Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009131.1 Hibiscus syriacus cultivar Beakdansim tig00112628_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: 116553
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Found at i:4658 original size:6 final size:6
Alignment explanation
Indices: 4636--4671 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
4626 TTGATCGAAT
*
4636 AAAATA AAAAGTG AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAA-TA AAAATA AAAATA AAAATA AAAAT
4672 TTAACGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:5098 original size:21 final size:21
Alignment explanation
Indices: 5072--5116 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
5062 CGATTTATGG
5072 CAAAGTTAGATTCATCATCAA
1 CAAAGTTAGATTCATCATCAA
5093 CAAAGTTAGATTCATCATCAA
1 CAAAGTTAGATTCATCATCAA
5114 CAA
1 CAA
5117 GTTCAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (21 bp):
CAAAGTTAGATTCATCATCAA
Found at i:7566 original size:15 final size:15
Alignment explanation
Indices: 7546--7581 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7536 TATTTAAGTT
*
7546 ATAAAAGCAA-TTAA
1 ATAAAAACAATTTAA
7560 ATAAAAACAATTTAA
1 ATAAAAACAATTTAA
7575 ATAAAAA
1 ATAAAAA
7582 TAAGACAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (15 bp):
ATAAAAACAATTTAA
Found at i:15403 original size:20 final size:19
Alignment explanation
Indices: 15374--15412 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
15364 CACGTAAAGA
15374 TTTTAAATTTTTATATAATT
1 TTTTAAATTTTTAT-TAATT
*
15394 TTTTATATTTTTATTAATT
1 TTTTAAATTTTTATTAATT
15413 ATCTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTATTAATT
Found at i:15427 original size:19 final size:20
Alignment explanation
Indices: 15382--15427 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
15372 GATTTTAAAT
* *
15382 TTTTATA-TAATTTTTTATA
1 TTTTATATTAATTATCTATA
15401 TTTT-TATTAATTATCTA-A
1 TTTTATATTAATTATCTATA
15419 TTTTATATT
1 TTTTATATT
15428 TAAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATATTAATTATCTATA
Found at i:16416 original size:19 final size:21
Alignment explanation
Indices: 16389--16429 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
16379 AAATTAAAAA
*
16389 ATTTTTAAATAA-A-ATATTT
1 ATTTATAAATAAGATATATTT
16408 ATTTATAAATAAGATATATTT
1 ATTTATAAATAAGATATATTT
16429 A
1 A
16430 AATAAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATAAATAAGATATATTT
Found at i:18031 original size:53 final size:53
Alignment explanation
Indices: 17948--18105 Score: 253
Period size: 53 Copynumber: 3.0 Consensus size: 53
17938 CGATAGAAGG
* * *
17948 CGTGCTCACGCCTTAATTGAAGACTTCTTCTGTGATAGCTCAGGATGAATAAGC
1 CGTGCTCACGCCTTAACTG-AGACTTCTTCTGCGATAGCTAAGGATGAATAAGC
* * *
18002 CGTGCCCACACCTTAACTGAGACTTCTTCTGCGATAGTTAAGGATGAATAAGC
1 CGTGCTCACGCCTTAACTGAGACTTCTTCTGCGATAGCTAAGGATGAATAAGC
18055 CGTGCTCACGCCTTAACTGAGACTTCTTCTGCGATAGCTAAGGATGAATAA
1 CGTGCTCACGCCTTAACTGAGACTTCTTCTGCGATAGCTAAGGATGAATAA
18106 CCACATTCTC
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 79 0.83
54 16 0.17
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (53 bp):
CGTGCTCACGCCTTAACTGAGACTTCTTCTGCGATAGCTAAGGATGAATAAGC
Found at i:20673 original size:20 final size:21
Alignment explanation
Indices: 20648--20740 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
20638 TTTTCCCAAT
*
20648 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
20668 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
20689 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
20709 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
20730 TCGCAATGCGA
1 TCGCAATGCGA
20741 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:20693 original size:41 final size:41
Alignment explanation
Indices: 20648--20740 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
20638 TTTTCCCAAT
20648 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
20689 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
20730 TCGCAATGCGA
1 TCGCAATGCGA
20741 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:20753 original size:41 final size:41
Alignment explanation
Indices: 20667--20801 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
20657 GAATAAGTAA
* *
20667 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
20708 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** *
20749 ATCGCAATGCGATAAT-ACAAAATCGCAACGCGATACTGACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
20790 TTCGCAACGCGA
1 ATCGCAACGCGA
20802 TTATGACTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
40 4 0.05
41 76 0.93
42 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:20754 original size:20 final size:20
Alignment explanation
Indices: 20729--20843 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
20719 AATTGGGAAA
* *
20729 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* *
20749 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATAATGAC--T
*
20770 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* *
20790 TTCGCAACGCGATTATGACT
1 ATCGCAACGCGATAATGACT
*
20810 TTCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATAATGAC-T
*
20830 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
20844 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.05
20 48 0.61
21 25 0.32
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATAATGACT
Found at i:20775 original size:21 final size:22
Alignment explanation
Indices: 20685--20843 Score: 72
Period size: 20 Copynumber: 7.7 Consensus size: 22
20675 GCGAATTGGG
20685 AAAATCGCAATGCGAATAA-G--
1 AAAATCGCAATGCG-ATAATGAC
* * * **
20705 TAAATCGCAACGCGA-ATTGGG
1 AAAATCGCAATGCGATAATGAC
*
20726 AAAATCGCAATGCGATACTGAC
1 AAAATCGCAATGCGATAATGAC
*
20748 --TATCGCAATGCGATAAT-AC
1 AAAATCGCAATGCGATAATGAC
* *
20767 AAAATCGCAACGCGATACTGAC
1 AAAATCGCAATGCGATAATGAC
** * *
20789 --TTTCGCAACGCGATTATGAC
1 AAAATCGCAATGCGATAATGAC
** *
20809 --TTTCGCAACGCGATAAT-AC
1 AAAATCGCAATGCGATAATGAC
*
20828 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
20844 TTTCAAAGCG
Statistics
Matches: 109, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.01
19 6 0.06
20 59 0.54
21 38 0.35
22 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (22 bp):
AAAATCGCAATGCGATAATGAC
Found at i:21039 original size:22 final size:22
Alignment explanation
Indices: 21011--21054 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21001 CACTCTCTCA
21011 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
21033 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
21055 TATCTCCATC
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:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:22713 original size:18 final size:18
Alignment explanation
Indices: 22692--22736 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
22682 TCCACTTCGG
*
22692 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
22710 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
22728 GAGCCATCA
1 GAGCCATCA
22737 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:23265 original size:19 final size:20
Alignment explanation
Indices: 23211--23266 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
23201 TAGTTTACTT
* *
23211 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
