Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001035.1 Hibiscus syriacus cultivar Beakdansim tig00002058_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: 76286
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4424 original size:19 final size:19
Alignment explanation
Indices: 4400--4436 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4390 GAATGCTAGA
*
4400 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
4419 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
4437 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:4458 original size:8 final size:8
Alignment explanation
Indices: 4445--4478 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
4435 CATATAAAAA
4445 AAAAGAAG
1 AAAAGAAG
4453 AAAAGAAG
1 AAAAGAAG
*
4461 -AAAGAAA
1 AAAAGAAG
4468 AAAAGAAG
1 AAAAGAAG
4476 AAA
1 AAA
4479 GACTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:4465 original size:12 final size:11
Alignment explanation
Indices: 4442--4478 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
4432 CCCCATATAA
4442 AAAAAAAGAAG
1 AAAAAAAGAAG
*
4453 AAAAGAAGAAAG
1 AAAAAAAG-AAG
4465 AAAAAAAGAAG
1 AAAAAAAGAAG
4476 AAA
1 AAA
4479 GACTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:4486 original size:15 final size:15
Alignment explanation
Indices: 4446--4480 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4436 ATATAAAAAA
*
4446 AAAGAAGAAAAGAAG
1 AAAGAAAAAAAGAAG
4461 AAAGAAAAAAAGAAG
1 AAAGAAAAAAAGAAG
4476 AAAGA
1 AAAGA
4481 CTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGAAG
Found at i:5554 original size:21 final size:21
Alignment explanation
Indices: 5530--5574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5520 TTTTGTTCGT
* *
5530 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
5551 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
5572 TTG
1 TTG
5575 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:12106 original size:29 final size:29
Alignment explanation
Indices: 12073--12139 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
12063 TAACTGTGTC
12073 CATCTGGTTTTGGATTTAATAAGCTAAGT
1 CATCTGGTTTTGGATTTAATAAGCTAAGT
12102 CATCTGGTTTTGGATTTAATAAGCTAAGT
1 CATCTGGTTTTGGATTTAATAAGCTAAGT
*
12131 CATTTGGTT
1 CATCTGGTT
12140 ATTGAATTCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.43
Consensus pattern (29 bp):
CATCTGGTTTTGGATTTAATAAGCTAAGT
Found at i:13259 original size:21 final size:22
Alignment explanation
Indices: 13219--13270 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
13209 AAACTATTAT
13219 TATTATTTTCAAATGTTTAAAAA
1 TATT-TTTTCAAATGTTTAAAAA
*
13242 TATTTTTTCAAATG-TTAAAAC
1 TATTTTTTCAAATGTTTAAAAA
*
13263 TAATTTTT
1 TATTTTTT
13271 AAAAACAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 13 0.48
22 10 0.37
23 4 0.15
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (22 bp):
TATTTTTTCAAATGTTTAAAAA
Found at i:15685 original size:14 final size:15
Alignment explanation
Indices: 15666--15694 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15656 AATAAGAAAA
15666 ATATTTTT-TTAAAT
1 ATATTTTTATTAAAT
15680 ATATTTTTATTAAAT
1 ATATTTTTATTAAAT
15695 TAAGTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTATTAAAT
Found at i:16180 original size:16 final size:16
Alignment explanation
Indices: 16159--16195 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
16149 ATTTCCCCTA
*
16159 ACCCATGAAGTTTTTG
1 ACCCATGAAGCTTTTG
16175 ACCCATGAAGCTTTTG
1 ACCCATGAAGCTTTTG
16191 ACCCA
1 ACCCA
16196 AGTGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (16 bp):
ACCCATGAAGCTTTTG
Found at i:16429 original size:17 final size:17
Alignment explanation
Indices: 16385--16430 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
16375 TTGTTTCTTA
*
16385 TTCCTCTTCACTTTTTG
1 TTCCTCTTCATTTTTTG
16402 TTCCTCTTCATTTTTTG
1 TTCCTCTTCATTTTTTG
16419 TTCCTCTTCATT
1 TTCCTCTTCATT
16431 CAAGAGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.07, C:0.28, G:0.04, T:0.61
Consensus pattern (17 bp):
TTCCTCTTCATTTTTTG
Found at i:22543 original size:32 final size:33
Alignment explanation
Indices: 22447--22545 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
22437 AACTCAACAT
* * *
