
Found at i:206571 original size:43 final size:43
Alignment explanation
Indices: 206465--206680 Score: 319
Period size: 43 Copynumber: 5.0 Consensus size: 43
206455 AATTTCTTAT
* * * * * *
206465 TTGTCACCAAGTAATCCCTACATATAACGTTGGTCCCTCGAG-
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
206507 -TGTTCATCAAGAAACCCCTACATATCACGATGGTCCCTCAAGC
1 TTG-TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
206550 TTGTCATCAAGGAACCCCTACATATCACAATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
206593 TTGTCATCAAGGAACCCTTACATATCACGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
206636 TTATCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
206679 TT
1 TT
206681 AGTTTCATAT
Statistics
Matches: 159, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
41 2 0.01
42 33 0.21
43 122 0.77
44 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
Found at i:206610 original size:23 final size:23
Alignment explanation
Indices: 206541--206610 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
206531 TCACGATGGT
206541 CCCTCAAGCTTGTCATCAAGGAA
1 CCCTCAAGCTTGTCATCAAGGAA
* * * *
206564 CCC-CTA-CATATCA-CAATGG-T
1 CCCTCAAGCTTGTCATCAA-GGAA
206584 CCCTCAAGCTTGTCATCAAGGAA
1 CCCTCAAGCTTGTCATCAAGGAA
206607 CCCT
1 CCCT
206611 TACATATCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 6 0.18
21 9 0.26
22 9 0.26
23 10 0.29
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (23 bp):
CCCTCAAGCTTGTCATCAAGGAA
Found at i:206640 original size:22 final size:22
Alignment explanation
Indices: 206615--206681 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
206605 AACCCTTACA
206615 TATCACGATGGTCCCTCAAGCT
1 TATCACGATGGTCCCTCAAGCT
* * * *
206637 TATCATC-AAGGAACCC-CTA-CA
1 TATCA-CGATGG-TCCCTCAAGCT
206658 TATCACGATGGTCCCTCAAGCT
1 TATCACGATGGTCCCTCAAGCT
206680 TA
1 TA
206682 GTTTCATATA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
20 4 0.12
21 11 0.34
22 13 0.41
23 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (22 bp):
TATCACGATGGTCCCTCAAGCT
Found at i:208262 original size:51 final size:51
Alignment explanation
Indices: 208186--208365 Score: 218
Period size: 52 Copynumber: 3.5 Consensus size: 51
208176 TTCAAGCTGG
* * * *
208186 TGTGAGCCTTCAAGAGGCCTCACATGAATTACTTATGTCTCTTCATGTTGA
1 TGTGAGCCTTCAAGATGCCCCACATGAATTACTTCTGTCTTTTCATGTTGA
* ** *
208237 TGTGACCCTTCAAGATGCCCCACATGGTTTACTTCTGTCTTTTTCATGCTGA
1 TGTGAGCCTTCAAGATGCCCCACATGAATTACTTCTGTC-TTTTCATGTTGA
* * *
208289 TGTGAGCATTCAAGATGCCCCTACATGTATTACTTCTATCTTTTCATGTTGA
1 TGTGAGCCTTCAAGATGCCCC-ACATGAATTACTTCTGTCTTTTCATGTTGA
* *
208341 TGTGTGCCTTCAAGAT-ACCCACATG
1 TGTGAGCCTTCAAGATGCCCCACATG
208366 GATAATATGG
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 5 0.05
51 36 0.33
52 54 0.49
53 15 0.14
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (51 bp):
TGTGAGCCTTCAAGATGCCCCACATGAATTACTTCTGTCTTTTCATGTTGA
Found at i:208353 original size:104 final size:102
Alignment explanation
Indices: 208174--208366 Score: 260
Period size: 104 Copynumber: 1.9 Consensus size: 102
208164 TATCTCAATA
* * * *
208174 TTTTCAAGCTGGTGTGAGCCTTCAAGAGGCCTCACATGAATTACTTATGTCTCTTCATGTTGATG
1 TTTTCAAGCTGATGTGAGCATTCAAGAGGCCCCACATGAATTACTTATATCTCTTCATGTTGATG
*
208239 TGACCCTTCAAGATGCCCCACATGGTTTACTTCTGTCT
66 TGACCCTTCAAGAT-ACCCACATGGTTTACTTCTGTCT
* * * * *
208277 TTTTCATGCTGATGTGAGCATTCAAGATGCCCCTACATGTATTACTTCTATCTTTTCATGTTGAT
1 TTTTCAAGCTGATGTGAGCATTCAAGAGGCCCC-ACATGAATTACTTATATCTCTTCATGTTGAT
**
208342 GTGTGCCTTCAAGATACCCACATGG
65 GTGACCCTTCAAGATACCCACATGG
208367 ATAATATGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 37 0.48
104 40 0.52
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (102 bp):
TTTTCAAGCTGATGTGAGCATTCAAGAGGCCCCACATGAATTACTTATATCTCTTCATGTTGATG
TGACCCTTCAAGATACCCACATGGTTTACTTCTGTCT
Found at i:209561 original size:7 final size:7
Alignment explanation
Indices: 209544--209614 Score: 112
Period size: 7 Copynumber: 10.4 Consensus size: 7
209534 TTATTACTTA
209544 TTCTTTCT
1 TTCTTT-T
209552 TTCTTTT
1 TTCTTTT
209559 TTC---T
1 TTCTTTT
209563 TTCTTTT
1 TTCTTTT
209570 TTCTTTT
1 TTCTTTT
209577 TTCTTTT
1 TTCTTTT
209584 TTCTTTT
1 TTCTTTT
209591 TTCTTTT
1 TTCTTTT
209598 TTCTTTT
1 TTCTTTT
209605 TTCTTTT
1 TTCTTTT
209612 TTC
1 TTC
209615 CTTCGAGTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.07
7 50 0.83
8 6 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTCTTTT
Done.