23231 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
23251 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
23267 AAATTGCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:23289 original size:14 final size:14
Alignment explanation
Indices: 23266--23323 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
23256 ATGCGAAATG
*
23266 AAAATTGCAACGAC
1 AAAATCGCAACGAC
*
23280 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
23296 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
23312 AAAATCGCAACG
1 AAAATCGCAACG
23324 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:23313 original size:32 final size:33
Alignment explanation
Indices: 23250--23340 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
23240 GGAAATGGCT
*
23250 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
23283 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
23315 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
23341 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:23376 original size:14 final size:14
Alignment explanation
Indices: 23357--23414 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
23347 TTGTGTTTCG
23357 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
23371 CGTTGCGATTTCATCT
1 CGTTGCGATTT--TGT
23387 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
23403 CGTTGCGATTTT
1 CGTTGCGATTTT
23415 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:23393 original size:32 final size:33
Alignment explanation
Indices: 23354--23430 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 33
23344 GATTTGTGTT
23354 TCGCGTTGCGATTTTGTCGTTGCGA-TTTCATC
1 TCGCGTTGCGATTTTGTCGTTGCGATTTTCATC
*
23386 TCGCGTTGCGATTTTGTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTGTCGTTGCGATTTTCATC
*
23419 TCGCATTGCGAT
1 TCGCGTTGCGAT
23431 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (33 bp):
TCGCGTTGCGATTTTGTCGTTGCGATTTTCATC
Found at i:23449 original size:20 final size:19
Alignment explanation
Indices: 23415--23470 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
23405 TTGCGATTTT
*
23415 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
23434 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
23454 CATTTTCGCGTTTCGAT
1 CA-TTTCGCGTTGCGAT
23471 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:25356 original size:14 final size:14
Alignment explanation
Indices: 25337--25372 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25327 ATTGTTTAAT
25337 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
25351 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
25365 TGATTTGT
1 TGATTTGT
25373 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:25511 original size:19 final size:19
Alignment explanation
Indices: 25489--25556 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
25479 ATCGCAACGA
25489 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25508 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
25527 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
25541 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
25557 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:25600 original size:20 final size:20
Alignment explanation
Indices: 25575--25612 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25565 TCACATTGCG
*
25575 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
25595 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
25613 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:26682 original size:24 final size:24
Alignment explanation
Indices: 26664--26722 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
26654 AGTCAGTATT
*
26664 CGGAATTTGATCTTGGTCAATACC
1 CGGAATTTGATATTGGTCAATACC
* *
26688 CGGACTTTGATATTGGTCAATACA
1 CGGAATTTGATATTGGTCAATACC
*
26712 CGGATTTTGAT
1 CGGAATTTGAT
26723 GATGTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (24 bp):
CGGAATTTGATATTGGTCAATACC
Found at i:26914 original size:12 final size:12
Alignment explanation
Indices: 26897--26921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26887 ATATAATCCT
26897 GAAGAAGAAAAA
1 GAAGAAGAAAAA
26909 GAAGAAGAAAAA
1 GAAGAAGAAAAA
26921 G
1 G
26922 TCCACGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:29260 original size:33 final size:33
Alignment explanation
Indices: 29214--29340 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
29204 GGAAATTACT
29214 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
29247 ATCGCAATACGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
29279 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
29313 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
29341 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:29326 original size:66 final size:66
Alignment explanation
Indices: 29215--29347 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
29205 GAAATTACTA
*
29215 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
29280 T
66 T
* *
29281 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
29346 T
66 T
29347 T
1 T
29348 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAAT
T
Found at i:29372 original size:14 final size:14
Alignment explanation
Indices: 29355--29411 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
29345 TTTAATTTCG
29355 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
29369 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
29388 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
29402 CGTTGCGATT
1 CGTTGCGATT
29412 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:29391 original size:33 final size:33
Alignment explanation
Indices: 29340--29429 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
29330 AAATCGCAAC
* *
29340 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
29373 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
29406 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
29430 AGTACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:29393 original size:19 final size:19
Alignment explanation
Indices: 29369--29429 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
29359 GCGATTCTCT
29369 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
29388 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
29402 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
29421 CATTGCGAT
1 CGTTGCGAT
29430 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:29555 original size:14 final size:14
Alignment explanation
Indices: 29536--29572 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
29526 CATCAATTAA
29536 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
29550 ACAAATCACCTTTT
1 ACAAATCAACTTTT
29564 ACAAATCAA
1 ACAAATCAA
29573 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:32578 original size:19 final size:19
Alignment explanation
Indices: 32514--32721 Score: 255
Period size: 19 Copynumber: 11.1 Consensus size: 19
32504 TCTTTTGGTT
*
32514 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
32533 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
32553 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
** *
32573 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
32590 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