22447 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
22480 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
22513 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
22545 A
1 A
22546 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:22564 original size:21 final size:21
Alignment explanation
Indices: 22540--22581 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22530 ACTTCAAGTT
22540 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
22561 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
22582 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:24678 original size:17 final size:17
Alignment explanation
Indices: 24644--24701 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
24634 AATTTAAAAG
24644 AAAT-AAAAAATAATAA
1 AAATAAAAAAATAATAA
*
24660 AATTAAAAAAAT-ATAAA
1 AAATAAAAAAATAAT-AA
** *
24677 AAATAAATGAATAA-AT
1 AAATAAAAAAATAATAA
24693 AAATAAAAA
1 AAATAAAAA
24702 TGTAAATGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 13 0.41
17 18 0.56
18 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAAAAAAATAATAA
Found at i:24696 original size:16 final size:15
Alignment explanation
Indices: 24644--24699 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
24634 AATTTAAAAG
24644 AAATAAA-AAATAAT
1 AAATAAATAAATAAT
*
24658 AAAATTAAAAAAAT-AT
1 -AAA-TAAATAAATAAT
24674 AAA-AAATAAATGAAT
1 AAATAAATAAAT-AAT
24689 AAATAAATAAA
1 AAATAAATAAA
24700 AATGTAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.20
15 11 0.31
16 13 0.37
17 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:26555 original size:71 final size:71
Alignment explanation
Indices: 26438--26577 Score: 174
Period size: 71 Copynumber: 2.0 Consensus size: 71
26428 GAGCGTAGTC
* * * * *
26438 GAACTCAAAGGTCTTTGTTGGCGGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACGTGCC
1 GAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATACTACAAATGACATGCC
26503 CTCGAT
66 CTCGAT
* * * * *
26509 GAACTCGAAGGTCTTTGGTTGGTAGATAACCC-TCTCGACTTAAGTTATACTGCAAATGATATGC
1 GAACTCAAAGGTCTTT-GTTGGCAGATAACCCTTCTAGACTTAAGTTATACTACAAATGACATGC
26573 CCTCG
65 CCTCG
26578 GAGTTGAGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 45 0.78
72 13 0.22
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (71 bp):
GAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGACTTAAGTTATACTACAAATGACATGCC
CTCGAT
Found at i:26895 original size:106 final size:106
Alignment explanation
Indices: 26698--27495 Score: 1382
Period size: 106 Copynumber: 7.5 Consensus size: 106
26688 TCCTCCGTCG
* *
26698 TGAAGTTGA-AAGTTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * * *
26762 CTTGAGTCCAATATCCTCCGCTATGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
26803 TGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
26868 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
26909 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAATTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
**
26974 CTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
27015 TGAAATTGAGAAGCTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
27080 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
27121 TAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
27186 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
27227 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
27292 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
27333 TGAAATTGAGAAGTCGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
27398 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
27439 TAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
27496 CTGGCTTGAA
Statistics
Matches: 657, Mismatches: 35, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
105 8 0.01
106 649 0.99
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:30738 original size:19 final size:20
Alignment explanation
Indices: 30701--30745 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
30691 AGTTAATGTG
30701 AATGCAAAGAAAAATAACAA
1 AATGCAAAGAAAAATAACAA
30721 AATGCAAAGAAAAA-AACAA
1 AATGCAAAGAAAAATAACAA
30740 AATGCA
1 AATGCA
30746 TGATGCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.69, C:0.11, G:0.11, T:0.09
