Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_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: 1278004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1029 original size:14 final size:14
Alignment explanation
Indices: 1010--1053 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1000 AATGGGAAGT
1010 AATCCCTGCAAATA
1 AATCCCTGCAAATA
1024 AATCCCTGCGAAA-A
1 AATCCCTGC-AAATA
* *
1038 AATCTCTGCATATA
1 AATCCCTGCAAATA
1052 AA
1 AA
1054 CAGAAATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 2 0.08
14 21 0.81
15 3 0.12
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (14 bp):
AATCCCTGCAAATA
Found at i:3611 original size:62 final size:62
Alignment explanation
Indices: 3545--3670 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
3535 ATTATTTTTT
*
3545 AAATTATATTTAATATTACGTATTGATTCCGTTTCAATCACTAATATTTTAAAAATAAACCA
1 AAATTATATTTAATATTACGTATTGATTCCGTTTCAATCACTAATATTTAAAAAATAAACCA
* * * *
3607 AAATTATATTTAATGTTATGTATTTATTCCGTTTCAATCACTAATCTTTAAAAAATAAACCA
1 AAATTATATTTAATATTACGTATTGATTCCGTTTCAATCACTAATATTTAAAAAATAAACCA
3669 AA
1 AA
3671 CTGTTGATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (62 bp):
AAATTATATTTAATATTACGTATTGATTCCGTTTCAATCACTAATATTTAAAAAATAAACCA
Found at i:15123 original size:61 final size:61
Alignment explanation
Indices: 15019--15178 Score: 266
Period size: 61 Copynumber: 2.6 Consensus size: 61
15009 CGAAATAAAT
* * *
15019 ATTATAATTTGTTACATTTTTAATATTTACAAATATTACCCAAATAAAAATATATATAATA
1 ATTAAAATTTGTTACATCTTTAATATTTATAAATATTACCCAAATAAAAATATATATAATA
* *
15080 ATTAAAATGTGTTACATCTTTAATATTTATAAATATTACCCAAATAAATATATATATAATA
1 ATTAAAATTTGTTACATCTTTAATATTTATAAATATTACCCAAATAAAAATATATATAATA
*
15141 ATTAAGATTTGTTACATCTTTAATATTTATAAATATTA
1 ATTAAAATTTGTTACATCTTTAATATTTATAAATATTA
15179 TAAAATTATA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 92 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (61 bp):
ATTAAAATTTGTTACATCTTTAATATTTATAAATATTACCCAAATAAAAATATATATAATA
Found at i:15205 original size:18 final size:17
Alignment explanation
Indices: 15163--15205 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
15153 TACATCTTTA
15163 ATATTTATAAATATTAT
1 ATATTTATAAATATTAT
* *
15180 AAAATTATAAAATATTAT
1 ATATTTAT-AAATATTAT
*
15198 TTATTTAT
1 ATATTTAT
15206 TATTAAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTATAAATATTAT
Found at i:16320 original size:20 final size:21
Alignment explanation
Indices: 16295--16346 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16285 TTTTCCCAAT
*
16295 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
16315 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
16336 TCGCAATGCGA
1 TCGCAATGCGA
16347 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:16363 original size:20 final size:20
Alignment explanation
Indices: 16335--16388 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
16325 AATTGGGAAA
16335 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
16355 ATTGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
16375 ATCGCAATGCGATA
1 ATCGCAATGCGATA
16389 ATACAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:16422 original size:41 final size:41
Alignment explanation
Indices: 16365--16443 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
16355 ATTGCAATGC
* *
16365 GATACTTACTATCGCAATGCGATAATACAAAATCGCAACAA
1 GATACTGACTATCGCAACGCGATAATACAAAATCGCAACAA
* *
16406 GATACTGACTTTCGCAACGCGATAATACATAATCGCAA
1 GATACTGACTATCGCAACGCGATAATACAAAATCGCAA
16444 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (41 bp):
GATACTGACTATCGCAACGCGATAATACAAAATCGCAACAA
Found at i:16443 original size:21 final size:21
Alignment explanation
Indices: 16375--16449 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
16365 GATACTTACT
* *
16375 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATAATACATA
** *
16396 ATCGCAACAAGATACTGAC-T-
1 ATCGCAACGCGATAAT-ACATA
*
16416 TTCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATACATA
*
16437 ATCGCAATGCGAT
1 ATCGCAACGCGAT
16450 TTTCAAAGCG
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 23 0.57
22 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATAATACATA
Found at i:16645 original size:22 final size:22
Alignment explanation
Indices: 16617--16660 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
16607 CACTCTCTCA
16617 CCCATCTCC-GACGAAATCCGTC
1 CCCATCTCCGGA-GAAATCCGTC
16639 CCCATCTCCGGAGAAATCCGTC
1 CCCATCTCCGGAGAAATCCGTC
16661 TTTCTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGGAGAAATCCGTC
Found at i:16963 original size:20 final size:20
Alignment explanation
Indices: 16904--16967 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
16894 GCGATTTTAG
*
16904 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
16924 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
16944 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
16964 TTTC
1 TTTC
16968 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:17158 original size:25 final size:24
Alignment explanation
Indices: 17104--17158 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
17094 TGTTTATTAT
* *
17104 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
17128 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
17154 TGTTT
1 TGTTT
17159 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:18308 original size:18 final size:18
Alignment explanation
Indices: 18287--18331 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
18277 TCCACTTCGG
*
18287 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
18305 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
18323 GAGCCATCA
1 GAGCCATCA
18332 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:18873 original size:19 final size:20
Alignment explanation
Indices: 18819--18885 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
18809 TAGTTTACTT
* *
18819 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
18839 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
18859 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
18878 TCGCAACG
1 TCGCAACG
18886 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:18893 original size:14 final size:14
Alignment explanation
Indices: 18874--18931 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
18864 ATGCGAAATG
18874 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
18888 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
18904 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
18920 AAAATCGCAACG
1 AAAATCGCAACG
18932 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:18916 original size:32 final size:33
Alignment explanation
Indices: 18858--18948 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
18848 GGAAATGGCT
18858 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
18891 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
18923 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
18949 TCGCATTGCG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:19029 original size:20 final size:20
Alignment explanation
Indices: 18966--19033 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
18956 GCGATTTTGT
**
18966 CGTTGCGATTTTCATTTTGCA
1 CGTTGCGATAGTCATTTT-CA
* * *
18987 --TTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTTCA
*
19005 TGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
19025 CGTTGCGAT
1 CGTTGCGAT
19034 TTTAAGTTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
18 1 0.03
19 12 0.33
20 23 0.64
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:19491 original size:41 final size:41
Alignment explanation
Indices: 19395--19473 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 41
19385 GACTCACCTG
*
19395 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCTTA
1 TCATCCCTCAAGAGTCCCC-CCCATCGTTCAAGAGGCCCTTA
*
19437 TCCTCCCTCAAGAGTCCCCCCCATCGTTCAAGAGGCC
1 TCATCCCTCAAGAGTCCCCCCCATCGTTCAAGAGGCC
19474 ACTGTCATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.22
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCATCGTTCAAGAGGCCCTTA
Found at i:20917 original size:14 final size:14
Alignment explanation
Indices: 20898--20933 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20888 ATTGTTTAAT
20898 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
20912 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
20926 TGATTTGT
1 TGATTTGT
20934 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:21094 original size:19 final size:19
Alignment explanation
Indices: 21070--21137 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
21060 ATCGCAACGA
21070 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
21089 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
21108 GAAAATCACAA--CG--A-
1 GAAAATCGCAATGCGAAAT
21122 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
21138 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:21187 original size:20 final size:20
Alignment explanation
Indices: 21164--21231 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
21154 CGATTTTCTA
21164 GTTGCGATAGCCATTTCCGC
1 GTTGCGATAGCCATTTCCGC
*** *
21184 GTTGCGATTTTTCATTT-CGA
1 GTTGCGA-TAGCCATTTCCGC
*
21204 ATTGCGATAGCCATTTCCGC
1 GTTGCGATAGCCATTTCCGC
21224 GTTGCGAT
1 GTTGCGAT
21232 TTCCCCGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 6 0.17
20 24 0.67
21 6 0.17
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGCCATTTCCGC
Found at i:21194 original size:34 final size:36
Alignment explanation
Indices: 21142--21233 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 36
21132 ATGCGATTTT
* *
21142 CATTT-CGCATTGCGATTTTC-T-AGTTGCGATAGC
1 CATTTCCGCGTTGCGATTTTCTTCAATTGCGATAGC
21175 CATTTCCGCGTTGCGATTTTTCATTTCGAATTGCGATAGC
1 CATTTCCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGC
21215 CATTTCCGCGTTGCGATTT
