Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006253.1 Hibiscus syriacus cultivar Beakdansim tig00014923_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: 111122
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:11689 original size:24 final size:22
Alignment explanation
Indices: 11636--11690 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
11626 TAATTTTATG
*
11636 TTAGGGATAAGTTTATAAAATT
1 TTAGGGATAAGCTTATAAAATT
11658 TTAAAGGGATACGAGCTTATAAAATT
1 TT--AGGGATA--AGCTTATAAAATT
11684 TTAGGGA
1 TTAGGGA
11691 CGGAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.07
24 12 0.43
26 14 0.50
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.35
Consensus pattern (22 bp):
TTAGGGATAAGCTTATAAAATT
Found at i:15619 original size:30 final size:28
Alignment explanation
Indices: 15566--15621 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 28
15556 TAAACATCAA
15566 AATATTATTATTTTATATATTTAATATT
1 AATATTATTATTTTATATATTTAATATT
15594 AATA-TATTATTTTAGTATTATTTTAATA
1 AATATTATTATTTTA-TA-TA-TTTAATA
15622 AAAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 2 0.08
30 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
AATATTATTATTTTATATATTTAATATT
Found at i:15631 original size:30 final size:27
Alignment explanation
Indices: 15571--15632 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
15561 ATCAAAATAT
** *
15571 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATAAAAAAA
15598 TATTATTTTAGTATTATTTTAATAAAAAAA
1 TATTATTTTA-TA-TA-TTTAATAAAAAAA
15628 TATTA
1 TATTA
15633 GTTATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 2 0.07
29 2 0.07
30 15 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAAAA
Found at i:15919 original size:37 final size:39
Alignment explanation
Indices: 15877--15970 Score: 126
Period size: 37 Copynumber: 2.5 Consensus size: 39
15867 TTTTTAATAC
**
15877 TTTAATAATATTATTATTTTT-ATAAATAATTAATATAA
1 TTTAATAATATTATTATTTTTAATAAATAACCAATATAA
15915 -TTAATAATA-TATTATTTTTAATAAATAACCAATATAA
1 TTTAATAATATTATTATTTTTAATAAATAACCAATATAA
15952 TTTAA-AATAATT-TTATTTT
1 TTTAATAAT-ATTATTATTTT
15971 AAGAAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
36 10 0.20
37 27 0.54
38 12 0.24
39 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (39 bp):
TTTAATAATATTATTATTTTTAATAAATAACCAATATAA
Found at i:15937 original size:17 final size:17
Alignment explanation
Indices: 15877--15938 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
15867 TTTTTAATAC
15877 TTTAATAATATTATTATT
1 TTTAATAATA-TATTATT
15895 TTT-ATAA-ATAATTAATAT
1 TTTAATAATAT-ATT-AT-T
*
15913 AATTAATAATATATTATT
1 -TTTAATAATATATTATT
15931 TTTAATAA
1 TTTAATAA
15939 ATAACCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 1 0.03
16 4 0.11
17 13 0.36
18 5 0.14
19 4 0.11
20 7 0.19
21 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATAATATATTATT
Found at i:15941 original size:21 final size:21
Alignment explanation
Indices: 15880--15942 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
15870 TTAATACTTT
15880 AATAATATTATTATTTTT-ATA
1 AATAATA-TATTATTTTTAATA
* *
15901 AATAAT-TA--A--TATAATT
1 AATAATATATTATTTTTAATA
15917 AATAATATATTATTTTTAATA
1 AATAATATATTATTTTTAATA
15938 AATAA
1 AATAA
15943 CCAATATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 2 0.06
16 8 0.25
17 3 0.09
19 3 0.09
21 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATATATTATTTTTAATA
Found at i:20558 original size:44 final size:44
Alignment explanation
Indices: 20484--20583 Score: 166
Period size: 44 Copynumber: 2.3 Consensus size: 44
20474 ACATAGGTTG
*
20484 TTGCTTCATCTTTTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
1 TTGCTTCATCTTCTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
*
20528 TTGCTTCATCTTCTTCCTCAT-TCTTGGGTAGTTACCATGAGTTC
1 TTGCTTCATCTTCTTCCTC-TCTCTTCGGTAGTTACCATGAGTTC
20572 TTGCTTCATCTT
1 TTGCTTCATCTT
20584 ATACTATCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (44 bp):
TTGCTTCATCTTCTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
Found at i:21321 original size:31 final size:31
Alignment explanation
Indices: 21283--21344 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
21273 AAGTGTTCTA
* *
21283 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAAGATGAAGCTTTGC
21314 TACGAGCTGTGGCGAGAAGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAAGATGAAGCTTTGC
21345 ATGTGCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAAGATGAAGCTTTGC
Found at i:21377 original size:22 final size:22
Alignment explanation
Indices: 21349--21399 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
21339 CTTTGCATGT
21349 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
21371 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
21393 GCC-TGCA
1 GCCATGCA
21400 TGCAGTGGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.14
Consensus pattern (22 bp):
GCCATGCACGTCGGAAGAGGTC
Found at i:21483 original size:29 final size:30
Alignment explanation
Indices: 21446--21533 Score: 117
Period size: 29 Copynumber: 3.0 Consensus size: 30
21436 AGGCGCAGGA
*
21446 CAAGGTCGCCCAGCGTGCATGGCGACCTAT
