Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 273 of 279
Found at i:89281013 original size:60 final size:60
Alignment explanation
Indices: 89280886--89281024 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
89280876 ATCAGAGTTA
* * * *
89280886 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGGGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAGCCCATTACAG-ATCAGGATAT
* *
89280947 ACTGGGCC-TAGCCCATATCAGTATCAATATGGGCCGTAGCCCTATTACA-AGTC-GAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAGCCC-ATTACAGA-TCAG-GATAT
*
89281007 ATTGGGCCTTA-CCCATAT
1 ACTGGGCCTTAGCCCATAT
89281025 TAACACAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
59 2 0.03
60 50 0.75
61 15 0.22
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAGCCCATTACAGATCAGGATAT
Found at i:89284031 original size:22 final size:21
Alignment explanation
Indices: 89284001--89284047 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
89283991 TATAAATTAA
89284001 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
89284023 ATCTTCAAGATTTCATATCAT
1 ATCTCCAAGATTACAGATCAT
89284044 ATCT
1 ATCT
89284048 AAGAGTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:89284058 original size:19 final size:19
Alignment explanation
Indices: 89284018--89284113 Score: 128
Period size: 17 Copynumber: 5.2 Consensus size: 19
89284008 AGATTACAAG
*
89284018 ATCATATCTTCAAGATTTCAT
1 ATCATATC-T-AAGATTGCAT
*
89284039 ATCATATCTAAGAGTGCAT
1 ATCATATCTAAGATTGCAT
89284058 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
89284075 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89284094 ATC--ATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89284111 ATC
1 ATC
89284114 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
17 34 0.49
19 27 0.39
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:89284082 original size:36 final size:34
Alignment explanation
Indices: 89284038--89284107 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 34
89284028 CAAGATTTCA
89284038 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATC--ATCTAAGATTG
*
89284074 TATCATATCTAAGATTGCATATCATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATCTAAGATTG
89284108 CATATCCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 11 0.33
36 22 0.67
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (34 bp):
TATCATATCTAAGAGTGCATATCATCTAAGATTG
Found at i:89285419 original size:17 final size:17
Alignment explanation
Indices: 89285397--89285433 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
89285387 GCCTCTGACG
89285397 ACCCTGCAGCACCGACC
1 ACCCTGCAGCACCGACC
89285414 ACCCTGCAGCACCGACC
1 ACCCTGCAGCACCGACC
89285431 ACC
1 ACC
89285434 AACTCGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.54, G:0.16, T:0.05
Consensus pattern (17 bp):
ACCCTGCAGCACCGACC
Found at i:89286405 original size:16 final size:17
Alignment explanation
Indices: 89286384--89286417 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
89286374 ATATTATGTA
89286384 TACTATTA-TATTTTAT
1 TACTATTATTATTTTAT
89286400 TACTATTATTATTTTAT
1 TACTATTATTATTTTAT
89286417 T
1 T
89286418 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TACTATTATTATTTTAT
Found at i:89286412 original size:22 final size:19
Alignment explanation
Indices: 89286387--89286429 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
89286377 TTATGTATAC
89286387 TATTATATTTTATTACTATTAT
1 TATTATA-TTTATTA-T-TTAT
*
89286409 TATTTTATTTATTATTTAT
1 TATTATATTTATTATTTAT
89286428 TA
1 TA
89286430 GCATTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 7 0.35
22 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATATTTATTATTTAT
Found at i:89286992 original size:27 final size:26
Alignment explanation
Indices: 89286961--89287026 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
89286951 TTTTTAATAC
*
89286961 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TAAATATTGATG
*
89286988 TATATTCTTAATACTAAATATTGTATG
1 TATATTTTTAATACTAAATATTG-ATG
89287015 TAT-TTTTTAATA
1 TATATTTTTAATA
89287027 ACTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.24
26 9 0.26
27 17 0.50
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (26 bp):
TATATTTTTAATACTAAATATTGATG
Found at i:89287030 original size:27 final size:27
Alignment explanation
Indices: 89286961--89287044 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 27
89286951 TTTTTAATAC
*
89286961 TATATTTTTAATACCATATATATTG--TG
1 TATATTTTTAATAAC-TA-ATATTGTATG
*
89286988 TATATTCTTAAT-ACTAAATATTGTATG
1 TATATTTTTAATAACT-AATATTGTATG
*
89287015 TAT-TTTTTAATAACT-ATATTATATG
1 TATATTTTTAATAACTAATATTGTATG
89287040 TATAT
1 TATAT
89287045 ATATTATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
25 19 0.40
26 10 0.21
27 19 0.40
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (27 bp):
TATATTTTTAATAACTAATATTGTATG
Found at i:89288761 original size:16 final size:17
Alignment explanation
Indices: 89288740--89288773 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
89288730 TTATATTATA
89288740 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
89288756 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
89288773 T
1 T
89288774 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:89288771 original size:17 final size:16
Alignment explanation
Indices: 89288740--89288828 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 16
89288730 TTATATTATA
*
89288740 TATTATAAAATTATTT
1 TATTATAATATTATTT
89288756 TATTATAAGTATTATTTT
1 TATTATAA-TATTA-TTT
89288774 TAATTAT-ATATTATTAT
1 T-ATTATAATATTATT-T
89288791 TACTTATTATATATTATTTT
1 TA-TTA-TA-ATATTA-TTT
*
89288811 TCTTA-AATTATTATTT
1 TATTATAA-TATTATTT
89288827 TA
1 TA
89288829 CATCTCTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
16 16 0.27
17 20 0.33
18 6 0.10
19 8 0.13
20 8 0.13
21 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTATAATATTATTT
Found at i:89288790 original size:20 final size:20
Alignment explanation
Indices: 89288728--89288825 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 20
89288718 CTAATTTTAC
*
89288728 TTTTATATTATATATTATAAAAT
1 TTTTA-ATTATATATTAT--TAT
* *
89288751 TATTTTATTATA-AGTATTAT
1 T-TTTAATTATATATTATTAT
89288771 TTTTAATTATATATTATTAT
1 TTTTAATTATATATTATTAT
*
89288791 TACTT-ATTATATATTATT-T
1 T-TTTAATTATATATTATTAT
89288810 TTCTTAAATTAT-TATT
1 TT-TT-AATTATATATT
89288826 TTACATCTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 13 0.21
20 28 0.45
21 7 0.11
22 4 0.06
23 7 0.11
24 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTAATTATATATTATTAT
Found at i:89288809 original size:54 final size:55
Alignment explanation
Indices: 89288679--89288827 Score: 134
Period size: 54 Copynumber: 2.8 Consensus size: 55
89288669 ATATTTATTA
** * * *
89288679 TATTATT-C-TATATATATATT-TTTTATTATTTGT-TTATTTCTAATTTTACTTT
1 TATTATTACTTAT-TATATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
*
89288731 TA-TATTA-TATATTATAAAATTATTTTATTATAAGTATTATTTTTAATTATA-TAT
1 TATTATTACT-TATTAT-ATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
* *
89288785 TATTATTACTTATTATATATTATTTTTCTTA-AATTATTATTTT
1 TATTATTACTTATTATATATTA-TTTTATTATAAGTATTATTTT
89288828 ACATCTCTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
51 4 0.05
52 5 0.06
53 7 0.09
54 31 0.39
55 31 0.39
56 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (55 bp):
TATTATTACTTATTATATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
Found at i:89288825 original size:3 final size:3
Alignment explanation
Indices: 89288749--89288808 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
89288739 ATATTATAAA
* * *
89288749 ATT ATT -TT ATT ATA AGT ATT ATT TTT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
89288796 ATT ATAT ATT ATT
1 ATT AT-T ATT ATT
89288809 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 33 0.72
4 11 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:89288886 original size:44 final size:44
Alignment explanation
Indices: 89288775--89288888 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
89288765 TATTATTTTT
* *
89288775 AATTATATATTATT-ATTACTTAT-TATA-TATTATTTTTCTTA
1 AATTATATATTATTAATTACTTATATATATTATTAATTTTCATA
*
89288816 AATTAT-TATT-TTACATCT-CTTTTATATATTATTAAATTTTCATA
1 AATTATATATTATTA-AT-TACTTATATATATTATT-AATTTTCATA
*
89288860 TATTATAT-TTATTAATTACTTATATATAT
