Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 301 of 310
Found at i:99265442 original size:16 final size:16
Alignment explanation
Indices: 99265421--99265467 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
99265411 TTATTAAATT
99265421 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
99265437 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
99265452 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
99265468 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:99265489 original size:120 final size:120
Alignment explanation
Indices: 99265276--99265704 Score: 804
Period size: 120 Copynumber: 3.6 Consensus size: 120
99265266 NNNNNNNNNN
*
99265276 TAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
*
99265341 ATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
99265396 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
99265461 AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
*
99265516 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
*
99265581 ATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
*
99265636 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TT
99265701 AAAT
65 AAAT
99265705 ATGATTAAAT
Statistics
Matches: 303, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
120 298 0.98
121 5 0.02
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
AATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
Found at i:99265567 original size:15 final size:15
Alignment explanation
Indices: 99265532--99265583 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
99265522 TTAAGAATTT
*
99265532 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99265546 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99265560 TATTTAATAATAAT-
1 TATTTAATTATAATA
99265574 TATGTTAATT
1 TAT-TTAATT
99265584 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99265665 original size:61 final size:61
Alignment explanation
Indices: 99265360--99265667 Score: 264
Period size: 61 Copynumber: 5.1 Consensus size: 61
99265350 TTATAGTATC
*
99265360 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * *
99265421 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AAT
*
99265479 C
61 T
99265480 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
99265541 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
99265600 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
99265661 ATATATT
1 ATATATT
99265668 TTAATTATAA
Statistics
Matches: 186, Mismatches: 39, Indels: 44
0.69 0.14 0.16
Matches are distributed among these distances:
58 6 0.03
59 61 0.33
60 45 0.24
61 68 0.37
62 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:99265682 original size:16 final size:16
Alignment explanation
Indices: 99265661--99265702 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99265651 TTATTAAATT
*
99265661 ATATATTTTAATTATA
1 ATATATTTTAATAATA
99265677 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
99265692 AT-TATGTTTAA
1 ATATAT-TTTAA
99265703 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:99265687 original size:15 final size:15
Alignment explanation
Indices: 99265652--99265693 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99265642 TTAAGAATTT
*
99265652 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99265666 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99265680 TATTTAATAATAAT
1 TATTTAATTATAAT
99265694 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:99265940 original size:16 final size:16
Alignment explanation
Indices: 99265919--99265970 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
99265909 GATTTGCTAT
99265919 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
99265935 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
99265951 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
99265967 TACA
1 TACA
99265971 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:99279044 original size:21 final size:21
Alignment explanation
Indices: 99279020--99279076 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
99279010 TTTCCATCTT
*
99279020 CAACAACTTCTTCTTCTTCAG
1 CAACAACTTCTTCTTCTGCAG
99279041 CAACAACTT-TCTCTTCTGCAG
1 CAACAACTTCT-TCTTCTGCAG
*
99279062 CAGCAACTTTCTTCT
1 CAACAAC-TTCTTCT
99279077 CAACAACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 5 0.16
23 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (21 bp):
CAACAACTTCTTCTTCTGCAG
Found at i:99283664 original size:42 final size:42
Alignment explanation
Indices: 99283618--99283728 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
99283608 CATAGTTCAA
*
99283618 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAACCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAACCCAG
* *
99283660 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
* * *
99283702 CTATGGTATTACACGTAATCACATATC
1 CTATGGTCTTACACATATTCACATATC
99283729 ACACATCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
Found at i:99283911 original size:31 final size:31
Alignment explanation
Indices: 99283876--99284053 Score: 218
Period size: 31 Copynumber: 5.8 Consensus size: 31
99283866 CTTGTCACTT
* *
99283876 GTAGCCGAAGCTACTACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
99283907 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * * *
99283938 GTAGTTGGAGCTTCCACCTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
99283969 GTAGCCGGAA--TACCACTTTTCACT-ATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
99283998 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
99284029 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
99284054 TGTCATTTGT
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.02
29 10 0.08
30 26 0.21
31 84 0.67
32 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:99284133 original size:50 final size:51
Alignment explanation
Indices: 99284029--99284157 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
99284019 CACTGATCAG
* * * *
99284029 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
99284080 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
99284130 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
99284158 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:99289558 original size:17 final size:17
Alignment explanation
Indices: 99289536--99289577 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
99289526 CTTGCATACG
99289536 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
99289553 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
99289570 AGCTTACT
1 AGCTTACT
99289578 CCGTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (17 bp):
AGCTTACTAAGCTATAT
Found at i:99291140 original size:19 final size:19
Alignment explanation
Indices: 99291116--99291155 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
99291106 AGCTCCCATG
99291116 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
99291135 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
99291154 TA
1 TA
99291156 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:99297568 original size:32 final size:35
Alignment explanation
Indices: 99297532--99297595 Score: 98
Period size: 32 Copynumber: 1.9 Consensus size: 35
99297522 TGTTATCATA
99297532 GATCTTGCAAACA-A-AT-AACATAAAATATAGTT
1 GATCTTGCAAACATATATAAACATAAAATATAGTT
*
99297564 GATCTTGCAAACATATATAAACATATAATATA
1 GATCTTGCAAACATATATAAACATAAAATATA
99297596 TTTAACTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 1 0.04
34 2 0.07
35 12 0.43
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (35 bp):
GATCTTGCAAACATATATAAACATAAAATATAGTT
Found at i:99297757 original size:60 final size:60
Alignment explanation
Indices: 99297661--99297784 Score: 203
Period size: 60 Copynumber: 2.1 Consensus size: 60
99297651 TAAATTAATA
* *
99297661 GTCACCTAACTATTAGTAAATTTCTTTTTCGATCACCCAGCTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
* * *
99297721 GTCACCCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATGAAAAGTTTCAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
99297781 GTCA
1 GTCA
99297785 TCTAACCTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (60 bp):
GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
Found at i:99303314 original size:24 final size:24
Alignment explanation
Indices: 99303287--99303332 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
99303277 AGTTATGGCT
99303287 TTTTTTAATATT-TTAATATTTTTC
1 TTTTTTAATATTATTAA-ATTTTTC
*
99303311 TTTTTTAATGTTATTAAATTTT
1 TTTTTTAATATTATTAAATTTT
99303333 GGAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTTAATATTATTAAATTTTTC
Found at i:99305626 original size:3 final size:3
Alignment explanation
Indices: 99305618--99305645 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
99305608 AGCAAACCAG
99305618 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
99305646 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:99310508 original size:21 final size:21
Alignment explanation
Indices: 99310475--99310538 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 21
99310465 AAAATCCCTT
*
99310475 TATTTTAATATTAAATTAAATA
1 TATTTTGA-ATTAAATTAAATA
99310497 TATTTTGAATTAATTTATATAAATA
1 TATTTTGAATTAA---AT-TAAATA
99310522 TATTTTGAATTAAATTA
1 TATTTTGAATTAAATTA
99310539 TACACACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
24 2 0.05
25 19 0.51
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TATTTTGAATTAAATTAAATA
Found at i:99310521 original size:25 final size:25
Alignment explanation
Indices: 99310491--99310540 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99310481 AATATTAAAT
*
99310491 TAAATATATTTTGAATTAATTTATA
1 TAAATATATTTTGAATTAAATTATA
99310516 TAAATATATTTTGAATTAAATTATA
1 TAAATATATTTTGAATTAAATTATA
99310541 CACACTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
TAAATATATTTTGAATTAAATTATA
Found at i:99317408 original size:25 final size:26
Alignment explanation
Indices: 99317370--99317419 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
99317360 TACATTTTTG
*
99317370 TCAATTTAA-TTTTTATTTTTTAAGT
1 TCAATTTAACTTTTAATTTTTTAAGT
*
99317395 TCAATTTGACTTTTAAATTTTTTAA
1 TCAATTTAACTTTT-AATTTTTTAA
99317420 AAAAGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 4 0.19
27 9 0.43
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
TCAATTTAACTTTTAATTTTTTAAGT
Found at i:99332424 original size:25 final size:25
Alignment explanation
Indices: 99332396--99332473 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
99332386 ACCTTAGCGC
* **
99332396 GCTCTCTGATTATTAGCATGTTAGT
1 GCTCTCCGATTATTAGCACATTAGT
99332421 GCTCTCCGATTATTAGCACATTAGT
1 GCTCTCCGATTATTAGCACATTAGT
*
99332446 GCTCTCCG--T-TTAGCACATTTGT
1 GCTCTCCGATTATTAGCACATTAGT
99332468 GCTCTC
1 GCTCTC
99332474 TGTATAGCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 18 0.37
23 1 0.02
25 30 0.61
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (25 bp):
GCTCTCCGATTATTAGCACATTAGT
Found at i:99332461 original size:22 final size:22
Alignment explanation
Indices: 99332416--99332492 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
99332406 TATTAGCATG
99332416 TTAGTGCTCTCCGATTATTAGCACA
1 TTAGTGCTCTCCG--T-TTAGCACA
99332441 TTAGTGCTCTCCGTTTAGCACA
1 TTAGTGCTCTCCGTTTAGCACA
* * * *
99332463 TTTGTGCTCTCTGTATAGCACT
1 TTAGTGCTCTCCGTTTAGCACA
99332485 TTAGTGCT
1 TTAGTGCT
99332493 TTCTGTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 33 0.70
23 1 0.02
25 13 0.28
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGTGCTCTCCGTTTAGCACA
Found at i:99340605 original size:25 final size:25
Alignment explanation
Indices: 99340567--99340616 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99340557 TTTAAGAAAC
*
99340567 CGTTCAAGATTTTAGAAAAATCTTA
1 CGTTCAAGACTTTAGAAAAATCTTA
99340592 CGTTCAAGACTTTAGAAAAATCTTA
1 CGTTCAAGACTTTAGAAAAATCTTA
99340617 GTTTTAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (25 bp):
CGTTCAAGACTTTAGAAAAATCTTA
Found at i:99341448 original size:22 final size:20
Alignment explanation
Indices: 99341412--99341468 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
99341402 ATCAGCAATT
* *
99341412 TTTTTCATTAATATTTTTATGG
1 TTTTT-ATTATTATTTTTAT-A
99341434 TTATTTATTATTA-TTTTATA
1 TT-TTTATTATTATTTTTATA
99341454 TTTTTATTATTATTT
1 TTTTTATTATTATTT
99341469 AATTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 6 0.19
22 8 0.26
23 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTATTATTATTTTTATA
Found at i:99341475 original size:16 final size:18
Alignment explanation
Indices: 99341437--99341474 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
99341427 TTTATGGTTA
99341437 TTTATTATTATTTTATATT
1 TTTATTATTA-TTTATATT
99341456 TTTATTATTATTTA-ATT
1 TTTATTATTATTTATATT
99341473 TT
1 TT
99341475 AATAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATTATTTATATT
Found at i:99342790 original size:14 final size:14
Alignment explanation
Indices: 99342771--99342797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99342761 TAATATTTCT
99342771 AAATAAATCATCTC
1 AAATAAATCATCTC
99342785 AAATAAATCATCT
1 AAATAAATCATCT
99342798 TTACTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATCATCTC
Found at i:99344290 original size:26 final size:26
Alignment explanation
Indices: 99344242--99344292 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
99344232 TTGCAGTGGC
* * *
99344242 TGATTTGATCAATTCATTCTATTAAT
1 TGATTTGACCAACTAATTCTATTAAT
*
99344268 TGATTTGACCAACTAATTTTATTAA
1 TGATTTGACCAACTAATTCTATTAA
99344293 CTGTTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (26 bp):
TGATTTGACCAACTAATTCTATTAAT
Found at i:99348653 original size:20 final size:20
Alignment explanation
Indices: 99348628--99348667 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99348618 TCGCTTATTC
99348628 ATACAACACACCTCTCATTT
1 ATACAACACACCTCTCATTT
99348648 ATACAACACACCTCTCATTT
1 ATACAACACACCTCTCATTT
99348668 CCACACATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (20 bp):
ATACAACACACCTCTCATTT
Found at i:99351897 original size:22 final size:22
Alignment explanation
Indices: 99351855--99351898 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
99351845 GCAACTACTT
*
99351855 TAATTGCATTATTTAAGTATTA
1 TAATTGCATTATTCAAGTATTA
*
99351877 TAATT-CATTAATTCAATTATTA
1 TAATTGCATT-ATTCAAGTATTA
99351899 ACTTAGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTGCATTATTCAAGTATTA
Found at i:99352367 original size:12 final size:12
Alignment explanation
Indices: 99352350--99352374 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99352340 GGTGTTCATT
99352350 CGGTTAACCGAC
1 CGGTTAACCGAC
99352362 CGGTTAACCGAC
1 CGGTTAACCGAC
99352374 C
1 C
99352375 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:99355284 original size:14 final size:15
Alignment explanation
Indices: 99355256--99355284 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99355246 TACATATTAA
99355256 TAAAATTTATTAAAT
1 TAAAATTTATTAAAT
99355271 TAAAATTT-TTAAAT
1 TAAAATTTATTAAAT
99355285 ATACTAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTATTAAAT
Found at i:99359209 original size:328 final size:325
Alignment explanation
Indices: 99358561--99359216 Score: 800
Period size: 327 Copynumber: 2.0 Consensus size: 325
99358551 TGGAGGAACA
* * * *
99358561 TCCTATAGCTGACATCTCGAGTTCATCGACTGGCGATGAAACCATGAAAGAAAGCATAGAGGAAA
1 TCCTATAGCTGACATCTCGAGCTCATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAAA
* * * *
99358626 ATGAAAGCATCCCATTGAAGTTAACAGAAAATGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
66 ATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
* * * * *
99358691 ATTTGTTAATTTTTTTTTTACCATTGTTAGTTGCTAACTTAAACATTCAATGATTTACAGGCAAG
131 A-TTGTT-AGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAATGATTTACAGGCAAG
* *
99358756 CCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAGAACCTTAGTAGAAGGAAGTA
194 CCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAAGTA
* *
99358821 TTGATACTGCTGACCGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAA
259 TCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAA
99358886 GC
324 GC
* * * ** *
99358888 TCCTATATCTGACATCTCGAGCTCAAT-GATTAGTGATGAAACTTTGAAGGAAAGCAAAAAGGAA
1 TCCTATAGCTGACATCTCGAGCTC-ATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAA
* * * *
99358952 GATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATATAAATGAAAGTTGATTTGGGT
65 AATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAA----A-TTGAGC
** **
99359017 CCAAAAA-TG-T-GTTCTTTTTGACCATTGTTAGCTGCTAACTTGCACATCCAATCTTTTTACAG
125 CCAAAAATTGTTAGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAAT-GATTTACAG
* ** * * *
99359079 GCAAGCTCTTCATCT-GAGCTTGAGGACTCAAACAAGGATGCTGAAGAGAAAACCTTAGTAGAAG
189 GCAAGCCCTTCAT-TAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAG
* * ***
99359143 AAAGTATCGATGCTGCTGACAGGGAATCTGCACCGGCTGCAGTGGAACCAGAAGAGACAAAGCTA
253 AAAGTATCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTA
*
99359208 AAGGCAGC
318 AAGGAAGC
99359216 T
1 T
99359217 GAAGCAGATG
Statistics
Matches: 278, Mismatches: 43, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
327 133 0.48
328 129 0.46
329 2 0.01
330 2 0.01
331 1 0.00
332 11 0.04
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (325 bp):
TCCTATAGCTGACATCTCGAGCTCATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAAA
ATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
ATTGTTAGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAATGATTTACAGGCAAGCC
CTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAAGTATC
GATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAAGC
Found at i:99367368 original size:14 final size:14
Alignment explanation
Indices: 99367349--99367381 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
99367339 TACCGAATCG
99367349 GGCCAGTTCTTGCA
1 GGCCAGTTCTTGCA
*
99367363 GGCCAGTTCTTGCG
1 GGCCAGTTCTTGCA
99367377 GGCCA
1 GGCCA
99367382 AATGATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.33, T:0.24
Consensus pattern (14 bp):
GGCCAGTTCTTGCA
Found at i:99375942 original size:25 final size:25
Alignment explanation
Indices: 99375908--99375956 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
99375898 ACAACACTTT
99375908 GCCATTCTAGGAGTATTTAGGATGC
1 GCCATTCTAGGAGTATTTAGGATGC
99375933 GCCATTCTAGGAGTATTTAGGATG
1 GCCATTCTAGGAGTATTTAGGATG
99375957 TAGGTTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (25 bp):
GCCATTCTAGGAGTATTTAGGATGC
Found at i:99381826 original size:29 final size:28
Alignment explanation
Indices: 99381746--99381826 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 28
99381736 ACAATTTAAC
* *
99381746 CTAAATTTTAAAATATGAAAAAGTAAAAGTA
1 CTAAA-TTTCAAATAT--AAAAGTAAAAATA
* *
99381777 CTAAATTCCTAAAAATAAAAGTAAAAATA
1 CTAAATTTC-AAATATAAAAGTAAAAATA
99381806 CTAAATTTCAAATATATAAAG
1 CTAAATTTCAAATATA-AAAG
99381827 AGTTTAAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.14
29 24 0.57
30 2 0.05
31 10 0.24
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.28
Consensus pattern (28 bp):
CTAAATTTCAAATATAAAAGTAAAAATA
Found at i:99382342 original size:25 final size:25
Alignment explanation
Indices: 99382296--99382344 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
99382286 TATGGGATCG
*
99382296 CATGATGTGGGTTCGTACCACCATT
1 CATGATGTGGGTTCGCACCACCATT
* *
99382321 CATGATGTGGGTTTGCATCACCAT
1 CATGATGTGGGTTCGCACCACCAT
99382345 GTAGATGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (25 bp):
CATGATGTGGGTTCGCACCACCATT
Found at i:99407910 original size:38 final size:38
Alignment explanation
Indices: 99407866--99407939 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
99407856 ACTGATTTCG
99407866 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
1 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
99407904 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAA
1 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAA
99407940 GCAGTTACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.19
Consensus pattern (38 bp):
AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
Found at i:99412783 original size:56 final size:56
Alignment explanation
Indices: 99412697--99412816 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
99412687 ACAAGGGATG
99412697 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
99412753 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
99412809 ATGGGCAA
1 ATGGGCAA
99412817 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:99429483 original size:16 final size:15
Alignment explanation
Indices: 99429447--99429488 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
99429437 GGGTGAGGGG
99429447 TGTTACATCT-AACCA
1 TGTTA-ATCTAAACCA
*
99429462 TTTTAATCTAAATCCA
1 TGTTAATCTAAA-CCA
99429478 TGTTAATCTAA
1 TGTTAATCTAA
99429489 CATGCAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.26
16 13 0.57
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (15 bp):
TGTTAATCTAAACCA
Found at i:99430167 original size:41 final size:40
Alignment explanation
Indices: 99430021--99430232 Score: 201
Period size: 41 Copynumber: 5.1 Consensus size: 40
99430011 GCAAAAATTG
* ** *
99430021 TAAAACACAGAGCAATAGCGGCG-TTTTAGCAAAAAAGCCGC
1 TAAAAC-CAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
* * * * * *
99430062 TAAAAACTGAGCAATAGCAGCGTTTTTTTGTTAAAACGCCGC
1 TAAAACCAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGC
** *
99430104 TAAAAATAGAGCATTAGCGGCGCTTTTGGTAAGACGCCGC
1 TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
99430144 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-ACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
99430185 TAAAAAAACCAGAGCAGTAGTGGCGCTTTTGGTAAAACGCCAC
1 T---AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
99430228 TAAAA
1 TAAAA
99430233 GTTTTGTAAC
Statistics
Matches: 145, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
40 37 0.26
41 39 0.27
42 28 0.19
43 38 0.26
44 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (40 bp):
TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:99430210 original size:43 final size:41
Alignment explanation
Indices: 99430022--99430232 Score: 212
Period size: 43 Copynumber: 5.1 Consensus size: 41
99430012 CAAAAATTGT
* ** *
99430022 AAAACACAGAGCAATAGCGGCG-TTTTAGCAAAAAAGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTA
* * * * *
99430064 AAAA-CTGAGCAATAGCAGCGTTTTTTTGTTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGCTA
* *
99430106 AAAA-TAGAGCATTAGCGGCGCTTTTGGTAAGACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
99430146 AAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCT--A
* * *
99430189 AAAACCAGAGCAGTAGTGGCGCTTTTGGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
99430230 AAA
1 AAA
99430233 GTTTTGTAAC
Statistics
Matches: 144, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
40 34 0.24
41 37 0.26
42 32 0.22
43 41 0.28
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:99430675 original size:24 final size:24
Alignment explanation
Indices: 99430648--99430696 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
99430638 CGTATATTTG
99430648 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
99430672 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
99430696 T
1 T
99430697 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:99431038 original size:18 final size:19
Alignment explanation
Indices: 99431015--99431053 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
99431005 GATCTTTTTT
99431015 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
99431033 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
99431052 TA
1 TA
99431054 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:99435347 original size:15 final size:15
Alignment explanation
Indices: 99435327--99435360 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
99435317 TAATTTGATG
*
99435327 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
99435342 TTTGGATGTACCATT
1 TTTGGATGTACCATT
99435357 TTTG
1 TTTG
99435361 TTCATCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:99436710 original size:53 final size:53
Alignment explanation
Indices: 99436622--99436726 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
99436612 CTAAAGGTCG
* *
99436622 TGATCTTTAGTGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTTTAGT
1 TGATCTTTAGGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGT
* *
99436675 TGATCTTTAGCGGCGTTTGTGGGAAAA-CGCTGCTAAAGGTCATGATCTTTAG
1 TGATCTTTAG-GGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAG
99436727 CGGCTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
53 33 0.70
54 14 0.30
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (53 bp):
TGATCTTTAGGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGT
Found at i:99437264 original size:29 final size:29
Alignment explanation
Indices: 99437223--99437284 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
99437213 AACGAACCAA
99437223 AGGT-ATACCCTGTAGGTTGTCTGGGTGG
1 AGGTAATACCCTGTAGGTTGTCTGGGTGG
99437251 AGGTAATACCCTGTAGGTTGTCTGGGTGG
1 AGGTAATACCCTGTAGGTTGTCTGGGTGG
99437280 AGGTA
1 AGGTA
99437285 GAGATATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.18, C:0.13, G:0.39, T:0.31
Consensus pattern (29 bp):
AGGTAATACCCTGTAGGTTGTCTGGGTGG
Found at i:99438265 original size:26 final size:26
Alignment explanation
Indices: 99438235--99438297 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
99438225 TTTTATCCTA
99438235 GTAAAATTTTGACAATTGTACCCTTG
1 GTAAAATTTTGACAATTGTACCCTTG
* *
99438261 GTAAAATTTTGACACTTTTACCCTTG
1 GTAAAATTTTGACAATTGTACCCTTG
99438287 GTAAAATTTTG
1 GTAAAATTTTG
99438298 GTGATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
GTAAAATTTTGACAATTGTACCCTTG
Found at i:99438305 original size:26 final size:26
Alignment explanation
Indices: 99438235--99438321 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
99438225 TTTTATCCTA
*
99438235 GTAAAATTTT-GACAATTGTACCCTTG
1 GTAAAATTTTGGA-AATTTTACCCTTG
*
99438261 GTAAAATTTT-GACACTTTTACCCTTG
1 GTAAAATTTTGGA-AATTTTACCCTTG
** * **
99438287 GTAAAATTTTGGTGATTTTATCCTCA
1 GTAAAATTTTGGAAATTTTACCCTTG
99438313 GTAAAATTT
1 GTAAAATTT
99438322 CTAGAAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 51 0.98
27 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (26 bp):
GTAAAATTTTGGAAATTTTACCCTTG
Found at i:99440124 original size:21 final size:21
Alignment explanation
Indices: 99440100--99440141 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
99440090 AAGAGATAGT
99440100 GTTGAAATACATTTCTACATG
1 GTTGAAATACATTTCTACATG
99440121 GTTGAAATACATTTCTACATG
1 GTTGAAATACATTTCTACATG
99440142 TTAAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
GTTGAAATACATTTCTACATG
Found at i:99444519 original size:16 final size:16
Alignment explanation
Indices: 99444495--99444527 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
99444485 TGTATTGGGT
*
99444495 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
99444511 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
99444527 T
1 T
99444528 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:99444572 original size:45 final size:44
Alignment explanation
Indices: 99444506--99444600 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
99444496 GGATTAGAGG
* *
99444506 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
99444551 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
99444595 TGTAAT
1 TGTAAT
99444601 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:99444783 original size:18 final size:17
Alignment explanation
Indices: 99444762--99444796 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99444752 TTATTATTTA
*
99444762 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99444780 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99444797 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99444790 original size:28 final size:27
Alignment explanation
Indices: 99444720--99444792 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
99444710 TTTATTATCA
*
99444720 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
99444748 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
99444775 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
99444793 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:99444909 original size:144 final size:147
Alignment explanation
Indices: 99444681--99444952 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
99444671 ATGATTATTG
99444681 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
99444746 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
99444811 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
99444830 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
99444892 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
99444953 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:99444927 original size:18 final size:17
Alignment explanation
Indices: 99444906--99444940 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99444896 TTATTATTAA
*
99444906 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99444924 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99444941 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99444984 original size:54 final size:54
Alignment explanation
Indices: 99444926--99445104 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
99444916 ATTAAAATAT
*
99444926 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
99444980 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
99445043 TAT
53 -AC
*
99445046 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
99445100 ATAAT
1 ATAAT
99445105 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:99444986 original size:61 final size:61
Alignment explanation
Indices: 99444921--99445108 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
99444911 TTTTAATTAA
*
99444921 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
99444982 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
99445041 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
99445102 AATATAT
1 AATATAT
99445109 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:99445019 original size:120 final size:120
Alignment explanation
Indices: 99444889--99445111 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
99444879 ATCATATTTA
* *
99444889 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
99444954 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
99445009 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
99445074 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
99445112 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:99445047 original size:18 final size:17
Alignment explanation
Indices: 99445026--99445060 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99445016 TTATTATTAA
99445026 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
99445044 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
99445061 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:99445123 original size:17 final size:16
Alignment explanation
Indices: 99445101--99445147 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
99445091 ACTCAAATCA
99445101 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
99445118 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
99445132 TAAATATATGATTTAA
1 T-AATATATGATTTAA
99445148 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:99445148 original size:17 final size:17
Alignment explanation
Indices: 99445120--99445153 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99445110 ATTATAACTA
*
99445120 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
99445137 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
99445154 TTAAAATTAT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:99445296 original size:93 final size:92
Alignment explanation
Indices: 99445186--99445380 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
99445176 GATTATAGTT
* * *
99445186 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
99445249 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
99445279 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
99445344 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
99445371 TATGAATTTA
1 TATGAATTTA
99445381 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:99446795 original size:11 final size:11
Alignment explanation
Indices: 99446781--99446807 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
99446771 AAAAATCAAT