1 CAAGGTCGCCCGGCGTGCATGGCGACCTAT
* *
21476 C-ATGTCGCCTGGCGTGCATGGCGACCTA-
1 CAAGGTCGCCCGGCGTGCATGGCGACCTAT
* *
21504 CAAGGTCGCCCGGAGGGCATGGCGACCTAT
1 CAAGGTCGCCCGGCGTGCATGGCGACCTAT
21534 GCTGGGAAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
28 1 0.02
29 47 0.96
30 1 0.02
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (30 bp):
CAAGGTCGCCCGGCGTGCATGGCGACCTAT
Found at i:23319 original size:30 final size:31
Alignment explanation
Indices: 23285--23343 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
23275 GTATATAAAC
23285 CAAT-AAAAAAGAAGAGAAACAGAAGTAGAT
1 CAATAAAAAAAGAAGAGAAACAGAAGTAGAT
23315 CAATAAAAAAAAGAAGAGAAACAGAAGTA
1 CAAT-AAAAAAAGAAGAGAAACAGAAGTA
23344 TATTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.15
32 23 0.85
ACGTcount: A:0.66, C:0.07, G:0.19, T:0.08
Consensus pattern (31 bp):
CAATAAAAAAAGAAGAGAAACAGAAGTAGAT
Found at i:26543 original size:24 final size:25
Alignment explanation
Indices: 26498--26545 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
26488 TATTTCACAT
* *
26498 TTATTTTATATTAGTAAAAAGAGAG
1 TTATTTTAGATTAATAAAAAGAGAG
*
26523 TTATTTT-GATTAATAATAAGAGA
1 TTATTTTAGATTAATAAAAAGAGA
26546 TGTATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TTATTTTAGATTAATAAAAAGAGAG
Found at i:27185 original size:23 final size:20
Alignment explanation
Indices: 27142--27187 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
27132 ATAAAATATC
*
27142 TTATTAATAATTTTATTAAT
1 TTATTAATAATTATATTAAT
27162 TTATTAATAATAATATATTAAAT
1 TTATTAATAAT--TATATT-AAT
27185 TTA
1 TTA
27188 AATTAAACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTAATAATTATATTAAT
Found at i:27529 original size:3 final size:3
Alignment explanation
Indices: 27521--27572 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
27511 TATGATGTGG
27521 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27569 TAT T
1 TAT T
27573 TAATATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31101 original size:19 final size:19
Alignment explanation
Indices: 31059--31110 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
31049 GTCAATGACA
* *
31059 GTCAACGATCAACTGCTCG
1 GTCAACGGTCAACGGCTCG
* *
31078 ATCAACGGTCAACGGTTCG
1 GTCAACGGTCAACGGCTCG
31097 GTCAACGGCTCAAC
1 GTCAACGG-TCAAC
31111 TTGGCTCAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (19 bp):
GTCAACGGTCAACGGCTCG
Found at i:38086 original size:20 final size:21
Alignment explanation
Indices: 38061--38112 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
38051 TTTTCCCAAT
*
38061 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
38081 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
38102 TCGCAATGCGA
1 TCGCAATGCGA
38113 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:38125 original size:41 final size:41
Alignment explanation
Indices: 38098--38235 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
38088 GCGAATTGGG
*
38098 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
38139 AAAATCGCAACGCGATACTGACTTTCGCAACGCAATACTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * *
38181 --TTTTGCAACGCGATTCTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
38220 AGAATCGTAATGCGAT
1 AAAATCGCAACGCGAT
38236 TTTCAAAGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 44 0.56
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:38126 original size:20 final size:20
Alignment explanation
Indices: 38101--38215 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
38091 AATTGGGAAA
*
38101 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
38121 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
38142 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
38162 TTCGCAACGCAATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
38182 TTTGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
38202 TTCGCAACGAGATA
1 ATCGCAACGCGATA
38216 ATACAGAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 60 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:38388 original size:12 final size:12
Alignment explanation
Indices: 38369--38403 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
38359 CTCTCCGGCG
38369 ACATCCGTTCCT
1 ACATCCGTTCCT
*
38381 ATATCCGTTCCT
1 ACATCCGTTCCT
*
38393 ACATCCTTTCC
1 ACATCCGTTCC
38404 CATCCGGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.40, G:0.06, T:0.37
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:38984 original size:24 final size:24
Alignment explanation
Indices: 38957--39010 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
38947 GTATTCGAAA
*
38957 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
38981 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
39005 TTTGAT
1 TTTGAT
39011 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:39202 original size:12 final size:12
Alignment explanation
Indices: 39185--39209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39175 ATATAATCCT
39185 GAAGAAGAAAAA
1 GAAGAAGAAAAA
39197 GAAGAAGAAAAA
1 GAAGAAGAAAAA
39209 G
1 G
39210 TCCCCGAAGA
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:41499 original size:20 final size:20
