Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006577.1 Hibiscus syriacus cultivar Beakdansim tig00016115_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: 203145
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2858 original size:20 final size:19
Alignment explanation
Indices: 2821--2859 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2811 GATTAAATTT
**
2821 GACTAAATTACAGTATATG
1 GACTAAATTACAACATATG
2840 GACTAAATCTACAACATATG
1 GACTAAAT-TACAACATATG
2860 TGTGCATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
GACTAAATTACAACATATG
Found at i:3420 original size:41 final size:41
Alignment explanation
Indices: 3363--3441 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
3353 TAAGATCCAG
3363 AAAATGAGAGCCCAAGCAATCGCTCAAGGTTCTCCCCACAC
1 AAAATGAGAGCCCAAGCAATCGCTCAAGGTTCTCCCCACAC
3404 AAAATGAGAGCCCAAGCAATCGCTCAAGGTTCTCCCCA
1 AAAATGAGAGCCCAAGCAATCGCTCAAGGTTCTCCCCA
3442 TATTAGCTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.33, G:0.18, T:0.15
Consensus pattern (41 bp):
AAAATGAGAGCCCAAGCAATCGCTCAAGGTTCTCCCCACAC
Found at i:4033 original size:14 final size:14
Alignment explanation
Indices: 4014--4040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4004 TGTCTTTCCC
4014 TAAAAATCAAAACT
1 TAAAAATCAAAACT
4028 TAAAAATCAAAAC
1 TAAAAATCAAAAC
4041 CTCTTCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAATCAAAACT
Found at i:11501 original size:127 final size:123
Alignment explanation
Indices: 11352--11808 Score: 610
Period size: 123 Copynumber: 3.8 Consensus size: 123
11342 AAAATCAGCG
* * *
11352 GTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCGGGTCACCACAAAGCCGAAT
1 GTTAGTAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAAGCCGAAT
11417 CAAATATTAGAAATAATAAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTA
66 CAAATATTAG--A-AAT-AATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTA
* * *
11479 GTTAGAAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATTGGGTCACCACAAGGCCGAAT
1 GTTAGTAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAAGCCGAAT
* *
11544 GAAATATTAGAAATAATAAATAAAT-AAA--T---A---AAT-AAATAAAAGTTAGTA
66 CAAATATTAGAAATAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTA
* * * *
11592 GTTAGTAGAGTCTGAACCATAATAATGCAGATCACACCCCAAATCGGGTCACCACAAAGCCGAAT
1 GTTAGTAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAAGCCGAAT
* *
11657 CAAATATTAGAAATAATAAATAAATAAAAGTTAGAATGCAATAAAATAAATGCCAGTA
66 CAAATATTAGAAATAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTA
* * * * *
11715 GTTAGTAGAGTCTGAACCATAATAATGCGGATCATACCTCGGATCGGGTCACCACAAGGTCGAAT
1 GTTAGTAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAAGCCGAAT
* *
11780 CGAATATTAAAAATAATAAATAAAATAAA
66 CAAATATTAGAAATAATAAAT-AAATAAA
11809 TAAATAACAA
Statistics
Matches: 292, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
113 96 0.33
114 6 0.02
116 1 0.00
117 1 0.00
119 1 0.00
120 1 0.00
122 6 0.02
123 100 0.34
124 10 0.03
125 1 0.00
127 69 0.24
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (123 bp):
GTTAGTAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAAGCCGAAT
CAAATATTAGAAATAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTA
Found at i:11567 original size:4 final size:4
Alignment explanation
Indices: 11554--11583 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11544 GAAATATTAG
11554 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11584 AGTTAGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11788 original size:236 final size:240
Alignment explanation
Indices: 11352--11815 Score: 731
Period size: 236 Copynumber: 1.9 Consensus size: 240
11342 AAAATCAGCG
* * * **
11352 GTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCGGGTCACCACAAAGCCGAAT
1 GTTAGCAGAGTCCGAACCATAATAATGCAGATCACACCCCAAATCGGGTCACCACAAAGCCGAAT
*
11417 CAAATATTAGAAATAATAAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGTCAGTAGTT
66 CAAATATTAG-AATAATAAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGCCAGTAGTT
*
11482 AGAAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATTGGGTCACCACAAGGCCGAATGAA
130 AGAAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAGGCCGAATGAA
*
11547 ATATTAGAAATAATAAAT-AAATAAATAAATAAATAAAAGTTAGTA
195 ATATTAAAAATAATAAATAAAATAAATAAATAAATAAAAGTTAGTA
* *
11592 GTTAGTAGAGTCTGAACCATAATAATGCAGATCACACCCCAAATCGGGTCACCACAAAGCCGAAT
1 GTTAGCAGAGTCCGAACCATAATAATGCAGATCACACCCCAAATCGGGTCACCACAAAGCCGAAT
*
11657 CAAATATTAG-A-AAT-AATAAATAAATAAAAGTTAGAATGCAATAAAATAAATGCCAGTAGTTA
66 CAAATATTAGAATAATAAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGCCAGTAGTTA
* * * * *
11719 GTAGAGTCTGAACCATAATAATGCGGATCATACCTCGGATCGGGTCACCACAAGGTCGAATCG-A
131 GAAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAGGCCGAAT-GAA
11783 ATATTAAAAATAATAAATAAAATAAATAAATAA
195 ATATTAAAAATAATAAATAAAATAAATAAATAA
11816 CAATAATTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
236 119 0.58
237 18 0.09
238 1 0.00
240 68 0.33
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (240 bp):
GTTAGCAGAGTCCGAACCATAATAATGCAGATCACACCCCAAATCGGGTCACCACAAAGCCGAAT
CAAATATTAGAATAATAAATAAATAAATAAAAGTTAGAATGCAATAAAATAAAAGCCAGTAGTTA
GAAGAGTCCGAACCATAATAATGCGGATCATACCCCAGATCGGGTCACCACAAGGCCGAATGAAA
TATTAAAAATAATAAATAAAATAAATAAATAAATAAAAGTTAGTA
Found at i:11810 original size:13 final size:13
Alignment explanation
Indices: 11789--11826 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11779 TCGAATATTA
11789 AAAAT-AATAAAT
1 AAAATAAATAAAT
11801 AAAATAAATAAAT
1 AAAATAAATAAAT
*
11814 AACAATAATTAAA
1 AA-AATAAATAAA
11827 GTGCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 9 0.39
14 9 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:13156 original size:44 final size:44
Alignment explanation
Indices: 13070--13156 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
13060 ATTTCAATCC
* * * ** *
13070 ACCTCCTTCTGTGATAGAATCAAACGAGATGTCGGTGTTGATCT
1 ACCTCCTTCTGTGATAGAATCAAACAAAAAGTCAATGCTGATCT
*
13114 ACCTCCTTCTGTGATAGAATCAAACAAAAAGTTAATGCTGATC
1 ACCTCCTTCTGTGATAGAATCAAACAAAAAGTCAATGCTGATC
13157 CAACTCCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
ACCTCCTTCTGTGATAGAATCAAACAAAAAGTCAATGCTGATCT
Found at i:13170 original size:132 final size:132
Alignment explanation
Indices: 12972--13278 Score: 416
Period size: 132 Copynumber: 2.3 Consensus size: 132
12962 CATAATGTTA
* * * * **
12972 GTGTTGATTTACCTCCTTCTGTGATAGAATCGAGCAAAATGTTGATGTTGATCCAACTCTTTATG
1 GTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTAATGCTGATCCAACTCCATATG
** * * *
13037 CGATGGATTTGAATGAAATGAAAATTTCAATCCACCTCCTTCTGTGATAGAATCAAACGAGATGT
66 CGATGGATTTGAACAAAATAAAAATGTCAATCCACCTCCTTCTGTGATAGAATCAAACGAGATAT
13102 CG
131 CG
* *
13104 GTGTTGATCTACCTCCTTCTGTGATAGAATCAAACAAAAAGTTAATGCTGATCCAACTCCATATG
1 GTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTAATGCTGATCCAACTCCATATG
* * * * * **
13169 CGATGGATTTGAGCAAAATAAAAATGTCGATCCACCTCTTTCTGTGATAGAATCGAATGATCTAT
66 CGATGGATTTGAACAAAATAAAAATGTCAATCCACCTCCTTCTGTGATAGAATCAAACGAGATAT
13234 CG
131 CG
* *
13236 ATGTTGATCTACCTCCTTCTATGATAGAATCGAGCAAAAAGTT
1 GTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
13279 GAACAATCTC
Statistics
Matches: 151, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 151 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (132 bp):
GTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTAATGCTGATCCAACTCCATATG
CGATGGATTTGAACAAAATAAAAATGTCAATCCACCTCCTTCTGTGATAGAATCAAACGAGATAT
CG
Found at i:13383 original size:20 final size:21
Alignment explanation
Indices: 13358--13415 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
13348 AGATTGAACA
*
13358 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTG
*
13379 A-TTC-TCTC-TAATCGAA-TG
1 AGTTCTTCTCATTAT-GAACTG
13397 AGTTCTTCTCATTATGAAC
1 AGTTCTTCTCATTATGAAC
13416 CCTTCCATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 10 0.34
21 4 0.14
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (21 bp):
AGTTCTTCTCATTATGAACTG
Found at i:13767 original size:66 final size:65
Alignment explanation
Indices: 13662--14096 Score: 416
Period size: 66 Copynumber: 6.8 Consensus size: 65
13652 TAAAATGTCT
* * * * * * * *
13662 TGTTTCAAGCGAAAGTGTCTTAAGGGAAACAAACTTTGTTTCAAAGGAAACATATTCAACGATTT
1 TGTTTCAAGGGAAATTGTCTCAA-GGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTT
*
13727 T
65 G
*
13728 TGTTTCAAGGGAAATTGTCTCAAGGTAGACAAACTTTGTTTCAAGGG--A-A-A--CAAA-A-TT
1 TGTTTCAAGGGAAATTGTCTCAAGG-AGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTT
13785 -
65 G
* * *
13785 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAGATTCAAAGATTG
1 TGTTTCAAGGGAAATTGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTT
13850 G
65 G
* *
13851 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAAC-GATGTCAAACG-T
1 TGTTTCAAGGGAAATTGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAACAGAT-TCAAA-GAT
13914 TTG
63 TTG
* * *
13917 TGTTTCAAGAGAAATTTTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTG
1 TGTTTCAAGGGAAATTGTCTCAA-GGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTT
13982 G
65 G
* * * * *
13983 TGTTTCAAGAGAAATTGTCTCAAGAGAGCCAAAATTATGTTTCAAGAGAAATAGACTC--AG-TC
1 TGTTTCAAGGGAAATTGTCTCAAG-GAGACAAAATT-TGTTTCAAGGGAAACAGATTCAAAGAT-
*
14045 TTT
63 TTG
* *
14048 TGTTTCGAA--GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
1 TGTTTC-AAGGGAAATTGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAA
14097 ATATCTCAAA
Statistics
Matches: 324, Mismatches: 25, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
57 42 0.13
58 3 0.01
59 2 0.01
60 4 0.01
61 1 0.00
62 1 0.00
63 19 0.06
64 27 0.08
65 17 0.05
66 185 0.57
67 23 0.07
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (65 bp):
TGTTTCAAGGGAAATTGTCTCAAGGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTG
Found at i:13771 original size:21 final size:21
Alignment explanation
Indices: 13742--13799 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
13732 TCAAGGGAAA
* * * *
13742 TTGTCTCAAGGTAGACAAACT
1 TTGTTTCAAGGGAAACAAAAT
13763 TTGTTTCAAGGGAAACAAAAT
1 TTGTTTCAAGGGAAACAAAAT
13784 TTGTTTCAAGGGAAAC
1 TTGTTTCAAGGGAAAC
13800 TGTCTCAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (21 bp):
TTGTTTCAAGGGAAACAAAAT
Found at i:14302 original size:36 final size:36
Alignment explanation
Indices: 14262--14335 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
14252 AAAGGAAAAA
14262 TGCCTCAAGTGAGACGAAAATCG-TTTTGAAAGAAAG
1 TGCCTCAAGTGAGACG-AAATCGTTTTTGAAAGAAAG
*
14298 TGCCTCAAGTGAGACGAAATTGTTTTTGAAAGAAAG
1 TGCCTCAAGTGAGACGAAATCGTTTTTGAAAGAAAG
14334 TG
1 TG
14336 TCTCGAGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 5 0.14
36 31 0.86
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (36 bp):
TGCCTCAAGTGAGACGAAATCGTTTTTGAAAGAAAG
Found at i:14354 original size:36 final size:36
Alignment explanation
Indices: 14262--14355 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
14252 AAAGGAAAAA
* *
14262 TGCCTCAAGTGAGACGAAAATCG-TTTTGAAAGAAAG
1 TGCCTCAAGCGAGAC-AAAATTGTTTTTGAAAGAAAG
* *
14298 TGCCTCAAGTGAGACGAAATTGTTTTTGAAAGAAAG
1 TGCCTCAAGCGAGACAAAATTGTTTTTGAAAGAAAG
* * *
14334 TGTCTCGAGCGAGATAAAATTG
1 TGCCTCAAGCGAGACAAAATTG
14356 GTTTCGAGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 5 0.10
36 45 0.90
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (36 bp):
TGCCTCAAGCGAGACAAAATTGTTTTTGAAAGAAAG
Found at i:15533 original size:11 final size:11
Alignment explanation
Indices: 15517--15635 Score: 77
Period size: 11 Copynumber: 10.4 Consensus size: 11
15507 GCTTTTTATC
15517 CTTTTTCTTTG
1 CTTTTTCTTTG
15528 CTTTTTCTTTTG
1 CTTTTTC-TTTG
*
15540 TTTTTTCTCTTTG
1 -CTTTT-TCTTTG
15553 CTTTTTCTTTTCTTAG
1 CTTTTTC---T-TT-G
* *
15569 CTTTTTTATTTA
1 C-TTTTTCTTTG
15581 CTTTTTTCTTTG
1 C-TTTTTCTTTG
*
15593 CTTTTTCTTTT
1 CTTTTTCTTTG
15604 C-TTTTC-TT-
1 CTTTTTCTTTG
15612 -TTTTTCTTTG
1 CTTTTTCTTTG
15622 CTTTTTCTTT-
1 CTTTTTCTTTG
15632 CTTT
1 CTTT
15636 CTTTTCTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
8 5 0.06
9 4 0.05
10 9 0.10
11 28 0.32
12 19 0.22
13 10 0.11
14 4 0.05
15 2 0.02
16 2 0.02
17 5 0.06
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.76
Consensus pattern (11 bp):
CTTTTTCTTTG
Found at i:15538 original size:5 final size:5
Alignment explanation
Indices: 15519--15658 Score: 67
Period size: 5 Copynumber: 27.4 Consensus size: 5
15509 TTTTTATCCT
* * * * **
15519 TTTTC TTTGC TTTTTC TTTTG TTTT- TTCTC TTTGC TTTTTC TTTTC TTAGC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC
* *
15570 TTTTT TATTTAC TTTTTTC TTTGC TTTTTC TTTTC TTTTC -TTT- TTTTC
1 TTTTC T-TTT-C --TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC
* *
15618 TTTGC TTTT- TCTTTC -TTTC TTTTC TTTT- TTGTTT TTTTC TT
1 TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TT
15659 AGCTTTGATT
Statistics
Matches: 102, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
4 16 0.16
5 64 0.63
6 17 0.17
7 1 0.01
8 3 0.03
9 1 0.01
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:15574 original size:30 final size:24
Alignment explanation
Indices: 15518--15644 Score: 86
Period size: 24 Copynumber: 5.4 Consensus size: 24
15508 CTTTTTATCC
15518 TTTTTCTTTGCTTTTTCTTTTGTT
1 TTTTTCTTTGCTTTTTCTTTTGTT
*
15542 TTTTCTCTTTGCTTTTTCTTTTCTT
1 TTTT-TCTTTGCTTTTTCTTTTGTT
** * *
15567 AGCTTT-TTT--ATTTACTTTT-TT
1 -TTTTTCTTTGCTTTTTCTTTTGTT
* * * *
15588 CTTTGCTTTTTC-TTTTCTTTTCTT
1 TTTTTC-TTTGCTTTTTCTTTTGTT
15612 TTTTTCTTTGCTTTTTCTTTCT-TT
1 TTTTTCTTTGCTTTTTCTTT-TGTT
*
15636 CTTTTCTTT
1 TTTTTCTTT
15645 TTTGTTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 11 0.14
23 12 0.15
24 31 0.38
25 21 0.26
26 2 0.02
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (24 bp):
TTTTTCTTTGCTTTTTCTTTTGTT
Found at i:15602 original size:40 final size:39
Alignment explanation
Indices: 15519--15644 Score: 143
Period size: 41 Copynumber: 3.2 Consensus size: 39
15509 TTTTTATCCT
*
15519 TTTTCTTTGCTTTTTCTTTTGTTTTTTCTCTTTGCTTTTTC
1 TTTTCTTTGCTTTTT-TTTTGCTTTTT-TCTTTGCTTTTTC
* *
15560 TTTTCTTAGCTTTTTTATTTACTTTTTTCTTTGCTTTTTC
1 TTTTCTTTGCTTTTTT-TTTGCTTTTTTCTTTGCTTTTTC
*
15600 TTTTCTTTTCTTTTTTTCTTTGC-TTTTTCTTT-C--TTTC
1 TTTTCTTTGC-TTTTTT-TTTGCTTTTTTCTTTGCTTTTTC
15637 TTTTCTTT
1 TTTTCTTT
15645 TTTGTTTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
37 12 0.16
39 1 0.01
40 31 0.41
41 32 0.42
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (39 bp):
TTTTCTTTGCTTTTTTTTTGCTTTTTTCTTTGCTTTTTC
Found at i:15603 original size:29 final size:29
Alignment explanation
Indices: 15582--15654 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
15572 TTTTATTTAC
15582 TTTTTTCTTTGCTTTTTCTTTTCTTTTCT
1 TTTTTTCTTTGCTTTTTCTTTTCTTTTCT
15611 TTTTTTCTTTGCTTTTTC-TTTC-TTTCT
1 TTTTTTCTTTGCTTTTTCTTTTCTTTTCT
*
15638 TTTCTTT-TTTGTTTTTT
1 TTT-TTTCTTTGCTTTTT
15655 TCTTAGCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 17 0.40
28 7 0.17
29 18 0.43
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (29 bp):
TTTTTTCTTTGCTTTTTCTTTTCTTTTCT
Found at i:15664 original size:20 final size:20
Alignment explanation
Indices: 15570--15664 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
15560 TTTTCTTAGC
* *
15570 TTTTTTATTTACTTTTTTCTT
1 TTTTTTCTTTGCTTTTTTC-T
*
15591 TGCTTTTTCTTT--TCTTTTCT
1 T--TTTTTCTTTGCTTTTTTCT
15611 TTTTTTCTTTGC-TTTTTCT
1 TTTTTTCTTTGCTTTTTTCT
* * *
15630 TTCTTTCTTTTCTTTTTTGT
1 TTTTTTCTTTGCTTTTTTCT
*
15650 TTTTTTCTTAGCTTT
1 TTTTTTCTTTGCTTT
15665 GATTTGATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 9 0.15
19 16 0.27
20 20 0.33
21 7 0.12
23 8 0.13
ACGTcount: A:0.03, C:0.15, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTGCTTTTTTCT
Found at i:22274 original size:60 final size:59
Alignment explanation
Indices: 22181--22292 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
22171 TAATTTGAAG
*
22181 GGTAATATTTTAGGTTACAACCAGAAATATTACCCATTTTACATACTTTGTTACGATTTA
1 GGTAATATTTTAGGTTACAACCAGAAATATTACCCACTTTA-ATACTTTGTTACGATTTA
* * * *
22241 GGTAATATTTTAGGTTCCTACCATAAA-AGTTACCCCCTTTAATACTTTGTTA
1 GGTAATATTTTAGGTTACAACCAGAAATA-TTACCCACTTTAATACTTTGTTA
22293 TTTTTAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 12 0.26
60 34 0.74
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (59 bp):
GGTAATATTTTAGGTTACAACCAGAAATATTACCCACTTTAATACTTTGTTACGATTTA
Found at i:23726 original size:181 final size:181
Alignment explanation
Indices: 23422--23774 Score: 512
Period size: 181 Copynumber: 2.0 Consensus size: 181
23412 TGTTAAAGGT
*
23422 GATTTAATACTTATTTCATGAGTATCGGTACTAATAACTAAGTAATGATACTTATCAAGACCTAA
1 GATTTAATACTTATTTCATGAGTATCGGTACTAATAACTAAGTAATGATACTTATCAAGAACTAA
* *
23487 TATTTCTTGGTTTCAAAATAACAATTACATCCGACGGTAACTATAATTTTTTTTTCAAATAATCA
66 TATTTCTTGGTTTCAAAATAACAATTACATCCAACGATAACTATAATTTTTTTTTCAAATAATCA
* *
23552 ATCTAACTATCGACACATATCCGTCATTTTTTAACCTTAAATACATCCAGC
131 ATCTAACTATCGAAACATATACGTCATTTTTTAACCTTAAATACATCCAGC
* * ** * * *
23603 GATTTAATACTTATTTTATGAGTATCGTTACTTGTAACTGAGTAATGATACTTTTCGAGAACTAA
1 GATTTAATACTTATTTCATGAGTATCGGTACTAATAACTAAGTAATGATACTTATCAAGAACTAA
*
23668 TATTTCTTGGTTTCAAAA-AA-AATTACATCCAACGATAACTATTATTATTATTTTTCAAATAAT
66 TATTTCTTGGTTTCAAAATAACAATTACATCCAACGATAACTATAATT-TT-TTTTTCAAATAAT
* * * * *
23731 CAATCTAACTATTGAAATATATATGTTATTTTTTAGCCTTAAAT
129 CAATCTAACTATCGAAACATATACGTCATTTTTTAACCTTAAAT
23775 TAAGTTGTTG
Statistics
Matches: 152, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
179 23 0.15
180 4 0.03
181 125 0.82
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (181 bp):
GATTTAATACTTATTTCATGAGTATCGGTACTAATAACTAAGTAATGATACTTATCAAGAACTAA
TATTTCTTGGTTTCAAAATAACAATTACATCCAACGATAACTATAATTTTTTTTTCAAATAATCA
ATCTAACTATCGAAACATATACGTCATTTTTTAACCTTAAATACATCCAGC
Found at i:24627 original size:20 final size:20
Alignment explanation
Indices: 24431--24622 Score: 206
Period size: 20 Copynumber: 9.4 Consensus size: 20
24421 GTTTCTAGAT