1 AATTATATATTATTAATTACTTATATATAT
89288889 ATTGTTTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
39 2 0.03
40 4 0.07
41 12 0.20
42 5 0.08
43 5 0.08
44 27 0.46
45 4 0.07
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (44 bp):
AATTATATATTATTAATTACTTATATATATTATTAATTTTCATA
Found at i:89289574 original size:16 final size:17
Alignment explanation
Indices: 89289553--89289588 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
89289543 TGCATTTTTT
*
89289553 TTCTTTATAT-GTATTA
1 TTCTTTATATCGTAGTA
89289569 TTCTTTATATCGTAGTA
1 TTCTTTATATCGTAGTA
89289586 TTC
1 TTC
89289589 ATTTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
TTCTTTATATCGTAGTA
Found at i:89290268 original size:20 final size:21
Alignment explanation
Indices: 89290243--89290283 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
89290233 TTTCGACAAC
89290243 GTATATA-TTTTTAATACTAT
1 GTATATACTTTTTAATACTAT
89290263 GTATATACTTTTTAATACTAT
1 GTATATACTTTTTAATACTAT
89290284 TATTATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (21 bp):
GTATATACTTTTTAATACTAT
Found at i:89291516 original size:15 final size:14
Alignment explanation
Indices: 89291484--89291542 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
89291474 GGATGTGGAG
*
89291484 GTGGAGGTGGATGTT
1 GTGG-GGTGGAGGTT
*
89291499 GTGCGGGTTGAGGTT
1 GTG-GGGTGGAGGTT
89291514 GTGGAGGTGGAGGTT
1 GTGG-GGTGGAGGTT
89291529 GTGGGGGTGGAGGT
1 GT-GGGGTGGAGGT
89291543 GGATGAGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.03
15 34 0.89
16 3 0.08
ACGTcount: A:0.10, C:0.02, G:0.59, T:0.29
Consensus pattern (14 bp):
GTGGGGTGGAGGTT
Found at i:89291518 original size:30 final size:30
Alignment explanation
Indices: 89291484--89291542 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
89291474 GGATGTGGAG
* *
89291484 GTGGAGGTGGATGTTGTGCGGGTTGAGGTT
1 GTGGAGGTGGAGGTTGTGCGGGTGGAGGTT
*
89291514 GTGGAGGTGGAGGTTGTGGGGGTGGAGGT
1 GTGGAGGTGGAGGTTGTGCGGGTGGAGGT
89291543 GGATGAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.02, G:0.59, T:0.29
Consensus pattern (30 bp):
GTGGAGGTGGAGGTTGTGCGGGTGGAGGTT
Found at i:89291528 original size:21 final size:21
Alignment explanation
Indices: 89291504--89291545 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89291494 ATGTTGTGCG
**
89291504 GGTTGAGGTTGTGGAGGTGGA
1 GGTTGAGGGGGTGGAGGTGGA
*
89291525 GGTTGTGGGGGTGGAGGTGGA
1 GGTTGAGGGGGTGGAGGTGGA
89291546 TGAGGGTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.62, T:0.26
Consensus pattern (21 bp):
GGTTGAGGGGGTGGAGGTGGA
Found at i:89292335 original size:24 final size:22
Alignment explanation
Indices: 89292300--89292344 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
89292290 TATAAGTAAA
89292300 TATTATTTTATTATTAAAATAT
1 TATTATTTTATTATTAAAATAT
89292322 TATTATATTATATTATTAAAATA
1 TATTAT-TT-TATTATTAAAATA
89292345 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTATTATTAAAATAT
Found at i:89292355 original size:12 final size:12
Alignment explanation
Indices: 89292338--89292371 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
89292328 ATTATATTAT
89292338 TAAAATAAAATA
1 TAAAATAAAATA
89292350 TAAAATAAAATA
1 TAAAATAAAATA
89292362 -AAACATAAAA
1 TAAA-ATAAAA
89292372 AAAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:89292360 original size:17 final size:17
Alignment explanation
Indices: 89292338--89292375 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
89292328 ATTATATTAT
*
89292338 TAAAATAAAATATAAAA
1 TAAAATAAAACATAAAA
89292355 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
89292372 -AAAA
1 TAAAA
89292376 AGAAACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAAAACATAAAA
Found at i:89293196 original size:13 final size:13
Alignment explanation
Indices: 89293180--89293206 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89293170 TGTATATTGA
89293180 TTGGAAATTGAAT
1 TTGGAAATTGAAT
89293193 TTGGAAATTGAAT
1 TTGGAAATTGAAT
89293206 T
1 T
89293207 ATGTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGGAAATTGAAT
Found at i:89294466 original size:6 final size:6
Alignment explanation
Indices: 89294455--89294479 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
89294445 GCAGACGTTA
89294455 TGGAGG TGGAGG TGGAGG TGGAGG T
1 TGGAGG TGGAGG TGGAGG TGGAGG T
89294480 TGTGCGGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
TGGAGG
Found at i:89294494 original size:15 final size:14
Alignment explanation
Indices: 89294459--89294524 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 14
89294449 ACGTTATGGA
*
89294459 GGTGGAGG-TG-GA
1 GGTGGAGGTTGTGG
89294471 GGTGGAGGTTGTGCG
1 GGTGGAGGTTGTG-G
*
89294486 GGTGCAGGTTGTGG
1 GGTGGAGGTTGTGG
89294500 AGGTGGAGGTTGTGGG
1 -GGTGGAGGTTGT-GG
89294516 GGTGGAGGT
1 GGTGGAGGT
89294525 GGAGGTGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
12 8 0.17
13 2 0.04
14 2 0.04
15 32 0.70
16 2 0.04
ACGTcount: A:0.11, C:0.03, G:0.62, T:0.24
Consensus pattern (14 bp):
GGTGGAGGTTGTGG
Found at i:89294502 original size:30 final size:30
Alignment explanation
Indices: 89294466--89294524 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
89294456 GGAGGTGGAG
89294466 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
* *
89294496 GTGGAGGTGGAGGTTGTGGGGGTGGAGGT
1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGT
89294525 GGAGGTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.03, G:0.61, T:0.25
Consensus pattern (30 bp):
GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
Found at i:89295601 original size:17 final size:16
Alignment explanation
Indices: 89295581--89295612 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
89295571 TTTGATCTTT
89295581 TTGTTTCTTTTATTTTC
1 TTGTTTCTTTT-TTTTC
89295598 TTGTTTCTTTTTTTT
1 TTGTTTCTTTTTTTT
89295613 ATTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.81
Consensus pattern (16 bp):
TTGTTTCTTTTTTTTC
Found at i:89296460 original size:24 final size:24
Alignment explanation
Indices: 89296418--89296572 Score: 116
Period size: 24 Copynumber: 6.2 Consensus size: 24
89296408 GTTATATATT
*
89296418 TTTTAACTATTTTACATATTATTTA
1 TTTTAACT-TTTTATATATTATTTA
*
89296443 TTTTAAGTTTTTATATATATTATTTA
1 TTTTAA-CTTTT-TATATATTATTTA
* *
89296469 TTTTAAAC-TTTTACATATTATATA
1 TTTT-AACTTTTTATATATTATTTA
* * * * *
89296493 TTTTAAATTTATATACATGATGTA
1 TTTTAACTTTTTATATATTATTTA
* *
89296517 GTTTAAACTATTTTATATGTTATTTA
1 -TTTTAACT-TTTTATATATTATTTA
* *
89296543 TTTTAAACTTTTT-TATGTTAATTA
1 TTTT-AACTTTTTATATATTATTTA
89296567 TTTTAA
1 TTTTAA
89296573 ACTGTTTTGC
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.04
24 40 0.39
25 25 0.24
26 32 0.31
27 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTAACTTTTTATATATTATTTA
Found at i:89296495 original size:50 final size:48
Alignment explanation
Indices: 89296427--89296575 Score: 140
Period size: 50 Copynumber: 3.0 Consensus size: 48
89296417 TTTTTAACTA
89296427 TTTTACATATTATTTATTTTAAGTTTTTATATATATTATTTATTTTAAAC
1 TTTTACATATTATTTATTTTAA--TTTTATATATATTATTTATTTTAAAC
* * * * * *
89296477 TTTTACATATTATATATTTTAAATTTATATACATGATGTAGTTTAAAC
1 TTTTACATATTATTTATTTTAATTTTATATATATTATTTATTTTAAAC
* * * *
89296525 TATTTTATATGTTATTTATTTTAAACTTTT-T-TATGTTAATTATTTTAAAC
1 --TTTTACATATTATTTATTTT-AA-TTTTATATATATTATTTATTTTAAAC
89296575 T
1 T
89296576 GTTTTGCATT
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
48 22 0.28
50 51 0.65
51 3 0.04
52 3 0.04
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (48 bp):
TTTTACATATTATTTATTTTAATTTTATATATATTATTTATTTTAAAC
Found at i:89296569 original size:74 final size:74
Alignment explanation
Indices: 89296451--89296632 Score: 189
Period size: 74 Copynumber: 2.5 Consensus size: 74
89296441 TATTTTAAGT
* **
89296451 TTTTATATATATTATTTATTTTAAACTTTTACATATTATATATTTTAAA-T-TTATATACATGAT
1 TTTT-TATATGTTATTTATTTTAAACTTTTTTATATTATATATTTTAAACTGTT-T-TACATGAT
89296514 GTAGTTTAAACTA
63 GTAGTTTAAA-TA
* * * *
89296527 -TTTTATATGTTATTTATTTTAAACTTTTTTATGTTA-ATTATTTTAAACTGTTTTGCATTATTT
1 TTTTTATATGTTATTTATTTTAAACTTTTTTATATTATA-TATTTTAAACTGTTTTACATGATGT
89296590 AGTTTAAATA
65 AGTTTAAATA
*
89296600 TTTTTTTATGTTA-TT-TTTT-AACTATTTTTATAT
1 TTTTTATATGTTATTTATTTTAAACT-TTTTTATAT
89296633 GTGTTATCTA
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
71 4 0.04
72 12 0.13
73 5 0.05
74 64 0.70
75 5 0.05