99446781 ACAAAAGTTTC
1 ACAAAAGTTTC
99446792 ACAAAAGTTTC
1 ACAAAAGTTTC
99446803 ACAAA
1 ACAAA
99446808 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:99455024 original size:26 final size:26
Alignment explanation
Indices: 99454995--99455102 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
99454985 TGGTACAAAT
99454995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
99455021 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99455047 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99455073 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99455099 TGAT
1 TGAT
99455103 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99458327 original size:27 final size:27
Alignment explanation
Indices: 99458297--99458474 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
99458287 ATATTGAGCC
* *
99458297 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
99458324 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
99458351 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
99458379 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
99458406 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
99458433 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
99458460 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99458475 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:99458436 original size:82 final size:81
Alignment explanation
Indices: 99458318--99458473 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
99458308 TGCTATATAA
* * *
99458318 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
99458383 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
99458400 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
99458464 CACTTAGTGC
65 CACTTAGTGC
99458474 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:99465477 original size:27 final size:27
Alignment explanation
Indices: 99465447--99465624 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
99465437 ATATTGAGCC
* *
99465447 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
99465474 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
99465501 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
99465529 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
99465556 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
99465583 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
99465610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99465625 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:99465559 original size:55 final size:54
Alignment explanation
Indices: 99465447--99465624 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
99465437 ATATTGAGCC
* * * * *
99465447 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
99465501 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
99465556 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
99465610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99465625 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:99466117 original size:12 final size:12
Alignment explanation
Indices: 99466100--99466125 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99466090 ATGGCATACT
99466100 TATGTATATATA
1 TATGTATATATA
99466112 TATGTATATATA
1 TATGTATATATA
99466124 TA
1 TA
99466126 NCGCAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:99473384 original size:25 final size:25
Alignment explanation
Indices: 99473313--99473384 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 25
99473303 TATGGCTCTT
* * **
99473313 ATGAGCTTCCCGTTATATA-CCCGG
1 ATGAGCTTCCTGTTATATAGCTCAC
* * *
99473337 ATAAGCTT-CTCGTTACATGGCTCAC
1 ATGAGCTTCCT-GTTATATAGCTCAC
99473362 ATGAGCTTCCTGTTATATAGCTC
1 ATGAGCTTCCTGTTATATAGCTC
99473385 GAGAGAGGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
23 1 0.03
24 13 0.37
25 19 0.54
26 2 0.06
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATATAGCTCAC
Found at i:99476569 original size:50 final size:49
Alignment explanation
Indices: 99476503--99476601 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 49
99476493 TGGCCATGTG
* *
99476503 GGCCACACGAGCTAGGCCAAATTAGGCATGTGGGCCACATAGGTGTGTT
1 GGCCACACGAGCTAGGCCAAATTAGGCATGTAGGCCACACAGGTGTGTT
* *
99476552 GGCCTACACGGGCTAGGCCAAATTAGTCATGTAGGCCACACAGGTGTGTT
1 GGCC-ACACGAGCTAGGCCAAATTAGGCATGTAGGCCACACAGGTGTGTT
99476602 AGCCCACATG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 4 0.09
50 41 0.91
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (49 bp):
GGCCACACGAGCTAGGCCAAATTAGGCATGTAGGCCACACAGGTGTGTT
Found at i:99488682 original size:37 final size:37
Alignment explanation
Indices: 99488632--99488705 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
99488622 GATCGATGTC
*
99488632 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
99488669 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
99488706 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:99511687 original size:42 final size:42
Alignment explanation
Indices: 99511623--99511706 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
99511613 AATAGAGTAT
*
99511623 AAGGGAATCGATCGATTATTAGTTCGTGGCATCGTCTTTCAA
1 AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTTCAA
*
99511665 AAGGGAATCGATCGATTGTTAGTGCGTGGCATCGTCTTTCAA
1 AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTTCAA
99511707 GTTTGTATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTTCAA
Found at i:99512212 original size:33 final size:32
Alignment explanation
Indices: 99512170--99512235 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
99512160 ATTCATTTAA
*
99512170 GCCTCTATAAAAGTGGTTAGAACACTCTTTCT
1 GCCTCTATAAAAGTGGTTAGAACACGCTTTCT
*
99512202 NGCCTCTATAAAAGTGTTTAGAACACGCTTTCT
1 -GCCTCTATAAAAGTGGTTAGAACACGCTTTCT
99512235 G
1 G
99512236 TGTAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.33
Consensus pattern (32 bp):
GCCTCTATAAAAGTGGTTAGAACACGCTTTCT
Found at i:99535504 original size:55 final size:55
Alignment explanation
Indices: 99535444--99535560 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
99535434 AACAGGTTCA
* * *
99535444 ACCACGGGTGTTCCACACGGGCGTGTCACACGCCCGTATTGTTTTGGTAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAGGCTCG
* ** * *
99535499 CCCACGATTCTTCCACACGGGCATGTCGCACGCCCGTGTTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAGGCTCG
99535554 ACCACGG
1 ACCACGG
99535561 TCATATCGCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (55 bp):
ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAGGCTCG
Found at i:99538959 original size:59 final size:59
Alignment explanation
Indices: 99538888--99539004 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
99538878 AAAAGAATTT
99538888 GGGAATTACTTTTGAGAAAAATCGATTGACTTAAGACAATACCTAAGGAAAAATCCACG
1 GGGAATTACTTTTGAGAAAAATCGATTGACTTAAGACAATACCTAAGGAAAAATCCACG
*
99538947 GGGAATTGCTTTTGAGAAAAATCGATTGACTTAAGACAATACCTAAGGAAAAATCCAC
1 GGGAATTACTTTTGAGAAAAATCGATTGACTTAAGACAATACCTAAGGAAAAATCCAC
99539005 ATAGACTTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (59 bp):
GGGAATTACTTTTGAGAAAAATCGATTGACTTAAGACAATACCTAAGGAAAAATCCACG
Found at i:99540866 original size:14 final size:14
Alignment explanation
Indices: 99540847--99540874 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99540837 AAACAATACC
99540847 CGCCTAAAACCTTA
1 CGCCTAAAACCTTA
99540861 CGCCTAAAACCTTA
1 CGCCTAAAACCTTA
99540875 TTTTGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (14 bp):
CGCCTAAAACCTTA
Found at i:99540941 original size:33 final size:32
Alignment explanation
Indices: 99540893--99540959 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
99540883 AGATTCACAG
* *
99540893 CAGGAATGAGTAGTATAAACTCCTCGAACCAC
1 CAGGAATAAGGAGTATAAACTCCTCGAACCAC
99540925 CNAGGAATAAGGAGTATAAACTCCTCGAACCAC
1 C-AGGAATAAGGAGTATAAACTCCTCGAACCAC
99540958 CA
1 CA
99540960 TGACCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.16
Consensus pattern (32 bp):
CAGGAATAAGGAGTATAAACTCCTCGAACCAC
Found at i:99545792 original size:20 final size:20
Alignment explanation
Indices: 99545745--99545792 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