24431 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
24451 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
** * * *
24471 TCGCATTGCGATTTTTTA-AA
1 TCGCAACGCGA-TTCTGACTA
*** *
24491 TTCGCGTTGCGATTTTCCGACTA
1 -TCGCAACGCGA--TTCTGACTA
* *
24514 TCGCAATGCGATTATGACTA
1 TCGCAACGCGATTCTGACTA
24534 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
24554 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
24574 TCGCAATGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* *
24594 TCGCAATGCGATGCTGACTA
1 TCGCAACGCGATTCTGACTA
24614 TCGCAACGC
1 TCGCAACGC
24623 AATGCGATTT
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
20 119 0.81
21 14 0.10
22 13 0.09
23 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:24846 original size:22 final size:22
Alignment explanation
Indices: 24795--24847 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24785 CACTCTCTAA
* *
24795 GGCGACATCCGTCCCCATCTCC
1 GGCGAAATCAGTCCCCATCTCC
* *
24817 GACAAAATCAGTCCCCATCTCC
1 GGCGAAATCAGTCCCCATCTCC
24839 GGCGAAATC
1 GGCGAAATC
24848 CGTCTATCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.42, G:0.17, T:0.17
Consensus pattern (22 bp):
GGCGAAATCAGTCCCCATCTCC
Found at i:25289 original size:20 final size:20
Alignment explanation
Indices: 25264--25316 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
25254 CGATTTTCAT
25264 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
25284 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
25304 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
25317 TTTAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:25326 original size:20 final size:19
Alignment explanation
Indices: 25235--25326 Score: 67
Period size: 20 Copynumber: 4.7 Consensus size: 19
25225 AATCGCAATA
* *
25235 CGATTTTAGTTTCGTGTTG
1 CGATTTTAATTTCGCGTTG
*
25254 CGATTTTCATTTCGCGTTG
1 CGATTTTAATTTCGCGTTG
* * *
25273 CGATAGTCAAATTCGCGTTG
1 CGAT-TTTAATTTCGCGTTG
* * * *
25293 CGATAGTCATTTTCGTGTTG
1 CGAT-TTTAATTTCGCGTTG
25313 CGATTTTAAGTTTC
1 CGATTTTAA-TTTC
25327 AAAAACTATT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 22 0.38
20 36 0.62
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (19 bp):
CGATTTTAATTTCGCGTTG
Found at i:27067 original size:18 final size:18
Alignment explanation
Indices: 27044--27093 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
27034 TTTACTCGTA
27044 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
*
27062 ATTTCACTTAGATTAATC
1 ATTTCACTTAGATTAACC
27080 ATTTCACTTAGATT
1 ATTTCACTTAGATT
27094 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:27268 original size:20 final size:20
Alignment explanation
Indices: 27243--27288 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
27233 GTTTACTTTT
27243 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
**
27263 GCAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
27283 GCAACG
1 GCAACG
27289 AAAGAATCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:27385 original size:20 final size:20
Alignment explanation
Indices: 27331--27396 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
27321 GCGATTCTCT
**
27331 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
27351 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
27371 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
27391 CGTTGC
1 CGTTGC
27397 AAAAGTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:27621 original size:20 final size:20
Alignment explanation
Indices: 27596--27656 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
27586 CTTTCGGAAT
27596 GCGAAAATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAC
27616 GCGAAAATGACTATCGCAAC
1 GCGAAAATGACTATCGCAAC
* *
27636 GC-AAATTTTACTATCGCAAC
1 GCGAAA-ATGACTATCGCAAC
27656 G
1 G
27657 AAATAATCGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 3 0.08
20 35 0.92
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAC
Found at i:27727 original size:348 final size:341
Alignment explanation
Indices: 27090--27744 Score: 937
Period size: 348 Copynumber: 1.9 Consensus size: 341
27080 ATTTCACTTA
27090 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
*
27155 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCATTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCACTCAAGTTTCAATTTG
* **
27220 CAGAAGAAGAATAGTTTACTTTTGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGC
131 CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGC
* * ** * *
27285 AACGAAAGAATCGCAATGCGAAATGAAAATTGCATTGCGATTCTCTCGTTGCGATAGTCAAATTC
196 AACGAAAGAATCGCAA-GCGAAAT--AAATCGCAATGCGATAATCGCATTGCGATA-TC--ATTC
*
27350 GCATTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTAGTCTTC
255 G-ATTGCGATAGTCAATTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTAGTCTTC
27415 TTCTGCAAATTGAAACTTGAATG
319 TTCTGCAAATTGAAACTTGAATG
27438 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
1 GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
*
27503 AAGTTAGTATTTGTTTTTTGTTGTCTTTTGGTTGAAGTAATGCAATCCACTCAAGTTTCAATTTG
66 AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCACTCAAGTTTCAATTTG
* *
27568 CAGAAGAATG-ATAGTTTACTTTCGGAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCG
131 CAGAAGAA-GAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCG
*
27632 CAACGCAAATTTTACTATCGCAA-CGAAAT-AATCGCAATGCGAAATGAAAATCGCATTGCGAT-
195 CAACG-AAA---GA--ATCGCAAGCGAAATAAATCGCAATGCG--AT---AATCGCATTGCGATA
27694 TC-TCTCG-TTGCGATAGTCAAATTT-GCGTTGCGATAGTCATTTTCGCGTTGC
249 TCAT-TCGATTGCGATAGTC-AATTTCGCGTTGCGATAGTCATTTTCGCGTTGC
27745 GATAGTCATT
Statistics
Matches: 278, Mismatches: 15, Indels: 28
0.87 0.05 0.09
Matches are distributed among these distances:
348 228 0.82
349 19 0.07
350 3 0.01
351 2 0.01
352 9 0.03
354 17 0.06
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (341 bp):
GATTGCTTAGTAAATTCATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACCCTGTG
AAGTTAGTATTTGTTTTTGGTTGTCTTTTGGTTGAAGTAATGCAATCCACTCAAGTTTCAATTTG
CAGAAGAAGAATAGTTTACTTTCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGC
AACGAAAGAATCGCAAGCGAAATAAATCGCAATGCGATAATCGCATTGCGATATCATTCGATTGC
GATAGTCAATTTCGCGTTGCGATAGTCATTTTCGCGTTGCAAAAGTAAACTAGTCTTCTTCTGCA
AATTGAAACTTGAATG
Found at i:27753 original size:20 final size:19
Alignment explanation
Indices: 27699--27754 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
27689 GCGATTCTCT
*
27699 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTC-ATTTTG
27719 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTT-G
27739 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
27755 CGTGTTGCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTTG
Found at i:27761 original size:18 final size:18
Alignment explanation
Indices: 27699--27765 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 18
27689 GCGATTCTCT
*
27699 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTC--ATTCG
27719 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA--TTCG
27739 CGTTGCGATAGTCATTCG
1 CGTTGCGATAGTCATTCG
*
27757 TGTTGCGAT
1 CGTTGCGAT
27766 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.30
20 30 0.70
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (18 bp):
CGTTGCGATAGTCATTCG
Found at i:29787 original size:14 final size:14
Alignment explanation
Indices: 29750--29811 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
29740 TTGCTTGTTT
*
29750 AATTGATTTATAAA
1 AATTGATTTGTAAA
29764 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
29778 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
29793 TATTGATGTGTAAA
1 AATTGATTTGTAAA
29807 TAATT
1 -AATT
29812 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:29935 original size:20 final size:20
Alignment explanation
Indices: 29910--29962 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
29900 AGGTACACTT
* *
29910 TCGCAACGCTAAACCCAAAA
1 TCGCAACGCGAAACACAAAA
* *
29930 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAACACAAAA
*
29950 TCACAACGCGAAA
1 TCGCAACGCGAAA
29963 GTCAATTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.28, G:0.15, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAACACAAAA
Found at i:30015 original size:34 final size:34
Alignment explanation
Indices: 29972--30182 Score: 181
Period size: 34 Copynumber: 5.9 Consensus size: 34
29962 AGTCAATTCG
* *
29972 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* *
30006 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACGCGTTGCGAT--T----TTCT
*
30046 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* ** *
30080 CATTGCGATAGTCAAATAATCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACGCGTTGCGAT--T----TTCT
*
30120 CGTTGCGATAGTCAAATTCGCGTTGCGATTTT-T
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* * *
30153 GAGTTGCGATAATCAAATTCGCGTTGCGAT
1 -CGTTGCGATAGTCAAATACGCGTTGCGAT
30183 AGTCAAATTC
Statistics
Matches: 145, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
34 83 0.57
36 2 0.01
38 2 0.01
40 58 0.40