Consensus pattern (20 bp):
AATGCAAAGAAAAATAACAA
Found at i:33617 original size:24 final size:23
Alignment explanation
Indices: 33573--33617 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
33563 ATAAACAAAA
*
33573 AAAAATGAAAAATATATATTAAT
1 AAAAATGAAAAATATAAATTAAT
33596 AAAAAT-AAAAATAAATAAATTA
1 AAAAATGAAAAAT--ATAAATTA
33618 TAATGATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAATGAAAAATATAAATTAAT
Found at i:33619 original size:29 final size:29
Alignment explanation
Indices: 33569--33642 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
33559 ACCTATAAAC
* *
33569 AAAA-AAAAATGAAAAATATATATTAATA
1 AAAATAAAAATAAAAAATATATAATAATA
*
33597 AAAATAAAAATAAATAAAT-TATAATGATA
1 AAAATAAAAATAAA-AAATATATAATAATA
* *
33626 CAAATAAAAATATAAAA
1 AAAATAAAAATAAAAAA
33643 CCCGGTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 7 0.18
29 28 0.72
30 4 0.10
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (29 bp):
AAAATAAAAATAAAAAATATATAATAATA
Found at i:34175 original size:16 final size:16
Alignment explanation
Indices: 34154--34189 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34144 GTTGTGATGT
34154 TTCGAGGCCAATATCC
1 TTCGAGGCCAATATCC
34170 TTCGAGGCCAATATCC
1 TTCGAGGCCAATATCC
34186 TTCG
1 TTCG
34190 TTGTGAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (16 bp):
TTCGAGGCCAATATCC
Found at i:34548 original size:106 final size:106
Alignment explanation
Indices: 34418--34866 Score: 659
Period size: 106 Copynumber: 4.2 Consensus size: 106
34408 AGTATTGTTC
* * * **
34418 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTAGCTCTGGAACCGGGAAATTGTTTATTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAC
* * * *
34482 AACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
34524 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
*
34589 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
34630 GGAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGAC
*
34694 AACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
34736 GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
34801 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
34842 AGAGTCCAATATCCTTCGCTATGAA
1 CGAGTCCAATATCCTTCGCTGTGAA
34867 ATTGGGAAGT
Statistics
Matches: 313, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
105 1 0.00
106 310 0.99
107 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:34695 original size:212 final size:206
Alignment explanation
Indices: 34419--35071 Score: 898
Period size: 212 Copynumber: 3.2 Consensus size: 206
34409 GTATTGTTCC
*
34419 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTAGCTCTGGAACCGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATT-GCTCT--AA---GGAAGTTGTTTATTGACAA
* * * *
34484 CCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
60 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* *
34549 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
125 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
34614 TGAACCTGCGTTGTCTG
190 TGAACTTGCGTTGTCTG
* *
34631 GAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATT-GCTCT--AA--G-GAAGTTGTTTATTGACAA
* * * *
34696 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCACTGTGAA
60 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
34761 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
125 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
34826 TGAACTTGCGTTGTCTA
190 TGAACTTGCGTTGTCTG
*
34843 GAGTCCAATATCCTTCG-C-T--A--TGAAATTG------GGAAGTTGTTTATTGACAACCAGCG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGCTCTAAGGAAGTTGTTTATTGACAACCAGCG
*
34896 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAA
* *
34961 ATTGGCTCTGCAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
131 ATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
35026 TGCGTTGTCTG
196 TGCGTTGTCTG
* *
35037 GAGTGGCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGT--C-CAATATCCTCCGTCGTGAAGTTGAAAT
35072 CGCGGATGGC
Statistics
Matches: 401, Mismatches: 30, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
194 161 0.40
195 1 0.00
196 1 0.00
197 10 0.02
198 1 0.00
199 1 0.00
201 1 0.00
203 6 0.01
205 1 0.00
206 7 0.02
208 1 0.00