76 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (74 bp):
TTTTTATATGTTATTTATTTTAAACTTTTTTATATTATATATTTTAAACTGTTTTACATGATGTA
GTTTAAATA
Found at i:89296580 original size:26 final size:25
Alignment explanation
Indices: 89296417--89296697 Score: 100
Period size: 24 Copynumber: 11.2 Consensus size: 25
89296407 CGTTATATAT
* * * *
89296417 TTTTTAACTATTTTACATATTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
** * *
89296443 TTTTAAGTTTTTATATATATTATTTA
1 TTTTAAACTTTT-TATATGTTAATTA
* *
89296469 TTTTAAAC-TTTTACATATT-ATATA
1 TTTTAAACTTTTTATATGTTAAT-TA
* ** *
89296493 TTTTAAA-TTTATATA-CATGATGTA
1 TTTTAAACTTTTTATATGTTAAT-TA
* *
89296517 GTTTAAACTATTTTATATGTTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
89296543 TTTTAAACTTTTT-TATGTTAATTA
1 TTTTAAACTTTTTATATGTTAATTA
** *
89296567 TTTTAAACTGTTTTGCA--TTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
* * *
89296591 GTTTAAATATTTTTTTATGTT-ATT-
1 TTTTAAA-CTTTTTATATGTTAATTA
*
89296615 TTTT-AACTATTTTTATATGTGTTATCTA
1 TTTTAAAC--TTTTTATATGT-TAAT-TA
* * *
89296643 TTTTAAA-TTTCTACATGTTATTTA
1 TTTTAAACTTTTTATATGTTAATTA
* * * *
89296667 -GTTATACGGTTTTATATGTTAACTA
1 TTTTAAAC-TTTTTATATGTTAATTA
89296692 TTTTAA
1 TTTTAA
89296698 CTTCTCTTTT
Statistics
Matches: 189, Mismatches: 44, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
23 8 0.04
24 82 0.43
25 33 0.17
26 57 0.30
27 3 0.02
28 4 0.02
29 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
TTTTAAACTTTTTATATGTTAATTA
Found at i:89296595 original size:24 final size:24
Alignment explanation
Indices: 89296390--89296597 Score: 95
Period size: 24 Copynumber: 8.5 Consensus size: 24
89296380 TCATTGACCT
*
89296390 TTTATTTTAAACTG-TTT-CGTTA
1 TTTATTTTAAACTGTTTTACATTA
* * *
89296412 TATATTTTTTAACTATTTTACATATTA
1 TTTA-TTTTAAACTGTTTTAC--ATTA
** * *
89296439 TTTATTTTAAGTTTTTATATATATTA
1 TTTATTTTAAACTGTT-T-TACATTA
89296465 TTTATTTTAAAC--TTTTACATATTA
1 TTTATTTTAAACTGTTTTAC--ATTA
* *
89296489 TATATTTTAAA-T-TTATATACATGA
1 TTTATTTTAAACTGTT-T-TACATTA
* * * *
89296513 TGTAGTTTAAACTATTTTATATGTTA
1 TTTATTTTAAACTGTTTTACA--TTA
* **
89296539 TTTATTTTAAACTTTTTTATGTTA
1 TTTATTTTAAACTGTTTTACATTA
* *
89296563 ATTATTTTAAACTGTTTTGCATTA
1 TTTATTTTAAACTGTTTTACATTA
*
89296587 TTTAGTTTAAA
1 TTTATTTTAAA
89296598 TATTTTTTTA
Statistics
Matches: 140, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
22 5 0.04
23 9 0.06
24 67 0.48
25 4 0.03
26 46 0.33
27 7 0.05
28 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
TTTATTTTAAACTGTTTTACATTA
Found at i:89296878 original size:26 final size:26
Alignment explanation
Indices: 89296849--89296909 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
89296839 CTTTTATATG
89296849 TTATTTTAAAGTGT-CTTA-TACATTAT
1 TTATTTTAAA-T-TACTTAGTACATTAT
*
89296875 TTATTTTAAATTACTTAGTATATTAT
1 TTATTTTAAATTACTTAGTACATTAT
89296901 TTATTTTAA
1 TTATTTTAA
89296910 TATTGTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 26 0.81
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (26 bp):
TTATTTTAAATTACTTAGTACATTAT
Found at i:89296945 original size:26 final size:27
Alignment explanation
Indices: 89296894--89296952 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
89296884 ATTACTTAGT
*
89296894 ATATTATTTATTTTAATATTGTTTTAC
1 ATATTATTTATTTGAATATTGTTTTAC
89296921 ATATTATTT-TTCTGAA-ATTGTTTTAC
1 ATATTATTTATT-TGAATATTGTTTTAC
89296947 ACTATT
1 A-TATT
89296953 TACTTCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (27 bp):
ATATTATTTATTTGAATATTGTTTTAC
Found at i:89296952 original size:24 final size:24
Alignment explanation
Indices: 89296911--89296969 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
89296901 TTATTTTAAT
*
89296911 ATTGTTTTACATATTATTT-TTCTGAA
1 ATTGTTTTACA-ACTATTTATTC--AA
89296937 ATTGTTTTAC-ACTATTTACTTCAA
1 ATTGTTTTACAACTATTTA-TTCAA
89296961 ATTGTTTTA
1 ATTGTTTTA
89296970 TACATTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 17 0.57
26 13 0.43
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (24 bp):
ATTGTTTTACAACTATTTATTCAA
Found at i:89298102 original size:32 final size:32
Alignment explanation
Indices: 89298036--89298102 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
89298026 TTATAAATTA
**
89298036 GGATTTTTATGCAAAATCAAGTTTTTATTGAT
1 GGATTTTTATGCAAAATCAAGTTTTTATCAAT
* *
89298068 GGATTTTTATGCAAGATTAAGTTTTTATCAAT
1 GGATTTTTATGCAAAATCAAGTTTTTATCAAT
89298100 GGA
1 GGA
89298103 ATGATTTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (32 bp):
GGATTTTTATGCAAAATCAAGTTTTTATCAAT
Found at i:89298763 original size:21 final size:21
Alignment explanation
Indices: 89298737--89298781 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
89298727 TCATAATTTA
*
89298737 TTTTTCTATTTCACTTTT-TTC
1 TTTTTCCATTTC-CTTTTATTC
*
89298758 TTTTTCCCTTTCCTTTTATTC
1 TTTTTCCATTTCCTTTTATTC
89298779 TTT
1 TTT
89298782 CCCTTTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTCCATTTCCTTTTATTC
Found at i:89299439 original size:30 final size:32
Alignment explanation
Indices: 89299392--89299451 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
89299382 AGATTGATGA
*
89299392 ATTTTTGTTTGTTATGTTAATTTT-TTAATGG
1 ATTTTTGTTTGTGATGTTAATTTTCTTAATGG
*
89299423 ATTTTT-TTTGTGATGTTAGTTTTCTTAAT
1 ATTTTTGTTTGTGATGTTAATTTTCTTAAT
89299452 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.18, C:0.02, G:0.15, T:0.65
Consensus pattern (32 bp):
ATTTTTGTTTGTGATGTTAATTTTCTTAATGG
Found at i:89300057 original size:30 final size:31
Alignment explanation
Indices: 89299992--89300060 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
89299982 AGTTCGGTTG
* *
89299992 CCAATCTGGGACAAAAAAAAACATATTGAGTA
1 CCAATCTGGGACAAAAAAAAACA-ATTAAGCA
*
89300024 CCAATCTGGGACAAAAAAAAAC-CTTAAGCA
1 CCAATCTGGGACAAAAAAAAACAATTAAGCA
89300054 CCAATCT
1 CCAATCT
89300061 AGGAGAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 12 0.35
32 22 0.65
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (31 bp):
CCAATCTGGGACAAAAAAAAACAATTAAGCA
Found at i:89300319 original size:38 final size:38
Alignment explanation
Indices: 89300258--89300332 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
89300248 ATTTTTTGGA
* *
89300258 AGATTAAAACCTTTTGGGTAATCTCCAACAATGGATTT
1 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATTT
89300296 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATT
1 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATT
89300333 CTAGTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (38 bp):
AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATTT
Found at i:89301712 original size:18 final size:18
Alignment explanation
Indices: 89301689--89301762 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
89301679 TTTATTCAAC
89301689 TATTATTATACTTGCTAA
1 TATTATTATACTTGCTAA
89301707 TATTATTATATGCATTGAAACATTCAA
1 TATTATTATA--C-TTG---C--T-AA
89301734 CTATTATTATACTTGCTAA
1 -TATTATTATACTTGCTAA
89301753 TATTATTATA
1 TATTATTATA
89301763 TGCATTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
18 20 0.43
19 2 0.04
20 2 0.04
21 3 0.07
22 1 0.02
24 1 0.02
25 3 0.07
26 2 0.04
27 2 0.04
28 10 0.22
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (18 bp):
TATTATTATACTTGCTAA
Found at i:89301749 original size:46 final size:46
Alignment explanation
Indices: 89301682--89301779 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
89301672 TTTTTGATTT
89301682 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
1 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
89301728 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
1 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
89301774 ATTCAA
1 ATTCAA
89301780 ATGTATTATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (46 bp):
ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
Found at i:89303502 original size:27 final size:26
Alignment explanation
Indices: 89303454--89303531 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
89303444 GCGAGGCTGC
* *
89303454 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
89303480 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
89303507 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
89303532 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:89305154 original size:26 final size:26
Alignment explanation
Indices: 89305115--89305196 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