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
Found at i:30031 original size:20 final size:20
Alignment explanation
Indices: 30006--30210 Score: 209
Period size: 20 Copynumber: 10.8 Consensus size: 20
29996 GCGATTTTCT
* *
30006 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
30026 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
30046 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
30066 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
* ***
30080 CATTGCGATAGTCAAATAAT
1 CGTTGCGATAGTCAAATTCG
*
30100 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
30120 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
30140 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
30154 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
30174 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
30194 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
30211 GAATGTGTAA
Statistics
Matches: 153, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
14 22 0.14
16 2 0.01
18 2 0.01
20 127 0.83
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:30055 original size:74 final size:74
Alignment explanation
Indices: 29966--30210 Score: 366
Period size: 74 Copynumber: 3.3 Consensus size: 74
29956 CGCGAAAGTC
* * *
29966 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
30031 CGATAATCA
66 CGATAATCA
* **
30040 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCATTGCGATAGTCAAATAATCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
30105 CGATAATCA
66 CGATAATCA
* * * *
30114 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAATTCGCGTT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATACCCGTT
*
30178 GCGATAGTCA
65 GCGATAATCA
*
30188 AATTCGCGTTGCGATATTCAAAT
1 AATTCGCGTTGCGATAGTCAAAT
30211 GAATGTGTAA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
73 1 0.01
74 155 0.99
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
CGATAATCA
Found at i:30349 original size:140 final size:141
Alignment explanation
Indices: 30181--30451 Score: 499
Period size: 140 Copynumber: 1.9 Consensus size: 141
30171 TCGCGTTGCG
* * *
30181 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAATTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
*
30246 TAGCAGTGTTCAAACTCAAGTTACTAATACATGCCTAACTG-AAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAAATGTTAAAAGTTTACACATA
30310 AAATACACATA
131 AAATACACATA
30321 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
30386 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAAATGTTAAAAGTTTACACATA
30451 A
131 A
30452 TACAACGATT
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
140 102 0.81
141 24 0.19
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (141 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAAATGTTAAAAGTTTACACATA
AAATACACATA
Found at i:30534 original size:18 final size:18
Alignment explanation
Indices: 30511--30545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30501 AAGCCGGTTG
*
30511 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
30529 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
30546 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:32798 original size:24 final size:24
Alignment explanation
Indices: 32764--32817 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
32754 CTGAAACATC
32764 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
32788 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
32812 ATCAAA
1 ATCAAA
32818 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:33662 original size:20 final size:20
Alignment explanation
Indices: 33637--33744 Score: 171
Period size: 20 Copynumber: 5.4 Consensus size: 20
33627 GAAATTCAGT
*
33637 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
33657 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
33677 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
33697 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
33717 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
*
33737 ATTGCGAT
1 GTTGCGAT
33745 TTACATATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:33751 original size:20 final size:20
Alignment explanation
Indices: 33728--33783 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
33718 TTGCGATAGT
*
33728 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
33748 CATATTCGCATTGTGATTTA
1 CATATTCGCATTGCGATTTA
33768 CATATTCGCATTGCGA
1 CATATTCGCATTGCGA
33784 ATTCGGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:41629 original size:6 final size:6
Alignment explanation
Indices: 41614--41643 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
41604 TTTTTAAGTT
*
41614 TTTTTG TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
41644 AATATGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:42251 original size:4 final size:4
Alignment explanation
Indices: 42244--42283 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
42234 TTTATTTGAA
42244 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
42284 TTATTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:46365 original size:23 final size:23
Alignment explanation
Indices: 46335--46379 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
46325 AATTATTCCA
46335 CTTTAAGATATTTGATCATGCAG
1 CTTTAAGATATTTGATCATGCAG
*
46358 CTTTAAGATATTTGATGATGCA
1 CTTTAAGATATTTGATCATGCA
46380 AAAAGGAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (23 bp):
CTTTAAGATATTTGATCATGCAG
Found at i:49984 original size:15 final size:15
Alignment explanation
Indices: 49964--49993 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49954 ATATAATTCC
49964 TAAAGATAATTCTTA
1 TAAAGATAATTCTTA
49979 TAAAGATAATTCTTA
1 TAAAGATAATTCTTA
49994 AAATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
TAAAGATAATTCTTA
Found at i:50092 original size:29 final size:29
Alignment explanation
Indices: 50050--50113 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
50040 GAATTTCAAA
50050 AAACGCAAAAGATACATTCGTCCTTCTAG
1 AAACGCAAAAGATACATTCGTCCTTCTAG
50079 AAACGCAAAAGATACATTCGTCCTTCTAG
1 AAACGCAAAAGATACATTCGTCCTTCTAG
50108 AAACGC
1 AAACGC
50114 TGATTGTACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (29 bp):
AAACGCAAAAGATACATTCGTCCTTCTAG
Found at i:51834 original size:286 final size:286
Alignment explanation
Indices: 51322--51896 Score: 1051
Period size: 286 Copynumber: 2.0 Consensus size: 286
51312 AAATAATAGA
51322 GGCATTTGAACTTGTTTGATCGATTAAAGCGGAGAACATGCCACGACGTTTCAATAGAGGCATCC
1 GGCATTTGAACTTGTTTGATCGATTAAAGCGGAGAACATGCCACGACGTTTCAATAGAGGCATCC
**
51387 CCACTTCTTGAAAAACGGGTTCAGCAGGCCTCAAGGTCGATGGTGTTATGTCAGTCATAAAGCAC
66 CCACTTCTTGAAAAACGGCCTCAGCAGGCCTCAAGGTCGATGGTGTTATGTCAGTCATAAAGCAC
* *
51452 TAGTTAGGGGAATAATCCGAGTGATGAGAGCATGTTATGTTATCCTCATTGTTTTTCGAGGGATA
131 TAGTTAGGGGAATAATCCGAGTGATGAGAGCATATTATGTTATCCTCATTATTTTTCGAGGGATA
51517 TTCGTCCCCACATACAAGTACTACAGGTCGAATATGCTCGAGAGATTATATATGGACTCATTAGT
196 TTCGTCCCCACATACAAGTACTACAGGTCGAATATGCTCGAGAGATTATATATGGACTCATTAGT
51582 GTATGTGTCAGCCATAAGGATATGAT
261 GTATGTGTCAGCCATAAGGATATGAT
*
51608 GGCATTTGAACTTGTTTGATCGATTAATGCGGAGAACATGCCACGACGTTTCAATAGAGGCATCC
1 GGCATTTGAACTTGTTTGATCGATTAAAGCGGAGAACATGCCACGACGTTTCAATAGAGGCATCC
*
51673 CCACTTCTTGGAAAACGGCCTCAGCAGGCCTCAAGGTCGATGGTGTTATGTCAGTCATAAAGCAC
66 CCACTTCTTGAAAAACGGCCTCAGCAGGCCTCAAGGTCGATGGTGTTATGTCAGTCATAAAGCAC
51738 TAGTTAGGGGAATAATCCGAGTGATGAGAGCATATTATGTTATCCTCATTATTTTTCGAGGGATA
131 TAGTTAGGGGAATAATCCGAGTGATGAGAGCATATTATGTTATCCTCATTATTTTTCGAGGGATA
* * * * *
51803 TTTGTCCCCACATACAAGTACTGCAGGTCGAATATGCTTGAGAGATTATATATGGATTCGTTAGT
196 TTCGTCCCCACATACAAGTACTACAGGTCGAATATGCTCGAGAGATTATATATGGACTCATTAGT
51868 GTATGTGTCAGCCATAAGGATATGAT
261 GTATGTGTCAGCCATAAGGATATGAT
51894 GGC
1 GGC
51897 TACTCATAAG
Statistics
Matches: 278, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
286 278 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (286 bp):
GGCATTTGAACTTGTTTGATCGATTAAAGCGGAGAACATGCCACGACGTTTCAATAGAGGCATCC
CCACTTCTTGAAAAACGGCCTCAGCAGGCCTCAAGGTCGATGGTGTTATGTCAGTCATAAAGCAC
TAGTTAGGGGAATAATCCGAGTGATGAGAGCATATTATGTTATCCTCATTATTTTTCGAGGGATA
TTCGTCCCCACATACAAGTACTACAGGTCGAATATGCTCGAGAGATTATATATGGACTCATTAGT
GTATGTGTCAGCCATAAGGATATGAT
Found at i:53386 original size:60 final size:60
Alignment explanation
Indices: 53292--53423 Score: 246
Period size: 60 Copynumber: 2.2 Consensus size: 60
53282 ATTATTTTTC
*
53292 TACTCTTATTTTGGTCATTAAAGTTTAAACATTTTCAATTGAATTACCCAACTTTTGAAT
1 TACTCTTATTTTGGTCATTAAAGTTTAAACATTTTCAATTGAATCACCCAACTTTTGAAT
*
53352 TACTCTTATTTTGGTCATTAAAGTTTAAATATTTTCAATTGAATCACCCAACTTTTGAAT
1 TACTCTTATTTTGGTCATTAAAGTTTAAACATTTTCAATTGAATCACCCAACTTTTGAAT
53412 TACTCTTATTTT
1 TACTCTTATTTT
53424 AATCACTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (60 bp):
TACTCTTATTTTGGTCATTAAAGTTTAAACATTTTCAATTGAATCACCCAACTTTTGAAT
Found at i:53498 original size:36 final size:35
Alignment explanation
Indices: 53441--53508 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