99545735 GTATTAAGAG
99545745 AAATAAATAAAACAAAAACCA
1 AAATAAATAAAACAAAAA-CA
*
99545766 AAA-AAATAAAATAAAATA-A
1 AAATAAATAAAACAAAA-ACA
99545785 AAATAAAT
1 AAATAAAT
99545793 GGACTCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (20 bp):
AAATAAATAAAACAAAAACA
Found at i:99554127 original size:21 final size:21
Alignment explanation
Indices: 99554103--99554164 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
99554093 GGCATGTCCC
*
99554103 TTAGCCACACGATTGTGTGC-T
1 TTAGCCACACGATCGTGT-CTT
** *
99554124 TTAGTTACACGAACGTGTCTT
1 TTAGCCACACGATCGTGTCTT
99554145 TTAGCCACACGATCGTGTCT
1 TTAGCCACACGATCGTGTCT
99554165 CCTCTGCTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (21 bp):
TTAGCCACACGATCGTGTCTT
Found at i:99554279 original size:21 final size:21
Alignment explanation
Indices: 99554222--99554279 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
99554212 ACACGGTCTG
*
99554222 ACCACACAGTCGTGTATCTCA
1 ACCACACAGTCGTGTGTCTCA
* * * *
99554243 ATCACAAAGGCATGTGTCTCA
1 ACCACACAGTCGTGTGTCTCA
99554264 ACCACACAGTCGTGTG
1 ACCACACAGTCGTGTG
99554280 CTTCAGTCAC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (21 bp):
ACCACACAGTCGTGTGTCTCA
Found at i:99562058 original size:24 final size:26
Alignment explanation
Indices: 99562031--99562091 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
99562021 CATTAATACA
*
99562031 CCAACTTATAA-C-TATCCAAAA-TAG
1 CCAACTTATAATCATA-CCAAAACAAG
*
99562055 CCAACTCATAATCATACCAAAACAAG
1 CCAACTTATAATCATACCAAAACAAG
*
99562081 CCAACATATAA
1 CCAACTTATAA
99562092 GGCATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.20
Consensus pattern (26 bp):
CCAACTTATAATCATACCAAAACAAG
Found at i:99563808 original size:42 final size:42
Alignment explanation
Indices: 99563700--99563861 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 42
99563690 TTCAGATATA
* * *
99563700 TGATTTCGTGTAAGACCACGTTTGGGA-AGTTGGCACCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TTGGCATCGTATT
* *
99563741 TGAGATTTATGTGTAAAACCATGTCTGGGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
99563786 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC-GTATT
* * *
99563829 TGATTACATGTAAGACCATGTCTGGGACGTTGG
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGG
99563862 TATTGTACGA
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 42 0.42
44 25 0.25
45 5 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:99594709 original size:205 final size:205
Alignment explanation
Indices: 99594305--99594858 Score: 948
Period size: 206 Copynumber: 2.7 Consensus size: 205
99594295 GAATTCAACN
99594305 ATGCCAAATCATCTTAGATTTGCTTCAGCATAAACCGTGAAAGCCAAATCAGCTATGTCTTCGAT
1 ATGCCAAATCATCTTAGATTTGCTTCAGCATAAACCGTGAAAGCCAAATCAGCTATGTCTTCGAT
*
99594370 TTGTTCCTTGTAAGCACAAGGATGCCAAACCCTCTTGGATCTGCTTCAGTATAAACATCTGAAGG
66 TTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGG
* * * *
99594435 TTAGATCTGCTATGTATCTGCCCTCCGTTGAATATGGAGACGCCAAACTTCGATTTGTTCTTTGA
131 TTAGATCTGCTATGTATATGCCCTCCGTTCAAAATGGAGACGCCAAACTTCGATTTGTTCTCTGA
99594500 CAATACAGAG
196 CAATACAGAG
* *
99594510 ATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTGTTCGA
1 ATGCCAAATCATCTTAGATTTGCTTCAGCATAAAC-CGTGAAAGCCAAATCAGCTATGTCTTCGA
*
99594575 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAC
65 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAG
* * *
99594640 GTTAGATCTGCTATGTATATGCTCTCCG-TCAAAATGGAGATGCCAGACTTCGATTTGTTCTCTG
130 GTTAGATCTGCTATGTATATGCCCTCCGTTCAAAATGGAGACGCCAAACTTCGATTTGTTCTCTG
*
99594704 ACAATACAGAT
195 ACAATACAGAG
*
99594715 ATGCCAAATCATCTTAGATTTGCTTCAGCATAAACCGTGAAAACCAAATCAGCTATGTCTTCGAT
1 ATGCCAAATCATCTTAGATTTGCTTCAGCATAAACCGTGAAAGCCAAATCAGCTATGTCTTCGAT
* *
99594780 TTGTTCCTTGTAAGCACAAGGATGTCAAACCATCTTGGATTTGCTTCAGTATAAACATCTGAAGG
66 TTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGG
*
99594845 TTAGATCTGTTATG
131 TTAGATCTGCTATG
99594859 CTGCGGCCTA
Statistics
Matches: 329, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
204 103 0.31
205 109 0.33
206 117 0.36
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
ATGCCAAATCATCTTAGATTTGCTTCAGCATAAACCGTGAAAGCCAAATCAGCTATGTCTTCGAT
TTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGG
TTAGATCTGCTATGTATATGCCCTCCGTTCAAAATGGAGACGCCAAACTTCGATTTGTTCTCTGA
CAATACAGAG
Found at i:99599870 original size:14 final size:14
Alignment explanation
Indices: 99599851--99599879 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99599841 TGGCAATGCC
99599851 CCTTTCCCCATCAT
1 CCTTTCCCCATCAT
99599865 CCTTTCCCCATCAT
1 CCTTTCCCCATCAT
99599879 C
1 C
99599880 ATTTGCAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (14 bp):
CCTTTCCCCATCAT
Found at i:99611437 original size:33 final size:32
Alignment explanation
Indices: 99611364--99611448 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 32
99611354 GATATCTTTG
* *
99611364 GGTCGTATCCACCGCAGTACAGCACTCCTCCC
1 GGTCGTATCCACCGCAGTACACCACTCCTCCA
* *
99611396 GGCCCGTATCCACCGCAGTACTCCACTCCTCCTA
1 GG-TCGTATCCACCGCAGTACACCACTCCTCC-A
* *
99611430 GGTCGTATCTACCACAGTA
1 GGTCGTATCCACCGCAGTA
99611449 TGGCACTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 2 0.05
33 40 0.91
34 2 0.05
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.21
Consensus pattern (32 bp):
GGTCGTATCCACCGCAGTACACCACTCCTCCA
Found at i:99613600 original size:40 final size:40
Alignment explanation
Indices: 99613545--99613625 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
99613535 AAAATAACAA
*
99613545 TAAAAAATAATACATTTTTTTTCTTTCTTATCTTCTCCCT
1 TAAAAAATAATACATTTTCTTTCTTTCTTATCTTCTCCCT
99613585 TAAAAAATAATACATTTTCTTTCTTTCTTATCTTCTCCCT
1 TAAAAAATAATACATTTTCTTTCTTTCTTATCTTCTCCCT
99613625 T
1 T
99613626 TCTTGTTCTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (40 bp):
TAAAAAATAATACATTTTCTTTCTTTCTTATCTTCTCCCT
Found at i:99615189 original size:18 final size:19
Alignment explanation
Indices: 99615156--99615194 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
99615146 GGTACTCTAT
99615156 ATCCTTCTAAGATTTT-AA
1 ATCCTTCTAAGATTTTCAA
* *
99615174 ATCCTTCTAGGTTTTTCAA
1 ATCCTTCTAAGATTTTCAA
99615193 AT
1 AT
99615195 GAATTTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (19 bp):
ATCCTTCTAAGATTTTCAA
Found at i:99624290 original size:60 final size:59
Alignment explanation
Indices: 99624155--99624293 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
99624145 TTTAGTGTTA
* *
99624155 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
99624216 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
99624276 ATTGGGTCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
99624294 TAACACAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 49 0.72
61 13 0.19
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:99624329 original size:19 final size:20
Alignment explanation
Indices: 99624286--99624341 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
99624276 ATTGGGTCTT
99624286 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
99624306 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
99624325 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
99624342 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:99624390 original size:22 final size:22
Alignment explanation
Indices: 99624365--99624408 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99624355 TGCATGATAA
*
99624365 CTCCATCCAACCCTGCACTTCC
1 CTCCATCCAACCCTACACTTCC
* *
99624387 CTCCGTCCATCCCTACACTTCC
1 CTCCATCCAACCCTACACTTCC
99624409 TGTGGGGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.55, G:0.05, T:0.25
Consensus pattern (22 bp):
CTCCATCCAACCCTACACTTCC
Found at i:99627942 original size:16 final size:17
Alignment explanation
Indices: 99627921--99627953 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
99627911 CACATTGAAG
99627921 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
99627937 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
99627954 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:99628176 original size:48 final size:48
Alignment explanation