Alignment explanation
Indices: 41474--41531 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
41464 ATTCATTTGA
41474 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
41494 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
41514 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
41532 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:41591 original size:19 final size:19
Alignment explanation
Indices: 41550--41614 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
41540 GAAATGAAAA
41550 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
41566 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41583 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41602 TCGCATTGCGATT
1 TCGCATTGCGATT
41615 CTCTCGTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:41773 original size:14 final size:14
Alignment explanation
Indices: 41754--41790 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
41744 CATCAATTAA
41754 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
41768 ACAAATCATCTTTT
1 ACAAATCAACATTT
41782 ACAAATCAA
1 ACAAATCAA
41791 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:43681 original size:20 final size:20
Alignment explanation
Indices: 43658--43711 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
43648 GAAACTTAAA
*
43658 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
43678 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGCGAAAATGACT
43698 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
43712 TGAAAATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:43764 original size:14 final size:14
Alignment explanation
Indices: 43747--43805 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
43737 ATGCAAAATG
43747 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
43761 AAAATCACAATGCGAAATG
1 AAAATCGCAA--CG--A-C
43780 AAAATCGCAACGAC
1 AAAATCGCAACGAC
43794 AAAATCGCAACG
1 AAAATCGCAACG
43806 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:43821 original size:33 final size:33
Alignment explanation
Indices: 43698--43810 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
43688 GGAAATGGCT
*
43698 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
43731 ATCGCAATGCAAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
43764 ATCACAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
43797 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
43811 CACAAATCGC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:43839 original size:19 final size:19
Alignment explanation
Indices: 43817--43899 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
43807 GAAACACAAA
43817 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43836 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43855 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
43871 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
43888 TCGAATTGCGAT
1 TCGCATTGCGAT
43900 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.11
15 3 0.05
16 4 0.07
17 4 0.07
18 3 0.05
19 35 0.64
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:43906 original size:19 final size:20
Alignment explanation
Indices: 43884--43927 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
43874 TTGCGATTTT
43884 CATTT-CGAATTGCGATAGC
1 CATTTCCGAATTGCGATAGC
** *
43903 CATTTCCGCGTTGCGATAGT
1 CATTTCCGAATTGCGATAGC
43923 CATTT
1 CATTT
43928 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGAATTGCGATAGC
Found at i:43918 original size:20 final size:20
Alignment explanation
Indices: 43893--43938 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
43883 TCATTTCGAA
43893 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
43913 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
43933 TTGCGA
1 TTGCGA
43939 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:44502 original size:18 final size:18
Alignment explanation
Indices: 44479--44526 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
44469 CGGGTCGATC
44479 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
44497 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
44515 AGGTGATGGCTC
1 AGGTGATGGCTC
44527 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:45894 original size:20 final size:20
Alignment explanation
Indices: 45846--45911 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
45836 AATAGTTTCT
** *
45846 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
45866 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
** *
45886 GAATTTGACTATCGCAACGA
1 GAAAATGACTATCGCAACGC
45906 GAAAAT
1 GAAAAT
45912 CGCAACGCGA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:46208 original size:22 final size:22
Alignment explanation
Indices: 46181--46224 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
46171 GATGGAGATA
46181 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
46203 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
46225 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:46438 original size:20 final size:20
Alignment explanation