53431 TTAACTTACT
* *
53441 TTATTATTAATATTTTTATATAGTGTGACATTTTTA
1 TTATTATTAATATATTAATATA-TGTGACATTTTTA
* *
53477 TTATTATTATTATATTAATATATGTGCCATTT
1 TTATTATTAATATATTAATATATGTGACATTT
53509 AAGATTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 9 0.32
36 19 0.68
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (35 bp):
TTATTATTAATATATTAATATATGTGACATTTTTA
Found at i:59341 original size:90 final size:90
Alignment explanation
Indices: 59099--59341 Score: 326
Period size: 90 Copynumber: 2.7 Consensus size: 90
59089 TTAAGATTTT
* *
59099 TCGGTTGTAA-TCGAAATTATTATCAATTATTTAACTTTTTAAAGTAGACATGTAACATTTTAAG
1 TCGGTTGTAACT-GAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGG
* *
59163 TTAAAACATGTTGCAATGTAATATTT
65 TTAAAACACGTTGCAATGTAATATTC
** * ** * * * *
59189 TCGGTTGTAACAAAAATTATTATCAATTATATAACGCTTTCGAATAGATATGTAATATTTTAGGT
1 TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGGT
*
59254 TAAAACACGTTGTAATGTAATATTC
66 TAAAACACGTTGCAATGTAATATTC
**
59279 TCGGTTGTAACTGAAATTATTATTGATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAG
1 TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAG
59342 ATAAAAATCT
Statistics
Matches: 127, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
90 127 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.42
Consensus pattern (90 bp):
TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGGT
TAAAACACGTTGCAATGTAATATTC
Found at i:59365 original size:90 final size:89
Alignment explanation
Indices: 59099--59369 Score: 305
Period size: 90 Copynumber: 3.0 Consensus size: 89
59089 TTAAGATTTT
*
59099 TCGGTTGTAA-TCGAAATTATTATCAATTATTTAACTTTTTAAAGTAGACATGTAACATTTTAAG
1 TCGGTTGTAACT-GAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTT-AG
* * *
59163 TTAAAACATGTTGCAATGTAATATTT
64 TTAAAACATCTTGTAATGTAATATTC
** * ** * * * *
59189 TCGGTTGTAACAAAAATTATTATCAATTATATAACGCTTTCGAATAGATATGTAATATTTTAGGT
1 TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTA-GT
59254 TAAAACA-CGTTGTAATGTAATATTC
65 TAAAACATC-TTGTAATGTAATATTC
** *
59279 TCGGTTGTAACTGAAATTATTATTGATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGAT
1 TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGTT
* *
59344 AAAA-ATCTAATGTAGTATAATATTC
66 AAAACATCT--TGTAATGTAATATTC
59369 T
1 T
59370 TGATTTTTAA
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
88 2 0.01
89 8 0.05
90 138 0.93
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (89 bp):
TCGGTTGTAACTGAAATTATTATCAATTATTTAACTTTTTAGAGTAGACATGTAACATTTTAGTT
AAAACATCTTGTAATGTAATATTC
Found at i:61762 original size:28 final size:29
Alignment explanation
Indices: 61731--61788 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
61721 TTGATCATTT
*
61731 ATTAAAATTTAATTATAA-TTTTAATAGA
1 ATTAAAATTAAATTATAATTTTTAATAGA
* *
61759 ATTATAATTAAATTGTAATTTTTAATAGA
1 ATTAAAATTAAATTATAATTTTTAATAGA
61788 A
1 A
61789 AATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTAAAATTAAATTATAATTTTTAATAGA
Found at i:61793 original size:28 final size:28
Alignment explanation
Indices: 61736--61800 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
61726 CATTTATTAA
* *
61736 AATTTAATTATAATTTTAATAGAATTAT
1 AATTAAATTATAATTTTAATAGAATAAT
*
61764 AATTAAATTGTAATTTTTAATAGAAAATAAT
1 AATTAAATTATAA-TTTTAATAG--AATAAT
61795 AATTAA
1 AATTAA
61801 TTTAAGCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 9 0.29
31 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
AATTAAATTATAATTTTAATAGAATAAT
Found at i:62267 original size:3 final size:3
Alignment explanation
Indices: 62259--62294 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
62249 TATCGGACTA
62259 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62295 GGCATGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:63943 original size:46 final size:46
Alignment explanation
Indices: 63422--63940 Score: 752
Period size: 46 Copynumber: 11.3 Consensus size: 46
63412 GTTATAGCCT
* * ** *
63422 CTTTCCATGCCTTAATACATTCGTTCATATATTTTTGTTATGGCATC
1 CTTT-CATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* *
63469 CTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGACATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* *
63515 CTTTCATGCCTTAATGCATCCATTCATGCATTTTAGTTATGTCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* * * *
63561 CTTTCATGCCTTAGTACATCCGTTTATGCATTTTAGTTATGGAATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* * *
63607 C-TTCATGGCTTAGTGCATCCGTTCATGCACTTTAGTTATGGCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
63652 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* *
63698 CTTTCATGCCTTAGTGCATCCGTTCATGCACTTTAGTTATGGCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
63744 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* * * *
63790 CTTTCATGCCTTAGTGCATCCGTTCATGCACTTTATTTATGGAATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
* * * *
63836 CTTTCATGCCTTAATACATCTGTTCATACATTTTAGTTATGGCATT
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
** * *
63882 CTTTTGTGCCTTAGTGCATCCGTTCATGCACTTTAGTTATGGCATC
1 CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
63928 CTTTCATGCCTTA
1 CTTTCATGCCTTA
63941 GTGATAACAT
Statistics
Matches: 423, Mismatches: 48, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 40 0.09
46 379 0.90
47 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATC
Found at i:64938 original size:21 final size:21
Alignment explanation
Indices: 64895--64939 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
64885 GATTTCTGGG
* * *
64895 CAAGGGGAATCGGTATCCATT
1 CAAGGGGAACCGATACCCATT
*
64916 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
64937 CAA
1 CAA
64940 ACGAACAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:66616 original size:149 final size:149
Alignment explanation
Indices: 66436--66750 Score: 614
Period size: 149 Copynumber: 2.1 Consensus size: 149
66426 GAGTCGAGGG
66436 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
66501 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66566 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
66585 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
66650 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66715 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
66734 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
66751 TGCAATTATA
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
148 1 0.01
149 164 0.99
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:66751 original size:23 final size:23
Alignment explanation
Indices: 66718--66762 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
66708 ATCATTATAT
*
66718 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
66741 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
66763 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:70120 original size:75 final size:76
Alignment explanation
Indices: 69951--70156 Score: 283
Period size: 75 Copynumber: 2.7 Consensus size: 76
69941 CAAAGCAAAA
* * * **
69951 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
70016 TTTGGCCCCGAG
65 TTTGGCCCCGAG
* *
70028 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCGCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
*
70093 TT-GCTCCGAG
66 TTGGCCCCGAG
* * *
70103 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGG-GGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
70157 CCTTGTACAA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
73 13 0.11
74 3 0.03
75 40 0.34
76 35 0.30
77 25 0.22
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGGCCCCGAG
Found at i:75919 original size:21 final size:20
Alignment explanation
Indices: 75894--75952 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
75884 TTGGTGCAGA
*
75894 GGGAATCGATCCCCCCATGAG
1 GGGAATCGATCCCCCCA-CAG
*
75915 GGGAACCGATTCCCCCCACAG
1 GGGAATCGA-TCCCCCCACAG
75936 GGGAATCGATACCCCCC
1 GGGAATCGAT-CCCCCC
75953 TGGGGTTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 24 0.73
22 8 0.24
ACGTcount: A:0.24, C:0.39, G:0.25, T:0.12
Consensus pattern (20 bp):
GGGAATCGATCCCCCCACAG
Found at i:77890 original size:17 final size:17
Alignment explanation
Indices: 77868--77915 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
77858 TTTCAACATT
77868 TTTGATATTTTGGATTG
1 TTTGATATTTTGGATTG
77885 TTTGAT-TTTGTGGATTG
1 TTTGATATTT-TGGATTG
*
77902 -TTG-GATTTTGGATT
1 TTTGATATTTTGGATT
77916 TATGAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (17 bp):
TTTGATATTTTGGATTG
Found at i:78213 original size:29 final size:29
Alignment explanation
Indices: 78149--78217 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 29
78139 GGAGAAGAAT
78149 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAAT-AATTGA
78179 AGGTGTTAAATG-TTTACATAAT-ATTGA
1 AGGTGTTAAATGTTTTACATAATAATTGA
78206 AGAAGTGTTAAA
1 AG--GTGTTAAA
78218 GTAAGTGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 7 0.19
29 18 0.49
30 12 0.32