210 1 0.00
211 2 0.00
212 207 0.52
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (206 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGCTCTAAGGAAGTTGTTTATTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAA
ATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCGTTGTCTG
Found at i:34924 original size:88 final size:88
Alignment explanation
Indices: 34775--34954 Score: 342
Period size: 88 Copynumber: 2.0 Consensus size: 88
34765 AAATTGGCTC
34775 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
34840 CTAGAGTCCAATATCCTTCGCTA
66 CTAGAGTCCAATATCCTTCGCTA
34863 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
34928 CTTGAGTCCAATATCCTTCGCTG
66 CTAGAGTCCAATATCCTTCGCTA
34951 TGAA
1 TGAA
34955 GTTGAAATTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (88 bp):
TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTAGAGTCCAATATCCTTCGCTA
Found at i:34947 original size:43 final size:43
Alignment explanation
Indices: 34811--34960 Score: 112
Period size: 43 Copynumber: 3.4 Consensus size: 43
34801 ACCAGCGGTC
*
34811 CCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
1 CCTTCGCT-GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
* * * * ** ***
34854 CCTTCGCTATGAAATTGGGAAGTT--GTT-TATTGACAACCAGCGGT
1 CCTTCGCTGTGAAGTT--GAACTTGCGTTGTCTTGA-GTCCA-ATAT
34898 CCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
1 -CCTTCGCT-GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
34942 CCTTCGCTGTGAAGTTGAA
1 CCTTCGCTGTGAAGTTGAA
34961 ATTGGCTCTG
Statistics
Matches: 77, Mismatches: 19, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
42 4 0.05
43 40 0.52
44 5 0.06
45 23 0.30
46 5 0.06
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
CCTTCGCTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
Found at i:35007 original size:194 final size:194
Alignment explanation
Indices: 34671--35040 Score: 659
Period size: 194 Copynumber: 1.9 Consensus size: 194
34661 ATTGGCTCTA
*
34671 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
1 AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
*
34736 GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
66 GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
34801 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTATG
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTATG
* *
34865 AAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
* * * *
34930 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGCAATTGGGAAGTTATTTATTGACA
66 GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
*
34995 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
35041 GGCACGATAT
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 167 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (194 bp):
AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTATG
Found at i:36043 original size:26 final size:26
Alignment explanation
Indices: 35998--36069 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
35988 GTGTAAAAAC
* * *
35998 AAAAAATATATATATATAAACAAATTTA
1 AAAAAATATA-AAAAATAAA-AAAATTA
* *
36026 AAAGAA-ATAAAAATTAAAAAAATTA
1 AAAAAATATAAAAAATAAAAAAATTA
36051 AAAAAATATAAAAAATAAA
1 AAAAAATATAAAAAATAAA
36070 TGAATAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
25 11 0.31
26 17 0.47
27 3 0.08
28 5 0.14
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (26 bp):
AAAAAATATAAAAAATAAAAAAATTA
Found at i:36047 original size:10 final size:9
Alignment explanation
Indices: 36034--36065 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
36024 TAAAAGAAAT
36034 AAAAATTAA
1 AAAAATTAA
36043 AAAAATTAA
1 AAAAATTAA
36052 AAAAATATAA
1 AAAAAT-TAA
36062 AAAA
1 AAAA
36066 TAAATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAATTAA
Found at i:47229 original size:149 final size:149
Alignment explanation
Indices: 46970--47271 Score: 559
Period size: 149 Copynumber: 2.0 Consensus size: 149
46960 CGAAATGCCC
* * *
46970 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
47035 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
47100 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
47119 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