32606 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
32625 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
32644 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
32663 GAAATAAAAATCGCAACGT
1 GAAATGAAAATCGCAACGC
32682 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
32701 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
32720 GA
1 GA
32722 TTTTTGTTTC
Statistics
Matches: 166, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
14 8 0.05
15 1 0.01
16 2 0.01
17 2 0.01
18 1 0.01
19 120 0.72
20 30 0.18
21 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:32739 original size:19 final size:19
Alignment explanation
Indices: 32717--32761 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
32707 AAAATCGCAA
*
32717 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
* *
32736 TGCGTTTTTTATTTCGTGT
1 TGCGATTTTTATTTCGCGT
32755 TGCGATT
1 TGCGATT
32762 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:33339 original size:20 final size:20
Alignment explanation
Indices: 33315--33428 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
33305 CGCTATGTAA
* *
33315 ATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
33335 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
33355 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
33376 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
33396 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
33416 ATCGCATTGCGAT
1 ATCGCATTGCGAT
33429 TTTTCCAATT
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:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:33413 original size:61 final size:61
Alignment explanation
Indices: 33315--33431 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
33305 CGCTATGTAA
* * * *
33315 ATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
33376 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
33432 TCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:33471 original size:21 final size:21
Alignment explanation
Indices: 33417--33471 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
33407 ATAGTCAGTA
* *
33417 TCGCATTGCGATTTTTCCAAT
1 TCGCATTGCGAATTTACCAAT
* **
33438 TCGCGTTGC-AATTTACTTAT
1 TCGCATTGCGAATTTACCAAT
33458 TCGCATTGCGAATT
1 TCGCATTGCGAATT
33472 GGGAAAATCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGAATTTACCAAT
Found at i:33539 original size:21 final size:21
Alignment explanation
Indices: 33499--33539 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33489 ACTGTAGACC
**
33499 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
33520 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
33540 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:34627 original size:17 final size:17
Alignment explanation
Indices: 34605--34638 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34595 AATTCAAGAG
34605 CTCGATTCAAACTCGAA
1 CTCGATTCAAACTCGAA
*
34622 CTCGATTCAAGCTCGAA
1 CTCGATTCAAACTCGAA
34639 ATCAAACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (17 bp):
CTCGATTCAAACTCGAA
Found at i:37396 original size:7 final size:7
Alignment explanation
Indices: 37381--37458 Score: 63
Period size: 7 Copynumber: 11.3 Consensus size: 7
37371 CATAATTAGA
*
37381 TTTAGGG
1 TTTATGG
37388 TTTATGG
1 TTTATGG
*
37395 TTTATAG
1 TTTATGG
37402 TTTA-GTG
1 TTTATG-G
37409 TTTATGG
1 TTTATGG
*
37416 TTTAAGG
1 TTTATGG
37423 TTTA-GTG
1 TTTATG-G
*
37430 TTTATGA
1 TTTATGG
*
37437 TTTAGGG
1 TTTATGG
37444 TTTA-GG
1 TTTATGG
*
37450 TTTAGGG
1 TTTATGG
37457 TT
1 TT
37459 CATTGCAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
6 7 0.12
7 50 0.85
8 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (7 bp):
TTTATGG
Found at i:37411 original size:21 final size:20
Alignment explanation
Indices: 37381--37458 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 20
37371 CATAATTAGA
*
37381 TTTAGGGTTTATGGTTTATAG
1 TTTAGTGTTTATGGTTTA-AG
37402 TTTAGTGTTTATGGTTTAAGG
1 TTTAGTGTTTATGGTTTAA-G
* *
37423 TTTAGTGTTTATGATTTAGGG
1 TTTAGTGTTTATGGTTTA-AG
*
37444 TTTAG-GTTTAGGGTT
1 TTTAGTGTTTATGGTT
37459 CATTGCAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.18
21 41 0.82
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (20 bp):
TTTAGTGTTTATGGTTTAAG
Found at i:37528 original size:7 final size:7
Alignment explanation
Indices: 37513--37570 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
37503 GTAAGTATAA
37513 TTTAAGG
1 TTTAAGG
*
37520 TTTAGGG
1 TTTAAGG
*
37527 TTTATGG
1 TTTAAGG
*
37534 TTTAAGA
1 TTTAAGG
*
37541 TTTAGGG
1 TTTAAGG
*
37548 TTTAGGG
1 TTTAAGG
37555 TTTAAGG
1 TTTAAGG
37562 TTTAAGG
1 TTTAAGG
37569 TT
1 TT
37571 CATTACAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:37539 original size:21 final size:21
Alignment explanation
Indices: 37513--37570 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
37503 GTAAGTATAA
*
37513 TTTAAGGTTTAGGGTTTATGG
1 TTTAAGGTTTAGGGTTTAGGG
*
37534 TTTAAGATTTAGGGTTTAGGG
1 TTTAAGGTTTAGGGTTTAGGG
*
37555 TTTAAGGTTTAAGGTT
1 TTTAAGGTTTAGGGTT
37571 CATTACAAAT
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:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAGGG
Found at i:37544 original size:28 final size:28
Alignment explanation
Indices: 37512--37567 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
37502 TGTAAGTATA
*
37512 ATTTAAGGTTTAGGGTTTATGGTTTAAG
1 ATTTAAGGTTTAGGGTTTAAGGTTTAAG
*
37540 ATTTAGGGTTTAGGGTTTAAGGTTTAAG
1 ATTTAAGGTTTAGGGTTTAAGGTTTAAG
37568 GTTCATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (28 bp):
ATTTAAGGTTTAGGGTTTAAGGTTTAAG
Found at i:38436 original size:18 final size:16
Alignment explanation
Indices: 38404--38436 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38394 AGTTGTAAGG
38404 TAATTTTTTTAATATA
1 TAATTTTTTTAATATA
38420 TAATATTTTTT-ATATA
1 TAAT-TTTTTTAATATA
38436 T
1 T
38437 GCTTATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATTTTTTTAATATA
Found at i:42255 original size:17 final size:17
Alignment explanation
Indices: 42233--42269 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
42223 CAAAATTAAC
42233 AAAATAAATTAAATATT
1 AAAATAAATTAAATATT
42250 AAAATAAATTAAATATT
1 AAAATAAATTAAATATT
42267 AAA
1 AAA
42270 TGGTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAAATTAAATATT
Found at i:42276 original size:24 final size:22
Alignment explanation
Indices: 42240--42284 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
42230 AACAAAATAA
*
42240 ATTAAATATTAAAATAAATTAAAT
1 ATTAAATAGT-AAAT-AATTAAAT
*
42264 ATTAAATGGTAAATAATTAAA
1 ATTAAATAGTAAATAATTAAA
42285 AAAATTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATTAAATAGTAAATAATTAAAT
Found at i:42446 original size:3 final size:3
Alignment explanation
Indices: 42438--42494 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
42428 CTCCTCGCTG
* * * * *
42438 TCA TCA TCA TCA TCA CCA CCA TCA TCG TCA TCA TTA TCA TCA TCG TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
42486 TCG TCA TCA
1 TCA TCA TCA
42495 GAAGCAGATA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.28, C:0.35, G:0.05, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:44414 original size:27 final size:28
Alignment explanation