89305105 TGAAATGCTC
89305115 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
89305141 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
89305167 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89305193 ATCA
1 ATCA
89305197 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89311760 original size:38 final size:38
Alignment explanation
Indices: 89311704--89311778 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
89311694 TTTTCTTGGA
* *
89311704 AGATTAAAACCTTTTAGGCAATCTCCAACAATGGATTC
1 AGATTAAAACCTTATAGGCAATCTCCAACAATAGATTC
*
89311742 AGATTAAAATCTTATAGGCAATCTCCAACAATAGATT
1 AGATTAAAACCTTATAGGCAATCTCCAACAATAGATT
89311779 TAGGTATGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (38 bp):
AGATTAAAACCTTATAGGCAATCTCCAACAATAGATTC
Found at i:89314429 original size:20 final size:20
Alignment explanation
Indices: 89314404--89314455 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
89314394 TCAGTATTTC
89314404 TAATTTCTTAAAG-TTCTTAA
1 TAATTT-TTAAAGATTCTTAA
*
89314424 TAATTTTTAAAGATTCTTCTA
1 TAATTTTTAAAGATTCTT-AA
89314445 TAATTATTTAA
1 TAATT-TTTAA
89314456 TAATTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
21 6 0.21
22 5 0.18
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (20 bp):
TAATTTTTAAAGATTCTTAA
Found at i:89315386 original size:7 final size:7
Alignment explanation
Indices: 89315376--89315442 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
89315366 AAACCCTTCC
89315376 AAACCCA
1 AAACCCA
89315383 AAACCCA
1 AAACCCA
* *
89315390 ATACACA
1 AAACCCA
*
89315397 GAAGCCCA
1 -AAACCCA
*
89315405 AACCCCTTA
1 AAACCC--A
89315414 CAAACCCA
1 -AAACCCA
89315422 AAACCCA
1 AAACCCA
89315429 AAACCCCA
1 AAA-CCCA
89315437 AAACCC
1 AAACCC
89315443 TAATCAGCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
7 30 0.62
8 12 0.25
9 1 0.02
10 5 0.10
ACGTcount: A:0.49, C:0.43, G:0.03, T:0.04
Consensus pattern (7 bp):
AAACCCA
Found at i:89315437 original size:32 final size:32
Alignment explanation
Indices: 89315383--89315443 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
89315373 TCCAAACCCA
* * * *
89315383 AAACCCAATACACAGAAGCCCAAACCCCTTAC
1 AAACCCAAAACACAAAACCCCAAAACCCTTAC
*
89315415 AAACCCAAAACCCAAAACCCCAAAACCCT
1 AAACCCAAAACACAAAACCCCAAAACCCT
89315444 AATCAGCCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.48, C:0.43, G:0.03, T:0.07
Consensus pattern (32 bp):
AAACCCAAAACACAAAACCCCAAAACCCTTAC
Found at i:89316700 original size:20 final size:20
Alignment explanation
Indices: 89316654--89316692 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
89316644 TATTTCACAT
89316654 ATATTATTAGTTATATTTTA
1 ATATTATTAGTTATATTTTA
89316674 ATATTATTAGTTATATTTT
1 ATATTATTAGTTATATTTT
89316693 TCTTTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
ATATTATTAGTTATATTTTA
Found at i:89316736 original size:21 final size:21
Alignment explanation
Indices: 89316658--89316756 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
89316648 TCACATATAT
* *
89316658 TATTAGTTATATTT-TAATAT
1 TATTATTTATATTTCTAATAC
* *
89316678 TATTAGTTATATTTTTCTTTTATAC
1 TATTA-TT-TATATTTC--TAATAC
* *
89316703 TATTATATATATTTCTAATAT
1 TATTATTTATATTTCTAATAC
89316724 TA-TATTGTATATTTCTAATAC
1 TATTATT-TATATTTCTAATAC
89316745 TATTATTTATAT
1 TATTATTTATAT
89316757 ATATATTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
20 8 0.13
21 27 0.44
22 10 0.16
23 7 0.11
24 1 0.02
25 9 0.15
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTATTTATATTTCTAATAC
Found at i:89317942 original size:28 final size:27
Alignment explanation
Indices: 89317903--89317955 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
89317893 TCAAATTTAT
* *
89317903 TTTAAGTTTATTTATATTATTTTAAAA
1 TTTAAATTTATTTATACTATTTTAAAA
89317930 TTTAAATTATATTTATACTATTTTAA
1 TTTAAATT-TATTTATACTATTTTAA
89317956 TTTAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTAAATTTATTTATACTATTTTAAAA
Found at i:89317970 original size:28 final size:27
Alignment explanation
Indices: 89317909--89317973 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
89317899 TTATTTTAAG
*
89317909 TTTATTTATATTATTTTAAAATTTAAAT
1 TTTATTTATACTATTTT-AAATTTAAAT
*
89317937 TATATTTATACTATTTT-AATTTAATATT
1 TTTATTTATACTATTTTAAATTTAA-A-T
89317965 TTTATTTAT
1 TTTATTTAT
89317974 TAAAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.22
27 1 0.03
28 24 0.75
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTATTTATACTATTTTAAATTTAAAT
Found at i:89318752 original size:250 final size:250
Alignment explanation
Indices: 89318311--89318811 Score: 966
Period size: 250 Copynumber: 2.0 Consensus size: 250
89318301 TTCTGATGGA
*
89318311 GGAGTCAATTATACAAATAACCGAGAAGAATGCCGTGGTTCGGGACTGGTCTCTAAAAACTCAGA
1 GGAGTCAATTACACAAATAACCGAGAAGAATGCCGTGGTTCGGGACTGGTCTCTAAAAACTCAGA
*
89318376 GAGAAAAGGGGGATAGTCTAGTGGAAGGGTGTGTTGCCAATTTGCCCGAACATATAACTGTAAAT
66 GAGAAAAGGGGGATAGTCTAGTGGAAGGGTGTGTCGCCAATTTGCCCGAACATATAACTGTAAAT
89318441 GTTCGCCAAAATAACTTTGAGGATTTGGTTCGAATTTGGAATCAGTGGGATTCAGACACTAGAGA
131 GTTCGCCAAAATAACTTTGAGGATTTGGTTCGAATTTGGAATCAGTGGGATTCAGACACTAGAGA
89318506 CATTTTCACTGAGAGGTATGGAGATATAGCTCACCTGATCACCATCCGTGTAGAC
196 CATTTTCACTGAGAGGTATGGAGATATAGCTCACCTGATCACCATCCGTGTAGAC
*
89318561 GGAGTCAATTACACAAATAACCGAGAAGAATGCCGTGGTTCGGGACTGGTCTCTAAAAATTCAGA
1 GGAGTCAATTACACAAATAACCGAGAAGAATGCCGTGGTTCGGGACTGGTCTCTAAAAACTCAGA
*
89318626 GAGAAAAGGGGGATAGTCTAGTGGAAGGGTGTGTCGCTAATTTGCCCGAACATATAACTGTAAAT
66 GAGAAAAGGGGGATAGTCTAGTGGAAGGGTGTGTCGCCAATTTGCCCGAACATATAACTGTAAAT
89318691 GTTCGCCAAAATAACTTTGAGGATTTGGTTCGAATTTGGAATCAGTGGGATTCAGACACTAGAGA
131 GTTCGCCAAAATAACTTTGAGGATTTGGTTCGAATTTGGAATCAGTGGGATTCAGACACTAGAGA
89318756 CATTTTCACTGAGAGGTATGGAGATATAGCTCACCTGATCACCATCCGTGTAGAC
196 CATTTTCACTGAGAGGTATGGAGATATAGCTCACCTGATCACCATCCGTGTAGAC
89318811 G
1 G
89318812 AACAGTTGAT
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 247 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (250 bp):
GGAGTCAATTACACAAATAACCGAGAAGAATGCCGTGGTTCGGGACTGGTCTCTAAAAACTCAGA
GAGAAAAGGGGGATAGTCTAGTGGAAGGGTGTGTCGCCAATTTGCCCGAACATATAACTGTAAAT
GTTCGCCAAAATAACTTTGAGGATTTGGTTCGAATTTGGAATCAGTGGGATTCAGACACTAGAGA
CATTTTCACTGAGAGGTATGGAGATATAGCTCACCTGATCACCATCCGTGTAGAC
Found at i:89329432 original size:71 final size:71
Alignment explanation
Indices: 89329298--89329436 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 71
89329288 AATTTTTACT
* * *
89329298 TTTCCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
89329363 TTTATG
66 TTTATG
* ** * *
89329369 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGATATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
89329434 TTT
66 TTT
89329437 CTACTTTCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (71 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
TTTATG
Found at i:89329600 original size:54 final size:55
Alignment explanation
Indices: 89329446--89329663 Score: 316
Period size: 54 Copynumber: 4.0 Consensus size: 55
89329436 TCTACTTTCC
* *
89329446 AATTCCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
1 AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
89329502 AATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
*
89329558 AATTTCTGTTTTTC-AAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CCTTTT
1 AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
* * *
89329612 AATTTTTGTTTTTC-AAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
89329664 GGGTCATATG
Statistics
Matches: 149, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.56
55 1 0.01
56 64 0.43
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (55 bp):
AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:89331987 original size:23 final size:22
Alignment explanation
Indices: 89331960--89332078 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 22
89331950 TTTTTAATAT
89331960 TATATTTCACATATATTATTATA
1 TATATTTCA-ATATATTATTATA
*
89331983 TATATTTTAATATTATTAGTTATA
1 TATATTTCAATA-TATTA-TTATA
** *
89332007 T-T-TTTCTTTTATACTATTATA
1 TATATTTC-AATATATTATTATA
* *
89332028 TATATTTCTA-ATATTA-TATTG
1 TATATTTCAATATATTATTA-TA
89332049 TATATTTCTAATACTATTATTTATA
1 TATATTTC-AATA-TATTA-TTATA
89332074 TATAT
1 TATAT
89332079 GTGTGTGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 20 0.27
22 13 0.17
23 21 0.28
24 11 0.15
25 6 0.08