1 CATTTCCGCGTTGCGATTT
21234 CCCCGTTACG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
33 5 0.10
34 9 0.18
35 5 0.10
38 1 0.02
39 3 0.06
40 27 0.54
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (36 bp):
CATTTCCGCGTTGCGATTTTCTTCAATTGCGATAGC
Found at i:21470 original size:20 final size:20
Alignment explanation
Indices: 21445--21494 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
21435 TTGAAGATGA
21445 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*** *
21465 TTGCGAAAGTCAGAATCTTG
1 TTGCGATTTTCAGAATCTCG
21485 TTGCGATTTT
1 TTGCGATTTT
21495 GTATTATCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:21548 original size:21 final size:20
Alignment explanation
Indices: 21522--21572 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21512 TAGTCAGTAC
*
21522 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGA-TTTACAAATT
**
21543 CGCATTGCGATTTACTTATT
1 CGCATTGCGATTTACAAATT
21563 CGCATTGCGA
1 CGCATTGCGA
21573 ATTAGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (20 bp):
CGCATTGCGATTTACAAATT
Found at i:21788 original size:12 final size:12
Alignment explanation
Indices: 21769--21802 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21759 CTCTCCGGCG
21769 ACATCCGTTCCT
1 ACATCCGTTCCT
*
21781 ATATCCGTTCCT
1 ACATCCGTTCCT
21793 ACATCC-TTCC
1 ACATCCGTTCC
21803 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:22383 original size:24 final size:24
Alignment explanation
Indices: 22356--22409 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
22346 GTATTCGAAA
*
22356 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
22380 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
22404 TTTGAT
1 TTTGAT
22410 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:22601 original size:12 final size:12
Alignment explanation
Indices: 22584--22610 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22574 ATATAATCCT
22584 GAAGAAGAAAAA
1 GAAGAAGAAAAA
22596 GAAGAAGAAAAA
1 GAAGAAGAAAAA
22608 GAA
1 GAA
22611 AAAGTCTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:24928 original size:19 final size:19
Alignment explanation
Indices: 24906--25036 Score: 67
Period size: 19 Copynumber: 7.7 Consensus size: 19
24896 GGAAATTACT
24906 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
24925 ATCGTAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
24939 ATCGCATTGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
24958 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
24972 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
24991 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
25005 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
25024 ATCGCAACGCGAA
1 ATCGCAATGCGAA
25037 TTTAATTTCA
Statistics
Matches: 78, Mismatches: 19, Indels: 30
0.61 0.15 0.24
Matches are distributed among these distances:
14 24 0.31
15 3 0.04
16 6 0.08
17 6 0.08
18 3 0.04
19 36 0.46
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:25039 original size:33 final size:33
Alignment explanation
Indices: 24907--25039 Score: 196
Period size: 33 Copynumber: 4.0 Consensus size: 33
24897 GAAATTACTA
* * *
24907 TCGCAATGCGAAATGAAAATCGTAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
* *
24940 TCGCATTGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
24973 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
25006 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
25039 T
1 T
25040 AATTTCACAT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 1 0.01
33 91 0.99
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:25068 original size:14 final size:14
Alignment explanation
Indices: 25049--25100 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
25039 TAATTTCACA
25049 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
25063 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
25082 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
25096 TTGCG
1 TTGCG
25101 TTTTTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
16 3 0.10
17 3 0.10
19 10 0.32
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:25086 original size:33 final size:33
Alignment explanation
Indices: 25032--25121 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
25022 AAATCGCAAC
* * *
25032 GCGAATTTAATTTCACATTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
*
25065 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
* *
25098 GCGTTTTTCATTTCGTATTGCGAT
1 GCGATTTTCATTTCGCATTGCGAT
25122 AGTACTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
Found at i:25247 original size:14 final size:14
Alignment explanation
Indices: 25228--25261 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25218 GATCAATTAA
25228 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
25242 ACAAATCACCTTTT
1 ACAAATCAACTTTT
25256 ACAAAT
1 ACAAAT
25262 TAATTAAACA
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:26705 original size:42 final size:41
Alignment explanation
Indices: 26659--26812 Score: 164
Period size: 42 Copynumber: 3.7 Consensus size: 41
26649 CGATGACAGT
*
26659 GGCCTCTTGAACGGTGGGATGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGGTGGGA-GGGACTCTCGAGGAATGATAGG
* * * * * **
26701 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAAT
1 GGCCTCTTCAACGGTGGGAG-GGACTCTCGAGGAATGATAGG
* *
26743 GGCCTATTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGGTGGGA-GGGACTCTCGAGGAATGATAGG
* *
26785 GGCCTCTTCAACGATAGGAGTGGACTCT
1 GGCCTCTTCAACGGTGGGAG-GGACTCT
26813 TGAGAGATGA
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 2 0.02
42 85 0.97
43 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
GGCCTCTTCAACGGTGGGAGGGACTCTCGAGGAATGATAGG
Found at i:26761 original size:84 final size:84
Alignment explanation
Indices: 26650--26824 Score: 314
Period size: 84 Copynumber: 2.1 Consensus size: 84
26640 CCTCTTCAAC
* * *
26650 GATGACAGTGGCCTCTTGAACGGTGGGATGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAATGGCCTATTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
26715 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGA
26734 GATGACAATGGCCTATTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAATGGCCTATTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
26799 TAGGAGTGGACTCTTGAGA
66 TAGGAGTGGACTCTTGAGA
26818 GATGACA
1 GATGACA
26825 GGCGAGTCGG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (84 bp):
GATGACAATGGCCTATTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGA
Found at i:27147 original size:93 final size:91
Alignment explanation
Indices: 27044--27228 Score: 268
Period size: 91 Copynumber: 2.0 Consensus size: 91
27034 ATTTCAAACT
* *
27044 TTCAACCAAAAGAC-AAA-ATAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAATTTA
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAATTTA
27107 GCAGAATT-AGCAGCAACCGAATAAATTTAC
62 GCAGAATTGA-CAGCAACCGAATAAATTTAC
*
27137 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGCAG
*
27202 TATTGACAGCAACCGAATAAATTTAC
66 AATTGACAGCAACCGAATAAATTTAC
27228 T
1 T
27229 AAGCAATATA
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 39 0.46
92 1 0.01
93 14 0.16
94 3 0.04
95 28 0.33
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGCAG
AATTGACAGCAACCGAATAAATTTAC
Found at i:28997 original size:33 final size:33
Alignment explanation
Indices: 28940--29038 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
28930 ACGAGATAAT
28940 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
28974 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
29007 GAGAATCGCAACGCAAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
29039 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 46 0.77
34 14 0.23
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:29060 original size:19 final size:19
Alignment explanation
Indices: 28915--29060 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
28905 TCTTTTGATT
*
28915 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
28934 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
28954 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
28972 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
28988 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
29005 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
29021 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
29040 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
29059 GA
1 GA
29061 TTTTGGTTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 3 0.03
17 3 0.03
18 3 0.03
19 42 0.42
20 27 0.27
21 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:29659 original size:20 final size:20
Alignment explanation
Indices: 29631--29683 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
29621 GCGCTATGTA
*
29631 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
29651 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
29671 TATCTCGTTGCGA
1 AATCACGTTGCGA
29684 TTTTGTATTA
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:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:29836 original size:21 final size:21
Alignment explanation
Indices: 29796--29836 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29786 ACTGTAGACC
**
29796 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
29817 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
29837 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:37468 original size:2 final size:2
Alignment explanation
Indices: 37461--37502 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37451 TTGTGGACTG
37461 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
37503 CTTTCTTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37900 original size:2 final size:2
Alignment explanation
Indices: 37893--37939 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
37883 GATAAACATT