Indices: 44362--44415 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
44352 CTAAAATTAT
*
44362 TAATAATTACAAAAATTAATATATAAAC
1 TAATAATTACAAAAATTAATAAATAAAC
44390 TAATAA-TA-AAAAATTAAATAAATAAA
1 TAATAATTACAAAAATT-AATAAATAAA
44416 TTATTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATAATTACAAAAATTAATAAATAAAC
Found at i:50211 original size:29 final size:29
Alignment explanation
Indices: 50179--50235 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
50169 GCGACATCCT
* * * *
50179 AGGTTGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGACGACCAAGG
50208 AGGTCGCCATGCACGCCCGACGACCAAG
1 AGGTCGCCATGCACGCCCGACGACCAAG
50236 CTTTTAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.35, G:0.32, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGACGACCAAGG
Found at i:50413 original size:29 final size:29
Alignment explanation
Indices: 50379--50463 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
50369 CAAGGAGACA
* * *
50379 AGGTCGCCGGGCGTGCATGGCGACCTCCT
1 AGGTCGCCGGGAGTGCATGGCGACCTACG
* * *
50408 TGGTCGCCCGGAGTGCATGGCGACCTAGG
1 AGGTCGCCGGGAGTGCATGGCGACCTACG
*
50437 AGGTCGCTGGGAGTGCATGGCGACCTA
1 AGGTCGCCGGGAGTGCATGGCGACCTA
50464 TGGGTTGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.14, C:0.28, G:0.40, T:0.18
Consensus pattern (29 bp):
AGGTCGCCGGGAGTGCATGGCGACCTACG
Found at i:59100 original size:2 final size:2
Alignment explanation
Indices: 59095--59133 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
59085 TTTTTTAAGT
* *
59095 TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TT 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
59134 AATTTGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61606 original size:3 final size:3
Alignment explanation
Indices: 61598--61644 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
61588 AATGTTAGAA
61598 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61645 ACATTAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61787 original size:22 final size:21
Alignment explanation
Indices: 61747--61787 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
61737 TAGTAAGAAG
61747 TAAAAAATATAAAACAATGTT
1 TAAAAAATATAAAACAATGTT
61768 TAAAATAATAATAAAA-AATG
1 TAAAA-AAT-ATAAAACAATG
61788 AAAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAATATAAAACAATGTT
Found at i:62882 original size:17 final size:17
Alignment explanation
Indices: 62860--62913 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
62850 CCTAAAAACG
62860 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
* *
62877 AAAATAAATAAGTGAAAT
1 AAAATAAA-AAATAAAAT
*
62895 -AAATAAATAATATAAAT
1 AAAATAAAAAATA-AAAT
62912 AA
1 AA
62914 CTAACTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 8 0.28
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:62887 original size:4 final size:4
Alignment explanation
Indices: 62861--62926 Score: 55
Period size: 4 Copynumber: 16.0 Consensus size: 4
62851 CTAAAAACGA
*
62861 AAAT AAA- AAAT AAAAT AAAAT AAAT AAGT GAAAT AAAT AAAT AATAT
1 AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT -AAAT AAAT AAAT AA-AT
* *
62908 AAAT AACT AACT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT
62927 TATACATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
3 6 0.11
4 31 0.58
5 16 0.30
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:62896 original size:13 final size:12
Alignment explanation
Indices: 62861--62926 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
62851 CTAAAAACGA
62861 AAATAAA-AAAT
1 AAATAAATAAAT
62872 AAAATAAAATAAAT
1 -AAAT-AAATAAAT
*
62886 AAGTGAAATAAAT
1 AAAT-AAATAAAT
62899 AAATAATATAAAT
1 AAATAA-ATAAAT
* *
62912 AACTAACTAAA-
1 AAATAAATAAAT
62923 AAAT
1 AAAT
62927 TATACATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
11 3 0.07
12 10 0.22
13 28 0.62
14 4 0.09
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:63010 original size:41 final size:42
Alignment explanation
Indices: 62956--63043 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 42
62946 TTTTAAAAAC
*
62956 TATAT-TATATATTTTCA-AAATT-ATTTTCGAAACTATAATA
1 TATATATATATATTTTCACAAATTGATTTTCAAAACTAT-ATA
* *
62996 TATATATATATATTTTTACAAATTGTTTTTCAAAACTATATA
1 TATATATATATATTTTCACAAATTGATTTTCAAAACTATATA
63038 -ATATAT
1 TATATAT
63044 TTTCAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
40 5 0.12
41 17 0.40
42 8 0.19
43 12 0.29
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (42 bp):
TATATATATATATTTTCACAAATTGATTTTCAAAACTATATA
Found at i:63032 original size:43 final size:40
Alignment explanation
Indices: 62956--63147 Score: 134
Period size: 36 Copynumber: 5.1 Consensus size: 40
62946 TTTTAAAAAC
*
62956 TATAT-TATATATTTTCAAAATTATTTTCGAAACTATAATA
1 TATATATATATATTTTCAAAATTATTTTCAAAACTAT-ATA
* *
62996 TATATATATATATTTTTACAAATTGTTTTTCAAAAC------
1 TATATATATATATTTTCA-AAATT-ATTTTCAAAACTATATA
*
63032 TATATA-ATATATTTTCAAAAATCATTTTCAAAAC----TA
1 TATATATATATATTTTC-AAAATTATTTTCAAAACTATATA
*
63068 TATA-ATATATATTTTCAAAAATCATTTTCAAAAC----TA
1 TATATATATATATTTTC-AAAATTATTTTCAAAACTATATA
* *
63104 TATA-ATATA-GTTTTCAAAAATTCTTTTCAAAACTATATA
1 TATATATATATATTTTC-AAAATTATTTTCAAAACTATATA
63143 TATAT
1 TATAT
63148 TCAGAAATCG
Statistics
Matches: 131, Mismatches: 9, Indels: 24
0.80 0.05 0.15
Matches are distributed among these distances:
34 10 0.08
35 35 0.27
36 50 0.38
39 6 0.05
40 5 0.04
41 11 0.08
42 5 0.04
43 9 0.07
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (40 bp):
TATATATATATATTTTCAAAATTATTTTCAAAACTATATA
Found at i:63060 original size:13 final size:12
Alignment explanation
Indices: 63040--63100 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
63030 ACTATATAAT
63040 ATATTTTCAAAA
1 ATATTTTCAAAA
63052 ATCATTTTCAAAA
1 AT-ATTTTCAAAA
* * *
63065 CTA-TAT-AATAT
1 ATATTTTCAA-AA
63076 ATATTTTCAAAA
1 ATATTTTCAAAA
63088 ATCATTTTCAAAA
1 AT-ATTTTCAAAA
63101 CTATATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.05
11 5 0.13
12 8 0.21
13 23 0.61
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:63085 original size:36 final size:36
Alignment explanation
Indices: 62994--63256 Score: 206
Period size: 36 Copynumber: 7.3 Consensus size: 36
62984 GAAACTATAA
* * **
62994 TATATATATATATATTTTTACAAATTGTTTTTCAAAAC
1 TATATA-ATATATATTTTCA-AAAATCATTTTCAAAAC
63032 TATAT-A-ATATATTTTCAAAAATCATTTTCAAAAC
1 TATATAATATATATTTTCAAAAATCATTTTCAAAAC
63066 TATATAATATATATTTTCAAAAATCATTTTCAAAAC
1 TATATAATATATATTTTCAAAAATCATTTTCAAAAC
*
63102 TATATAATATA-GTTTTCAAAAATTC-TTTTCAAAAC
1 TATATAATATATATTTTCAAAAA-TCATTTTCAAAAC
* * *
63137 --TAT-ATATATA--TTCAGAAATCGATTTTTTTAAAAATG
1 TATATAATATATATTTTCAAAAATC-A---TTTTCAAAA-C
* * *
63173 TATATATTATATGTTTTCAAAAA-CAGTTTTCTAAAAAT
1 TATATAATATATATTTTCAAAAATCA-TTTTC--AAAAC
* * *
63211 TATATATTATATTTTTTCGAAAAT-ATTTTCAAAAAC
1 TATATAATATATATTTTCAAAAATCATTTTC-AAAAC
*
63247 TATATTATAT
1 TATATAATAT
63257 TAATATATAT
Statistics
Matches: 187, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
30 2 0.01
31 7 0.04
32 5 0.03
33 3 0.02
34 19 0.10
35 39 0.21
36 55 0.29
37 9 0.05
38 30 0.16
39 10 0.05
40 1 0.01
41 7 0.04
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (36 bp):
TATATAATATATATTTTCAAAAATCATTTTCAAAAC
Found at i:75033 original size:31 final size:31