Indices: 46412--46484 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
46402 GATTATGTAT
46412 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
46432 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
46452 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
46472 TATCTCGTTGCGA
1 TATCGCGTTGCGA
46485 TTTTGTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:46519 original size:21 final size:20
Alignment explanation
Indices: 46495--46546 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
46485 TTTTGTATTA
*
46495 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
46516 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
46536 TCGCATTGCGA
1 TCGCATTGCGA
46547 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:46617 original size:21 final size:21
Alignment explanation
Indices: 46574--46617 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
46564 GACACTGTAG
** *
46574 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
46595 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
46616 AC
1 AC
46618 GCGAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:48466 original size:21 final size:21
Alignment explanation
Indices: 48424--48467 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48414 CGTACCAATT
* *
48424 CACGGTGCTAATGTAGCTGTC
1 CACGGTGCTAACGTAGCAGTC
* *
48445 CACGGTGCTGACGTGGCAGTC
1 CACGGTGCTAACGTAGCAGTC
48466 CA
1 CA
48468 TATGTCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (21 bp):
CACGGTGCTAACGTAGCAGTC
Found at i:50627 original size:70 final size:70
Alignment explanation
Indices: 50539--50712 Score: 330
Period size: 70 Copynumber: 2.5 Consensus size: 70
50529 AGTCAGTTGG
*
50539 GATGCTCTTCTATGTTTCTTAGCCATGTGTGATTGTTTTATTTTCATATTTTTACTCTTTAGACT
1 GATGTTCTTCTATGTTTCTTAGCCATGTGTGATTGTTTTATTTTCATATTTTTACTCTTTAGACT
50604 TTTGT
66 TTTGT
50609 GATGTTCTTCTATGTTTCTTAGCCATGTGTGATTGTTTTATTTTCATATTTTTACTCTTTAGACT
1 GATGTTCTTCTATGTTTCTTAGCCATGTGTGATTGTTTTATTTTCATATTTTTACTCTTTAGACT
50674 TTTGT
66 TTTGT
*
50679 GATGTTCTTCTATGTTTCTTAGCCATGTGAGATT
1 GATGTTCTTCTATGTTTCTTAGCCATGTGTGATT
50713 TAAAAAAAAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (70 bp):
GATGTTCTTCTATGTTTCTTAGCCATGTGTGATTGTTTTATTTTCATATTTTTACTCTTTAGACT
TTTGT
Found at i:51881 original size:40 final size:41
Alignment explanation
Indices: 51822--51899 Score: 149
Period size: 40 Copynumber: 1.9 Consensus size: 41
51812 TATAGTAAAA
51822 ATATATTTCTTCATATTTTTTTATATGCGATATACATATAC
1 ATATATTTCTTCATATTTTTTTATATGCGATATACATATAC
51863 ATATATTTCTTCAT-TTTTTTTATATGCGATATACATA
1 ATATATTTCTTCATATTTTTTTATATGCGATATACATA
51900 ATTCTTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
40 23 0.62
41 14 0.38
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.53
Consensus pattern (41 bp):
ATATATTTCTTCATATTTTTTTATATGCGATATACATATAC
Found at i:53454 original size:32 final size:32
Alignment explanation
Indices: 53412--53475 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
53402 AGAAGAGAAG
* * *
53412 GGAAACAGGGTAAATTACACCATGAGTCATTA
1 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
53444 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
1 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
53476 AACTTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (32 bp):
GGAAAAAGGGTAAATTAAACCACGAGTCATTA
Found at i:56283 original size:31 final size:31
Alignment explanation
Indices: 56248--56323 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
56238 TTGCGAGTTT
*
56248 TCGAGTCGAACTCAATTTCAGAATTTTCGAA
1 TCGAGTCGAACTCAATTTCAGAATTTTCAAA
* *
56279 TCGAGTCGAACTTAATTTCATAATTTTCAAA
1 TCGAGTCGAACTCAATTTCAGAATTTTCAAA
*
56310 TCGAGTCGACCTCA
1 TCGAGTCGAACTCA
56324 GCAATATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (31 bp):
TCGAGTCGAACTCAATTTCAGAATTTTCAAA
Found at i:58796 original size:52 final size:49
Alignment explanation
Indices: 58740--58905 Score: 174
Period size: 49 Copynumber: 3.3 Consensus size: 49
58730 CTTATATCGA
* * *
58740 TGTAAGTGTGTGTTAAATACTGCATTTTTTTTATTTTATTTACTTACACCGG
1 TGTAAGTATGTGTTAAATACTACA--CTTTTT-TTTTATTTACTTACACCGG
* *
58792 TGTAAGTATGTGTTAAGTATTACACTTTTTTTTTATTTACTTACACCGG
1 TGTAAGTATGTGTTAAATACTACACTTTTTTTTTATTTACTTACACCGG
* * * * * *
58841 TGTAAGTATGTGTTAAGTGCAATACTTTTTATTTTATTCACTTACACCAG
1 TGTAAGTATGTGTTAAATACTACACTTTTT-TTTTATTTACTTACACCGG
58891 T-TAACG-ATGTGTTAA
1 TGTAA-GTATGTGTTAA
58906 GTTATACATT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
49 57 0.56
50 24 0.24
52 20 0.20
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (49 bp):
TGTAAGTATGTGTTAAATACTACACTTTTTTTTTATTTACTTACACCGG
Found at i:58843 original size:49 final size:49
Alignment explanation
Indices: 58767--58919 Score: 195
Period size: 49 Copynumber: 3.1 Consensus size: 49
58757 TACTGCATTT
58767 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTATTACAC
1 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGT-TTACAC
** *
58817 TTTTT-TTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTGCAATAC
1 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGT-TTACAC
* * *