37893 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
37935 TA TA T
1 TA TA T
37940 CAGAAAACTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38425 original size:39 final size:39
Alignment explanation
Indices: 38333--38432 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
38323 ACATAGCATA
*
38333 AGGA-CCTGCGGTAAGGACTTACCCTGAGCACAAAGCCG
1 AGGAGCCTGCGGTAAGGACTTACCCTAAGCACAAAGCCG
* *
38371 AGGAGCCTGCAGTAAGGACTTACCCTAAGCACAAAGTCG
1 AGGAGCCTGCGGTAAGGACTTACCCTAAGCACAAAGCCG
* ** *
38410 ATGATTCTGCGGTAAGGTCTTAC
1 AGGAGCCTGCGGTAAGGACTTAC
38433 AAGTCATAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 4 0.08
39 49 0.92
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (39 bp):
AGGAGCCTGCGGTAAGGACTTACCCTAAGCACAAAGCCG
Found at i:39596 original size:15 final size:16
Alignment explanation
Indices: 39566--39596 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39556 TGACTTTGAC
39566 CGAAAAGTCAATTTTT
1 CGAAAAGTCAATTTTT
39582 CGAAAAGTC-ATTTTT
1 CGAAAAGTCAATTTTT
39597 ATATTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CGAAAAGTCAATTTTT
Found at i:41805 original size:24 final size:24
Alignment explanation
Indices: 41777--41854 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
41767 GAATATTTTA
*
41777 TCTGATTTCCGATTTGAAATATGT
1 TCTGATTTCCGATCTGAAATATGT
* * *
41801 TCTGATTTCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAAATATGT
* * * *
41825 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCCGATCTGAAATATGT
41849 TCTGAT
1 TCTGAT
41855 AAATGATATC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (24 bp):
TCTGATTTCCGATCTGAAATATGT
Found at i:41822 original size:12 final size:12
Alignment explanation
Indices: 41801--41853 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
41791 TGAAATATGT
*
41801 TCTGATTTCTGA
1 TCTGAATTCTGA
*
41813 TCTGAATTCTGT
1 TCTGAATTCTGA
*
41825 TCTGATTTCTGA
1 TCTGAATTCTGA
* *
41837 TCTGGATTCTGT
1 TCTGAATTCTGA
41849 TCTGA
1 TCTGA
41854 TAAATGATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (12 bp):
TCTGAATTCTGA
Found at i:41861 original size:24 final size:24
Alignment explanation
Indices: 41810--41861 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41800 TTCTGATTTC
***
41810 TGATCTGAATTCTGTTCTGATTTC
1 TGATCTGAATTCTGTTCTGATAAA
*
41834 TGATCTGGATTCTGTTCTGATAAA
1 TGATCTGAATTCTGTTCTGATAAA
41858 TGAT
1 TGAT
41862 ATCTGATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (24 bp):
TGATCTGAATTCTGTTCTGATAAA
Found at i:41867 original size:31 final size:31
Alignment explanation
Indices: 41827--41896 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
41817 AATTCTGTTC
* * * *
41827 TGATTTCTGATCTGGATTCTGTTCTGATAAA
1 TGATATCTGATATGAATTCTATTCTGATAAA
* **
41858 TGATATCTGATATGAATTCTATTTTGATTTA
1 TGATATCTGATATGAATTCTATTCTGATAAA
41889 TGATATCT
1 TGATATCT
41897 CTGTTTATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.49
Consensus pattern (31 bp):
TGATATCTGATATGAATTCTATTCTGATAAA
Found at i:46560 original size:24 final size:24
Alignment explanation
Indices: 46533--46613 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
46523 ATTTGAAATA
*
46533 TGTTCTGATTTCTGATATGGATTC
1 TGTTCTGATTTCTGATCTGGATTC
* *
46557 TGTTATGATTTCTGATCT-GATTTT
1 TGTTCTGATTTCTGATCTGGA-TTC
46581 TGTTCTGATTTCTGATCTGGATTC
1 TGTTCTGATTTCTGATCTGGATTC
46605 TGTTCTGAT
1 TGTTCTGAT
46614 AAATGATAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 2 0.04
24 46 0.92
25 2 0.04
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (24 bp):
TGTTCTGATTTCTGATCTGGATTC
Found at i:46566 original size:48 final size:48
Alignment explanation
Indices: 46514--46613 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
46504 ATATTTTATC
*
46514 TGATTTCCGATTTGAAATATGTTCTGATTTCTGATATGGATTCTGTTA
1 TGATTTCCGATCTGAAATATGTTCTGATTTCTGATATGGATTCTGTTA
* ** * * *
46562 TGATTTCTGATCTGATTTTTGTTCTGATTTCTGATCTGGATTCTGTTC
1 TGATTTCCGATCTGAAATATGTTCTGATTTCTGATATGGATTCTGTTA
46610 TGAT
1 TGAT
46614 AAATGATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.18, C:0.12, G:0.19, T:0.51
Consensus pattern (48 bp):
TGATTTCCGATCTGAAATATGTTCTGATTTCTGATATGGATTCTGTTA
Found at i:46569 original size:12 final size:12
Alignment explanation
Indices: 46533--46613 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
46523 ATTTGAAATA
46533 TGTTCTGATTTC
1 TGTTCTGATTTC
* *
46545 TGATATGGA-TTC
1 TGTTCT-GATTTC
*
46557 TGTTATGATTTC
1 TGTTCTGATTTC
* *
46569 TGATCTGATTTT
1 TGTTCTGATTTC
46581 TGTTCTGATTTC
1 TGTTCTGATTTC
*
46593 TGATCTGGA-TTC
1 TGTTCT-GATTTC
46605 TGTTCTGAT
1 TGTTCTGAT
46614 AAATGATAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
11 4 0.07
12 47 0.85
13 4 0.07
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (12 bp):
TGTTCTGATTTC
Found at i:46663 original size:24 final size:24
Alignment explanation
Indices: 46533--46667 Score: 96
Period size: 24 Copynumber: 5.8 Consensus size: 24
46523 ATTTGAAATA
* *
46533 TGTTCTGATTTCTGATATGGATTC
1 TGTTCTGATTTATGATATGAATTC
* * * * *
46557 TGTTATGATTTCTGATCTGATTTT
1 TGTTCTGATTTATGATATGAATTC
* * *
46581 TGTTCTGATTTCTGATCTGGATTC
1 TGTTCTGATTTATGATATGAATTC
** **
46605 TGTTCTGATAAATGATA--AATGA
1 TGTTCTGATTTATGATATGAATTC
* *
46627 T-ATCTGATATATGATATGAATTC
1 TGTTCTGATTTATGATATGAATTC
*
46650 TGTTTTGATTTATGATAT
1 TGTTCTGATTTATGATAT
46668 CTCCGTTTAT
Statistics
Matches: 85, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
21 13 0.15
22 3 0.04
23 4 0.05
24 65 0.76
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (24 bp):
TGTTCTGATTTATGATATGAATTC
Found at i:47016 original size:14 final size:15
Alignment explanation
Indices: 46997--47025 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46987 TTTCTACATG
46997 TTTAAAAA-ATATGT
1 TTTAAAAAGATATGT
47011 TTTAAAAAGATATGT
1 TTTAAAAAGATATGT
47026 ATCTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
TTTAAAAAGATATGT
Found at i:52465 original size:160 final size:160
Alignment explanation
Indices: 52201--52505 Score: 556
Period size: 160 Copynumber: 1.9 Consensus size: 160
52191 TTCTCAACCT
* **
52201 GGATACATAGGAATTGATAGAACCATTATCAAATAATGCAAAGTATGGAACTAAATGAATAGTAA
1 GGATACATAGGAATTGATAGAACCATTATCAAATAATACAAAGTACAGAACTAAATGAATAGTAA
52266 CAGTACCTGCAATCACATCAGGCTCATCGCAGTCATGTCGACATCTAGCAGCATAAACTAACACA
66 CAGTACCTGCAATCACATCAGGCTCATCGCAGTCATGTCGACATCTAGCAGCATAAACTAACACA
52331 GTCTGTTTGGCCTCACTCAGAAATAGAATG
131 GTCTGTTTGGCCTCACTCAGAAATAGAATG
*
52361 GGATACATAGGAATTGGTAGAACCATTATCAAATAATACAAAGTACAGAACTAAATGAATAGTAA
1 GGATACATAGGAATTGATAGAACCATTATCAAATAATACAAAGTACAGAACTAAATGAATAGTAA
* *
52426 CAGTACCTGCAATCACATCAGGCTCATCGCAGTCATGTCGACGTCTAGCAGTATAAACTAACACA
66 CAGTACCTGCAATCACATCAGGCTCATCGCAGTCATGTCGACATCTAGCAGCATAAACTAACACA
52491 GTCTGTTTGGCCTCA
131 GTCTGTTTGGCCTCA
52506 GATCTGGCTA
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 139 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (160 bp):
GGATACATAGGAATTGATAGAACCATTATCAAATAATACAAAGTACAGAACTAAATGAATAGTAA
CAGTACCTGCAATCACATCAGGCTCATCGCAGTCATGTCGACATCTAGCAGCATAAACTAACACA
GTCTGTTTGGCCTCACTCAGAAATAGAATG
Found at i:54108 original size:2 final size:2
Alignment explanation
Indices: 54096--54139 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
54086 GGTTCATACG
* *
54096 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54138 AT
1 AT
54140 CAGAAAACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60243 original size:21 final size:21
Alignment explanation
Indices: 60219--60258 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
60209 GCTAGAGTCT
60219 CTAGGATACCAAAGTCCTATA
1 CTAGGATACCAAAGTCCTATA
60240 CTAGGATACCAAAGTCCTA
1 CTAGGATACCAAAGTCCTA
60259 AAAGTATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
CTAGGATACCAAAGTCCTATA
Found at i:69576 original size:18 final size:18
Alignment explanation
Indices: 69553--69588 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
69543 ACTTTTAAGG
69553 GATGTTCAATTAAGTGTT
1 GATGTTCAATTAAGTGTT
* *
69571 GATGTTGAATTTAGTGTT
1 GATGTTCAATTAAGTGTT
69589 ATGGCCATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (18 bp):
GATGTTCAATTAAGTGTT
Found at i:72483 original size:20 final size:19
Alignment explanation
Indices: 72423--72485 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 19
72413 TGGATGCACT
72423 CCTGCAGTGCATCCATGCA
1 CCTGCAGTGCATCCATGCA
**
72442 CCTGCCACTAGTGCATTGATGCA
1 CCTG---C-AGTGCATCCATGCA
72465 CCATGCAGTGCATCCATGCA
1 CC-TGCAGTGCATCCATGCA
72485 C
1 C
72486 TCCATTTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 4 0.11
20 13 0.37
21 1 0.03
22 1 0.03
23 14 0.40
24 2 0.06
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (19 bp):
CCTGCAGTGCATCCATGCA
Found at i:75864 original size:20 final size:19
Alignment explanation
Indices: 75811--75872 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 19
75801 AGGGTGTCAA
75811 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA--CCTGC
75832 AGTGCATCCATGCACCTGC
1 AGTGCATCCATGCACCTGC
* *
75851 TAGTTCATCGATGCACCATGC
1 -AGTGCATCCATGCACC-TGC
75872 A
1 A
75873 CTCCATTTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 17 0.46
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.23
Consensus pattern (19 bp):
AGTGCATCCATGCACCTGC
Found at i:77365 original size:63 final size:63
Alignment explanation
Indices: 77285--77403 Score: 193
Period size: 63 Copynumber: 1.9 Consensus size: 63
77275 CGTCCCTTGT
* *
77285 TGCATTACATTTCAGAGGATCATCAGTTTTGCATCTGCATTTGCATCTTCGCATTCTGTATGA
1 TGCATTACATTTCAGAGGATCATCACTTTTGCATCTACATTTGCATCTTCGCATTCTGTATGA
* * *
77348 TGCATTACATTTTAGAGGATCATCACTTTTGCATCTACATTTTCATCTTTGCATTC
1 TGCATTACATTTCAGAGGATCATCACTTTTGCATCTACATTTGCATCTTCGCATTC
77404 GACATGATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (63 bp):
TGCATTACATTTCAGAGGATCATCACTTTTGCATCTACATTTGCATCTTCGCATTCTGTATGA
Found at i:79930 original size:2 final size:2