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (29 bp):
AGGTGTTAAATGTTTTACATAATAATTGA
Found at i:78727 original size:75 final size:76
Alignment explanation
Indices: 78536--78725 Score: 285
Period size: 75 Copynumber: 2.5 Consensus size: 76
78526 CAGATTGCTC
** *
78536 AGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGTTTTGGCCCCGAGATTTC
1 AGGGAACCGA-TCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGCCCCGAGAATTC
78601 CAGAATGCTCGG
65 CAGAATGCTCGG
* *
78613 AGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTT-GCTCCGAGAATTCC
1 AGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGCCCCGAGAATTCC
*
78677 AGTATGCTCGG
66 AGAATGCTCGG
* *
78688 AGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
78726 CTTGTACAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
74 17 0.16
75 40 0.38
76 37 0.36
77 10 0.10
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (76 bp):
AGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTTGGCCCCGAGAATTCC
AGAATGCTCGG
Found at i:107618 original size:32 final size:29
Alignment explanation
Indices: 107534--107631 Score: 160
Period size: 29 Copynumber: 3.3 Consensus size: 29
107524 CTTCCCAGCA
*
107534 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
107563 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
107592 TAGGTCGCCATGCACTCCTCCTGGCGACCTTG
1 TAGGTCGCCATGCA---CTCCTGGCGACCTTG
107624 TAGGTCGC
1 TAGGTCGC
107632 TCGAATGGCC
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
29 42 0.65
32 23 0.35
ACGTcount: A:0.13, C:0.35, G:0.29, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:107659 original size:14 final size:14
Alignment explanation
Indices: 107640--107673 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
107630 GCTCGAATGG
107640 CCTCGGTCGGATGC
1 CCTCGGTCGGATGC
107654 CCTCGGTCGGATGC
1 CCTCGGTCGGATGC
*
107668 CTTCGG
1 CCTCGG
107674 ATGCCCAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.35, G:0.35, T:0.24
Consensus pattern (14 bp):
CCTCGGTCGGATGC
Found at i:111286 original size:31 final size:31
Alignment explanation
Indices: 111248--111401 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
111238 CCCGAAGGAC
* *
111248 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
111279 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
111310 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
111341 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
111372 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
111402 CCCTCGACCC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:112565 original size:13 final size:15
Alignment explanation
Indices: 112534--112569 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
112524 TTCACACGTG
112534 GAGAAGAGAAAATGA
1 GAGAAGAGAAAATGA
112549 -AGAAG-GAAAA-GA
1 GAGAAGAGAAAATGA
112561 GAGAAGAGA
1 GAGAAGAGA
112570 TTTTTCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.11
13 10 0.53
14 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (15 bp):
GAGAAGAGAAAATGA
Found at i:114628 original size:17 final size:18
Alignment explanation
Indices: 114606--114639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114596 TTGAAAGGTC
*
114606 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
114623 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
114640 ACAAAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:128981 original size:16 final size:17
Alignment explanation
Indices: 128960--128997 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
128950 TTTATATGTA
*
128960 AAAATAAT-TAAATTTT
1 AAAATAATATAAATTAT
*
128976 AAAATAATATTAATTAT
1 AAAATAATATAAATTAT
128993 AAAAT
1 AAAAT
128998 TAAAAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATAATATAAATTAT
Found at i:130695 original size:8 final size:8
Alignment explanation
Indices: 130679--130712 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
130669 TGCGGATAAG
130679 TAATTAAA
1 TAATTAAA
*
130687 TAGTTAAA
1 TAATTAAA
130695 TAATTAAA
1 TAATTAAA
130703 TAATTAAA
1 TAATTAAA
130711 TA
1 TA
130713 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:134207 original size:16 final size:16
Alignment explanation
Indices: 134181--134218 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
134171 TCTACTAAAG
134181 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
134198 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
134214 CATGT
1 CATGT
134219 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:145569 original size:110 final size:110
Alignment explanation
Indices: 145171--145604 Score: 642
Period size: 110 Copynumber: 4.0 Consensus size: 110
145161 AGGTTTCCCA
*
145171 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
* * *
145236 AAGATTGTTCGAGTTTCATACTCTCTGGAGAAATAGGGAGCAGAC
66 AAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
145281 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
* *
145346 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGAC
66 AAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
145391 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATT-ATT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA-T
145455 GAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
65 GAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * * *
145501 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCCCT-AGAGAAAGAGGGAGCAAACTCGTTTGAA
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCAGACACGATTGAT
* * * *
145565 GAAGA-TATTCGAGT-TCTATTCTCCCTGAAAAAAGAGGGAG
65 GAAGATTATTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAG
145605 TGAACCCGTT
Statistics
Matches: 301, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
108 2 0.01
109 29 0.10
110 269 0.89
111 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (110 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATG
AAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:145570 original size:55 final size:55
Alignment explanation
Indices: 145171--145552 Score: 667
Period size: 55 Copynumber: 6.9 Consensus size: 55
145161 AGGTTTCCCA
145171 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
145226 ACGATTGTTGAAGATTGTTCGAGTTTCATACTCTCTGGAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
145281 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
145336 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
145391 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
145446 ACGATTATTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
145501 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCCCT-AGAGAAAGAGGGAGCA
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCA
145553 AACTCGTTTG
Statistics
Matches: 311, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
54 1 0.00
55 310 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:145599 original size:54 final size:54
Alignment explanation
Indices: 145510--145698 Score: 183
Period size: 54 Copynumber: 3.5 Consensus size: 54
145500 CACGATTGTT
* * *
145510 GAAGATTGTTCGAG-TCTTATACTCCCT-AGAGAAAGAGGGAGCAAACTCGTTTGAA
1 GAAGA-TGTTCGAGTTC-TATACTCCCTGA-AAAAAGAGGGAGCGAACCCGTTTGAA
* * *
145565 GAAGATATTCGAGTTCTATTCTCCCTGAAAAAAGAGGGAGTGAACCCGTTT--A
1 GAAGATGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTTGAA
* * * * **
145617 -AAGACGTTCGAGTTCCATACTCCCT-AGATAAAGAGGGAACGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AAAAAGAGGGAGCGAACCCGTTTGAA
*
145670 GAAGATGTTCGAGTTCTATACTCTCTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGAA
145699 GGACTGGGGA
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
50 1 0.01
51 39 0.36
52 1 0.01
53 1 0.01
54 58 0.53
55 9 0.08
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAAAAAGAGGGAGCGAACCCGTTTGAA
Found at i:146065 original size:8 final size:8
Alignment explanation
Indices: 146049--146082 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
146039 TGCGGATAAG
146049 TAATTAAA
1 TAATTAAA
*
146057 TAGTTAAA
1 TAATTAAA
146065 TAATTAAA
1 TAATTAAA
146073 TAATTAAA
1 TAATTAAA
146081 TA
1 TA
146083 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:150319 original size:14 final size:13
Alignment explanation
Indices: 150295--150326 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
150285 AATAAAGATG
150295 TTATAAATATATA
1 TTATAAATATATA
150308 TTATATAATATATA
1 TTATA-AATATATA
150322 TTATA
1 TTATA
150327 GAATTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATAAATATATA
Found at i:153639 original size:2 final size:2
Alignment explanation
Indices: 153632--153664 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
153622 TCCATCACTT
153632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
153665 TATTATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:153709 original size:33 final size:34
Alignment explanation
Indices: 153656--153721 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
153646 TATATATATA
153656 TATATATATTATTATTACATAAAATTTAGGTAAG
1 TATATATATTATTATTACATAAAATTTAGGTAAG