26 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTTCAATATATTATTATA
Found at i:89332054 original size:21 final size:21
Alignment explanation
Indices: 89331959--89332074 Score: 85
Period size: 21 Copynumber: 5.3 Consensus size: 21
89331949 GTTTTTAATA
89331959 TTATATTTC-ACATA-TATTAT
1 TTATATTTCTA-ATACTATTAT
* *
89331979 TATATATATTTTAATATTATTAGT
1 T-TATAT-TTCTAATACTATTA-T
* *
89332003 TATATTTTTCTTTTATACTATTAT
1 T-TATATTTC--TAATACTATTAT
* *
89332027 ATATATTTCTAATATTA-TAT
1 TTATATTTCTAATACTATTAT
89332047 TGTATATTTCTAATACTATTAT
1 T-TATATTTCTAATACTATTAT
89332069 TTATAT
1 TTATAT
89332075 ATATGTGTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.05
21 31 0.41
22 9 0.12
23 15 0.20
24 8 0.11
25 9 0.12
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATTTCTAATACTATTAT
Found at i:89333699 original size:32 final size:32
Alignment explanation
Indices: 89333652--89333720 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
89333642 ATTTAGGGTT
* *
89333652 AAGAAGAGAAAAAGAAGAAAAAAAAGGAGGAG
1 AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
* *
89333684 AAGAGGAGAAGAAGAAGAAAAAGAACGAGGAG
1 AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
89333716 AAGAG
1 AAGAG
89333721 AAAATGGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.64, C:0.01, G:0.35, T:0.00
Consensus pattern (32 bp):
AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
Found at i:89340446 original size:15 final size:15
Alignment explanation
Indices: 89340423--89340453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89340413 TGTTTTGGGC
89340423 TTGTAAATGGACTTT
1 TTGTAAATGGACTTT
*
89340438 TTGTTAATGGACTTT
1 TTGTAAATGGACTTT
89340453 T
1 T
89340454 ATTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (15 bp):
TTGTAAATGGACTTT
Found at i:89340835 original size:44 final size:42
Alignment explanation
Indices: 89340781--89340943 Score: 121
Period size: 44 Copynumber: 3.6 Consensus size: 42
89340771 AATTCAATCT
*
89340781 ACTGTAACTTCAGGAGTATAAGATTTGCAGCTTCAATCTACTCC
1 ACTGCAACTTCAGGAG-ATAAGATTTGCAG-TTCAATCTACTCC
* *
89340825 ACTGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTTGAC-CC
1 ACTGCAACTTC-AGGAGATAAGATTTGC---AGT----TCAATCT-ACTCC
* * * *
89340875 ATTGCAACTTCAGGGGTATAAGATTTGTAGTTTCAATCTGCTCC
1 ACTGCAACTTCAGGAG-ATAAGATTTGCAG-TTCAATCTACTCC
*
89340919 ACTGCAACTTTAGTGAGATAAGATT
1 ACTGCAACTTCAG-GAGATAAGATT
89340944 CACTATGGTA
Statistics
Matches: 94, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
43 1 0.01
44 47 0.50
45 7 0.07
46 1 0.01
47 4 0.04
48 1 0.01
49 4 0.04
50 27 0.29
51 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (42 bp):
ACTGCAACTTCAGGAGATAAGATTTGCAGTTCAATCTACTCC
Found at i:89341075 original size:50 final size:49
Alignment explanation
Indices: 89340812--89341075 Score: 157
Period size: 50 Copynumber: 5.5 Consensus size: 49
89340802 GATTTGCAGC
* *
89340812 TTCAATCT-ACTCCACTGCAACTTCA-AGGAGATAAGATTCGCTATAGTAGAA
1 TTCAATCTGAC-CCATTGCAACTTCAGA-GAGATAAGATTTGCTAT-GTA-AA
* *
89340863 -TCAATTTGACCCATTGCAACTTCAG-GGGTATAAGATTTG-TA-GT---
1 TTCAATCTGACCCATTGCAACTTCAGAGAG-ATAAGATTTGCTATGTAAA
* * * **
89340906 TTCAATCTG-CTCCACTGCAACTTTAGTGAGATAAGATTCACTATGGTAAA
1 TTCAATCTGAC-CCATTGCAACTTCAGAGAGATAAGATTTGCTAT-GTAAA
* * * *
89340956 TTTAATCCGACCCATTACAACTTCAGAG-GTATAAGATTTG-TA-G---C
1 TTCAATCTGACCCATTGCAACTTCAGAGAG-ATAAGATTTGCTATGTAAA
* * **
89341000 TTCAATTTG-CTCTACGGCAACTTCAGAGAGATAAGATTTGCTATGGTAAA
1 TTCAATCTGAC-CCATTGCAACTTCAGAGAGATAAGATTTGCTAT-GTAAA
*
89341050 TTCAATCCGACCCATTGCAACTTCAG
1 TTCAATCTGACCCATTGCAACTTCAG
89341076 GGGTATAGGA
Statistics
Matches: 158, Mismatches: 32, Indels: 47
0.67 0.14 0.20
Matches are distributed among these distances:
43 2 0.01
44 57 0.36
45 7 0.04
47 6 0.04
49 7 0.04
50 75 0.47
51 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (49 bp):
TTCAATCTGACCCATTGCAACTTCAGAGAGATAAGATTTGCTATGTAAA
Found at i:89341178 original size:50 final size:48
Alignment explanation
Indices: 89341011--89341243 Score: 114
Period size: 50 Copynumber: 4.9 Consensus size: 48
89341001 TCAATTTGCT
* * *
89341011 CTACGGCAACTTCAGAGAGATAAGATTTGCTATGGTAAATTCAATCCGAC
1 CTACTGCAACTTCAG-GAGATAAGA-TTGCTATGGTAGATTCAATCCAAC
* * * * * ***
89341061 CCATTGCAACTTCAGGGGTATAGGA-T--T-T-GTAGCTTCAATCTGTTC
1 CTACTGCAACTTCAGGAG-ATAAGATTGCTATGGTAGATTCAATC-CAAC
* *
89341106 C-ACTACAATTTCAGGAAGATAAGATTCGCTATGGTAGATTCAATCCAAC
1 CTACTGCAACTTCAGG-AGATAAGATT-GCTATGGTAGATTCAATCCAAC
* * *
89341155 CTACTGCAACTTCAGGGGTATAAGATT--TA---TAGGTTCAATCTGC-TC
1 CTACTGCAACTTCAGGAG-ATAAGATTGCTATGGTAGATTCAATC--CAAC
**
89341200 C-ACTATAACTTCAGTGAGATAAGATTCGCTATGGTAGATTCAAT
1 CTACTGCAACTTCAG-GAGATAAGATT-GCTATGGTAGATTCAAT
89341244 TCGACCAACT
Statistics
Matches: 135, Mismatches: 28, Indels: 40
0.67 0.14 0.20
Matches are distributed among these distances:
44 55 0.41
45 9 0.07
46 2 0.01
47 4 0.03
48 2 0.01
49 6 0.04
50 57 0.42
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (48 bp):
CTACTGCAACTTCAGGAGATAAGATTGCTATGGTAGATTCAATCCAAC
Found at i:89341276 original size:94 final size:93
Alignment explanation
Indices: 89340786--89341249 Score: 604
Period size: 94 Copynumber: 4.9 Consensus size: 93
89340776 AATCTACTGT
* * *
89340786 AACTTCAGGAGTATAAGATTTGCAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTC
* * **
89340851 GCTATAGTAGAATCAATTTGACCCATTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* *
89340880 AACTTCAGGGGTATAAGATTTGTAGTTTCAATCTGCTCCACTGCAACTTTAGTGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
* * * *
89340945 ACTATGGTAAATTTAATCCGACCCATTAC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * * * *
89340974 AACTTCAGAGGTATAAGATTTGTAGCTTCAATTTGCTCTACGGCAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
*
89341039 GCTATGGTAAATTCAATCCGACCCATTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * * *
89341068 AACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGTTCCACTACAATTTCAGGAAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGG-AGATAAGATTC
* * *
89341133 GCTATGGTAGATTCAATCCAACCTACTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * **
89341162 AACTTCAGGGGTATAAGATTTATAGGTTCAATCTGCTCCACTATAACTTCAGTGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
*
89341227 GCTATGGTAGATTCAATTCGACC
65 GCTATGGTAGATTCAATCCGACC
89341250 AACTAAAACT
Statistics
Matches: 322, Mismatches: 45, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
93 3 0.01
94 318 0.99
95 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (93 bp):
AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGATTCG
CTATGGTAGATTCAATCCGACCCATTGC
Found at i:89344824 original size:7 final size:7
Alignment explanation
Indices: 89344810--89344876 Score: 107
Period size: 7 Copynumber: 9.6 Consensus size: 7
89344800 ATATTTGAGG
89344810 ATTGAAA
1 ATTGAAA
*
89344817 ATTTAAA
1 ATTGAAA
89344824 ATTGAAA
1 ATTGAAA
89344831 ATTGAAA
1 ATTGAAA
* *
89344838 TTTGAAG
1 ATTGAAA
89344845 ATTGAAA
1 ATTGAAA
89344852 ATTGAAA
1 ATTGAAA
89344859 ATTGAAA
1 ATTGAAA
89344866 ATTGAAA
1 ATTGAAA
89344873 ATTG
1 ATTG
89344877 GGGATTGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (7 bp):
ATTGAAA
Found at i:89344916 original size:14 final size:14
Alignment explanation
Indices: 89344804--89344916 Score: 68
Period size: 14 Copynumber: 8.0 Consensus size: 14
89344794 AAAAAAATAT
* *
89344804 TTGAGGATTGAAAA
1 TTGAGAATTGAAGA
* * *
89344818 TTTAAAATTGAAAA
1 TTGAGAATTGAAGA
89344832 TTGA-AATTTGAAGA
1 TTGAGAA-TTGAAGA
* *
89344846 TTGAAAATTGAAAA
1 TTGAGAATTGAAGA
* *
89344860 TTGAAAATTGAAAA
1 TTGAGAATTGAAGA
* *
89344874 TTGGGGATTGAAGA
1 TTGAGAATTGAAGA
*
89344888 ATGAAGAA-TGAAAGA
1 TTG-AGAATTG-AAGA
*
89344903 TTGAGAATTTAAGA
1 TTGAGAATTGAAGA
89344917 AGAAAAAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.03
14 66 0.84
15 11 0.14
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (14 bp):
TTGAGAATTGAAGA
Found at i:89345711 original size:7 final size:7
Alignment explanation
Indices: 89345699--89345727 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
89345689 TAATGAGGGT
89345699 GTTTAGG
1 GTTTAGG
89345706 GTTTAGG
1 GTTTAGG
89345713 GTTTAGG
1 GTTTAGG
89345720 GTTTAGG
1 GTTTAGG
89345727 G
1 G
89345728 ACCGTACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:89346408 original size:24 final size:23
Alignment explanation