Alignment explanation
Indices: 79923--80065 Score: 286
Period size: 2 Copynumber: 71.5 Consensus size: 2
79913 CGTTTACCCA
79923 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
79965 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
80007 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
80049 AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC A
80066 TATATATATA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 141 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:82581 original size:32 final size:32
Alignment explanation
Indices: 82540--82608 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
82530 GGAACAGTGT
* *
82540 GGCATCTTTGGAGATTTAACATCAAATGTTGA
1 GGCATCTTTGGAGATTCAACATCAAATATTGA
*
82572 GGCATCTTTGGAGATTCAACATCAAATATTGG
1 GGCATCTTTGGAGATTCAACATCAAATATTGA
82604 GGCAT
1 GGCAT
82609 TCAATATCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (32 bp):
GGCATCTTTGGAGATTCAACATCAAATATTGA
Found at i:83019 original size:40 final size:40
Alignment explanation
Indices: 82974--83146 Score: 100
Period size: 40 Copynumber: 4.2 Consensus size: 40
82964 ATTGCCAAGA
*
82974 CTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACC-TC
1 CTCATCACATATGAGCAGTGTCATCCCCTGACCAG-CCATC
* * * * * *
83014 CTCATCACGTAGGAGCCGTGTCAACCCCAGATAACCAGCCGTC
1 CTCATCACATATGAGCAGTGTCATCCCC---TGACCAGCCATC
* * * * * * **
83057 CTCATCACATAAGAACCGTGTTATACCCTTAGA-TAGCCAAGA
1 CTCATCACATATGAGCAGTGTCAT-CCCCT-GACCAGCC-ATC
* *
83099 CTCATCGCATATGAGCAGTGTCATCCCCTGACCATACC-TC
1 CTCATCACATATGAGCAGTGTCATCCCCTGACCA-GCCATC
83139 CTCATCAC
1 CTCATCAC
83147 GTAGGAGCCA
Statistics
Matches: 96, Mismatches: 28, Indels: 18
0.68 0.20 0.13
Matches are distributed among these distances:
40 32 0.33
41 10 0.10
42 24 0.25
43 27 0.28
44 3 0.03
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (40 bp):
CTCATCACATATGAGCAGTGTCATCCCCTGACCAGCCATC
Found at i:83059 original size:43 final size:42
Alignment explanation
Indices: 83004--83202 Score: 131
Period size: 43 Copynumber: 4.7 Consensus size: 42
82994 TCATCCCCTG
*
83004 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCCCAGATA
1 ACCAG-CCTCCTCATCACGTAAGAGCCGTGTCAACCCCAGATA
* * * *
83047 ACCAGCCGTCCTCATCACATAAGAACCGTGTTATACCCTTAGATA
1 ACCAGCC-TCCTCATCACGTAAGAGCCGTGTCA-ACCC-CAGATA
* * * * * * * *
83092 GCCAAG---ACTCATCGCATATGAGCAGTGTCATCCCC---TG
1 ACC-AGCCTCCTCATCACGTAAGAGCCGTGTCAACCCCAGATA
* * *
83129 ACCATACCTCCTCATCACGTAGGAGCCATGTCAACCCCAGATA
1 ACCA-GCCTCCTCATCACGTAAGAGCCGTGTCAACCCCAGATA
* *
83172 ACCAGTCATCCTCATCACGTAAGAACCGTGT
1 ACCAG-CCTCCTCATCACGTAAGAGCCGTGT
83203 TATCACCCTT
Statistics
Matches: 114, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
36 1 0.01
37 3 0.03
40 22 0.19
41 3 0.03
42 20 0.18
43 52 0.46
44 4 0.04
45 7 0.06
46 2 0.02
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (42 bp):
ACCAGCCTCCTCATCACGTAAGAGCCGTGTCAACCCCAGATA
Found at i:83114 original size:125 final size:126
Alignment explanation
Indices: 82904--83422 Score: 655
Period size: 126 Copynumber: 4.0 Consensus size: 126
82894 CATATGAGGA
* * * * *
82904 GTGTCAACCCCTAGATAACCAGCCGTCCTCATCATGTAGGAAACGTGTTATCACCCTTATATTGC
1 GTGTCAACCCC-AGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGC
82969 CAAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCC
65 CAAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCC
* *
83031 GTGTCAACCCCAGATAACCAGCCGTCCTCATCACATAAGAACCGTGTTAT-ACCCTTAGATAGCC
1 GTGTCAACCCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGCC
*
83095 AAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCATACCTCCTCATCACGTAGGAGCC
66 AAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCC
* * * * *
83156 ATGTCAACCCCAGATAACCAGTCATCCTCATCACGTAAGAACCGTGTTATCACCCTTTGATGGTC
1 GTGTCAACCCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGCC
* ** * * *
83221 AAGACTCATCGCATATGAGCAGTGTCATCCCCCGAATAGATCTTCTCATCACGTAGGAGCT
66 AAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCC
* * * *
83282 GTGTC-ACCCTCAGATAACCAGCCGTCCTCATCACGTAGGAACTGAGTTATCACTCTTCCTAAAG
1 GTGTCAACCC-CAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCA--C--CCT-TAG
* * * * *
83346 ATGGCCAAGAACTATTCACCACATATGAGCAGTGTCATCCCCTAACCAAATCTCCTCATCACGTA
60 ATGGCCAAG-AC---TCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTA
* *
83411 AGAGTC
121 GGAGCC
83417 GTGTCA
1 GTGTCA
83423 CCATTAGAGG
Statistics
Matches: 339, Mismatches: 41, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
125 122 0.36
126 141 0.42
127 11 0.03
128 1 0.00
130 3 0.01
131 9 0.03
132 2 0.01
135 50 0.15
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (126 bp):
GTGTCAACCCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGGCC
AAGACTCATCGCATATGAGCAGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCC
Found at i:85927 original size:16 final size:16
Alignment explanation
Indices: 85886--85932 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
85876 ACACATTCAT
85886 AATATTTATTATATTA
1 AATATTTATTATATTA
* *
85902 AACATATATTATA-TA
1 AATATTTATTATATTA
*
85917 AATTATTTATTCTATT
1 AA-TATTTATTATATT
85933 TTATTATATG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 4 0.17
16 19 0.79
17 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTATTATATTA
Found at i:87073 original size:9 final size:9
Alignment explanation
Indices: 87064--87404 Score: 102
Period size: 9 Copynumber: 35.9 Consensus size: 9
87054 TATTATATAT
87064 TTTA-TTTA
1 TTTATTTTA
87072 TTTA-TTTA
1 TTTATTTTA
87080 TTTATTTTA
1 TTTATTTTA
* *
87089 TACTCTTTTA
1 T-TTATTTTA
87099 CTAATT-TTTTA
1 -T--TTATTTTA
87110 TTTATTTT-
1 TTTATTTTA
* *
87118 TCTTCTTTCTTC
1 T-TT-ATT-TTA
87130 TTTATTTTA
1 TTTATTTTA
87139 TTTATTTTA
1 TTTATTTTA
*
87148 TTTTTATTGTTT
1 --TTTATT-TTA
87160 TTTATCTTTA
1 TTTAT-TTTA
87170 CTTTA-TTT-
1 -TTTATTTTA
* *
87178 TTTATCTCCTC
1 TTTAT-T-TTA
* *
87189 TTTGTTTATT
1 TTTATTT-TA
87199 TTTATTTTA
1 TTTATTTTA
*
87208 TTCTTGCTTTTA
1 -T-TT-ATTTTA
87220 TTT-TTTTA
1 TTTATTTTA
87228 TTTATTATAAATA
1 TTTATT-T---TA
87241 TATTATTGTTA
1 T-TTATT-TTA
87252 TTT-TCTTTA
1 TTTAT-TTTA
87261 TTT-TCTTTA
1 TTTAT-TTTA
*
87270 TTTATTTTC
1 TTTATTTTA
87279 TTTATTTTTA
1 TTTA-TTTTA
87289 CTTTTATTTCT-
1 --TTTATTT-TA
87300 TTTATTTTA
1 TTTATTTTA
87309 TTTATTTTA
1 TTTATTTTA
87318 TTTATTTTA
1 TTTATTTTA
*
87327 TTTACCTTT-
1 TTTA-TTTTA
87336 TTTATTTT-
1 TTTATTTTA
*
87344 TATT-TTTTC
1 T-TTATTTTA
87353 TTTATCTTTA
1 TTTAT-TTTA
87363 TTT-TTTT-
1 TTTATTTTA
* *
87370 TCT-CTTTA
1 TTTATTTTA
*
87378 TCTTATCTTA
1 T-TTATTTTA
*
87388 TTTATTTCA
1 TTTATTTTA
*
87397 TTTGTTTT
1 TTTATTTT
87405 TTTTGTTTTC
Statistics
Matches: 260, Mismatches: 30, Indels: 85
0.69 0.08 0.23
Matches are distributed among these distances:
7 9 0.03
8 38 0.15
9 103 0.40
10 52 0.20
11 34 0.13
12 15 0.06
13 3 0.01
14 6 0.02
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:87142 original size:4 final size:5
Alignment explanation
Indices: 87130--87399 Score: 83
Period size: 5 Copynumber: 54.4 Consensus size: 5
87120 TTCTTTCTTC
*
87130 TTTAT TTTA- TTTAT TTTATT TTTAT TGTT-T TTTAT CTTTAC TTTAT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT T-TTAT TTTAT -TTTAT TTTAT
* * *
87176 TTT-T TATCTCCT CTTT-G TTTATT TTTAT TTTAT TCTTGCT TTTA- TTT-T
1 TTTAT T-T-T-AT -TTTAT TTTA-T TTTAT TTTAT T-TT-AT TTTAT TTTAT
* ** * * *
87224 TTTA- TTTAT TATA- AATAT ATTAT TGTTAT TTT-C TTTAT TTT-C TTTA-
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT
* *
87270 TTTAT TTT-C TTTATT TTTACT TTTA- TTTCT TTTAT TTTA- TTTAT TTTA-
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* * *
87318 TTTAT TTTA- TTTAC CTT-T TTTATT TTTAT TTTTT CTTTAT CTTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT -TTTAT -TTTAT
* * * *
87364 TTT-T TTTCT CTTTAT CTTAT CTTA- TTTAT TTCAT TT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TT
87400 GTTTTTTTTG
Statistics
Matches: 204, Mismatches: 27, Indels: 68
0.68 0.09 0.23
Matches are distributed among these distances:
4 61 0.30
5 84 0.41
6 53 0.26
7 3 0.01
8 2 0.01
9 1 0.00
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:87375 original size:21 final size:23
Alignment explanation
Indices: 87336--87381 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
87326 ATTTACCTTT
*
87336 TTTATTTTTATTTTTTCTTTATC
1 TTTATTTTTATTTTCTCTTTATC
87359 TTTA-TTTT-TTTTCTCTTTATC
1 TTTATTTTTATTTTCTCTTTATC
87380 TT
1 TT
87382 ATCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 4 0.18
23 4 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTATTTTTATTTTCTCTTTATC
Found at i:88377 original size:2 final size:2
Alignment explanation
Indices: 88370--88408 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
88360 TTTTATCATT
88370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88409 TATCTTACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97884 original size:1 final size:1
Alignment explanation
Indices: 97878--97963 Score: 55
Period size: 1 Copynumber: 86.0 Consensus size: 1
97868 GCCCTAAATT
* * * * * * * * * *
97878 AAAAAAAAATAAAAAAGAAAAAGAAAAAGAGAAAAATAAAAAATAAAAAATAAAAAATAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
97943 AAAAAATAAAATAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAA
97964 TAAGATAGAT
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (1 bp):
A
Found at i:97893 original size:7 final size:7
Alignment explanation
Indices: 97881--97966 Score: 97
Period size: 7 Copynumber: 12.3 Consensus size: 7
97871 CTAAATTAAA
97881 AAAAAAT
1 AAAAAAT
*
97888 AAAAAAG
1 AAAAAAT
97895 AAAAAGA-
1 AAAAA-AT
*
97902 AAAAGA-
1 AAAAAAT
*
97908 GAAAAAT
1 AAAAAAT
97915 AAAAAAT
1 AAAAAAT
97922 AAAAAAT
1 AAAAAAT
97929 AAAAAAT
1 AAAAAAT
97936 AAAAAAT
1 AAAAAAT
97943 AAAAAAT
1 AAAAAAT
97950 AAAATAA-
1 AAAA-AAT
97957 AATAAAAT
1 AA-AAAAT
97965 AA
1 AA