Alignment explanation
Indices: 74947--75070 Score: 110
Period size: 31 Copynumber: 4.0 Consensus size: 31
74937 GAGTCGAGGG
*
74947 TATACCTATGTTCTACGAAACATATGGACAGA
1 TATACCTATGTTCTACGGAACATATGGACA-A
* *
74979 -ATTACCTAT-ATCTTTC-GAGACATATGGACAA
1 TA-TACCTATGTTC-TACGGA-ACATATGGACAA
* *
75010 TATACCTATGTTCTAAGGAACATATGGACAG
1 TATACCTATGTTCTACGGAACATATGGACAA
* * * *
75041 TTTACCTAGGTTCTTCGGAACCTATGGACA
1 TATACCTATGTTCTACGGAACATATGGACA
75071 GTTGCCAAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
31 49 0.66
32 25 0.34
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (31 bp):
TATACCTATGTTCTACGGAACATATGGACAA
Found at i:75114 original size:30 final size:30
Alignment explanation
Indices: 75060--75131 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
75050 GTTCTTCGGA
* * *
75060 ACCTATGGACAGTTGCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
75090 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
75120 ACCTCTGGATAG
1 ACCTCTGGATAG
75132 GTCATTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:76989 original size:9 final size:9
Alignment explanation
Indices: 76975--77002 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
76965 ATGTAAAATG
76975 ATAAAATAA
1 ATAAAATAA
76984 ATAAAATAA
1 ATAAAATAA
76993 ATAAAATAA
1 ATAAAATAA
77002 A
1 A
77003 AGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:77012 original size:14 final size:14
Alignment explanation
Indices: 76977--77024 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
76967 GTAAAATGAT
*
76977 AAAATAAATAAAA-T
1 AAAA-AAATAAAAGG
76991 AAATAAAATAAAAGG
1 AAA-AAAATAAAAGG
*
77006 AAAAAAATGAAAGG
1 AAAAAAATAAAAGG
77020 AAAAA
1 AAAAA
77025 GTTAGTGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 26 0.87
15 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAGG
Found at i:78035 original size:3 final size:3
Alignment explanation
Indices: 78027--78055 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
78017 AAATGTTAGA
78027 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
78056 ACATTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:78149 original size:26 final size:25
Alignment explanation
Indices: 78120--78190 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
78110 AAAAAATGTT
78120 AAATATTAAAAGTAATAAAATATAAA
1 AAATATTAAAA-TAATAAAATATAAA
*
78146 AAATAGTAAGAAATAA-AAAATATAAA
1 AAATA-TTA-AAATAATAAAATATAAA
*
78172 ACAATGTTTAAAATAATAA
1 A-AAT-ATTAAAATAATAA
78191 TAAAAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 22 0.59
27 12 0.32
28 3 0.08
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (25 bp):
AAATATTAAAATAATAAAATATAAA
Found at i:78199 original size:22 final size:21
Alignment explanation
Indices: 78159--78199 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
78149 TAGTAAGAAA
78159 TAAAAAATATAAAACAATGTT
1 TAAAAAATATAAAACAATGTT
78180 TAAAATAATAATAAAA-AATG
1 TAAAA-AAT-ATAAAACAATG
78200 AAAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAAAATATAAAACAATGTT
Found at i:78259 original size:29 final size:29
Alignment explanation
Indices: 78212--78300 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
78202 AAAATATGCT
* ** *
78212 AAAATTAAAAGGAAAAAATGAATAACTAA
1 AAAATTTAAAGGATCAAATTAATAACTAA
78241 AAAATTTAAAGGATCAAATTAA-AAC-AA
1 AAAATTTAAAGGATCAAATTAATAACTAA
*
78268 ATTGAAATTT-ATGGATCAAATTAAT-ACTAA
1 A---AAATTTAAAGGATCAAATTAATAACTAA
78298 AAA
1 AAA
78301 TGAGTTGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 33 0.66
30 9 0.18
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.25
Consensus pattern (29 bp):
AAAATTTAAAGGATCAAATTAATAACTAA
Found at i:79259 original size:13 final size:13
Alignment explanation
Indices: 79236--79272 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
79226 ATTTGGACCT
79236 AAAAATGAAAATAA
1 AAAAAT-AAAATAA
79250 AAAAATAAAATAA
1 AAAAATAAAATAA
79263 AATAAATAAA
1 AA-AAATAAA
79273 TAATATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:79266 original size:18 final size:18
Alignment explanation
Indices: 79237--79281 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
79227 TTTGGACCTA
79237 AAAATGAAAATAAAAAAAT
1 AAAAT-AAAATAAAAAAAT
*
79256 AAAATAAAATAAATAAAT
1 AAAATAAAATAAAAAAAT
*
79274 AATATAAA
1 AAAATAAA
79282 TAACTAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATAAAATAAAAAAAT
Found at i:79273 original size:13 final size:13
Alignment explanation
Indices: 79244--79284 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
79234 CTAAAAATGA
79244 AAATAAAA-AAAT
1 AAATAAAATAAAT
79256 AAAATAAAATAAAT
1 -AAATAAAATAAAT
*
79270 AAATAATATAAAT
1 AAATAAAATAAAT
79283 AA
1 AA
79285 CTAACTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:79374 original size:2 final size:2
Alignment explanation
Indices: 79363--79410 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
79353 TTTTCGAAAC
*
79363 TA TA -A TA TA TA TA TA TA TA TA TA AA 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
79404 TA TA TA T
1 TA TA TA T
79411 GTTTTCACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:79475 original size:71 final size:67
Alignment explanation
Indices: 79400--79554 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 67
79390 TATATATATA
*
79400 TATATATATATGTTTTCACAAATTATTTTTCAAAACTATACAATATATATTTTAAAAATCATTTT
1 TATATATATATATTTTCA-AAATTA-TTTTCAAAACTATA-AATATATATTTTAAAAAT-ATTTT
79465 CAATAC
62 CAATAC
* *
79471 TATATAATATATATTTTCAAAAATCATTTTCAAAACTATATAATATAT-TTTTCAAAAATTGTTT
1 TATAT-ATATATATTTTC-AAAATTATTTTCAAAACTATA-AATATATATTTT-AAAAA-TATTT
79535 TCTAA-AC
61 TC-AATAC
79542 TATATATATATAT
1 TATATATATATAT
79555 ATATATATAT
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
70 12 0.16
71 43 0.57
72 19 0.25
73 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (67 bp):
TATATATATATATTTTCAAAATTATTTTCAAAACTATAAATATATATTTTAAAAATATTTTCAAT
AC
Found at i:79493 original size:36 final size:36
Alignment explanation
Indices: 79301--79556 Score: 210
Period size: 35 Copynumber: 7.2 Consensus size: 36
79291 TAAAAAAAAT
* * *
79301 TATACATTTTCAAAACCTC-TTTTAAAAACTATAT--
1 TATATATTTTCAAAA-ATCATTTTCAAAACTATATAA
* *
79335 TATATATTTTC-AAAATTATTTTCGAAACTATAATATA
1 TATATATTTTCAAAAATCATTTTCAAAACTAT-ATA-A
* * * *
79372 TATATATATAT-ATAAAT-A-TAT-ATATA-TATATATA
1 TATATAT-TTTCAAAAATCATTTTCA-AAACTATATA-A
* * * *
79406 TATATGTTTTCACAAATTATTTTTCAAAACTATACAA
1 TATATATTTTCAAAAATCA-TTTTCAAAACTATATAA
*
79443 TATATATTTT-AAAAATCATTTTCAATACTATATAA
1 TATATATTTTCAAAAATCATTTTCAAAACTATATAA
79478 TATATATTTTCAAAAATCATTTTCAAAACTATATAA
1 TATATATTTTCAAAAATCATTTTCAAAACTATATAA
** *
79514 TATAT-TTTTCAAAAATTGTTTTCTAAACTATATATA
1 TATATATTTTCAAAAATCATTTTCAAAACTATATA-A
79550 TATATAT
1 TATATAT
79557 ATATATATAT
Statistics
Matches: 180, Mismatches: 25, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
32 1 0.01
33 16 0.09
34 28 0.16
35 55 0.31
36 45 0.25
37 23 0.13
38 12 0.07
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.45
Consensus pattern (36 bp):
TATATATTTTCAAAAATCATTTTCAAAACTATATAA
Found at i:79549 original size:2 final size:2
Alignment explanation
Indices: 79542--79572 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
79532 TTTTCTAAAC
79542 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 T