Indices: 89346368--89346413 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
89346358 ATTTTTACAA
89346368 AATACAAAATAATTAATAATTAAT
1 AATACAAAATAATTAAT-ATTAAT
*
89346392 AATACAAATTTAA-TAATATTAA
1 AATACAAA-ATAATTAATATTAA
89346414 ATATAAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATACAAAATAATTAATATTAAT
Found at i:89358390 original size:16 final size:16
Alignment explanation
Indices: 89358371--89358409 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
89358361 AATGACAAAG
*
89358371 GCCGAAAAGTTGAAAA
1 GCCGAAAAGGTGAAAA
89358387 GCCGAAAAGGTGAAAA
1 GCCGAAAAGGTGAAAA
89358403 GCC-AAAA
1 GCCGAAAA
89358410 CGTGGGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.51, C:0.15, G:0.26, T:0.08
Consensus pattern (16 bp):
GCCGAAAAGGTGAAAA
Found at i:89360216 original size:12 final size:12
Alignment explanation
Indices: 89360198--89360227 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
89360188 TAGATGTACT
89360198 CGTGGTAGAGGC
1 CGTGGTAGAGGC
*
89360210 TGTGGTAGAGGC
1 CGTGGTAGAGGC
89360222 CGTGGT
1 CGTGGT
89360228 GGTGCTCGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.50, T:0.23
Consensus pattern (12 bp):
CGTGGTAGAGGC
Found at i:89362451 original size:45 final size:46
Alignment explanation
Indices: 89362393--89362511 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 46
89362383 TCACTGGTAC
* *
89362393 TATAGCCTGCTAGGCTCGAAA-GCTCGAATAGTATCTCACCAGCAT
1 TATAGCCTGCTAGGCTCGAAAGGCCCGAAGAGTATCTCACCAGCAT
* *
89362438 TATAGCCTGCTAGGCTC-AAAGGCCCGAAGAGTATTTCACCGGCAT
1 TATAGCCTGCTAGGCTCGAAAGGCCCGAAGAGTATCTCACCAGCAT
* * * *
89362483 CATAGCATGCTAGGCACG-AAGGCACGAAG
1 TATAGCCTGCTAGGCTCGAAAGGCCCGAAG
89362512 GCCCGAATAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.05
45 61 0.95
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.20
Consensus pattern (46 bp):
TATAGCCTGCTAGGCTCGAAAGGCCCGAAGAGTATCTCACCAGCAT
Found at i:89362552 original size:43 final size:43
Alignment explanation
Indices: 89362502--89362683 Score: 319
Period size: 43 Copynumber: 4.2 Consensus size: 43
89362492 CTAGGCACGA
* *
89362502 AGGCACGAAGGCCCGAATACACATCACCAGTACGAAGCCTGCT
1 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
* *
89362545 AGACACGAAGGCCCGAATACACATTACCGGCACGAAGCCTGCT
1 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
*
89362588 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGTT
1 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
89362631 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
1 AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
89362674 AGGCACGAAG
1 AGGCACGAAG
89362684 CCTGCTAGGC
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.10
Consensus pattern (43 bp):
AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCT
Found at i:89362680 original size:16 final size:16
Alignment explanation
Indices: 89362659--89362699 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
89362649 ACACATCACC
89362659 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
89362675 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
89362691 GGCACGAAG
1 GGCACGAAG
89362700 GCCCGAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.34, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:89362684 original size:59 final size:59
Alignment explanation
Indices: 89362616--89362742 Score: 245
Period size: 59 Copynumber: 2.2 Consensus size: 59
89362606 ACACATCACC
*
89362616 GGCACGAAGCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
89362675 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
89362734 GGCACGAAG
1 GGCACGAAG
89362743 GCCCGAATAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.29, C:0.32, G:0.28, T:0.10
Consensus pattern (59 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
Found at i:89362700 original size:145 final size:145
Alignment explanation
Indices: 89362533--89362820 Score: 531
Period size: 145 Copynumber: 2.0 Consensus size: 145
89362523 CATCACCAGT
*
89362533 ACGAAGCCTGCTAGACACGAAGGCCCGAATACACATTACCGGCACGAAGCCTGCTAGGCACGAAG
1 ACGAAGCCTGCTAGACACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
* * *
89362598 GCCCGAATACACATCACCGGCACGAAGCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCA
66 GCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAACACCGGCA
89362663 CGAAGCCTGCTAGGC
131 CGAAGCCTGCTAGGC
*
89362678 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
1 ACGAAGCCTGCTAGACACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
89362743 GCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAACACCGGCA
66 GCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAACACCGGCA
89362808 CGAAGCCTGCTAG
131 CGAAGCCTGCTAG
89362821 ATTTACCCCG
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 138 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (145 bp):
ACGAAGCCTGCTAGACACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
GCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAACACCGGCA
CGAAGCCTGCTAGGC
Found at i:89362709 original size:102 final size:102
Alignment explanation
Indices: 89362573--89362785 Score: 408
Period size: 102 Copynumber: 2.1 Consensus size: 102
89362563 ACACATTACC
*
89362573 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGTTAGGCACG
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACG
*
89362638 AAGGCCCGAATACACATCACCGGCACGAAGCCTGCTA
66 AAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
89362675 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACG
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACG
89362740 AAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
66 AAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
89362777 GGCACGAAG
1 GGCACGAAG
89362786 GCCCGAATAC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 109 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.10
Consensus pattern (102 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACG
AAGGCCCGAATACACATCACCAGCACGAAGCCTGCTA
Found at i:89362722 original size:43 final size:43
Alignment explanation
Indices: 89362675--89362820 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
89362665 AAGCCTGCTA
89362675 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
89362718 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
* *
89362761 AGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACAACACC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
89362804 GGCACGAAGCCTGCTAG
1 GGCACGAAGCCTGCTAG
89362821 ATTTACCCCG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.31, C:0.34, G:0.26, T:0.09
Consensus pattern (43 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
Found at i:89370529 original size:16 final size:16
Alignment explanation
Indices: 89370510--89370548 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
89370500 AATGACAAAG
89370510 GCTGAAAA-GTCGAAAA
1 GCTGAAAAGGT-GAAAA
89370526 GCTGAAAAGGTGAAAA
1 GCTGAAAAGGTGAAAA
89370542 GCTGAAA
1 GCTGAAA
89370549 TATGGGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.28, T:0.13
Consensus pattern (16 bp):
GCTGAAAAGGTGAAAA
Found at i:89370532 original size:8 final size:8
Alignment explanation
Indices: 89370510--89370548 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
89370500 AATGACAAAG
89370510 GCTGAAAA
1 GCTGAAAA
89370518 G-TCGAAAA
1 GCT-GAAAA
89370526 GCTGAAAA
1 GCTGAAAA
*
89370534 GGTGAAAA
1 GCTGAAAA
89370542 GCTGAAA
1 GCTGAAA
89370549 TATGGGTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 25 0.93
9 1 0.04
ACGTcount: A:0.49, C:0.10, G:0.28, T:0.13
Consensus pattern (8 bp):
GCTGAAAA
Found at i:89371189 original size:35 final size:35
Alignment explanation
Indices: 89371143--89371214 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
89371133 TATGACTTGG
* *
89371143 TGTGTAGGGTTGGGTGGGTCGACTTTATCCCCACA
1 TGTGTAGGGTTGAGCGGGTCGACTTTATCCCCACA
*
89371178 TGTGTAGGGTTGAGCGGGTCGACTTTATCCTCACA
1 TGTGTAGGGTTGAGCGGGTCGACTTTATCCCCACA
89371213 TG
1 TG
89371215 GTATGTAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.32
Consensus pattern (35 bp):
TGTGTAGGGTTGAGCGGGTCGACTTTATCCCCACA
Found at i:89372873 original size:25 final size:25
Alignment explanation
Indices: 89372792--89372873 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
89372782 CCATAAACGA
** *
89372792 GAAGCTCAAGAGAGCCAT-TAATTG
1 GAAGCTCGTGAGAGCCATATAATAG