97967 GATAGATTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.07
7 57 0.83
8 7 0.10
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:97904 original size:21 final size:19
Alignment explanation
Indices: 97878--97963 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 19
97868 GCCCTAAATT
* *
97878 AAAAAAAAATAAAAAAGAA
1 AAAAAAAAAAAAAAAATAA
* *
97897 AAAGAAAAAGAGAAAAATAA
1 AAA-AAAAAAAAAAAAATAA
97917 AAAATAAAAAATAAAAAATAA
1 AAAA-AAAAAA-AAAAAATAA
* *
97938 AAAATAAAAAATAAAATAA
1 AAAAAAAAAAAAAAAATAA
97957 AATAAAA
1 AA-AAAA
97964 TAAGATAGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.26
20 28 0.52
21 12 0.22
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAATAA
Found at i:98599 original size:21 final size:21
Alignment explanation
Indices: 98552--98600 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
98542 ACATTTGAAG
**
98552 AATTCAAGATCGGGAATCAGA
1 AATTCAAGATCCAGAATCAGA
*
98573 ACTTCAAGATTCCAGAATCA-A
1 AATTCAAGA-TCCAGAATCAGA
98594 AATTCAA
1 AATTCAA
98601 CAAGACAGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (21 bp):
AATTCAAGATCCAGAATCAGA
Found at i:98891 original size:65 final size:65
Alignment explanation
Indices: 98794--98916 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
98784 AATTTACTTG
* *
98794 AGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCA-AAGCCAATTTGGTGAAACTTACTC
1 AGATTGGATTTCAACTTCACAACGAAGGATATCCAAATCAGAA-CCAATTTGATGAAACTTACTC
98858 A
65 A
*
98859 AGATTGGATTTCAACTTCACGACGAAGGATATCCAAATCAGAACCAATTTGATGAAAC
1 AGATTGGATTTCAACTTCACAACGAAGGATATCCAAATCAGAACCAATTTGATGAAAC
98917 AATACTTGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 52 0.96
66 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (65 bp):
AGATTGGATTTCAACTTCACAACGAAGGATATCCAAATCAGAACCAATTTGATGAAACTTACTCA
Found at i:101666 original size:45 final size:48
Alignment explanation
Indices: 101599--101696 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 48
101589 TTTATTTTCG
101599 TTTTTCGAATAAATGCATGCGAACAAGATATCAAGCGGTTAGG-TTTA
1 TTTTTCGAATAAATGCATGCGAACAAGATATCAAGCGGTTAGGATTTA
* ** * *
101646 TTTTTCGAA-CAA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTCGAATAAATGCATGCGAACAAGATATCAAGCGGTTAGGATTTA
101692 TTTTT
1 TTTTT
101697 GTGAATAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 26 0.58
46 10 0.22
47 9 0.20
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (48 bp):
TTTTTCGAATAAATGCATGCGAACAAGATATCAAGCGGTTAGGATTTA
Found at i:106651 original size:16 final size:16
Alignment explanation
Indices: 106630--106666 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
106620 TTTGTTAGGA
*
106630 AGGCCTTGGATTAATC
1 AGGCCTTGGATTAAAC
106646 AGGCCTTGGATTAAAC
1 AGGCCTTGGATTAAAC
106662 AGGCC
1 AGGCC
106667 GGTGCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (16 bp):
AGGCCTTGGATTAAAC
Found at i:111095 original size:8 final size:8
Alignment explanation
Indices: 111076--111219 Score: 76
Period size: 7 Copynumber: 18.4 Consensus size: 8
111066 CTTGAAGAAG
111076 AAATGAAAA
1 AAATG-AAA
111085 AAATGAAAAA
1 AAATG--AAA
111095 AAATGAAA
1 AAATGAAA
111103 AAAT-AAA
1 AAATGAAA
111110 AAAT-AAA
1 AAATGAAA
*
111117 AAA-G-GA
1 AAATGAAA
*
111123 AAA-GGAA
1 AAATGAAA
111130 AAATGAGAAAAA
1 AAAT--G--AAA
111142 AAATG-AA
1 AAATGAAA
***
111149 AAATGGTG
1 AAATGAAA
111157 AAAT-AAA
1 AAATGAAA
111164 AAATGAAA
1 AAATGAAA
111172 AAATGAAA
1 AAATGAAA
*
111180 AAA-GAAG
1 AAATGAAA
*
111187 AAA-GAAG
1 AAATGAAA
111194 AAA-GAGAA
1 AAATGA-AA
111202 AAATG-AA
1 AAATGAAA
111209 AAATGAAA
1 AAATGAAA
111217 AAA
1 AAA
111220 ATAGAGAAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.04
7 50 0.45
8 34 0.30
9 6 0.05
10 11 0.10
12 6 0.05
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (8 bp):
AAATGAAA
Found at i:111175 original size:30 final size:29
Alignment explanation
Indices: 111099--111215 Score: 92
Period size: 30 Copynumber: 3.9 Consensus size: 29
111089 GAAAAAAAAT
* * * *
111099 GAAAAAATAAAAAATAAAAAAGGAA-AAG
1 GAAAAAAGAAAAAATGAAAAATGAAGAAA
**
111127 GAAAAATGAGAAAAAAAATGAAAAATGGTGAAA
1 GAAAAA--AG--AAAAAATGAAAAATGAAGAAA
* *
111160 TAAAAAATGAAAAAATGAAAAAAGAAGAAA
1 GAAAAAA-GAAAAAATGAAAAATGAAGAAA
*
111190 GAAGAAAGAGAAAAATGAAAAATGAA
1 GAAAAAAGA-AAAAATGAAAAATGAA
111216 AAAAATAGAG
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
28 6 0.09
29 2 0.03
30 39 0.57
31 1 0.01
32 14 0.20
33 7 0.10
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (29 bp):
GAAAAAAGAAAAAATGAAAAATGAAGAAA
Found at i:111210 original size:6 final size:7
Alignment explanation
Indices: 111093--111218 Score: 80
Period size: 7 Copynumber: 17.7 Consensus size: 7
111083 AAAAATGAAA
111093 AAAAATG
1 AAAAATG
*
111100 AAAAAATA
1 -AAAAATG
111108 AAAAAT-
1 AAAAATG
*
111114 AAAAAAG
1 AAAAATG
* *
111121 GAAAAGG
1 AAAAATG
111128 AAAAATG
1 AAAAATG
*
111135 AGAAA--
1 AAAAATG
111140 AAAAATG
1 AAAAATG
111147 AAAAATGG
1 AAAAAT-G
** *
111155 TGAAATA
1 AAAAATG
111162 AAAAATG
1 AAAAATG
111169 AAAAAATG
1 -AAAAATG
*
111177 AAAAAAG
1 AAAAATG
111184 AAGAAA-G
1 AA-AAATG
*
111191 AAGAAAGAG
1 AA-AAA-TG
111200 AAAAATG
1 AAAAATG
111207 AAAAATG
1 AAAAATG
111214 AAAAA
1 AAAAA
111219 AATAGAGAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
5 4 0.04
6 5 0.05
7 58 0.62
8 24 0.26
9 3 0.03
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:112579 original size:37 final size:37
Alignment explanation
Indices: 112432--112580 Score: 192
Period size: 37 Copynumber: 4.0 Consensus size: 37
112422 TCGAAACAAG
* *
112432 TCAATCTTAAGCCTTCACGAAAGAGAAGTGAAGCAAT
1 TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
* * * *
112469 TCAATCTTAAGCCTTCACGAAAGAGCAATGATGCAAT
1 TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
* *
112506 TCAATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAA
1 TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
* *
112543 TC-ATTTATAAGCCTTCACGGAAGAGTAGTGAAGCAAA
1 TCAATCT-TAAGCCTTCACGAAAGAGTAGTGAAGCAAA
112580 T
1 T
112581 TCGTTTTATG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 3 0.03
37 97 0.97
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (37 bp):
TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
Found at i:112668 original size:55 final size:54
Alignment explanation
Indices: 112589--112926 Score: 326
Period size: 55 Copynumber: 6.1 Consensus size: 54
112579 ATTCGTTTTA
* * * *
112589 TGAAGATTG-TCTGAGTTCTATACTCCCTGAACGAACAGGGAGCGTACCCATTTAT
1 TGAAGATTGTTC-GAGTTCTATACTCCCTGAAAGAATAGGGAGCG-ACACATTTGT
* *
112644 TGAAGATTGTTCGAGTTCTATACTCCCTGAATGAATAGGGAGCAGACCCATTTGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGC-GACACATTTGT
* * * * * *
112699 TGAAGATTGTTCGAGTCCTATACTCCATGAACGAATAGAGAG-AAGACATGTTGGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCGACACAT-TT-GT
* * ** *
112754 TGAAGATTGTTCGAG-TCTTATACTCCCTGAAAGATTAGGGAGAAGACACGGTTGC
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAAAGAATAGGGAG-CGACACATTTGT
* * * **
112809 TAAAGATTGTTCAAG-TCTTATACTTCCTGAAAGAATAGGGAGCAGACACGGTTGT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAAAGAATAGGGAGC-GACACATTTGT
* *
112864 TGAAGATTGTTCGAGTACTATACTCCCTGAAAGAATAGGGAGCGGACACGTTT-T
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGC-GACACATTTGT
112918 CTGAAGATT
1 -TGAAGATT
112927 TTTCAAGTCT
Statistics
Matches: 241, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
53 4 0.02
54 4 0.02
55 224 0.93
56 6 0.02
57 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (54 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCGACACATTTGT
Found at i:112936 original size:110 final size:109
Alignment explanation
Indices: 112643--112936 Score: 369
Period size: 110 Copynumber: 2.7 Consensus size: 109
112633 TACCCATTTA
* * *
112643 TTGAAGATTGTTCGAGTTCTATACTCCCTGAATGAATAGGGAGCAGACCCATTTGT-TGAAGATT
1 TTGAAGATTGTTCGAG-TCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTT-TCTGAAGATT
* * * *
112707 GTTCGAGTCCTATACTCCATGAACGAATAGAGAGAAGACATGTTGG
64 GTTCAAGTCTTATACTCCATGAAAGAATAGAGAGAAGACAGGTTGG
* * * * *
112753 TTGAAGATTGTTCGAGTCTTATACTCCCTGAAAGATTAGGGAGAAGACACGGTTGCTAAAGATTG
1 TTGAAGATTGTTCGAGTC-TATACTCCCTGAAAGAATAGGGAGCAGACACGTTTTCTGAAGATTG
* *
112818 TTCAAGTCTTATACTTCC-TGAAAGAATAGGGAGCAGACACGGTT-G
65 TTCAAGTCTTATAC-TCCATGAAAGAATAGAGAGAAGACA-GGTTGG
* *
112863 TTGAAGATTGTTCGAGTACTATACTCCCTGAAAGAATAGGGAGCGGACACGTTTTCTGAAGATTT
1 TTGAAGATTGTTCGAGT-CTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTTCTGAAGATTG
112928 TTCAAGTCT
65 TTCAAGTCT
112937 CACTTATCAT
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
109 2 0.01
110 149 0.94
111 7 0.04
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (109 bp):
TTGAAGATTGTTCGAGTCTATACTCCCTGAAAGAATAGGGAGCAGACACGTTTTCTGAAGATTGT
TCAAGTCTTATACTCCATGAAAGAATAGAGAGAAGACAGGTTGG
Found at i:115326 original size:28 final size:27
Alignment explanation
Indices: 115270--115332 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
115260 TTCGAACCGT
115270 ATTTTTCGATCGTAAAGGAAATCCAAA
1 ATTTTTCGATCGTAAAGGAAATCCAAA
115297 ATTTTTCGATCGTAAAGGAAATCCAAA
1 ATTTTTCGATCGTAAAGGAAATCCAAA
*
115324 AATTTTCGA
1 ATTTTTCGA
115333 AACGAGAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
ATTTTTCGATCGTAAAGGAAATCCAAA
Found at i:115847 original size:16 final size:16
Alignment explanation
Indices: 115806--115852 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
115796 ACACATTCAT
115806 AATATTTATTATATTA
1 AATATTTATTATATTA
* *
115822 AACATATATTATA-TA
1 AATATTTATTATATTA
*
115837 AATTATTTATTCTATT
1 AA-TATTTATTATATT
115853 TTATTATATG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 4 0.17
16 19 0.79
17 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTATTATATTA
Found at i:116885 original size:3 final size:3
Alignment explanation
Indices: 116877--117101 Score: 202
Period size: 3 Copynumber: 76.7 Consensus size: 3
116867 TTTAGTACTT