58866 TTTTTATTTTATTCACTTACACCAGT-TAACG-ATGTGTTAAGTTATACAT
1 TTTTTATTTTATTTACTTACACCGGTGTAA-GTATGTGTTAAGTT-TACAC
58915 TTTTT
1 TTTTT
58920 GTAGTATGAC
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
49 66 0.73
50 24 0.27
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.49
Consensus pattern (49 bp):
TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTTTACAC
Found at i:59359 original size:2 final size:2
Alignment explanation
Indices: 59352--59388 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
59342 TCTTTCAATA
59352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59389 GATAGATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62109 original size:2 final size:2
Alignment explanation
Indices: 62102--62203 Score: 65
Period size: 2 Copynumber: 54.5 Consensus size: 2
62092 TCGGGCCAAG
* * * *
62102 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- 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
* * * * * *
62142 TA TT TT TA -A TT TA AA T- TA AA TT TA T- TA -A TA T- 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
62179 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
62204 TATTATTTTT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
1 7 0.09
2 68 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62782 original size:36 final size:38
Alignment explanation
Indices: 62703--62785 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
62693 TACTTTAAAA
* *
62703 TTTTGAATTAAATTGAATTCGAATAGAGAAAATATACT
1 TTTTAAATTAAATTGAAGTCGAATAGAGAAAATATACT
* ** *
62741 CTTTAAATT-AATTGAAGTCGAATAGAG-GTATATATT
1 TTTTAAATTAAATTGAAGTCGAATAGAGAAAATATACT
62777 TTTTAAATT
1 TTTTAAATT
62786 CGAATAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 14 0.37
37 17 0.45
38 7 0.18
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (38 bp):
TTTTAAATTAAATTGAAGTCGAATAGAGAAAATATACT
Found at i:67560 original size:28 final size:27
Alignment explanation
Indices: 67494--67570 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 27
67484 CGCTCAGGGT
* * *
67494 CCCCAAATTTTTGTATTTATAATTAGA
1 CCCCTAATTTTTATATTTTTAATTAGA
* **
67521 ACCCTCGTTTTTTATATTTTTAATTAAGA
1 CCCCT-AATTTTTATATTTTTAATT-AGA
*
67550 CCCCTAATTTTTATAATTTTA
1 CCCCTAATTTTTATATTTTTA
67571 TAAACTTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
27 3 0.08
28 28 0.74
29 7 0.18
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (27 bp):
CCCCTAATTTTTATATTTTTAATTAGA
Found at i:67754 original size:117 final size:120
Alignment explanation
Indices: 67528--67760 Score: 328
Period size: 117 Copynumber: 2.0 Consensus size: 120
67518 AGAACCCTCG
* * * * * *
67528 TTTTTTATATTTTTAATTAAGACCCCTAATTTTTATAATTTTATAAACTTTTTTAGTTTTTGGCC
1 TTTTTTATATTTATAATTAAGAACCCTAATTTTTATAATTTCATAAACATGTTTAGTTTTTGACC
*
67593 CTCTTTTTTCCATTACTATTATTAATTCATCCAATTTTAAATTAAATTTAACTAA
66 CTCTCTTTTCCATTACTATTATTAATTCATCCAATTTTAAATTAAATTTAACTAA
*
67648 TTTTTTATATTTAT-ATTTAGAACCCTAATTTTTATAATTTCATAAA-ATGTTTAGTTTTTGACC
1 TTTTTTATATTTATAATTAAGAACCCTAATTTTTATAATTTCATAAACATGTTTAGTTTTTGACC
* * * * *
67711 CTC-CTTTTCCATTTCTCTTATTTATTCATTCAATTTTGAATTAAATTTAA
66 CTCTCTTTTCCATTACTATTATTAATTCATCCAATTTTAAATTAAATTTAA
67761 TCATGTTTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
117 41 0.41
118 17 0.17
119 29 0.29
120 13 0.13
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (120 bp):
TTTTTTATATTTATAATTAAGAACCCTAATTTTTATAATTTCATAAACATGTTTAGTTTTTGACC
CTCTCTTTTCCATTACTATTATTAATTCATCCAATTTTAAATTAAATTTAACTAA
Found at i:71846 original size:14 final size:14
Alignment explanation
Indices: 71818--71884 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
71808 AAGAAGATAG
71818 TACATATATACATACA
1 TACATATAT--ATACA
71834 TACATATATATACA
1 TACATATATATACA
*
71848 TACATATATATATA
1 TACATATATATACA
* *
71862 TATATATATATATA
1 TACATATATATACA
*
71876 TATATATAT
1 TACATATAT
71885 CATTTTTAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 40 0.82
16 9 0.18
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (14 bp):
TACATATATATACA
Found at i:71858 original size:4 final size:4
Alignment explanation
Indices: 71821--71884 Score: 83
Period size: 4 Copynumber: 16.0 Consensus size: 4
71811 AAGATAGTAC
* * * * *
71821 ATAT ATAC ATAC ATAC ATAT ATAT ACAT ACAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
71869 ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT
71885 CATTTTTAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:71884 original size:18 final size:18
Alignment explanation
Indices: 71821--71881 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
71811 AAGATAGTAC
*
71821 ATATATACATACATACAT
1 ATATATACATACATATAT
71839 ATATATACATACATATAT
1 ATATATACATACATATAT
* *
71857 ATATATATATATATATAT
1 ATATATACATACATATAT
71875 ATATATA
1 ATATATA
71882 TATCATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATATACATACATATAT
Found at i:79205 original size:20 final size:20
Alignment explanation
Indices: 79159--79206 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
79149 TATGAGTTGT
*
79159 ATTTATGTAAGAAATGATGA
1 ATTTATTTAAGAAATGATGA
79179 ATTTATTTAAGAAATGATGA