* * *
89372816 GAAAGCTCGTGAGAGCCAAATATTGG
1 G-AAGCTCGTGAGAGCCATATAATAG
89372842 GAAGCTCGTGAGAGCCATATAATAG
1 GAAGCTCGTGAGAGCCATATAATAG
*
89372867 GATGCTC
1 GAAGCTC
89372874 ATAAGAGCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.02
25 41 0.87
26 5 0.11
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (25 bp):
GAAGCTCGTGAGAGCCATATAATAG
Found at i:89372881 original size:50 final size:50
Alignment explanation
Indices: 89372792--89372892 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
89372782 CCATAAACGA
* * * *
89372792 GAAGCTCAAGAGAGCCATTAATTGGAAAGCTCGTGAGAGCCAAATATTGG
1 GAAGCTCAAGAGAGCCATTAATAGGAAAGCTCATAAGAGCCAAATAATGG
** * *
89372842 GAAGCTCGTGAGAGCCATATAATAGG-ATGCTCATAAGAGCTAAATAATGG
1 GAAGCTCAAGAGAGCCAT-TAATAGGAAAGCTCATAAGAGCCAAATAATGG
89372892 G
1 G
89372893 GTGCTCTTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 36 0.86
51 6 0.14
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.21
Consensus pattern (50 bp):
GAAGCTCAAGAGAGCCATTAATAGGAAAGCTCATAAGAGCCAAATAATGG
Found at i:89383510 original size:126 final size:126
Alignment explanation
Indices: 89383143--89383476 Score: 465
Period size: 126 Copynumber: 2.6 Consensus size: 126
89383133 TTTATTCAAA
* * *
89383143 AAAATTTCAAAACAAAGGCAATGTTTGATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGTTG
1 AAAACTTCAAAACAAA-GCAATGTTTTATGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGTTG
* * *
89383208 GGATTCAATTTTTCGTTTGTCCAAATAACCAAATACCCCTTTAAAATTTCATCCGTGCTTTC
65 GGTTTCGATTTTTCGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCATCCGTGCTTTC
* * * *
89383270 AAAACTTCAAAACAAGGTAAT-TTTCTATGTTTGGAAATTTGAGAAATTGTGCCCTAACGTGCTG
1 AAAACTTCAAAACAAAGCAATGTTT-TATGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGTTG
* * *
89383334 GGATTT-GATTTTCCGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCATCTGTGTTTTC
65 GG-TTTCGATTTTTCGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCATCCGTGCTTTC
** * * *
89383396 AAAACTTTTAAACAAAGCAATGTTTTATGTTTGAAAATCCGAGAAATTGTGCCCTAACATGTTGG
1 AAAACTTCAAAACAAAGCAATGTTTTATGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGTTGG
89383461 GTTTCGATTTTTCGTT
66 GTTTCGATTTTTCGTT
89383477 GGACAAATAA
Statistics
Matches: 180, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
125 6 0.03
126 155 0.86
127 19 0.11
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
AAAACTTCAAAACAAAGCAATGTTTTATGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGTTGG
GTTTCGATTTTTCGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCATCCGTGCTTTC
Found at i:89386970 original size:126 final size:126
Alignment explanation
Indices: 89386743--89387060 Score: 467
Period size: 126 Copynumber: 2.5 Consensus size: 126
89386733 ATATTGTTTG
*
89386743 ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGGTTTTTCGTTTGTCCAAATA
1 ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGATTTTTCGTTTGTCCAAATA
*
89386808 ACCAAATACCCCATTAAACTCTCGTCTGTGTCTTCAAAACTTCAAAACAAGGCAATGTTCT
66 ACCAAATACCCCATTAAAATCTCGTCTGTGTCTTCAAAACTTCAAAACAAGGCAATGTTCT
* *
89386869 ATGTTTAGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGA-TTTTCTGTTTGTCTAAAT
1 ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGATTTTTC-GTTTGTCCAAAT
* * * *
89386933 AACCAAATATCCCTTTAAAATTTCGTCTGTGTTTTCAAAACTTCAAAACAAGGCAATGTTCT
65 AACCAAATACCCCATTAAAATCTCGTCTGTGTCTTCAAAACTTCAAAACAAGGCAATGTTCT
* ** * * * * * *
89386995 ATGTTTGGAAATCCGAGAAATTATGCCCTAACGTGTTGGGTTTGGGTTTTTCGTTGGACCAAATA
1 ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGATTTTTCGTTTGTCCAAATA
89387060 A
66 A
89387061 TTGAATATCC
Statistics
Matches: 171, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 5 0.03
126 161 0.94
127 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (126 bp):
ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCGATTTTTCGTTTGTCCAAATA
ACCAAATACCCCATTAAAATCTCGTCTGTGTCTTCAAAACTTCAAAACAAGGCAATGTTCT
Found at i:89391505 original size:46 final size:46
Alignment explanation
Indices: 89391372--89391635 Score: 177
Period size: 47 Copynumber: 5.7 Consensus size: 46
89391362 AGGGTATAAT
*
89391372 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCCAT-CA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCAT-CATGTA
* * * * *
89391418 ACTCGATGCCATGCCCCAGACATGGTCTTACACTGAC-ACATCTTGTA
1 GC-CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCATGTA
89391465 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATC-TCG-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCAT-GTA
*** * * * **
89391510 GGCCGGCACATGTCCCAGACAT-TTCTTACACTAGCTCTCGTC-TCAA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TCATCATGTA
* * * *
89391556 TGCCGATACCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 -GCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCT-TCATCATGTA
* * *
89391605 GCTGATGCATGTTCCAGACAT-ATCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
89391636 AGCATACAAA
Statistics
Matches: 173, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
44 12 0.07
45 15 0.09
46 61 0.35
47 63 0.36
48 21 0.12
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCATGTA
Found at i:89393428 original size:75 final size:75
Alignment explanation
Indices: 89393305--89393529 Score: 441
Period size: 75 Copynumber: 3.0 Consensus size: 75
89393295 GAGTAAGAAA
89393305 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
1 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
89393370 CGGTTAACCG
66 CGGTTAACCG
89393380 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
1 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
89393445 CGGTTAACCG
66 CGGTTAACCG
*
89393455 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTAAGGGTGTTCAGT
1 GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
89393520 CGGTTAACCG
66 CGGTTAACCG
89393530 ACCGGTTAAC
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 149 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (75 bp):
GTAGAAAATTTTGAGGAATAAAAATTTTATAAAATGTTATTATCATACAAGTATGGGTGTTCAGT
CGGTTAACCG
Found at i:89393692 original size:9 final size:9
Alignment explanation
Indices: 89393678--89393728 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
89393668 AATAAATATA
89393678 GAATTAACC
1 GAATTAACC
*
89393687 GAATTAATC
1 GAATTAACC
*
89393696 GAATTACCC
1 GAATTAACC
89393705 GAATT-ACTC
1 GAATTAAC-C
*
89393714 GAATTAACT
1 GAATTAACC
89393723 GAATTA
1 GAATTA
89393729 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.03
9 32 0.91
10 2 0.06
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (9 bp):
GAATTAACC
Found at i:89393701 original size:18 final size:18
Alignment explanation
Indices: 89393678--89393728 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
89393668 AATAAATATA
89393678 GAATTAACCGAATTAATC
1 GAATTAACCGAATTAATC
* *
89393696 GAATTACCCGAATTACTC
1 GAATTAACCGAATTAATC
*
89393714 GAATTAACTGAATTA
1 GAATTAACCGAATTA
89393729 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (18 bp):
GAATTAACCGAATTAATC
Found at i:89393760 original size:6 final size:6
Alignment explanation
Indices: 89393749--89393788 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
89393739 ATCATTTGTT
89393749 TTTTTA TTTTTA -TTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
89393789 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:89393787 original size:31 final size:31
Alignment explanation
Indices: 89393749--89393811 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
89393739 ATCATTTGTT
** *
89393749 TTTTTATTT-TTATTTTATTTTTAGATTTTTA
1 TTTTTATTTATTAAATTATTTGTA-ATTTTTA
89393780 TTTTTATTTATTAAATTATTTGTAATTTTTA
1 TTTTTATTTATTAAATTATTTGTAATTTTTA
89393811 T
1 T
89393812 GACTGGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (31 bp):
TTTTTATTTATTAAATTATTTGTAATTTTTA
Found at i:89394067 original size:22 final size:22
Alignment explanation
Indices: 89394041--89394083 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
89394031 TTAACCAACT
*
89394041 AATTAACCGAATTTTTTCGATC
1 AATTAACCGAATATTTTCGATC
*
89394063 AATTAATCGAATATTTTCGAT
1 AATTAACCGAATATTTTCGAT
89394084 TTTACCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
AATTAACCGAATATTTTCGATC
Found at i:89396739 original size:40 final size:40
Alignment explanation
Indices: 89396702--89396847 Score: 215
Period size: 40 Copynumber: 3.7 Consensus size: 40