47184 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
47249 CATATGTCTCGAAGAACCG
131 CATATGTCCCGAAGAACCG
47268 CGTA
1 CGTA
47272 GACCCTCGAC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:48690 original size:21 final size:21
Alignment explanation
Indices: 48660--48704 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48650 ATTTTGTCGT
* *
48660 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
48681 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
48702 TTG
1 TTG
48705 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:52043 original size:149 final size:149
Alignment explanation
Indices: 51784--52085 Score: 550
Period size: 149 Copynumber: 2.0 Consensus size: 149
51774 CGAAATGCCC
* * *
51784 CGTATAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
51849 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
51914 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
51933 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
51998 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
* *
52063 CATATGTCTCGAAGAACTG
131 CATATGTCCCGAAGAACCG
52082 CGTA
1 CGTA
52086 GACCCTCGAC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (149 bp):
CGTAAAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:53507 original size:21 final size:21
Alignment explanation
Indices: 53477--53520 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53467 ATTTTGTCGT
* *
53477 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
53498 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
53519 TT
1 TT
53521 TCCCATAAAT
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:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:63402 original size:29 final size:29
Alignment explanation
Indices: 63352--63413 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
63342 AAAATGTCAA
* *
63352 AAATTAAAAAAATATATAAATT-TATTAT
1 AAATTAAAAAAATAGATAAATTCAATTAT
63380 AAATATAAAAAAATTAGAT-AATTCAATTAT
1 AAAT-TAAAAAAA-TAGATAAATTCAATTAT
63410 AAAT
1 AAAT
63414 GTGTGCTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 12 0.41
30 13 0.45
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AAATTAAAAAAATAGATAAATTCAATTAT
Found at i:64502 original size:50 final size:50
Alignment explanation
Indices: 64375--64568 Score: 230
Period size: 50 Copynumber: 3.9 Consensus size: 50
64365 AATTCATACT
* * * * *
64375 ACAAAAAAATGTAGCACTTAGCACATACTTACATCAGTGTAAATGAATAAA
1 ACAAAAAAGTGTAGCACTTAACACATAC-TACACCAGTATAAGTGAATAAA
* * *
64426 ATAAACAAGTGTAGCACTTAACACATACTTACACCAGTGTAAGTGAA-AAA
1 ACAAAAAAGTGTAGCACTTAACACATAC-TACACCAGTATAAGTGAATAAA
* * * *
64476 ACCAAAAAGTGTAGGACTTAACACATACTACTA-CGGTACAAGTGAATAAA
1 ACAAAAAAGTGTAGCACTTAACACATACTAC-ACCAGTATAAGTGAATAAA
*
64526 ACAAAAAAGTGTAGCACTTAACACATACTACACCGGTATAAGT
1 ACAAAAAAGTGTAGCACTTAACACATACTACACCAGTATAAGT
64569 AGGGGTGTGC
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 14 0.11
50 69 0.56
51 41 0.33
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (50 bp):
ACAAAAAAGTGTAGCACTTAACACATACTACACCAGTATAAGTGAATAAA
Found at i:64853 original size:2 final size:2
Alignment explanation
Indices: 64846--64877 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64836 TATATTTTAC
64846 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
64878 GTAATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65171 original size:51 final size:50
Alignment explanation
Indices: 65062--65159 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 50
65052 CACCCCTAGG
* *
65062 GTGTAAGTGAATAAAATAAAAAGTCTAGTACTTAACACATACTTACAACA
1 GTGTAAGTAAATAAAATAAAAAGTCTAGCACTTAACACATACTTACAACA
* *
65112 GTGTAAGTAAATAAACTAAAAAAGTGTAGCACTTAACACATACTTACA
1 GTGTAAGTAAATAAAAT-AAAAAGTCTAGCACTTAACACATACTTACA
65160 TCGATGTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 15 0.35
51 28 0.65
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (50 bp):
GTGTAAGTAAATAAAATAAAAAGTCTAGCACTTAACACATACTTACAACA
Found at i:65287 original size:12 final size:12
Alignment explanation
Indices: 65256--65280 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65246 AAAGAAATAA
65256 AAAATAAAAAAT
1 AAAATAAAAAAT
65268 AAAATAAAAAAT
1 AAAATAAAAAAT
65280 A
1 A