79573 TCAAAAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79564 original size:46 final size:47
Alignment explanation
Indices: 79507--79653 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 47
79497 TTTTCAAAAC
*
79507 TATATA-ATATAT-TTTTCAAAAATTGTTTTCTAAACTATATATATATA
1 TATATATATATATATTTTCAAAAACTGTTTTCTAAAC--TATATATATA
* * **
79554 TATATATATATATATATATTCAAAAACCGATTTTTTAAAAAATATATATA
1 TATATATATATATAT-T-TTCAAAAACTG-TTTTCTAAACTATATATATA
* *
79604 TATAAAT-TATATGTTTTCAAAAACTGTTTTCTAAAAACTATATAT-TA
1 TATATATATATATATTTTCAAAAACTGTTTTCT--AAACTATATATATA
79651 TAT
1 TAT
79654 TTTTCGAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
46 5 0.06
47 21 0.26
48 16 0.20
49 7 0.09
50 16 0.20
51 9 0.11
52 8 0.10
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (47 bp):
TATATATATATATATTTTCAAAAACTGTTTTCTAAACTATATATATA
Found at i:79677 original size:35 final size:38
Alignment explanation
Indices: 79604--79681 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 38
79594 AATATATATA
* *
79604 TATAAATTATATGTTTTCAAAAACTGTTTTCTAAAAAC
1 TATATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
*
79642 TATATATTATAT-TTTTCGAAAA-TATTTTC-AAAAAC
1 TATATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
79677 TATAT
1 TATAT
79682 TATATTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 11 0.30
36 6 0.16
37 9 0.24
38 11 0.30
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
Found at i:79686 original size:38 final size:41
Alignment explanation
Indices: 79600--79688 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 41
79590 AAAAAATATA
* *
79600 TATATATAAATTATATGTTTTCAAAAACTGTTTTCTAAAAAC
1 TATAT-TATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
*
79642 --TA-TATATTATAT-TTTTCGAAAA-TATTTTC-AAAAAC
1 TATATTATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
79677 TATATTATATTA
1 TATATTATATTA
79689 ATATATACGA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
35 6 0.15
36 6 0.15
37 11 0.27
38 16 0.39
40 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (41 bp):
TATATTATATTATATGTTTTCAAAAACTATTTTCTAAAAAC
Found at i:80589 original size:27 final size:27
Alignment explanation
Indices: 80554--80620 Score: 118
Period size: 26 Copynumber: 2.5 Consensus size: 27
80544 TGGAGTCTCA
*
80554 TATTGACTTCTTTTTTAAACGTCCCAT
1 TATTTACTTCTTTTTTAAACGTCCCAT
80581 TATTTACTTC-TTTTTAAACGTCCCAT
1 TATTTACTTCTTTTTTAAACGTCCCAT
80607 TATTTACTTCTTTT
1 TATTTACTTCTTTT
80621 CATACCTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 26 0.68
27 12 0.32
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (27 bp):
TATTTACTTCTTTTTTAAACGTCCCAT
Found at i:83628 original size:58 final size:56
Alignment explanation
Indices: 83565--83736 Score: 175
Period size: 58 Copynumber: 2.9 Consensus size: 56
83555 AACTATAATC
*
83565 CTCATTTTAAATTAGTCCTTAAACTTTTGAATGTTATAATTTCATCTCTAAATTGAAT
1 CTCATTTTAAATTAGTCCTTAAACTTTTGAATATT-TAATTTCATC-CTAAATTGAAT
* * * * * * *
83623 TTCATTATAAATTAATCCTTAAACATTTGGACATTCTAATTTCATCCCTAAACTATGAGT
1 CTCATTTTAAATTAGTCCTTAAACTTTTGAATATT-TAATTTCAT-CCTAAA-T-TGAAT
*
83683 CTC-TTTCTAAATTAGTCCCTAAACTTTTGAATATTTCAATTTCATCCTTAAATT
1 CTCATTT-TAAATTAGTCCTTAAACTTTTGAATATTT-AATTTCATCC-TAAATT
83737 CATCCAAATG
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
58 43 0.47
59 8 0.09
60 41 0.45
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (56 bp):
CTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTAATTTCATCCTAAATTGAAT
Found at i:83635 original size:17 final size:18
Alignment explanation
Indices: 83602--83635 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83592 TGAATGTTAT
*
83602 AATTTCATCTCTAAATTG
1 AATTTCATCTATAAATTG
83620 AATTTCAT-TATAAATT
1 AATTTCATCTATAAATT
83636 AATCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTTCATCTATAAATTG
Found at i:83724 original size:60 final size:58
Alignment explanation
Indices: 83565--83736 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 58
83555 AACTATAATC
* * *
83565 CTCATTTTAAATTAGTCCTTAAACTTTTGAATGTTAT-AATTTCATCTCTAAATTGAAT
1 CTCATTATAAATTAGTCCTTAAACTTTTGAATATT-TCAATTTCATCCCTAAATTGAAT
* * * * * *
83623 TTCATTATAAATTAATCCTTAAACATTTGGACA-TTCTAATTTCATCCCTAAACTATGAGT
1 CTCATTATAAATTAGTCCTTAAACTTTTGAATATTTC-AATTTCATCCCTAAA-T-TGAAT
* * * *
83683 CTCTTTCTAAATTAGTCCCTAAACTTTTGAATATTTCAATTTCATCCTTAAATT
1 CTCATTATAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCATCCCTAAATT
83737 CATCCAAATG
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 41 0.45
59 2 0.02
60 43 0.47
61 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (58 bp):
CTCATTATAAATTAGTCCTTAAACTTTTGAATATTTCAATTTCATCCCTAAATTGAAT
Found at i:83965 original size:60 final size:60
Alignment explanation
Indices: 83886--84010 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
83876 GGTTGGTGAT
* *
83886 CAATTTAGAATGAAGGTCATAGTTT-GGGGATGAAATTGAAA-TTTTCAAAAGTTTAAGGAC
1 CAATTTAGAATGAAGGTCATAGTTTAGGGG-TGAAATTAAAACATTT-AAAAGTTTAAGGAC
*
83946 TAATTTAGAATGATA-GTCATAGTTTAGGGGTGAAATTAAAACATTTAAAAGTTTAAGGAC
1 CAATTTAGAATGA-AGGTCATAGTTTAGGGGTGAAATTAAAACATTTAAAAGTTTAAGGAC
84006 CAATT
1 CAATT
84011 CAAAATAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
60 50 0.86
61 8 0.14
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (60 bp):
CAATTTAGAATGAAGGTCATAGTTTAGGGGTGAAATTAAAACATTTAAAAGTTTAAGGAC
Found at i:84109 original size:2 final size:2
Alignment explanation
Indices: 84104--84152 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
84094 AATATATCAA
84104 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
84146 AT AT AT A
1 AT AT AT A
84153 GGATAAGATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84398 original size:2 final size:2
Alignment explanation
Indices: 84391--84471 Score: 137
Period size: 2 Copynumber: 41.0 Consensus size: 2
84381 AATTGCTTCA
84391 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
* *
84433 AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT TT 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
84472 TAATTTATAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89252 original size:14 final size:15
Alignment explanation
Indices: 89222--89254 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
89212 GGATTTGGTT
*
89222 ACTGCTGCATATTTG
1 ACTGATGCATATTTG
89237 ACTGATGCAT-TTTG
1 ACTGATGCATATTTG
89251 ACTG
1 ACTG
89255 GGGTCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (15 bp):
ACTGATGCATATTTG
Found at i:93508 original size:27 final size:28
Alignment explanation
Indices: 93467--93519 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
93457 GTGTTTAAAT
93467 AATCGAATTAATTCGGTTAA-TCGATCG
1 AATCGAATTAATTCGGTTAATTCGATCG
*
93494 AATCGAATTAGTTCGGTTAATTCGAT
1 AATCGAATTAATTCGGTTAATTCGAT
93520 TTAAATTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (28 bp):
AATCGAATTAATTCGGTTAATTCGATCG
Found at i:93876 original size:184 final size:184
Alignment explanation
Indices: 93562--93949 Score: 638
Period size: 184 Copynumber: 2.1 Consensus size: 184
93552 ATTAAATTTT
* *
93562 AAATATTAAATATATTATATATAACATATGGATTCAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACTCAATTAATAA
* *
93627 TTTAATATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
*