Indices: 99628122--99628218 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
99628112 AATCATGTTA
*
99628122 TTTCAAAAAAACAGTTAAGTATCAAACCTTCTTTGTCATGGCTTAAAG
1 TTTCAAAAAAACAGTTAAGTATCAAAACTTCTTTGTCATGGCTTAAAG
*
99628170 TTTCAAAAAAATAGTTAAGTATCAAAACTTCTTTGTCATGGCTTAAAG
1 TTTCAAAAAAACAGTTAAGTATCAAAACTTCTTTGTCATGGCTTAAAG
99628218 T
1 T
99628219 GAATGGATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (48 bp):
TTTCAAAAAAACAGTTAAGTATCAAAACTTCTTTGTCATGGCTTAAAG
Found at i:99628955 original size:60 final size:59
Alignment explanation
Indices: 99628820--99628958 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
99628810 TTTAGTGTTA
* * *
99628820 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCGGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
99628881 ACTGGGCCTAGCCCATATCAGTATCAATCGGGGCCATAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAATATCAATCGGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
99628941 ATTGGGTCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
99628959 TAACACAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 3 0.04
60 48 0.72
61 13 0.19
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAATATCAATCGGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:99628994 original size:19 final size:20
Alignment explanation
Indices: 99628951--99628994 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
99628941 ATTGGGTCTT
99628951 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
99628971 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
99628990 GCCCA
1 GCCCA
99628995 CAATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:99629343 original size:26 final size:25
Alignment explanation
Indices: 99629291--99629343 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
99629281 TTAGTCAAAA
* *
99629291 TTAACCCTAGGGGTATAACGGCCAT
1 TTAACCCTAGGGGTAAAACGGCAAT
*
99629316 TTAACACCTAGGGGTAAAACGGTAAT
1 TTAAC-CCTAGGGGTAAAACGGCAAT
99629342 TT
1 TT
99629344 TCATACTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (25 bp):
TTAACCCTAGGGGTAAAACGGCAAT
Found at i:99630293 original size:20 final size:20
Alignment explanation
Indices: 99630268--99630307 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99630258 CGTAAAATGA
*
99630268 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
99630288 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
99630308 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:99630297 original size:34 final size:35
Alignment explanation
Indices: 99630253--99630319 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
99630243 CAGTAAAATA
*
99630253 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
99630287 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
99630320 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:99630323 original size:14 final size:15
Alignment explanation
Indices: 99630247--99630323 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
99630237 GATTGCCAGT
* *
99630247 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
99630261 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
99630275 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
99630295 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
99630310 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
99630324 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:99639996 original size:27 final size:27
Alignment explanation
Indices: 99639966--99640021 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
99639956 AGGTTTAATG
99639966 TTAGATTAATAGTTTTTGTAAAGTGAT
1 TTAGATTAATAGTTTTTGTAAAGTGAT
99639993 TTAGATTAATAGTTTTTGTAAAGTGAT
1 TTAGATTAATAGTTTTTGTAAAGTGAT
99640020 TT
1 TT
99640022 TTGAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (27 bp):
TTAGATTAATAGTTTTTGTAAAGTGAT
Found at i:99643845 original size:93 final size:93
Alignment explanation
Indices: 99643737--99643907 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
99643727 GCCCCTAAGT
* *
99643737 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
99643802 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
99643830 GAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
99643895 CGAGTTCGGATGC
66 CGAGTTCGGATGC
99643908 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:99643904 original size:46 final size:46
Alignment explanation
Indices: 99643732--99643904 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
99643722 AACCCGCCCC
* * * *
99643732 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
99643778 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * * *
99643826 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
99643871 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
99643905 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:99649895 original size:41 final size:41
Alignment explanation
Indices: 99649833--99649913 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
99649823 TAAAAGTCTA
*
99649833 AATATCTCATAAAATATAATTTATATTCCTGTTTTGTTCAG
1 AATATCTCATAAAATACAATTTATATTCCTGTTTTGTTCAG
99649874 AATATCTCATAAAATACAATTTATATTCCTGTTTTGTTCA
1 AATATCTCATAAAATACAATTTATATTCCTGTTTTGTTCA
99649914 ATCCATATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.46
Consensus pattern (41 bp):
AATATCTCATAAAATACAATTTATATTCCTGTTTTGTTCAG
Found at i:99651254 original size:30 final size:30
Alignment explanation
Indices: 99651220--99651279 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
99651210 ATTTAATACG
*
99651220 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** *
99651250 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
99651280 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:99657723 original size:19 final size:20
Alignment explanation
Indices: 99657699--99657736 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
99657689 GGTACCACCA
99657699 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
99657718 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
99657737 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:99658032 original size:46 final size:46
Alignment explanation
Indices: 99657965--99658362 Score: 580
Period size: 46 Copynumber: 8.7 Consensus size: 46
99657955 CGCCCCTAAG
* * *
99657965 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658011 TGAACTCGGACTCAACACAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658057 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658103 TGAACTCGGACTCAACACAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658149 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658195 TGAACTCGGACTCAACACAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658241 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
99658287 TGAACTCGGACTCAACACAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
99658333 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
99658363 TGCTCAACCA
Statistics
Matches: 309, Mismatches: 43, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 309 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:99658118 original size:92 final size:92
Alignment explanation
Indices: 99657961--99658361 Score: 793
Period size: 92 Copynumber: 4.4 Consensus size: 92
99657951 AACCCGCCCC
99657961 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
99658026 CACAACGAGTTCGGACATTTGCATCCA
66 CACAACGAGTTCGGACATTTGCATCCA
99658053 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
99658118 CACAACGAGTTCGGACATTTGCATCCA
66 CACAACGAGTTCGGACATTTGCATCCA
99658145 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
99658210 CACAACGAGTTCGGACATTTGCATCCA
66 CACAACGAGTTCGGACATTTGCATCCA
99658237 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
99658302 CACAACGAGTTCGGACATTTGCATCCA
66 CACAACGAGTTCGGACATTTGCATCCA
*
99658329 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
99658362 ATGCTCAACC
Statistics
Matches: 308, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 308 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (92 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAA
CACAACGAGTTCGGACATTTGCATCCA
Found at i:99665699 original size:46 final size:47