116877 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * * *
116923 TTA TTTA TTT TTT TTT TTT TTA TTA TT- TTA ATA CTA TT- TTA CTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
116967 TT- TT- TTA TTTA TTC TTT TTA TTA TTA TT- TTCA TTA TTA TTA TCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
117011 TTA TTA TTA TTA TT- TTCA TTA TTA TT- TT- TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
117054 TTA TTA CTA TTA TTA TTA TTA TTA TT- TTA CTTA TTT TTA -TA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
117097 TTA TT
1 TTA TT
117102 TATTTATTTT
Statistics
Matches: 190, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
2 22 0.12
3 152 0.80
4 16 0.08
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:117103 original size:21 final size:21
Alignment explanation
Indices: 116939--117132 Score: 68
Period size: 21 Copynumber: 9.2 Consensus size: 21
116929 ATTTTTTTTT
*
116939 TTTTTATTATTTTA-ATAC-TA
1 TTTTTA-TATTTTATTTACTTA
* *
116959 TTTTACTATTTTTTATTTA-TTC
1 TTTT--TATATTTTATTTACTTA
* *
116981 TTTTTAT-TATTATTTTCATTA
1 TTTTTATATTTTATTTAC-TTA
*
117002 TTATTATCATTATTA-TTA-TTA
1 TTTTTAT-ATT-TTATTTACTTA
* **
117023 TTTTCATTATTATT-TTTTGTTA
1 TTTTTA-TATT-TTATTTACTTA
* *
117045 TTATTAT-TATTA-TTAC-TA
1 TTTTTATATTTTATTTACTTA
*
117063 TTATTATTATTATTATTTTACTTA
1 TTTTTA-TATT-TTA-TTTACTTA
*
117087 TTTTTATATTTTATTTATTTA
1 TTTTTATATTTTATTTACTTA
* *
117108 TTTTTCT-TCTTTATTTATTTA
1 TTTTTATAT-TTTATTTACTTA
117129 TTTT
1 TTTT
117133 CTTTTTCTTT
Statistics
Matches: 133, Mismatches: 21, Indels: 39
0.69 0.11 0.20
Matches are distributed among these distances:
18 8 0.06
19 12 0.09
20 10 0.08
21 62 0.47
22 20 0.15
23 11 0.08
24 10 0.08
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (21 bp):
TTTTTATATTTTATTTACTTA
Found at i:117105 original size:9 final size:9
Alignment explanation
Indices: 116883--117372 Score: 116
Period size: 9 Copynumber: 53.8 Consensus size: 9
116873 ACTTTTATTA
116883 TTATTATTA-
1 TTATT-TTAT
116892 TTATTATTA-
1 TTATT-TTAT
116901 TTATTATTA-
1 TTATT-TTAT
116910 TTATTATTAT
1 TTATT-TTAT
116920 TTATTATTTAT
1 TTA-T-TTTAT
116931 TT-TTTT-T
1 TTATTTTAT
116938 TT-TTTTA-
1 TTATTTTAT
116945 TTATTTTAAT
1 TTATTTT-AT
*
116955 ACTATTTTACT
1 -TTATTTTA-T
116966 ATT-TTTTAT
1 -TTATTTTAT
116975 TTATTCTT-T
1 TTATT-TTAT
116984 TTA--TTA-
1 TTATTTTAT
116990 TTATTTTCA-
1 TTATTTT-AT
116999 TTATTATTAT
1 TTATT-TTAT
117009 CATTATTATTA-
1 --TTATT-TTAT
117020 TTATTTTCATT
1 TTATTTT-A-T
*
117031 ATTATTTTTT
1 -TTATTTTAT
117041 GTTATTATTA-
1 -TTATT-TTAT
117051 TTATTATTACT
1 TTATT-TTA-T
117062 ATTATTATTATT
1 -TTATT-TTA-T
*
117074 ATTATTTTAC
1 -TTATTTTAT
117084 TTATTTT-T
1 TTATTTTAT
*
117092 ATATTTTAT
1 TTATTTTAT
117101 TTA-TTTAT
1 TTATTTTAT
*
117109 TT-TTCTTCT
1 TTATT-TTAT
117118 TTA-TTTAT
1 TTATTTTAT
*
117126 TTATTTTCT
1 TTATTTTAT
*
117135 TTTTCTTTAT
1 TTAT-TTTAT
*
117145 TT-TCTT-T
1 TTATTTTAT
*
117152 TTATTCT-T
1 TTATTTTAT
*
117160 TT-TTATAT
1 TTATTTTAT
**
117168 TTACCTTAT
1 TTATTTTAT
117177 TT-TTTTAT
1 TTATTTTAT
**
117185 CTCCTTTATAT
1 -TTATTT-TAT
117196 TT-TTTTAT
1 TTATTTTAT
*
117204 TTCTTTGT-T
1 TTATTT-TAT
*
117213 TAATTTTATT
1 TTATTTTA-T
117223 TTATTTT-T
1 TTATTTTAT
*
117231 GT-TTTTAT
1 TTATTTTAT
*
117239 TT-GTTTAT
1 TTATTTTAT
* *
117247 TTATTATAA
1 TTATTTTAT
* *
117256 ATATATTATT
1 TTATTTTA-T
*
117266 GTTATTTTCT
1 -TTATTTTAT
117276 TTATTTT-T
1 TTATTTTAT
117284 TTA--TT-T
1 TTATTTTAT
117290 TTACTTTTAT
1 TTA-TTTTAT
*
117300 TTCTTTTAT
1 TTATTTTAT
117309 TT-TCTTTAT
1 TTAT-TTTAT
*
117318 CTTATTTTCT
1 -TTATTTTAT
117328 TTATTTTAT
1 TTATTTTAT
*
117337 TTACCTTT-T
1 TTA-TTTTAT
117346 TTATCTTTACT
1 TTAT-TTTA-T
117357 TTATCTTTAT
1 TTAT-TTTAT
117367 TT-TTTT
1 TTATTTT
117373 TCTCTTTATC
Statistics
Matches: 376, Mismatches: 47, Indels: 117
0.70 0.09 0.22
Matches are distributed among these distances:
6 11 0.03
7 19 0.05
8 72 0.19
9 148 0.39
10 53 0.14
11 40 0.11
12 33 0.09
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (9 bp):
TTATTTTAT
Found at i:117120 original size:17 final size:17
Alignment explanation
Indices: 117075--117402 Score: 91
Period size: 17 Copynumber: 19.0 Consensus size: 17
117065 ATTATTATTA
117075 TTATTTTAC-TTATTT-T
1 TTATTTT-CTTTATTTAT
*
117091 TATATTTTATTTATTTAT
1 T-TATTTTCTTTATTTAT
117109 TT-TTCTTCTTTATTTAT
1 TTATT-TTCTTTATTTAT
*
117126 TTATTTTC-TT-TTTCT
1 TTATTTTCTTTATTTAT
*
117141 TTATTTTCTTTTTATTCTTTT
1 TTATTTTC--TTTA-T-TTAT
* *
117162 TTATATTTACCTTATTTTT
1 TTAT-TTT-CTTTATTTAT
* *
117181 TTATCTCCTTTA--TAT
1 TTATTTTCTTTATTTAT
* * *
117196 TT-TTTTATTTCTTTGT
1 TTATTTTCTTTATTTAT
*
117212 TTAATTTTATTTTATTT-T
1 TT-ATTTT-CTTTATTTAT
* *
117230 TGT-TTTTATTTGTTTAT
1 T-TATTTTCTTTATTTAT
* ***
117247 TTATTATAAATATATTATT
1 TTATTTTCTTTAT-TTA-T
*
117266 GTTATTTTCTTTATTTTT
1 -TTATTTTCTTTATTTAT
*
117284 TTATTTTTACTTTTATTTCTT
1 TTA-TTTT-C-TTTATTT-AT
*
117305 TTATTTTCTTTA--T-C
1 TTATTTTCTTTATTTAT
117319 TTATTTTCTTTATTTTAT
1 TTATTTTCTTTA-TTTAT
* *
117337 TTACCTTT-TTTA--TCT
1 TTA-TTTTCTTTATTTAT
117352 TTACTTTATCTTTATTT-T
1 TTA-TTT-TCTTTATTTAT
* *
117370 TT-TTCTCTTTA-TCAT
1 TTATTTTCTTTATTTAT
117385 TTATTTTCTTTATCTTAT
1 TTATTTTCTTTAT-TTAT
117403 CATATTTATT
Statistics
Matches: 235, Mismatches: 36, Indels: 80
0.67 0.10 0.23
Matches are distributed among these distances:
14 18 0.08
15 33 0.14
16 28 0.12
17 53 0.23
18 38 0.16
19 24 0.10
20 22 0.09
21 15 0.06
22 3 0.01
23 1 0.00
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (17 bp):
TTATTTTCTTTATTTAT
Found at i:117162 original size:15 final size:15
Alignment explanation
Indices: 117121--117156 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
117111 TTCTTCTTTA
117121 TTTATTTATTTTCTT
1 TTTATTTATTTTCTT
*
117136 TTTCTTTATTTTCTT
1 TTTATTTATTTTCTT
117151 TTTATT
1 TTTATT
117157 CTTTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTATTTTCTT
Found at i:117184 original size:40 final size:40
Alignment explanation
Indices: 117093--117201 Score: 91
Period size: 40 Copynumber: 2.7 Consensus size: 40
117083 CTTATTTTTA
* * *
117093 TATTTTATTTA-TTTATTTTTCTTCTTTATTTATTTATTTTCT
1 TATTTT-TTTATTTTCTTTTTATTCTTT-TTTA-TTATTTCCT
*
117135 T-TTTCTTTATTTTCTTTTTATTCTTTTTTA-TATTTACCT
1 TATTTTTTTATTTTCTTTTTATTCTTTTTTATTATTT-CCT
* * *
117174 TATTTTTTTATCTCCTTTATATT-TTTTT
1 TATTTTTTTATTTTCTTTTTATTCTTTTT
117202 ATTTCTTTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
38 5 0.09
39 8 0.14
40 25 0.45
41 17 0.30
42 1 0.02
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (40 bp):
TATTTTTTTATTTTCTTTTTATTCTTTTTTATTATTTCCT
Found at i:117219 original size:72 final size:69
Alignment explanation
Indices: 117075--117251 Score: 162
Period size: 72 Copynumber: 2.5 Consensus size: 69
117065 ATTATTATTA
* * * *
117075 TTATTTTACTTATTTTTATATTTTATTTATTTATTTTTCTTCTTTATTTATTTATTTTCTTTTTC
1 TTATTTTA-TTTTTTTTATA-TTTACTTATTTATTTTTCTCCTTTATTTATTTATTTTCTTTGTC
*
117140 TTTATT
64 TTAATT
* *
117146 TTCTTTTTATTCTTTTTTATATTTACCTTATTT-TTTTATCTCCTTTATATT-TTTTTATTTCTT
1 TT-ATTTTATT-TTTTTTATATTTA-CTTATTTATTTT-TCTCCTTTAT-TTATTTAT-TTTCTT
117209 TGT-TTAATT
60 TGTCTTAATT
* **
117218 TTATTTTATTTTTGTTTTTATTTGTTTATTTATT
1 TTATTTTATTTTT-TTTATATTTACTTATTTATT
117252 ATAAATATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
70 9 0.10
71 29 0.33
72 39 0.45
73 10 0.11
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (69 bp):
TTATTTTATTTTTTTTATATTTACTTATTTATTTTTCTCCTTTATTTATTTATTTTCTTTGTCTT
AATT
Found at i:117355 original size:62 final size:64
Alignment explanation
Indices: 117267--117402 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 64
117257 TATATTATTG
* * * *
117267 TTATTTTCTTTATTTTTTTATTTTTACTTT-TATTTCTTTTATTT-TCTTTATC-TTATTTTCT
1 TTATTTTATTTACTTTTTTATCTTTACTTTATATTTATTTTATTTCTCTTTATCATTATTTTCT
* *
117328 TTATTTTATTTACCTTTTTTATCTTTACTTTATCTTTATTTTTTTTCTCTTTATCATTTATTTTC
1 TTATTTTATTTA-CTTTTTTATCTTTACTTTATATTTATTTTATTTCTCTTTATCA-TTATTTTC
117393 T
64 T
*
117394 TTATCTTAT
1 TTATTTTAT
117403 CATATTTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 11 0.17
62 16 0.25
63 11 0.17
64 8 0.13
66 17 0.27
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (64 bp):
TTATTTTATTTACTTTTTTATCTTTACTTTATATTTATTTTATTTCTCTTTATCATTATTTTCT
Found at i:117359 original size:11 final size:10
Alignment explanation
Indices: 117267--117403 Score: 85
Period size: 9 Copynumber: 13.9 Consensus size: 10
117257 TATATTATTG
117267 TTATTT-TCT
1 TTATTTATCT
117276 TTATTT-T-T
1 TTATTTATCT
*
117284 TTATTTTTACTT
1 TTATTTAT-C-T
*
117296 TTATTTCT-T
1 TTATTTATCT
117305 TTATTT-TCT
1 TTATTTATCT
117314 TTATCTTAT-T
1 TTAT-TTATCT
*
117324 TTCTTTAT-T
1 TTATTTATCT
*
117333 TTATTTACCT
1 TTATTTATCT
117343 TT-TTTATCT
1 TTATTTATCT
117352 TTACTTTATCT
1 TTA-TTTATCT
* *
117363 TTATTTTTTT
1 TTATTTATCT
*
117373 TCTCTTTATCAT
1 T-TATTTATC-T
117385 TTATTT-TCT
1 TTATTTATCT
117394 TTATCTTATC
1 TTAT-TTATC
117404 ATATTTATTT
Statistics
Matches: 103, Mismatches: 11, Indels: 26
0.74 0.08 0.19
Matches are distributed among these distances:
8 8 0.08
9 44 0.43
10 19 0.18
11 22 0.21
12 10 0.10
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATCT
Found at i:117413 original size:23 final size:22
Alignment explanation
Indices: 117298--117405 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 22
117288 TTTTACTTTT
* *
117298 ATTTCTTTTATTT-TCTTTATC
1 ATTTATTTTCTTTATCTTTATC
117319 --TTATTTTCTTTAT-TTTATTTAC
1 ATTTATTTTCTTTATCTTTA--T-C
*
117341 CTTT-TTTATCTTTA-CTTTATC
1 ATTTATTT-TCTTTATCTTTATC
* *
117362 -TTTATTTTTTTTCTCTTTATC
1 ATTTATTTTCTTTATCTTTATC
117383 ATTTATTTTCTTTATC-TTATC
1 ATTTATTTTCTTTATCTTTATC
117404 AT
1 AT
117406 ATTTATTTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
19 13 0.19
20 8 0.11
21 19 0.27
22 15 0.21
23 3 0.04
24 12 0.17
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTATTTTCTTTATCTTTATC
Found at i:117439 original size:80 final size:80
Alignment explanation
Indices: 117270--117418 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 80
117260 ATTATTGTTA
* ** * *
117270 TTTTCTTTATTTTTTTATTTTTACTTTTATTTCTTTTATTTTCTTTATCTTATTTTCTTTATTTT
1 TTTTCTTTATTTTTTTATTTTTACTTTTA-TTCATTTATTTTCTTTATCTTATCATATTTATTTC
117335 ATTTACCTTTTTTATC
65 ATTTACCTTTTTTATC
*
117351 TTTACTTTATCTTTATTT-TTTTT-CTCTTTA-TCATTTATTTTCTTTATCTTATCATATTTATT
1 TTTTCTTTAT-TTT-TTTATTTTTACT-TTTATTCATTTATTTTCTTTATCTTATCATATTTATT
117413 TCATTT
63 TCATTT
117419 GTTTTTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
80 33 0.56
81 11 0.19
82 12 0.20
83 3 0.05
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (80 bp):
TTTTCTTTATTTTTTTATTTTTACTTTTATTCATTTATTTTCTTTATCTTATCATATTTATTTCA
TTTACCTTTTTTATC
Found at i:117459 original size:80 final size:80
Alignment explanation
Indices: 117304--117459 Score: 179
Period size: 80 Copynumber: 1.9 Consensus size: 80
117294 TTTTATTTCT
** * * * * *
117304 TTTATTTTCTTTATCTTATTTTCTTTATTTTATTTACCTTTTTTATCTTTACTTTATCTTTATTT
1 TTTATTTTCTTTATCTTATCATATTTATTTCATTTACCTTTTTTATCTTTACTTTACCCTTATTG
117369 TTTTTCTCTTTATCA
66 TTTTTCTCTTTATCA
*** * * *
117384 TTTATTTTCTTTATCTTATCATATTTATTTCATTTGTTTTTTTTTTGTTTTCTTTACCCTT-TTG
1 TTTATTTTCTTTATCTTATCATATTTATTTCATTTACCTTTTTTATCTTTACTTTACCCTTATTG
117448 TTTTTCTTCTTT
66 TTTTTC-TCTTT
117460 TTTCCATCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
79 8 0.13
80 54 0.87
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (80 bp):
TTTATTTTCTTTATCTTATCATATTTATTTCATTTACCTTTTTTATCTTTACTTTACCCTTATTG
TTTTTCTCTTTATCA
Found at i:118519 original size:27 final size:27
Alignment explanation
Indices: 118455--118519 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
118445 TATTTAAATT
* * *
118455 AATTATAAATTGTTTTTTAAATTGAAA
1 AATTTTAAATTGTTATATAAATTGAAA
* *
118482 AATATTCAATTGTTATATAAATT-AGAA
1 AATTTTAAATTGTTATATAAATTGA-AA
118509 AATTTTAAATT
1 AATTTTAAATT
118520 TTTTGGTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (27 bp):
AATTTTAAATTGTTATATAAATTGAAA
Found at i:119440 original size:32 final size:32
Alignment explanation
Indices: 119374--119447 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
119364 GATGACGTGG
** *
119374 CACATGTCTTGTCATCATTTTAAGTGATGCGA
1 CACATGTCACGTCATCATTTTAAGTGAAGCGA
119406 CACATGTCACGTCATCATTTTGAA-TGACAG-GA
1 CACATGTCACGTCATCATTTT-AAGTGA-AGCGA
119438 CACATGTCAC
1 CACATGTCAC
119448 ACCATCAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 34 0.92
33 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (32 bp):
CACATGTCACGTCATCATTTTAAGTGAAGCGA
Found at i:119750 original size:22 final size:21
Alignment explanation
Indices: 119696--119738 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
119686 TCTTTATGGC
* *
119696 ATGATTTTTTTTTCTGTCTTT
1 ATGATATTTTTCTCTGTCTTT
119717 ATGATATGTTTTCTCTGTCTTT
1 ATGATAT-TTTTCTCTGTCTTT
119739 TGACATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (21 bp):
ATGATATTTTTCTCTGTCTTT
Found at i:123053 original size:39 final size:42
Alignment explanation
Indices: 122987--123078 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 42
122977 AATTTATAGT
* *
122987 TATATAAAGTTGACCAAAATTTTCATTCAAGA-TTAATAAAA
1 TATATAAAGTTGACCAAAATTTCCATTCAAGATTTAACAAAA
* * *
123028 TATATAAAGTT-ACC-ATATTTCCATTCAATATTTGACAAAA
1 TATATAAAGTTGACCAAAATTTCCATTCAAGATTTAACAAAA
*
123068 TACATAAAGTT
1 TATATAAAGTT
123079 TAACTAAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 13 0.30
40 20 0.45
41 11 0.25
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.36
Consensus pattern (42 bp):
TATATAAAGTTGACCAAAATTTCCATTCAAGATTTAACAAAA
Found at i:123551 original size:18 final size:18
Alignment explanation
Indices: 123528--123578 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
123518 GAATGCAATA
123528 AGGGTACGGATACCCTAT
1 AGGGTACGGATACCCTAT
123546 AGGGTACGGATACCCTAT
1 AGGGTACGGATACCCTAT
* *
123564 AGGATACCGATACCC
1 AGGGTACGGATACCC
123579 CTATGCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGGTACGGATACCCTAT
Found at i:132503 original size:2 final size:2
Alignment explanation
Indices: 132496--132537 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
132486 ATGCCAACAT
132496 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
132538 CATTTACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133056 original size:18 final size:18
Alignment explanation
Indices: 133033--133083 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
133023 ACTTAGAATT
133033 TGTCCCGAATGACCATTA
1 TGTCCCGAATGACCATTA
*
133051 TGTCCCGAATAACCATTA
1 TGTCCCGAATGACCATTA
*
133069 TGTCCCGAAGGACCA
1 TGTCCCGAATGACCA
133084 CTCCTTAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (18 bp):
TGTCCCGAATGACCATTA
Found at i:134015 original size:22 final size:22
Alignment explanation
Indices: 133965--134041 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
133955 CGATGTTCCC
*
133965 TGGTATCGATA-C-CCTCCACA
1 TGGTATCGATACCTCCTCCATA
133985 TAGGTATCGATACCTCCTCCATA
1 T-GGTATCGATACCTCCTCCATA
*
134008 TGGTATCGATACCTCCTCTATA
1 TGGTATCGATACCTCCTCCATA
134030 TGGTATCGATAC
1 TGGTATCGATAC
134042 TGTTAACACA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.02
21 10 0.19
22 33 0.63
23 8 0.15
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACCTCCTCCATA
Found at i:134558 original size:14 final size:14
Alignment explanation
Indices: 134539--134574 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
134529 AAAATCCAAT
134539 AATTAAACAACTAA
1 AATTAAACAACTAA
134553 AATTAAACAACTAA
1 AATTAAACAACTAA
134567 AATTAAAC
1 AATTAAAC
134575 TCATCTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (14 bp):
AATTAAACAACTAA
Found at i:134736 original size:22 final size:22
Alignment explanation
Indices: 134708--134749 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
134698 GCTAAATTTA
*
134708 CCATAA-TACCCTTTCAATCCTT
1 CCATAATTACCATTT-AATCCTT
134730 CCATAATTACCATTTAATCC
1 CCATAATTACCATTTAATCC
134750 CATACCAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (22 bp):
CCATAATTACCATTTAATCCTT
Found at i:137228 original size:18 final size:18
Alignment explanation
Indices: 137197--137247 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
137187 TTAGAATTTC
* *
137197 TCCCGAATGACCACTATT
1 TCCCGAAGGACCACTATG
**
137215 TCTTGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
137233 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
137248 CCTTAAGAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:146302 original size:23 final size:23
Alignment explanation
Indices: 146267--146310 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
146257 ACATATTATA
146267 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
146290 TGGCACTTA-GGTGCATTTCTA
1 TGGCAC-TACGGTGCAATTCTA
146311 TGCGGTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:155582 original size:22 final size:22
Alignment explanation
Indices: 155554--155606 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
155544 CTCGATTGAT
*
155554 GGAGTTATATGATTTAATTTCA
1 GGAGTTATATGATATAATTTCA
*
155576 GGAGTTACATGATATAATTTCA
1 GGAGTTATATGATATAATTTCA
*
155598 TGAGTTATA
1 GGAGTTATA
155607 ACAGCTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.42
Consensus pattern (22 bp):
GGAGTTATATGATATAATTTCA
Found at i:160118 original size:31 final size:31
Alignment explanation
Indices: 160077--160142 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
160067 AAGAACATCT
* * *
160077 ATTTTCTCTATTCACACGACGTAAGTGTGGG
1 ATTTTATCTATTCACAAGACGTAAGTATGGG
* *
160108 ATTTTATCTATTTACAAGACTTAAGTATGGG
1 ATTTTATCTATTCACAAGACGTAAGTATGGG
160139 ATTT
1 ATTT
160143 AATCACTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (31 bp):
ATTTTATCTATTCACAAGACGTAAGTATGGG
Found at i:165106 original size:185 final size:185
Alignment explanation
Indices: 164781--165170 Score: 694
Period size: 185 Copynumber: 2.1 Consensus size: 185
164771 TTTTCTAATT
* * *
164781 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAA
*
164845 TTATAAAATAAAAATTTCAGATAAATGTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAATTTCAGATAAATGTTTTAATTAATTAATATTGATTTAGCTTTAAAAGTTAT
164910 TGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 TGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
164965 TATATAATATATTTAATATTTTTTAATT-AAAAAAATAGTTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATA
* * *
165029 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGCTTTAAAAGTTA
65 ATTATAAAATAAAAATTTCAGATAAATGTTTTAATTAATTAATATTGATTTAGCTTTAAAAGTTA
165094 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
130 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
165150 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
165171 AAAATTTAAT
Statistics
Matches: 197, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
184 14 0.07
185 183 0.93
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTCAGATAAATGTTTTAATTAATTAATATTGATTTAGCTTTAAAAGTTAT
TGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:165779 original size:18 final size:18
Alignment explanation
Indices: 165776--165842 Score: 116
Period size: 18 Copynumber: 3.7 Consensus size: 18
165766 GTTCCACCAC
165776 TTCCAGCACTTCCTCGTG
1 TTCCAGCACTTCCTCGTG
165794 TTCCAGCACTTCCTCGTG
1 TTCCAGCACTTCCTCGTG
*
165812 TTCCAGCACTTCCTCATG
1 TTCCAGCACTTCCTCGTG
*
165830 TTCCACCACTTCC
1 TTCCAGCACTTCC
165843 GGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.13, C:0.42, G:0.12, T:0.33
Consensus pattern (18 bp):
TTCCAGCACTTCCTCGTG
Found at i:165815 original size:27 final size:27
Alignment explanation
Indices: 165752--165806 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
165742 CCACGTGCTG
165752 CAGCAGTTCCTCGTGTTCCACCACTTC
1 CAGCAGTTCCTCGTGTTCCACCACTTC
* *
165779 CAGCACTTCCTCGTGTTCCAGCACTTC