153690 TATATATATT-TTATTACATAAAATTTAGGTAA
1 TATATATATTATTATTACATAAAATTTAGGTAA
153722 AGGGTGACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 22 0.69
34 10 0.31
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (34 bp):
TATATATATTATTATTACATAAAATTTAGGTAAG
Found at i:154297 original size:20 final size:21
Alignment explanation
Indices: 154272--154323 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
154262 TTTTCCCAAT
*
154272 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
154292 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
154313 TCGCAATGCGA
1 TCGCAATGCGA
154324 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:154337 original size:20 final size:20
Alignment explanation
Indices: 154312--154425 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
154302 AATTGGAAAA
*
154312 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
154332 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
154352 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
154373 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
154393 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
154413 TTCGCAACGCGAT
1 ATCGCAACGCGAT
154426 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:154356 original size:61 final size:61
Alignment explanation
Indices: 154309--154425 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
154299 GCGAATTGGA
* * * * *
154309 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
154370 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
154426 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:155010 original size:19 final size:19
Alignment explanation
Indices: 154974--155015 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
154964 ACGAGAGAAT
*
154974 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
154993 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
155012 CGCA
1 CGCA
155016 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:155033 original size:19 final size:19
Alignment explanation
Indices: 155011--155122 Score: 117
Period size: 19 Copynumber: 6.1 Consensus size: 19
155001 GAAACCAAAA
*
155011 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
155030 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
155049 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
155063 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
155082 TCGCGTTGCGATTCTCTTT
1 TCGCGTTGCGATTTTCATT
*
155101 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
155121 TC
1 TC
155123 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.13
16 2 0.03
17 3 0.04
19 46 0.60
20 16 0.21
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:155081 original size:33 final size:33
Alignment explanation
Indices: 155033--155098 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
155023 TTTCATTTCG
**
155033 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
155066 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
155099 TTATCTCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:156674 original size:63 final size:63
Alignment explanation
Indices: 156575--156705 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
156565 GTTACGTGAT
156575 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCAATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCAATAACGATGGTGCATGGCGTGTG
*
156638 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCAATAACGATGGTGCATGGCGTGTG
156701 GAGGT
1 GAGGT
156706 GTCTACTTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCAATAACGATGGTGCATGGCGTGTG
Found at i:157347 original size:42 final size:42
Alignment explanation
Indices: 157278--157366 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
157268 GACTCGTCTG
* *
157278 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCCCTA
* * * * *
157320 TCATTCCTCGAGAGTCCCCTCCCATCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCCCTA
157362 TCATC
1 TCATC
157367 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCCCTA
Found at i:157354 original size:21 final size:21
Alignment explanation
Indices: 157285--157396 Score: 57
Period size: 21 Copynumber: 5.3 Consensus size: 21
157275 CTGTCATCCC
* *
157285 TCAAGAGTCCACTCCTATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * ** *
157306 TGAAGAGGCCCCTATCATTC-C
1 TCAAGAGTCCCCTCCCA-TCGT
*
157327 TCGAGAGTCCCCTCCCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * **
157348 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * *
157369 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCATCGT
157390 TCAAGAG
1 TCAAGAG
157397 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 26, Indels: 7
0.65 0.27 0.07
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCATCGT
Found at i:158770 original size:14 final size:14
Alignment explanation
Indices: 158751--158786 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
158741 ATTGTTTAAT
158751 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
158765 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
158779 TGATTTGT
1 TGATTTGT
158787 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:158938 original size:33 final size:33
Alignment explanation
Indices: 158893--158982 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
158883 AAAAAGTACT
* *
158893 ATCGCAATGCGAAATGAAAATCGTAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
158926 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
158959 AACGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
158983 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:158949 original size:19 final size:19
Alignment explanation
Indices: 158893--158953 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
158883 AAAAAGTACT
*
158893 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
158912 ATCGTAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
158926 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
158945 ATCGCAACG
1 ATCGCAACG
158954 AGAGAAACGC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.27
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.55
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:159000 original size:19 final size:19
Alignment explanation
Indices: 158978--159034 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
158968 CGAAATTAAA
158978 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
158997 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
159012 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
159030 TTCGC
1 TTCGC
159035 CCGCGTTGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 9 0.31
16 3 0.10
17 3 0.10
19 14 0.48
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.46
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:160105 original size:18 final size:18
Alignment explanation
Indices: 160079--160123 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
160069 GTCGATCAGA
*
160079 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
160097 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
160115 TGATGGCTC
1 TGATGGCTC
160124 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:161472 original size:20 final size:20
Alignment explanation
Indices: 161449--161493 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
161439 AATGAAAATT
161449 GCAACACGAAAATGACTATC
1 GCAACACGAAAATGACTATC
* **
161469 GCAACGCGAATTTGACTATC
1 GCAACACGAAAATGACTATC
161489 GCAAC
1 GCAAC
161494 GAGAGAATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
GCAACACGAAAATGACTATC
Found at i:161783 original size:22 final size:22
Alignment explanation
Indices: 161756--161799 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
161746 AGATGGAGAT
161756 AGACGGATTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
161778 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
161800 GTGAGAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:162014 original size:20 final size:20
Alignment explanation
Indices: 161988--162101 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
161978 GATTATGTAT
161988 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
162008 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
162028 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
162048 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
162069 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
162089 TATCGCATTGCGA
1 TATCGCGTTGCGA
162102 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:162105 original size:41 final size:41
Alignment explanation
Indices: 161968--162103 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
161958 CGCTTTGAAA
*
161968 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
162009 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
162049 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
162090 ATCGCATTGCGATT
1 ATCGCATTGCGATT
162104 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:162121 original size:41 final size:41