93692 TTATTTTATAATTATATATTATTTAAATTAATTGTAAAC-TTTTTTTAATTAAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTAATT-AAA
* *
93746 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACTATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACTCAATTAATAA
* *
93811 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAATATATCTGAAATT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAT-TATATAAAATT
93875 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTAATTAAA
* *
93930 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
93950 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
183 15 0.08
184 165 0.86
185 11 0.06
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGACTAAGCCCAAACCATTTAAAACTCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTAATTAAA
Found at i:95325 original size:2 final size:2
Alignment explanation
Indices: 95310--95344 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
95300 TCAGACTATT
* *
95310 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95345 TTGGAACCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96281 original size:31 final size:29
Alignment explanation
Indices: 96213--96344 Score: 81
Period size: 31 Copynumber: 4.3 Consensus size: 29
96203 AATATTATTT
*
96213 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
96243 TGGTATATTTTATTGAACTAAAAATATT-ATAAA
1 T--TATATTTTATT-AA-TAAAAATATTAAT-AA
* * * * *
96276 TTATATTAATTATAAATTAAAGTAATAGT-A
1 TTATATT--TTATTAATAAAAATATTAATAA
* *
96306 TTATATTATATTTAA-AAAAATATTAATTA
1 TTATATTTTA-TTAATAAAAATATTAATAA
*
96335 GTATATTTTA
1 TTATATTTTA
96345 AAATATCTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
28 10 0.13
29 12 0.15
30 9 0.12
31 21 0.27
32 10 0.13
33 16 0.21
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:96301 original size:16 final size:16
Alignment explanation
Indices: 96268--96301 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96258 AACTAAAAAT
* *
96268 ATTATAAATTATATTA
1 ATTATAAATTAAAGTA
96284 ATTATAAATTAAAGTA
1 ATTATAAATTAAAGTA
96300 AT
1 AT
96302 AGTATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTATAAATTAAAGTA
Found at i:96411 original size:27 final size:27
Alignment explanation
Indices: 96370--96450 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
96360 AATATTATTA
96370 TATTAATATTAAAT-ATATAAATAATAT
1 TATTAATATTAAATAAT-TAAATAATAT
*
96397 TATTAATTATT-AATAATTTAATAATAT
1 TATTAA-TATTAAATAATTAAATAATAT
** *
96424 TATTTCTATGAAATTAA-TAAATAATAT
1 TATTAATATTAAA-TAATTAAATAATAT
96451 AAATTTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
26 3 0.07
27 33 0.73
28 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTAATATTAAATAATTAAATAATAT
Found at i:96480 original size:21 final size:22
Alignment explanation
Indices: 96436--96483 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
96426 TTTCTATGAA
*
96436 ATTAATAAATAATATAAATTTT
1 ATTAATAAATAATATAAATATT
* *
96458 ATTAATAATTTAT-TAAATATT
1 ATTAATAAATAATATAAATATT
96479 ATTAA
1 ATTAA
96484 AATGAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAATAAATAATATAAATATT
Found at i:96489 original size:54 final size:53
Alignment explanation
Indices: 96386--96490 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 53
96376 TATTAAATAT
* ***
96386 ATAAATAATATTATTAATTATTAATAATTTAATAATATTATTTCTATGAAATTA
1 ATAAATAATATAATT-ATTATTAATAATTTAATAATATTATTAAAATGAAATTA
*
96440 ATAAATAATATAAATT-TTATTAATAATTTATTAAATATTATTAAAATGAAA
1 ATAAATAATAT-AATTATTATTAATAATTTAAT-AATATTATTAAAATGAAA
96491 ATATAATATC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 15 0.34
54 26 0.59
55 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (53 bp):
ATAAATAATATAATTATTATTAATAATTTAATAATATTATTAAAATGAAATTA
Found at i:96556 original size:23 final size:23
Alignment explanation
Indices: 96530--96577 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
96520 GTGATTATTT
96530 TATTATAATATTAAAAA-ATATAA
1 TATTATAATATTAAAAATAT-TAA
*
96553 TATTATATTATTAAAAATATTAA
1 TATTATAATATTAAAAATATTAA
96576 TA
1 TA
96578 AATATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:96558 original size:31 final size:33
Alignment explanation
Indices: 96501--96583 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 33
96491 ATATAATATC
* *
96501 TTATAATATT--ATAATATAAGTGATTATTTTA
1 TTATAATATTAAAAAATATAAGTGATTATATTA
96532 TTATAATATTAAAAAATATAA-T-ATTATATTA
1 TTATAATATTAAAAAATATAAGTGATTATATTA
* *
96563 TTAAAAATATTAATAAATATA
1 TT-ATAATATTAAAAAATATA
96584 TTATAAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
31 20 0.44
32 17 0.38
33 8 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (33 bp):
TTATAATATTAAAAAATATAAGTGATTATATTA
Found at i:96562 original size:20 final size:22
Alignment explanation
Indices: 96537--96590 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
96527 TTTTATTATA
96537 ATATTA-AAAAATA-TAATATT
1 ATATTATAAAAATATTAATATT
*
96557 ATATTATTAAAAATATTAATAAAT
1 ATATTA-TAAAAATATTAAT-ATT
96581 ATATTATAAA
1 ATATTATAAA
96591 TGTTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.21
22 7 0.24
23 8 0.28
24 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTATAAAAATATTAATATT
Found at i:96601 original size:12 final size:12
Alignment explanation
Indices: 96537--96601 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
96527 TTTTATTATA
96537 ATATTAA-AAA-
1 ATATTAATAAAT
*
96547 ATA-TAAT-ATT
1 ATATTAATAAAT
* *
96557 ATATTATTAAAA
1 ATATTAATAAAT
96569 ATATTAATAAAT
1 ATATTAATAAAT
96581 ATATT-ATAAAT
1 ATATTAATAAAT
* *
96592 GTTTTAATAA
1 ATATTAATAA
96602 TTATTCTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 4 0.10
10 6 0.14
11 12 0.29
12 20 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
ATATTAATAAAT
Found at i:98538 original size:54 final size:53
Alignment explanation
Indices: 98435--98539 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 53
98425 TATTAAATAT
* ***
98435 ATAAATAATATTATTCATTATTAATAATTTAATAATATTATTTCTATGAAATTA
1 ATAAATAATATAATT-ATTATTAATAATTTAATAATATTATTAAAATGAAATTA
98489 ATAAATAATATAAATT-TTATTAATAATTTATTATAA-ATTATTAAAATGAAA
1 ATAAATAATAT-AATTATTATTAATAATTTA--ATAATATTATTAAAATGAAA
98540 ATATAATATC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
53 14 0.32
54 23 0.52
55 7 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (53 bp):
ATAAATAATATAATTATTATTAATAATTTAATAATATTATTAAAATGAAATTA
Found at i:98585 original size:31 final size:30
Alignment explanation
Indices: 98516--98636 Score: 99
Period size: 31 Copynumber: 4.0 Consensus size: 30
98506 TATTAATAAT
* *
98516 TTATTATAAATTATTAA-AATGAAAATATAATA
1 TTATTAT-AA-TATTAATAAT-ATAATATTATA
* *
98548 -TCTTATAATATT-ATAATATAAGTGATTATT
1 TTATTATAATATTAATAATATAA-T-ATTATA
*
98578 TTATTATAATATTAAAAATATAATATTATA
1 TTATTATAATATTAATAATATAATATTATA
*
98608 TTATTAGAAATATTAATAA-AT-ATATTATA
1 TTATTA-TAATATTAATAATATAATATTATA
98637 AATGTTTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
28 4 0.05
29 16 0.22
30 19 0.26
31 27 0.36
32 8 0.11
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATTATAATATTAATAATATAATATTATA
Found at i:98607 original size:22 final size:23
Alignment explanation
Indices: 98579--98625 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
98569 GTGATTATTT
98579 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