Alignment explanation
Indices: 99665548--99665719 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 47
99665538 AACCCGCCCG
* * *
99665548 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * * * *
99665594 TAAATGAACTCGGACTCAACTCAAAGAGTTCAGATGCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GC-ATTTGCATCCA
* *
99665641 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
*
99665686 TAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
99665720 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 83 0.80
47 4 0.04
48 3 0.03
49 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:99665715 original size:92 final size:92
Alignment explanation
Indices: 99665553--99665723 Score: 263
Period size: 92 Copynumber: 1.9 Consensus size: 92
99665543 GCCCGTAAGT
* *
99665553 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAAATCGGACTCAACTCAA
99665618 AGAGTTCAGATGCTAGTTACATCTCAC
66 AGAGTTCAGATGCTAGTTACATCTCAC
* * *
99665645 GAACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCATAAGTGAAATCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAATGAAATCGGACTCAACTCA
* *
99665709 ACGAGTTCGGATGCT
65 AAGAGTTCAGATGCT
99665724 CAACCATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
91 1 0.01
92 70 0.99
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAAATCGGACTCAACTCAA
AGAGTTCAGATGCTAGTTACATCTCAC
Found at i:99666175 original size:30 final size:30
Alignment explanation
Indices: 99666141--99666201 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
99666131 CATTTAATAC
*
99666141 AAACTTTAATAAAATTACACTTTTGCCCCT
1 AAACTTTAACAAAATTACACTTTTGCCCCT
** *
99666171 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTAACAAAATTACACTTTTGCCCCT
99666201 A
1 A
99666202 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTAACAAAATTACACTTTTGCCCCT
Found at i:99666962 original size:23 final size:23
Alignment explanation
Indices: 99666936--99666980 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
99666926 CATAGACCTT
*
99666936 AAAATGATAATAAAATAATTATC
1 AAAATCATAATAAAATAATTATC
**
99666959 AAAATCATTGTAAAATAATTAT
1 AAAATCATAATAAAATAATTAT
99666981 TTCTATCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATCATAATAAAATAATTATC
Found at i:99667166 original size:12 final size:12
Alignment explanation
Indices: 99667149--99667173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99667139 AAATTAAATT
99667149 TATTCAATCAAA
1 TATTCAATCAAA
99667161 TATTCAATCAAA
1 TATTCAATCAAA
99667173 T
1 T
99667174 TCATCCAAAA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTCAATCAAA
Found at i:99685756 original size:40 final size:40
Alignment explanation
Indices: 99685701--99685896 Score: 322
Period size: 40 Copynumber: 4.9 Consensus size: 40
99685691 NNNNNNNNNN
99685701 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
*
99685741 AGTTGATATATCCGGGCTAAGACCCGAAGGTAATTGTGCA
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
*
99685781 AGTTGATATATCCGGGCTAAGACCCGAAGGTAATTGTGCA
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
*
99685821 AGTTGATATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCG
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA
* * *
99685861 AGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTG
99685897 AGCTTGTGGT
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.96
41 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
Found at i:99685914 original size:120 final size:119
Alignment explanation
Indices: 99685701--99685919 Score: 323
Period size: 120 Copynumber: 1.8 Consensus size: 119
99685691 NNNNNNNNNN
*
99685701 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATACCCGGGCTAAGACCC
* * *
99685766 GAAGGTAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGTAATTGTGCA
66 GAAGGCAATTGAGCAAGTGGATATATCC-GGCTAAGACCCGAAGGTAATTGTGCA
* * *
99685821 AGTTGATATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTATACCCGGGTTAAGACC
1 AGTTGATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGATATACCCGGGCTAAGACC
** *
99685885 CGAAGGCAATTGAGCTTGTGGTTATATCCGGCTAA
65 CGAAGGCAATTGAGCAAGTGGATATATCCGGCTAA
99685920 ATTCCGAAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 9 0.10
120 79 0.90
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (119 bp):
AGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATACCCGGGCTAAGACCC
GAAGGCAATTGAGCAAGTGGATATATCCGGCTAAGACCCGAAGGTAATTGTGCA
Found at i:99688292 original size:14 final size:14
Alignment explanation
Indices: 99688273--99688307 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
99688263 GTACTCGCAT
99688273 AAATGGCTTCCTTC
1 AAATGGCTTCCTTC
*
99688287 AAATGGCTTCTTTC
1 AAATGGCTTCCTTC
99688301 AAATGGC
1 AAATGGC
99688308 CACGTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (14 bp):
AAATGGCTTCCTTC
Found at i:99692428 original size:42 final size:40
Alignment explanation
Indices: 99692340--99692509 Score: 277
Period size: 40 Copynumber: 4.2 Consensus size: 40
99692330 GCTCTCGATA
*
99692340 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
99692380 TAATATATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
99692420 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
99692460 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
99692502 TACTATAT
1 TAATATAT
99692510 CCGGACTTAG
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 82 0.68
41 2 0.02
42 37 0.31
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:99692449 original size:80 final size:82
Alignment explanation
Indices: 99692340--99692509 Score: 281
Period size: 82 Copynumber: 2.1 Consensus size: 82
99692330 GCTCTCGATA
99692340 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGT-A-ATATATATCCGAGTTAAATCC
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
*
99692403 CGCAGGCTTCGTGCTGG
66 CGCAGGCTTAGTGCTGG
* * *
99692420 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCC
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
99692485 CGCAGGCTTAGTGCTGG
66 CGCAGGCTTAGTGCTGG
*
99692502 TACTATAT
1 TAATATAT
99692510 CCGGACTTAG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 39 0.47
81 1 0.01
82 43 0.52
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (82 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
CGCAGGCTTAGTGCTGG
Found at i:99692528 original size:82 final size:80
Alignment explanation
Indices: 99692340--99692543 Score: 259
Period size: 82 Copynumber: 2.5 Consensus size: 80
99692330 GCTCTCGATA
*
99692340 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
1 TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
*
99692405 CAGGCTTCGTGCTGG
66 CAGGCTTAGTGCTGG
* * * *
99692420 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCC
1 TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGT-A-ATATATATCCGAGTTAAATCC
99692485 CGCAGGCTTAGTGCTGG
64 CGCAGGCTTAGTGCTGG
* * * * *
99692502 T-A-CTATATCCGGACTTAGAGTTCCGCAGGCTTTGAGCTAGTA
1 TAATATATATCCGG-CTTA-AATCCCGCAGGCTTCGTGCTAGTA
99692544 CCTGGATTCG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 47 0.44
81 6 0.06
82 55 0.51
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (80 bp):
TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
CAGGCTTAGTGCTGG
Found at i:99695891 original size:29 final size:27
Alignment explanation
Indices: 99695873--99695942 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
99695863 ATATTAAGTC
99695873 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
99695900 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
99695928 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
99695943 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:99695936 original size:28 final size:28
Alignment explanation
Indices: 99695873--99695970 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
99695863 ATATTAAGTC
*
99695873 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
99695900 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
99695928 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
99695957 CGCACACTTAGTGC
1 CGCACACTTAGTGC
99695971 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.