1 ATTTATTTAAGAAATGATGA
79199 ATTTATTT
1 ATTTATTT
79207 CTGACTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTTATTTAAGAAATGATGA
Found at i:81233 original size:25 final size:24
Alignment explanation
Indices: 81184--81237 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
81174 AATGTTCCCG
*
81184 ATATATACATGAATAAAACATGTA
1 ATATATACATGAATAAAACAAGTA
*
81208 ATATGTACAT-AATATAATACAAGTA
1 ATATATACATGAATA-AA-ACAAGTA
81233 ATATA
1 ATATA
81238 AAATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.16
24 11 0.44
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (24 bp):
ATATATACATGAATAAAACAAGTA
Found at i:87789 original size:10 final size:11
Alignment explanation
Indices: 87766--87797 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
87756 GCTTTATTTG
87766 TTTAAAAATAA
1 TTTAAAAATAA
87777 TTTAAAAAT-A
1 TTTAAAAATAA
87787 TTT-AAAATAA
1 TTTAAAAATAA
87797 T
1 T
87798 AATAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 6 0.30
11 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:87857 original size:22 final size:21
Alignment explanation
Indices: 87798--87868 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
87788 TTAAAATAAT
* * *
87798 AATAAATTTAATATGTATAAA
1 AATAAATTTAATATTTTTTAA
*
87819 AATAAATTTATTATTTTTTAA
1 AATAAATTTAATATTTTTTAA
87840 AATAAATTTAATATTTTTTAA
1 AATAAATTTAATATTTTTTAA
*
87861 AATTAATT
1 AATAAATT
87869 GTATCGAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AATAAATTTAATATTTTTTAA
Found at i:88042 original size:24 final size:24
Alignment explanation
Indices: 88007--88065 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
87997 AAATATTAAA
*
88007 TAAAATAAAATTTATTAATTATAT
1 TAAAATAAAATTTAATAATTATAT
88031 TAAAA-AATAATTTAATAATTATAT
1 TAAAATAA-AATTTAATAATTATAT
88055 ATATAAATAAA
1 -TA-AAATAAA
88066 TATATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.07
24 20 0.67
25 2 0.07
26 4 0.13
27 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATAAAATTTAATAATTATAT
Found at i:88069 original size:16 final size:16
Alignment explanation
Indices: 88044--88075 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88034 AAAATAATTT
*
88044 AATAATTATATATATA
1 AATAAATATATATATA
88060 AATAAATATATATATA
1 AATAAATATATATATA
88076 TATATAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAATATATATATA
Found at i:88077 original size:24 final size:24
Alignment explanation
Indices: 87969--88081 Score: 67
Period size: 24 Copynumber: 4.6 Consensus size: 24
87959 ATAATTAATA
*
87969 ATATATATATATATATAATTTTAAAT
1 ATATATATATATATATAA--ATAAAT
* *
87995 ATAAATAT-TAAATA-AAATAAA-
1 ATATATATATATATATAAATAAAT
*
88016 ATTTAT-TA-ATTATATTAAA-AAAT
1 ATATATATATA-TATA-TAAATAAAT
*
88039 AATTTAATAATTATATATATAAATAAAT
1 -ATAT-AT-A-TATATATATAAATAAAT
88067 ATATATATATATATA
1 ATATATATATATATA
88082 AAGATAGTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
20 2 0.03
21 7 0.10
22 7 0.10
23 3 0.04
24 14 0.21
25 8 0.12
26 9 0.13
27 7 0.10
28 10 0.15
29 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATATATATATATAAATAAAT
Found at i:89173 original size:24 final size:25
Alignment explanation
Indices: 89120--89173 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
89110 ATATATATAT
* *
89120 TAAAATTAATAAAAAAACATTTCAA
1 TAAAATTAATAAAAAAACACTCCAA
* *
89145 CAAAATTAAT-AAAAAACCCTCCAA
1 TAAAATTAATAAAAAAACACTCCAA
89169 TAAAA
1 TAAAA
89174 GGTGCTGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAAATTAATAAAAAAACACTCCAA
Found at i:89794 original size:24 final size:24
Alignment explanation
Indices: 89760--89807 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
89750 CCCATACGAT
*
89760 ATATTTTCTAACATAAAATTTTAC
1 ATATTTCCTAACATAAAATTTTAC
89784 ATATTTCCTAACATAAAATTTTAC
1 ATATTTCCTAACATAAAATTTTAC
89808 GTTATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTCCTAACATAAAATTTTAC
Found at i:94510 original size:20 final size:20
Alignment explanation
Indices: 94480--94517 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
94470 CCGTCCCCGA
94480 ACCCGACCCG-AAATATTAT
1 ACCCGACCCGAAAATATTAT
94499 ACCCGAACCCGAAAATATT
1 ACCCG-ACCCGAAAATATT
94518 TTATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (20 bp):
ACCCGACCCGAAAATATTAT
Found at i:94556 original size:2 final size:2
Alignment explanation
Indices: 94547--94633 Score: 105
Period size: 2 Copynumber: 46.5 Consensus size: 2
94537 AAAATATAAA
* *
94547 AT AT -T AT AT AT A- AT -T A- AT AT A- AA AT AT AT AA AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
94583 TT 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
94625 AT AT AT AT A
1 AT AT AT AT A
94634 ATCGGGGCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
1 6 0.08
2 69 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94557 original size:32 final size:33
Alignment explanation
Indices: 94511--94629 Score: 132
Period size: 32 Copynumber: 3.5 Consensus size: 33
94501 CCGAACCCGA
*
94511 AAATATTTTATATATAATTAATATAAAAAATAT
1 AAATATATTATATATAATTAATATAAAAAATAT
*
94544 AAA-ATATTATATATAATTAATATAAAATATAT
1 AAATATATTATATATAATTAATATAAAAAATAT
* * *