Alignment explanation
Indices: 161968--162123 Score: 109
Period size: 41 Copynumber: 3.8 Consensus size: 41
161958 CGCTTTGAAA
* ** * * * *
161968 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* *** * *
162009 ATCGCGTTGCGAAAGT-CAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* * ** * * *
162049 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
162090 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
162124 TTACTTATTC
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
40 32 0.36
41 56 0.62
42 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
Found at i:163018 original size:19 final size:18
Alignment explanation
Indices: 162977--163076 Score: 62
Period size: 17 Copynumber: 5.5 Consensus size: 18
162967 TTTAATATAC
*
162977 ATATAATATAATTTTAAT
1 ATATATTATAATTTTAAT
*
162995 A-ATATTATATTTTTAAT
1 ATATATTATAATTTTAAT
** *
163012 ATTATATTAATATATACTCAT
1 A-TATATT-ATA-ATTTTAAT
**
163033 ATATATTATAATAAT-AT
1 ATATATTATAATTTTAAT
*
163050 ATGATATTATATTTTTAA-
1 AT-ATATTATAATTTTAAT
*
163068 ATAAATTAT
1 ATATATTAT
163077 TAATATTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
17 25 0.38
18 17 0.26
19 9 0.14
20 9 0.14
21 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (18 bp):
ATATATTATAATTTTAAT
Found at i:163022 original size:50 final size:50
Alignment explanation
Indices: 162909--163046 Score: 124
Period size: 50 Copynumber: 2.8 Consensus size: 50
162899 ATTTTACACA
* * *
162909 TTTAATATTAAATTAATAT-TTTAATATCATTTTAATAAAAATATTCATT
1 TTTAATATTATATTAATATATATAATATAATTTTAATAAAAATATTCATT
* * * *
162958 ATTAA-AATAT-TTAATATACATATAATATAATTTTAATAATATTA-T-ATT
1 TTTAATATTATATTAATAT--ATATAATATAATTTTAATAAAAATATTCATT
* *
163006 TTTAATATTATATTAATATATACTCATATATATTATAATAA
1 TTTAATATTATATTAATATATA-TAATATA-ATTTTAATAA
163047 TATATGATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
47 7 0.10
48 13 0.18
49 15 0.21
50 36 0.51
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (50 bp):
TTTAATATTATATTAATATATATAATATAATTTTAATAAAAATATTCATT
Found at i:163168 original size:19 final size:19
Alignment explanation
Indices: 163133--163175 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
163123 TAATGAATAG
*
163133 TATTAATTTATATATTTAA
1 TATTAATTAATATATTTAA
*
163152 TATTAATATAATA-ATTTAG
1 TATTAAT-TAATATATTTAA
163171 TATTA
1 TATTA
163176 TGTTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTAATTAATATATTTAA
Found at i:163194 original size:30 final size:27
Alignment explanation
Indices: 163136--163197 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
163126 TGAATAGTAT
*
163136 TAATTTATATATTTAATATTAATATAA
1 TAATTTATATATTTAATATAAATATAA
163163 TAATTTAGTATTATGTTAATA-AAATACTAA
1 TAATTTA-TA-TAT-TTAATATAAATA-TAA
163193 TAATT
1 TAATT
163198 AAAAATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 2 0.07
29 7 0.23
30 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATTTATATATTTAATATAAATATAA
Found at i:163351 original size:14 final size:14
Alignment explanation
Indices: 163332--163362 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
163322 CAAATTTTAT
163332 TTATTTTATATAAA
1 TTATTTTATATAAA
*
163346 TTATTTTTTATAAA
1 TTATTTTATATAAA
163360 TTA
1 TTA
163363 ATTATAGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTTTATATAAA
Found at i:163620 original size:17 final size:16
Alignment explanation
Indices: 163594--163632 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
163584 ACACATTTCT
163594 ATTTTATATTATTTTAA
1 ATTTTATATT-TTTTAA
*
163611 ATTTTCTATTTTTTAA
1 ATTTTATATTTTTTAA
163627 ACTTTT
1 A-TTTT
163633 TTAATTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATATTTTTTAA
Found at i:168543 original size:26 final size:26
Alignment explanation
Indices: 168490--168543 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
168480 ACGATAGACT
* *
168490 TATTGAAAATAAAAAAAAATATACAA
1 TATTAAAAATAAAAAAAAATAGACAA
*
168516 TATTAAAAATAAAAAGAACATAGA-AA
1 TATTAAAAATAAAAA-AAAATAGACAA
168542 TA
1 TA
168544 CCGACAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (26 bp):
TATTAAAAATAAAAAAAAATAGACAA
Found at i:168716 original size:16 final size:17
Alignment explanation
Indices: 168695--168728 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
168685 TCTACAATTT
168695 ATATC-TTTAATTTATA
1 ATATCTTTTAATTTATA
*
168711 ATATCTTTTATTTTATA
1 ATATCTTTTAATTTATA
168728 A
1 A
168729 GAAACTCGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATCTTTTAATTTATA
Found at i:194996 original size:14 final size:16
Alignment explanation
Indices: 194961--194995 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
194951 ATGTTGATCT
194961 TCTCTGTTTTGGACCC
1 TCTCTGTTTTGGACCC
194977 TCTCTGTTTTGGACCC
1 TCTCTGTTTTGGACCC
194993 TCT
1 TCT
194996 GATTGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.06, C:0.31, G:0.17, T:0.46
Consensus pattern (16 bp):
TCTCTGTTTTGGACCC
Found at i:199819 original size:2 final size:2
Alignment explanation
Indices: 199812--199864 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
199802 ACAAAAATTA
199812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
199854 AT AT AT GAT AT
1 AT AT AT -AT AT
199865 CTAATTAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:202008 original size:54 final size:55
Alignment explanation
Indices: 201851--202150 Score: 325
Period size: 55 Copynumber: 5.6 Consensus size: 55
201841 AAACGTGTAT
* * *
201851 GCTCCCTATTCATTCAGGGAGTATA-AGACTCAAACAATCTTCAATAAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAAAC-GGTCC
*
201907 GCTCTCTATTCCTTCAGAGAGTATAGAACTCAGAA-AATCTTCAAT-AAACGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTC-GAACAATCTTCAATAAAACGGTCC
* * *
201961 GCTCCCTATTCGGTTCAGGGAGTATAGAACTCGAACAATCTTC-ATAAAATGTGTCC
1 GCTCCCTATTC-CTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACG-GTCC
* ** *
202017 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAA-CGAACTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACGGTCC
* ** **
202071 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAATTGT-C
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACGGTCC
*
202120 GCTCCCTATTCCTTCAGAGAGTATAGGACTC
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTC
202151 AATCTTCAAC
Statistics
Matches: 218, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
49 31 0.14
50 17 0.08
54 52 0.24
55 64 0.29
56 51 0.23
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAAACGGTCC
Found at i:202031 original size:110 final size:109
Alignment explanation
Indices: 201851--202151 Score: 377
Period size: 110 Copynumber: 2.8 Consensus size: 109
201841 AAACGTGTAT
* *
201851 GCTCCCTATTCATTCAGGGAGTATA-AGACTCAAACAATCTTCAATAAAACGGGTCCGCTCTCTA
1 GCTCCCTATTCATTCAGGGAGTATAGA-ACTC-AACAATCTTC-ATAAAATGTGTCCGCTCTCTA
*
201915 TTCCTTCAGAGAGTATAGAACTCAGAA-AATCTTCAATAAACGGTCC
63 TTCCTTCAGAGAGTATAGAACTCAGAACAATCTTCAACAAACGGTCC
*
201961 GCTCCCTATTCGGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAAATGTGTCCGCTCTCTAT
1 GCTCCCTATTC-ATTCAGGGAGTATAGAACTC-AACAATCTTCATAAAATGTGTCCGCTCTCTAT
* *
202026 TCCTTCAGAGAGTATAGAACTC-GAACAATCTTCAACGAACTGTCC
64 TCCTTCAGAGAGTATAGAACTCAGAACAATCTTCAACAAACGGTCC
* * * * *
202071 GCTCCCTATTCCTTCAGAGAGTATAGGACT---CAATCTTCA-ACGAAT-TGT-CGCTCCCTATT
1 GCTCCCTATTCATTCAGGGAGTATAGAACTCAACAATCTTCATA-AAATGTGTCCGCTCTCTATT
*
202130 CCTTCAGAGAGTATAGGACTCA
65 CCTTCAGAGAGTATAGAACTCA
202152 ATCTTCAACG
Statistics
Matches: 173, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
103 30 0.17
104 4 0.02
105 12 0.07
109 19 0.11
110 80 0.46
111 27 0.16
112 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (109 bp):
GCTCCCTATTCATTCAGGGAGTATAGAACTCAACAATCTTCATAAAATGTGTCCGCTCTCTATTC
CTTCAGAGAGTATAGAACTCAGAACAATCTTCAACAAACGGTCC
Found at i:202139 original size:49 final size:50
Alignment explanation
Indices: 201903--202209 Score: 316
Period size: 49 Copynumber: 5.9 Consensus size: 50
201893 AATAAAACGG
* ** **
201903 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAGAAAATCTTCAATAAACG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC----AATCTTCAACGAATT
* * *
201957 GTCCGCTCCCTATTCGGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAATGT
1 GTCCGCTCCCTATTC-CTTCAGAGAGTATAGAACT----CAATCTTCA-ACGAAT-T
* *
202013 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT----CAATCTTCAACGAATT
*
202067 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAATT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAACGAATT
*
202117 GT-CGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAACGAA-TT
* *
202167 GT-CGCTCCCTATT-CTTCCGAGAGTATAGGACTCAATCTTCAAC
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAAC
202210 AAATGAGTTT
Statistics
Matches: 230, Mismatches: 14, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
49 74 0.32
50 32 0.14
54 48 0.21
55 60 0.26
56 15 0.07
59 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (50 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAACGAATT
Done.