65281 TATTAAATTA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:69470 original size:11 final size:11
Alignment explanation
Indices: 69454--69482 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
69444 TCAATTGAGG
69454 TGAGTTTTTCA
1 TGAGTTTTTCA
69465 TGAG-TTTTCA
1 TGAGTTTTTCA
69475 TGAGTTTT
1 TGAGTTTT
69483 AGATTATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (11 bp):
TGAGTTTTTCA
Found at i:69551 original size:23 final size:25
Alignment explanation
Indices: 69525--69575 Score: 88
Period size: 23 Copynumber: 2.1 Consensus size: 25
69515 CCTTCCCCCA
69525 TTTTTTATTATTTTA-TTAA-TAAT
1 TTTTTTATTATTTTATTTAATTAAT
69548 TTTTTTATTATTTTATTTAATTAAT
1 TTTTTTATTATTTTATTTAATTAAT
69573 TTT
1 TTT
69576 GTATTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 15 0.58
24 4 0.15
25 7 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTTATTATTTTATTTAATTAAT
Found at i:69566 original size:12 final size:12
Alignment explanation
Indices: 69528--69566 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
69518 TCCCCCATTT
69528 TTTATTATTTTA
1 TTTATTATTTTA
* *
69540 TTAATAATTTT-
1 TTTATTATTTTA
69551 TTTATTATTTTA
1 TTTATTATTTTA
69563 TTTA
1 TTTA
69567 ATTAATTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:69580 original size:24 final size:22
Alignment explanation
Indices: 69524--69580 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
69514 GCCTTCCCCC
69524 ATTTTTTATTATTTTATTAATA
1 ATTTTTTATTATTTTATTAATA
69546 ATTTTTTTATTATTTTATTTAATTA
1 A-TTTTTTATTATTTTA-TTAA-TA
*
69571 ATTTTGTATT
1 ATTTTTTATT
69581 TAATAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.48
24 12 0.39
25 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTTTTATTATTTTATTAATA
Found at i:69589 original size:15 final size:15
Alignment explanation
Indices: 69558--69600 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
69548 TTTTTTATTA
69558 TTTTATTTAATTAAT
1 TTTTATTTAATTAAT
69573 TTTGTATTTAA-TAAT
1 TTT-TATTTAATTAAT
*
69588 TTTTATTTTATTA
1 TTTTATTTAATTA
69601 TAAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 12 0.48
16 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTATTTAATTAAT
Found at i:69829 original size:13 final size:13
Alignment explanation
Indices: 69803--69845 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
69793 AGGTACGTAC
*
69803 ATTTTTTAATTTTA
1 ATTTTTTTA-TTTA
69817 ATTTTTTTATTTA
1 ATTTTTTTATTTA
* *
69830 GTTTTTTTATATA
1 ATTTTTTTATTTA
69843 ATT
1 ATT
69846 AAACAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
ATTTTTTTATTTA
Found at i:69873 original size:16 final size:17
Alignment explanation
Indices: 69854--69893 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
69844 TTAAACAAAA
69854 AAATAAAAAAAAT-ATT
1 AAATAAAAAAAATAATT
*
69870 AAATAAAAAAATTAATT
1 AAATAAAAAAAATAATT
69887 -AATAAAA
1 AAATAAAA
69894 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAAAAAAATAATT
Found at i:70674 original size:23 final size:26
Alignment explanation
Indices: 70628--70674 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
70618 ATTTCCATTA
*
70628 TTATTATTATTTATTTCATTTATACT
1 TTATTATTATTTATTTCATATATACT
70654 TTATT-TT-TTTATTT-ATATATA
1 TTATTATTATTTATTTCATATATA
70675 TATATATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 2 0.10
26 5 0.25
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATTATTATTTATTTCATATATACT
Found at i:70743 original size:26 final size:27
Alignment explanation
Indices: 70722--70771 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
70712 TTTATTTCTG
*
70722 TTTTTTA-TTTATTAC-TATTATTATT
1 TTTTTTATTTTAATACTTATTATTATT
70747 TTTTTTATTTTAATACTTATTATTA
1 TTTTTTATTTTAATACTTATTATTA
70772 CTATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTATTTTAATACTTATTATTATT
Found at i:70766 original size:24 final size:24
Alignment explanation
Indices: 70722--70770 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
70712 TTTATTTCTG
*
70722 TTTTTTATTTATTACTATTATTATT
1 TTTTTTATTTAATAC-ATTATTATT
70747 TTTTTTATTTTAATAC-TTATTATT
1 TTTTTTA-TTTAATACATTATTATT
70771 ACTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 7 0.32
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTATTTAATACATTATTATT
Done.