94576 AAATATTTTATATATATATATATATATATATATATAT
1 AAATATATTATATATA-AT-TA-ATATA-AAAAATAT
*
94613 ATATATATATATATATA
1 AAATATAT-TATATATA
94630 TATAATCGGG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
32 30 0.41
33 14 0.19
34 2 0.03
35 2 0.03
36 5 0.07
37 13 0.18
38 8 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATATATTATATATAATTAATATAAAAAATAT
Found at i:96443 original size:95 final size:90
Alignment explanation
Indices: 96330--96512 Score: 267
Period size: 95 Copynumber: 2.0 Consensus size: 90
96320 TTAAACTACT
* * *
96330 ATAATACCAGCAAGCAAAATCACTAAGTTGTCGATTGAAACATCAATAATATTTACATACACAAA
1 ATAATACCAGCAAGCAAAATAACTAAGTTGTCGATTGAAACAGCAAT--GA--TACATACACAAA
96395 AATGGTAAGATTTCGTTTGAGAAAACAGCA
62 AATGGTAAGA-TTCGTTTGAGAAAACAGCA
* *
96425 ATAATACCAGCAAGCAAAATAACTAAGTTGTCGATTGAAACGGCAATGATACTTACACAAAAATG
1 ATAATACCAGCAAGCAAAATAACTAAGTTGTCGATTGAAACAGCAATGATACATACACAAAAATG
*
96490 GTAAGATTCGTTTGAGCAAACAG
66 GTAAGATTCGTTTGAGAAAACAG
96513 GTGTGCATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
90 16 0.20
91 21 0.26
93 1 0.01
95 44 0.54
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (90 bp):
ATAATACCAGCAAGCAAAATAACTAAGTTGTCGATTGAAACAGCAATGATACATACACAAAAATG
GTAAGATTCGTTTGAGAAAACAGCA
Found at i:99452 original size:181 final size:184
Alignment explanation
Indices: 99210--99558 Score: 548
Period size: 181 Copynumber: 1.9 Consensus size: 184
99200 ATTAAATTTT
* * *
99210 AAATTTTAAATATATTATATATAACATATGGTTCAGTCCAAACAATTTAAAACCAAATTAATAAT
1 AAATATTAAATATATTATATATAACATATGGCTAAGTCCAAACAATTTAAAACCAAATTAATAAT
*
99275 TTAAGA-TATAATAACTTTTAAACCTAAATCAATATTAATT-A-AAAAAATTATATAAAATTTTT
66 TTAAGACT-CAATAACTTTTAAACCTAAATCAATATTAATTAATAAAAAATTATATAAAATTTTT
*
99337 ATTTTATAA-T-TATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAAA
130 ATTTTATAATTATATATATTATTTAAATTAATTATAAATTGTTTTTTTAATTAAA
99390 AAATATTAAATATATTATATATAACATATGAGCTAAGTCCAAACAATTTAAAACTC-AATTAATA
1 AAATATTAAATATATTATATATAACATATG-GCTAAGTCCAAACAATTTAAAAC-CAAATTAATA
* *
99454 ATTTAAGACTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATCTGAAATTT
64 ATTTAAGACTCAATAACTTTTAAACCTAAATCAATATTAATTAA-TAAAAAATTATATAAAATTT
*
99519 TTATTTTATAATTATATATATTATTTAAATTTATTATAAA
128 TTATTTTATAATTATATATATTATTTAAATTAATTATAAA
99559 CTTTTTAAAA
Statistics
Matches: 153, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
180 29 0.19
181 68 0.44
182 3 0.02
184 28 0.18
185 1 0.01
186 24 0.16
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGCTAAGTCCAAACAATTTAAAACCAAATTAATAAT
TTAAGACTCAATAACTTTTAAACCTAAATCAATATTAATTAATAAAAAATTATATAAAATTTTTA
TTTTATAATTATATATATTATTTAAATTAATTATAAATTGTTTTTTTAATTAAA
Found at i:99725 original size:27 final size:30
Alignment explanation
Indices: 99672--99727 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
99662 TAATATTTTC
*
99672 GAAAAAAAATTCGGTTTGATTAACGGTTAAA
1 GAAAAAAAATTCGGTTTAATT-ACGGTTAAA
99703 GAAAAAAAA-TCGG-TTAATT-CGGTTA
1 GAAAAAAAATTCGGTTTAATTACGGTTA
99728 TGATTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
29 5 0.21
30 4 0.17
31 9 0.38
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (30 bp):
GAAAAAAAATTCGGTTTAATTACGGTTAAA
Found at i:100450 original size:31 final size:32
Alignment explanation
Indices: 100414--100504 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
100404 CATACATGAC
100414 GTTTACTTTTTGTTTCATTTTAGTACC-CATCT
1 GTTTACTTTTTGTTTCATTTTAGTACCTCAT-T
100446 -TTTACTTTTTGTTTCATTTTAGTACCTCATT
1 GTTTACTTTTTGTTTCATTTTAGTACCTCATT
*
100477 GTTAACTTTTTGTTTCATTTTAGTACCT
1 GTTTACTTTTTGTTTCATTTTAGTACCT
100505 AAATTTTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 27 0.48
32 29 0.52
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.58
Consensus pattern (32 bp):
GTTTACTTTTTGTTTCATTTTAGTACCTCATT
Found at i:101156 original size:94 final size:95
Alignment explanation
Indices: 101048--101234 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 95
101038 TACAATCCTT
* *
101048 TTTTTTCACATTTATAATTGAGGCTCCTATTTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
1 TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
* *
101113 CCCTTA-ATTTTTTTAATCTCACTTTCTTCC
66 CCCTTATA-TTTCTCAATCTCACTTTCTTCC
* *
101143 TTTTTT-ACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGG
1 TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
101207 CCCTTATGATTTCTCAATCTCACTTTCT
66 CCCTTAT-ATTTCTCAATCTCACTTTCT
101235 ATCTTTACAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
94 60 0.71
95 23 0.27
96 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.50
Consensus pattern (95 bp):
TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
CCCTTATATTTCTCAATCTCACTTTCTTCC
Found at i:101270 original size:44 final size:44
Alignment explanation
Indices: 100931--101462 Score: 316
Period size: 43 Copynumber: 12.2 Consensus size: 44
100921 TTTTTTCATT
* * * * *
100931 TTTATAATT-AGGCTCCTAA--TTTTTAAATTTTATTTTTTACC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
* * * * * * *
100972 TTTATAATTAATG-TTCTAACTTTATTCAATCTCACTTTTTATC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
* * ** * *