1 CAGCAGTTCCTCGTGTTCCACCACTTC
165806 C
1 C
165807 TCGTGTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.42, G:0.15, T:0.29
Consensus pattern (27 bp):
CAGCAGTTCCTCGTGTTCCACCACTTC
Found at i:165862 original size:27 final size:27
Alignment explanation
Indices: 165812--165863 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
165802 CTTCCTCGTG
165812 TTCCAGCACTTCCTCATGTTCCACCAC
1 TTCCAGCACTTCCTCATGTTCCACCAC
* *
165839 TTCCGGCACTTCCTCGTGTTCCACC
1 TTCCAGCACTTCCTCATGTTCCACC
165864 GCATCCTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.44, G:0.12, T:0.31
Consensus pattern (27 bp):
TTCCAGCACTTCCTCATGTTCCACCAC
Found at i:171028 original size:182 final size:182
Alignment explanation
Indices: 170757--171150 Score: 619
Period size: 182 Copynumber: 2.2 Consensus size: 182
170747 GGTAAATCCT
* * * * *
170757 TACCGAATATATTGAACGTGTCGATACTTTAATTTAAGAATTGACACTTTGTGAATTTAAAAGTG
1 TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTTGTGAATTTAAAAGAG
*
170822 AAGCATTTTTAAAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAA
66 AAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAA
* * *
170887 GAGGTAAAAATATGACAAAACCGGTATCGAAATGATAAAATCGGTAAAGA-GC
131 CAGGTAAAAATATGACAAAACCGATATCAAAATGATAAAATCGGTAAA-ACGC
* * *
170939 TACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAG
1 TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTTGTGAATTTAAAAGAG
** *
171004 AAGCAGTTTTAGTGCCTATAAAGTGTCGATACTTTATAAAGATGTATCGATCCACAACGATATAA
66 AAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAA
* *
171069 CAGGTAAAAATATGATAAAACCGATATCAAAATGATAAAATCTGTAAAACGC
131 CAGGTAAAAATATGACAAAACCGATATCAAAATGATAAAATCGGTAAAACGC
171121 TACCGGATATATTGAAAGTGTCGATACTTT
1 TACCGGATATATTGAAAGTGTCGATACTTT
171151 CATAAGTACG
Statistics
Matches: 192, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 1 0.01
182 191 0.99
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (182 bp):
TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTTGTGAATTTAAAAGAG
AAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAA
CAGGTAAAAATATGACAAAACCGATATCAAAATGATAAAATCGGTAAAACGC
Found at i:172039 original size:18 final size:18
Alignment explanation
Indices: 172016--172056 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
172006 AGCCAAAATC
172016 GTTAATATACAATTGAAT
1 GTTAATATACAATTGAAT
172034 GTTAATATACAATTGAAT
1 GTTAATATACAATTGAAT
172052 GTTAA
1 GTTAA
172057 CATTCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (18 bp):
GTTAATATACAATTGAAT
Found at i:173240 original size:51 final size:52
Alignment explanation
Indices: 173185--173293 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
173175 AGAATGGATG
*
173185 CCAAAAGGGGTG-AACCTATAAAGTGTCGATACATTT-TCATAGAGTGTCGAT-
1 CCAAAAGGGGTGCAACC-ATAAAGTGTCGATACATTTATCA-AAAGTGTCGATC
* ** *
173236 CCAAAAGGGTTGCAGGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATC
1 CCAAAAGGGGTGCAACCATAAAGTGTCGATACATTTATCAAAAGTGTCGATC
173288 CCAAAA
1 CCAAAA
173294 ACATTGAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
51 40 0.80
52 10 0.20
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (52 bp):
CCAAAAGGGGTGCAACCATAAAGTGTCGATACATTTATCAAAAGTGTCGATC
Found at i:173484 original size:251 final size:251
Alignment explanation
Indices: 173002--173493 Score: 695
Period size: 251 Copynumber: 2.0 Consensus size: 251
172992 TAAAGTTTCT
*
173002 CATAAAGTGTCGATCAATATATAAAAAGTAACGACCCAAAAAACATCGAAACTCATAATTATAAT
1 CATAAAGTGTCGATCAATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
* * * *
173067 GTAATGGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAAAAATATGTCTACAA
66 GTAATAGGTAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGAAAAATAGGTCTACAA
* * * * * *
173132 CATTTATCAACACTTATTAGTATTGTGTCGATACTTTTTTTCCAGAATGGATGCCAAAAGGGGTG
131 CATGTATCAACACTTATTAATATTGTGTCGATAATTTATGTCCAGAATGGATGCCAAAAAGGGTG
* * *
173197 AACCTATAAAGTGTCGATACATTTTCATAGAGTGTCGAT-CCAAAAGGGTTGCAGG
196 AACCTATAAAGTGTCGATACATTTTAAAAAAGTGTCGATCCCAAAAGGGTTGCAGG
* * ** *
173252 CATAAAGTGTCGAT-ACATTTATTAAAAGTGTCGATCCC-AAAAACATTGAAACCCATAATTATA
1 CATAAAGTGTCGATCA-ATATATAAAAAGTAACGA-CCCAAAAAACATCGAAACCCATAATTATA
* *
173315 ATGTAATAGGTAATTTTGCAATATAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTCTA
64 ATGTAATAGGTAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGA-AAAATAGGTCTA
* * * *
173380 TAATATGTATCGACACTTCTTAATATTGTGTCGATAATTTATGTCCAGAATGGATGCCAAAAAGG
128 CAACATGTATCAACACTTATTAATATTGTGTCGATAATTTATGTCCAGAATGGATGCCAAAAAGG
173445 GTGAACGC-ATAAAGTGTCGATACATTTTAAAAAAGTGTCGATCCCAAAA
193 GTGAAC-CTATAAAGTGTCGATACATTTTAAAAAAGTGTCGATCCCAAAA
173494 ATATCGAAAA
Statistics
Matches: 212, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
249 1 0.00
250 99 0.47
251 105 0.50
252 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (251 bp):
CATAAAGTGTCGATCAATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGAAAAATAGGTCTACAA
CATGTATCAACACTTATTAATATTGTGTCGATAATTTATGTCCAGAATGGATGCCAAAAAGGGTG
AACCTATAAAGTGTCGATACATTTTAAAAAAGTGTCGATCCCAAAAGGGTTGCAGG
Found at i:173661 original size:192 final size:195
Alignment explanation
Indices: 173255--173796 Score: 684
Period size: 192 Copynumber: 2.7 Consensus size: 195
173245 TTGCAGGCAT
*
173255 AAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATTGAAACCCATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* * * *
173320 ATAGGTAATTTTGCAATATAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTCTATAATA
66 ATAGGTAAATTTAC-A-AT---C-GTATAAATATACCGGTTTTATGAGAGAATAGGTCTATAACA
* * *
173385 TGTATCGACACTTCTT-AATATTGTGTCGATAATTTATGTCCAGAATGGATGCCAAAAAGGGTGA
125 TGTATCGACACTTGTTAAATATTGTGTCGATAATTTATGTCCAGAATGAATGCCAAAAAGGATGA
*
173449 ACGCAT
190 ACGCAC
* *
173455 AAAGTGTCGATACATTT-TAAAAAAGTGTCGATCCCAAAAATATCGAAAACCCATAATTATAATG
1 AAAGTGTCGATACATTTAT-TAAAAGTGTCGATCCCAAAAACATCG-AAACCCATAATTATAATG
* * *
173519 TAATAGGTAAATTTACAAT-GTA-AAATATACCAGTTTTATGAGAGAATAGGTATATAGCATGTA
64 TAATAGGTAAATTTACAATCGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTA
* * * * *
173582 GCGACACTTGTTAAAT-TTGTTTCGATACTTT-TTTTCAGAATGAATGCCAAAAAGGATGAACGC
129 TCGACACTTGTTAAATATTGTGTCGATAATTTATGTCCAGAATGAATGCCAAAAAGGATGAACGC
*
173645 GC
194 AC
* *
173647 AAAGTGTCGATACATTTATTAAAAGTGTCGATACCGAAAACATCGAAACCCATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
* * *
173712 ATAGGTAATTTTATAATATAATCCGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACA
66 ATAGGTAA----AT-TTACAAT-CGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATAACA
173777 TGTATCGACACTTG-TAAATA
125 TGTATCGACACTTGTTAAATA
173797 AACCCCAGGT
Statistics
Matches: 298, Mismatches: 31, Indels: 27
0.84 0.09 0.08
Matches are distributed among these distances:
191 28 0.09
192 67 0.22
193 60 0.20
194 6 0.02
195 2 0.01
196 5 0.02
198 8 0.03
199 49 0.16
200 41 0.14
201 32 0.11
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (195 bp):
AAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
ATAGGTAAATTTACAATCGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATC
GACACTTGTTAAATATTGTGTCGATAATTTATGTCCAGAATGAATGCCAAAAAGGATGAACGCAC
Found at i:175696 original size:200 final size:194
Alignment explanation
Indices: 175241--175962 Score: 663
Period size: 200 Copynumber: 3.6 Consensus size: 194
175231 ACCTAAATAT
* * *
175241 GTGTCGATACATTTTATACAAA-TATCGA-CCCAAAAAATATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACA-TTTATAAAAAGTATCGATCCC-AAAAACATCGAAACCAATAATTATAATGTAA
* * * * * *
175304 TAGGTAAATTAACAATGTAATCGGTATAAATATACCGG-TTAATTAGAAAACAGATCAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTC-ACATAAT
* * *
175368 GTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGGATGAATGCACAAACGACACGCA
128 GTATCGACACTTGT-TAATTTGTGTCGATACTT-TTGTCCAGAATGAATCCAAAAACGACACGCA
175433 TAAA
191 TAAA
* * *
175437 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * *
175502 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGATAAAATAGGTCAGCATCAA-G
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTCA-CAT-AATG
* * *
175566 TATCGACACTTGCTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATACCAAAAAGGGTGCAAC
129 TATCGACACTTG-TTAATTTGTGTCGATACTTTT-GTCCAGAATGAAT-CCAAAAA-CG-AC-AC
*
175631 -CATGAA
188 GCATAAA
** * *
175637 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * *
175702 GGTAAATGTT-CAATGTAACTGGTATAAATATACCAGTTTTATAAGATAATAGGTCTAAATAATG
66 GGTAAAT-TTACAATGTAACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTC-ACATAATG
* * * ** *
175766 TATCGACACGTTGTTAGTTTGTGTCGATACTTTTTTCTAGAATGAAATATGAATGCCCAACCAGG
129 TATCGACAC-TTGTTAATTTGTGTCGATACTTTTGTC---CA-G--A-ATGAAT--CCAAAAACG
*
175831 TGCGA-GCATAAA
184 -AC-ACGCATAAA
** ** * * * * *
175843 GTGTCGATACATTTA-AAATTGTATCGATCTAAAAAACATCGTAACCGATAATAATATTGTTATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * **
175907 GGTAAATTTGCAATGCT-ACTGGTATAAATATACCGG-TTTACTTCGAAAATAGGTCA
66 GGTAAATTTACAATG-TAACCGGTATAAATATACCGGTTTTA-TAAGAAAATAGGTCA
175963 ATATAAGCGT
Statistics
Matches: 440, Mismatches: 59, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
195 8 0.02
196 82 0.19
197 61 0.14
198 8 0.02
199 5 0.01
200 142 0.32
201 8 0.02
202 1 0.00
203 1 0.00
204 7 0.02
205 79 0.18
206 33 0.08
207 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (194 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTCACATAATGTA
TCGACACTTGTTAATTTGTGTCGATACTTTTGTCCAGAATGAATCCAAAAACGACACGCATAAA
Found at i:176097 original size:23 final size:23
Alignment explanation
Indices: 176047--176091 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
176037 TGTCTATTTT
*
176047 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
176070 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
176092 TGTTATTATA
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:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Done.