98601 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
98624 TA
1 TA
98626 AATATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:98630 original size:22 final size:21
Alignment explanation
Indices: 98586--98639 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
98576 TTTTATTATA
*
98586 ATATTAAAAATATAATATTAT
1 ATATTAAAAATATAATATAAT
*
98607 ATTATTAGAAATATTAATA-AAT
1 A-TATTAAAAATA-TAATATAAT
*
98629 ATATTATAAAT
1 ATATTAAAAAT
98640 GTTTTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATTAAAAATATAATATAAT
Found at i:103518 original size:54 final size:53
Alignment explanation
Indices: 103415--103519 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 53
103405 TATTAAATAT
* ***
103415 ATAAATAATATTATTCATTATTAATAATTTAATAATATTATTTCTATGAAATTA
1 ATAAATAATATAATT-ATTATTAATAATTTAATAATATTATTAAAATGAAATTA
103469 ATAAATAATATAAATT-TTATTAATAATTTATTATAA-ATTATTAAAATGAAA
1 ATAAATAATAT-AATTATTATTAATAATTTA--ATAATATTATTAAAATGAAA
103520 ATATAATATC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
53 14 0.32
54 23 0.52
55 7 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (53 bp):
ATAAATAATATAATTATTATTAATAATTTAATAATATTATTAAAATGAAATTA
Found at i:103565 original size:31 final size:30
Alignment explanation
Indices: 103496--103616 Score: 99
Period size: 31 Copynumber: 4.0 Consensus size: 30
103486 TATTAATAAT
* *
103496 TTATTATAAATTATTAA-AATGAAAATATAATA
1 TTATTAT-AA-TATTAATAAT-ATAATATTATA
* *
103528 -TCTTATAATATT-ATAATATAAGTGATTATT
1 TTATTATAATATTAATAATATAA-T-ATTATA
*
103558 TTATTATAATATTAAAAATATAATATTATA
1 TTATTATAATATTAATAATATAATATTATA
*
103588 TTATTAGAAATATTAATAA-AT-ATATTATA
1 TTATTA-TAATATTAATAATATAATATTATA
103617 AATGTTTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
28 4 0.05
29 16 0.22
30 19 0.26
31 27 0.36
32 8 0.11
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATTATAATATTAATAATATAATATTATA
Found at i:103587 original size:22 final size:23
Alignment explanation
Indices: 103559--103605 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
103549 GTGATTATTT
103559 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
103581 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
103604 TA
1 TA
103606 AATATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:103610 original size:22 final size:21
Alignment explanation
Indices: 103566--103619 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
103556 TTTTATTATA
*
103566 ATATTAAAAATATAATATTAT
1 ATATTAAAAATATAATATAAT
*
103587 ATTATTAGAAATATTAATA-AAT
1 A-TATTAAAAATA-TAATATAAT
*
103609 ATATTATAAAT
1 ATATTAAAAAT
103620 GTTTTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATTAAAAATATAATATAAT
Found at i:107708 original size:22 final size:21
Alignment explanation
Indices: 107673--107727 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
107663 AATTTACACT
107673 TTAAAAATAATATTT-TTA--A
1 TTAAAAA-AATATTTATTATTA
107692 TTAAAAAAATATTTATTATTA
1 TTAAAAAAATATTTATTATTA
*
107713 TTCAAAAAA-ATTTAT
1 TTAAAAAAATATTTAT
107728 CTCATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 6 0.19
21 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAAAAATATTTATTATTA
Found at i:107881 original size:35 final size:34
Alignment explanation
Indices: 107808--108016 Score: 168
Period size: 37 Copynumber: 5.7 Consensus size: 34
107798 ATATATATTC
*
107808 AATATATAGTTTTGGAAAATATTTTTTTGATAACATATAT
1 AATATATAGTTTT-GAAAACA--TTTTTG--AA-ATATAT
* *
107848 AATATTTAATTTTGAAAACATTTTTTGAAATATATTT
1 AATATATAGTTTTGAAAACA-TTTTTGAAATATA--T
**
107885 AATATATAGTTTTGGAAAACATTTTAAAAATGTATAT
1 AATATATAGTTTT-GAAAACATTTTTGAAA--TATAT
* *
107922 AATATATAGTTTTGAAAATATTTTTGAAAATGTAT
1 AATATATAGTTTTGAAAACATTTTTG-AAATATAT
* **
107957 AATATATGGTTTTGAAAACATTTTAAAAACGTATAT
1 AATATATAGTTTTGAAAACATTTTTGAAA--TATAT
107993 -ATAATATAGTTTTTGAAAACATTT
1 AAT-ATATAG-TTTTGAAAACATTT
108017 AATATATAGT
Statistics
Matches: 142, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
34 3 0.02
35 33 0.23
36 21 0.15
37 50 0.35
38 14 0.10
39 10 0.07
40 11 0.08
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.45
Consensus pattern (34 bp):
AATATATAGTTTTGAAAACATTTTTGAAATATAT
Found at i:108011 original size:26 final size:24
Alignment explanation
Indices: 107977--108030 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
107967 TTTGAAAACA
*
107977 TTTTAAAAACGTATATATAATATAGT
1 TTTTAAAAACATATA-AT-ATATAGT
* *
108003 TTTTGAAAACATTTAATATATAGT
1 TTTTAAAAACATATAATATATAGT
108027 TTTT
1 TTTT
108031 TTATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.44
25 2 0.08
26 12 0.48
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
TTTTAAAAACATATAATATATAGT
Found at i:108117 original size:3 final size:3
Alignment explanation
Indices: 108109--108155 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
108099 TGGTTTTTCG
*
108109 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TATA TTA GTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA
108154 TT
1 TT
108156 TATTTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:108142 original size:23 final size:23
Alignment explanation
Indices: 108116--108162 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
108106 TCGTTATTAT
*
108116 TATTATTA-TTATTATTATATTTA
1 TATTAGTATTTATTATT-TATTTA
108139 TATTAGTATTTATTATTTATTTA
1 TATTAGTATTTATTATTTATTTA
108162 T
1 T
108163 TTAACCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTAGTATTTATTATTTATTTA
Found at i:116265 original size:198 final size:197
Alignment explanation
Indices: 115931--116365 Score: 545
Period size: 198 Copynumber: 2.2 Consensus size: 197
115921 GGGCTATATG
* * * * *
115931 TCAATGAAAACTTTTGAGTTCAATTTCATTCAGCTCGAGGGCGTATCAACCACATGGTAGCAGCG
1 TCAATGAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGACG-ATCAACCACATGGTAGCAGCA
* * * * * *
115996 AGGAAACTTTTCGTTTGAAGTTTAAATAAGGTCTTTAAGTCAATAAGAAGACCAGGGTTGGCTGC
65 AGAAAACTTTTCGTTTGAAGTTTAAATAAGATCTTTAAATCAAGAAGAAGACCAGGATTGGATGC
* * * *
116061 GATTTAGCAACAAGGAACTATCTCCCAACCGAATTTACAACATAGCTTAAGTCGAGAAAAGTTAT
130 GATTTAGCAACAAGAAACTATCTCCCAACCAAATTTACAACATAACTTAAGTCGAGAAAAATTAT
*
116126 CTA
195 CCA
* * *
116129 TTAATGAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGAC-ATCAACTACATGGTAGCATCAA
1 TCAATGAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGACGATCAACCACATGGTAGCAGCAA
*
116193 GAAACTACTTTTCAG-TTGAAGTTTAAACTGAGATCTTTAAATCAAGAAGAAGACCA-GATTGGA
66 GAAA--ACTTTTC-GTTTGAAGTTTAAA-TAAGATCTTTAAATCAAGAAGAAGACCAGGATTGGA
* * *
116256 TGTGATTTAGCAACAAGAAACTATCTCCCAGCCAAATTTACAGCATAACTTAAGTCGAGAAAAAT
127 TGCGATTTAGCAACAAGAAACTATCTCCCAACCAAATTTACAACATAACTTAAGTCGAGAAAAAT
* *
116321 TTTCCG
192 TATCCA
* * *
116327 TCAACGAAAATTTTCGAGTTTGATTCCA-TCAGCTCGAGG
1 TCAATGAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGG
116366 GCATATCAAC
Statistics
Matches: 204, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
196 22 0.11
197 11 0.05
198 146 0.72
199 25 0.12
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (197 bp):
TCAATGAAAACTTTCGAGTTCGATTCCATTCAGCTCGAGGACGATCAACCACATGGTAGCAGCAA
GAAAACTTTTCGTTTGAAGTTTAAATAAGATCTTTAAATCAAGAAGAAGACCAGGATTGGATGCG
ATTTAGCAACAAGAAACTATCTCCCAACCAAATTTACAACATAACTTAAGTCGAGAAAAATTATC
CA
Done.