101015 TTTATAATTGGAGTCT-CTAA--TTTTACAATC-CTTTTTTTTCACA
1 TTTATAATT-GAGGCTCCTAAGTTTTTTCAATCTC-ACTTTCT-ACC
* * * *
101058 TTTATAATTGAGGCTCCT-A-TTTTTTTAATCCCACTTTTTAAC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
*
101100 TTTATAATTGAGGC-CCTTAA-TTTTTTTAATCTCACTTTCTTCCTTTTTTACC
1 TTTATAATTGAGGCTCC-TAAGTTTTTTCAATCTCAC--T-TT-C-----TACC
* * * * *
101152 TTTATAATTGAGGCCCCTAA-TTTTTT-AATCCCATTTTTTAAC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
* * * *
101194 TTTATAATTGAGGC-CCTTATGATTTCTCAATCTCACTTTCTATC
1 TTTATAATTGAGGCTCC-TAAGTTTTTTCAATCTCACTTTCTACC
* * *
101238 TTTACAATTAAGGCTCCTAAGTTTTTTCAATCTCAATTTCTACC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
* * * *
101282 TTTATAATTGAGACCCCTAA-TTTTTT-AATCTCACTTTTTTAAC
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCAC-TTTCTACC
* * *
101325 TTTATAATTGAGAC-CCTTCAGTTTTTTCAATCTCCCTTTCTACC
1 TTTATAATTGAGGCTCC-TAAGTTTTTTCAATCTCACTTTCTACC
* * *
101369 TTTATAATTGAGG-TCCCTAAGTTTTTTCAGTCTCA-ATTATACC
1 TTTATAATTGAGGCT-CCTAAGTTTTTTCAATCTCACTTTCTACC
* * * *
101412 TTTATAATTGAGGCTCCTAA-TTTTTT-TATCTCAATTTTTACA
1 TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
101454 TTTATAATT
1 TTTATAATT
101463 AAGTCCTTTA
Statistics
Matches: 390, Mismatches: 67, Indels: 67
0.74 0.13 0.13
Matches are distributed among these distances:
41 24 0.06
42 85 0.22
43 121 0.31
44 108 0.28
45 13 0.03
46 2 0.01
48 2 0.01
49 1 0.00
51 6 0.02
52 26 0.07
53 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.50
Consensus pattern (44 bp):
TTTATAATTGAGGCTCCTAAGTTTTTTCAATCTCACTTTCTACC
Found at i:101350 original size:87 final size:84
Alignment explanation
Indices: 101144--101462 Score: 309
Period size: 87 Copynumber: 3.7 Consensus size: 84
101134 CTTTCTTCCT
* * * * *
101144 TTTTTACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGGCC
1 TTTTTACCTTTATAATTGAGGCTCCTAATTTTTTAATCTCAATTTCTACCTTTATAATTGAGGCC
* * *
101209 CTTATGATTTCTCAATCTCAC
66 CCTA--ATTTTTTAATCTCAC
* * * * *
101230 TTTCTATCTTTACAATTAAGGCTCCTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGA
1 TTTTTACCTTTATAATTGAGGCTCCTAA-TTTTTT-AATCTCAATTTCTACCTTTATAATTGAGG
101295 CCCCTAATTTTTTAATCTCAC
64 CCCCTAATTTTTTAATCTCAC
* * * **
101316 TTTTTTAACTTTATAATTGAGAC-CCTTCAGTTTTTTCAATCTCCCTTTCTACCTTTATAATTGA
1 -TTTTTACCTTTATAATTGAGGCTCC-T-AATTTTTT-AATCTCAATTTCTACCTTTATAATTGA
* *
101380 GGTCCCTAAGTTTTTTCAGTCTCA-
62 GGCCCCTAA-TTTTTT-AATCTCAC
* * * * *
101404 ATTATACCTTTATAATTGAGGCTCCTAATTTTTTTATCTCAATTTTTACATTTATAATT
1 TTTTTACCTTTATAATTGAGGCTCCTAATTTTTTAATCTCAATTTCTACCTTTATAATT
101463 AAGTCCTTTA
Statistics
Matches: 191, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
85 20 0.10
86 45 0.24
87 82 0.43
88 38 0.20
89 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (84 bp):
TTTTTACCTTTATAATTGAGGCTCCTAATTTTTTAATCTCAATTTCTACCTTTATAATTGAGGCC
CCTAATTTTTTAATCTCAC
Found at i:101364 original size:131 final size:129
Alignment explanation
Indices: 101148--101462 Score: 438
Period size: 131 Copynumber: 2.4 Consensus size: 129
101138 CTTCCTTTTT
* *
101148 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGGCCCTTA
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAACTTTATAATTGAGACCCTTA
*
101213 TGATTTCTCAATCTCACTTTCTATCTTTACAATTAAGG-CTCCTAAGTTTTTTCAATCTCAATTT
66 TGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGTC-CCTAAGTTTTTTCAATCTCAA-TT
*
101277 C
129 A
*
101278 TACCTTTATAATTGAGACCCCTAATTTTTTAATCTCACTTTTTTAACTTTATAATTGAGACCCTT
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCA-TTTTTTAACTTTATAATTGAGACCCTT
* * * * * *
101343 CA-GTTTTTTCAATCTCCCTTTCTACCTTTATAATTGAGGTCCCTAAGTTTTTTCAGTCTCAATT
65 -ATGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGTCCCTAAGTTTTTTCAATCTCAATT
101407 A
129 A
* * *
101408 TACCTTTATAATTGAGGCTCCTAATTTTTTTATCTCAATTTTT-ACATTTATAATT
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAAC-TTTATAATT
101463 AAGTCCTTTA
Statistics
Matches: 166, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
128 2 0.01
129 14 0.08
130 71 0.43
131 77 0.46
132 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (129 bp):
TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAACTTTATAATTGAGACCCTTA
TGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGTCCCTAAGTTTTTTCAATCTCAATTA
Found at i:105381 original size:14 final size:15
Alignment explanation
Indices: 105362--105390 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
105352 TGTTAGGTTG
105362 GGCTGTGTTT-TATA
1 GGCTGTGTTTCTATA
105376 GGCTGTGTTTCTATA
1 GGCTGTGTTTCTATA
105391 TAGTCATCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.48
Consensus pattern (15 bp):
GGCTGTGTTTCTATA
Found at i:109662 original size:26 final size:26
Alignment explanation
Indices: 109632--109694 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
109622 TGCTTACAGG
109632 ACACATGCAAAGTTAGTTTACATCAA
1 ACACATGCAAAGTTAGTTTACATCAA
109658 ACACATGCAAAGTTAGTTTACATCAA
1 ACACATGCAAAGTTAGTTTACATCAA
109684 ACACATGCAAA
1 ACACATGCAAA
109695 AGAAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (26 bp):
ACACATGCAAAGTTAGTTTACATCAA
Done.