89396692 TGAGGAATTG
89396702 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
*
89396742 TATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * *
89396782 TATCCGGGCTTAAAGACTCGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
*
89396822 TATCCGGGC-TAGAGACCCGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
89396848 CGAGCTGGTA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.16
40 81 0.84
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:89399824 original size:18 final size:18
Alignment explanation
Indices: 89399782--89399827 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
89399772 GGTATCAGTT
* *
89399782 TCACATTTTATCTTTAAAA
1 TCACATTTT-TATTAAAAA
89399801 T-A-ATTTTTATTAAAAA
1 TCACATTTTTATTAAAAA
89399817 TCACATTTTTA
1 TCACATTTTTA
89399828 CATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TCACATTTTTATTAAAAA
Found at i:89410080 original size:39 final size:39
Alignment explanation
Indices: 89409887--89410081 Score: 239
Period size: 39 Copynumber: 5.0 Consensus size: 39
89409877 CAATATTGGG
* * * * *
89409887 AATATATCCGGACATGAGGTCCGCAGGATA-ATGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* * * * *
89409925 AATATATCCGGACATGAGGTCAGCAGGCTATATGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
89409964 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTAGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* * * *
89410003 AATATATTCGGACTTAAAGTCCGTAGGCTATGTTCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
89410042 AATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
89410081 A
1 A
89410082 GGGAATCCAG
Statistics
Matches: 138, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 28 0.20
39 110 0.80
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (39 bp):
AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:89417982 original size:39 final size:39
Alignment explanation
Indices: 89417788--89417983 Score: 275
Period size: 39 Copynumber: 5.0 Consensus size: 39
89417778 TGATATTGGG
* * * *
89417788 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* * * * *
89417827 AGTATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
* *
89417866 AATATATCCGGACTTGAAGTCCACAAGCTATGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
89417905 AATATATCCGGACTTGAAGTCCGCAGGCTATGTTCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
*
89417944 AATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTGGA
1 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
89417983 A
1 A
89417984 TGGAATCCGG
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
AATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGGA
Found at i:89431267 original size:16 final size:16
Alignment explanation
Indices: 89431246--89431276 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
89431236 CTCCTTCACT
89431246 TACTTACTTACTTAAA
1 TACTTACTTACTTAAA
89431262 TACTTACTTACTTAA
1 TACTTACTTACTTAA
89431277 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
TACTTACTTACTTAAA
Found at i:89431282 original size:20 final size:20
Alignment explanation
Indices: 89431243--89431282 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
89431233 AAACTCCTTC
* *
89431243 ACTTACTTACTTACTTAAAT
1 ACTTACTTACTTAATCAAAT
89431263 ACTTACTTACTTAATCAAAT
1 ACTTACTTACTTAATCAAAT
89431283 TTATTAATAC
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:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTTACTTAATCAAAT
Found at i:89431655 original size:55 final size:53
Alignment explanation
Indices: 89431527--89431722 Score: 180
Period size: 55 Copynumber: 3.6 Consensus size: 53
89431517 CCTACCATTT
* * *
89431527 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCTTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * *
89431580 CCATGCCTTGCCATAGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
* * ** *
89431635 TCATGTCTTGATATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * *
89431690 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
89431723 AAACCCTAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 8 0.07
55 69 0.60
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:89432341 original size:13 final size:13
Alignment explanation
Indices: 89432323--89432368 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
89432313 ATCTTCTACC
89432323 ATAAAACATCAAA
1 ATAAAACATCAAA
*
89432336 ATAAAATATC---
1 ATAAAACATCAAA
89432346 ATAAAACATCAAA
1 ATAAAACATCAAA
89432359 ATAAACACAT
1 ATAAA-ACAT
89432369 TTCACCTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
10 9 0.33
13 14 0.52
14 4 0.15
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAACATCAAA
Found at i:89438579 original size:73 final size:73
Alignment explanation
Indices: 89438460--89438604 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
89438450 TCAGCTATTA
*
89438460 ACACATTGTCGGGTAGAACAGACAAGTGCACATTCATCGCTCGTAAAGCAAACAATGATTTCCGG
1 ACACATTGTCGGGTAGAACAGACAAGTCCACATTCATCGCTCGTAAAGCAAACAATGATTTCCGG
89438525 CTTAAGGT
66 CTTAAGGT
*
89438533 ACACATTGTCGGGTAGAACAGACAAGTCCACATTCATCGCTCGTAAAGCAAACAATGATTTCTGG
1 ACACATTGTCGGGTAGAACAGACAAGTCCACATTCATCGCTCGTAAAGCAAACAATGATTTCCGG
89438598 CTTAAGG
66 CTTAAGG
89438605 CGTCCGCAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (73 bp):
ACACATTGTCGGGTAGAACAGACAAGTCCACATTCATCGCTCGTAAAGCAAACAATGATTTCCGG
CTTAAGGT
Found at i:89439643 original size:48 final size:48
Alignment explanation
Indices: 89439572--89439666 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
89439562 TTGAGAACAT
*
89439572 TGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGTGGTAACGG
1 TGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAACGG
89439620 TGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAACG
1 TGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAACG
89439667 AATATTTGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (48 bp):
TGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAACGG
Found at i:89443372 original size:79 final size:81
Alignment explanation
Indices: 89443272--89443456 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
89443262 GCTCCTCGTT
* *
89443272 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
89443334 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
89443352 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
89443416 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
89443432 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89443457 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:89443456 original size:40 final size:40
Alignment explanation
Indices: 89443272--89443456 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
89443262 GCTCCTCGTT
* * *
89443272 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
89443312 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
89443352 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
89443391 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
89443432 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89443457 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:89448069 original size:21 final size:21
Alignment explanation
Indices: 89448043--89448082 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89448033 AATGGTCATG
*
89448043 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
89448064 GATGATTTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
89448083 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:89448603 original size:28 final size:28
Alignment explanation
Indices: 89448570--89448631 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
89448560 ATGATTGCAT
*
89448570 GCCTGACAGGCCATATGAAAGTGATTGG
1 GCCTGACAGGCCATATGAAAGAGATTGG
** * *
89448598 GCCTGATGGGCCATATGAATGAGATTTG
1 GCCTGACAGGCCATATGAAAGAGATTGG
89448626 GCCTGA
1 GCCTGA
89448632 AGGGGCCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (28 bp):
GCCTGACAGGCCATATGAAAGAGATTGG
Found at i:89448638 original size:29 final size:28
Alignment explanation
Indices: 89448578--89448646 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
89448568 ATGCCTGACA
* * *
89448578 GGCCATATGAAAGTGATTGGGCCTGATG
1 GGCCATATGAATGAGATTGGGCCTGAGG
*
89448606 GGCCATATGAATGAGATTTGGCCTGAAGG
1 GGCCATATGAATGAGATTGGGCCTG-AGG
*
89448635 GGCCAAATGAAT
1 GGCCATATGAAT
89448647 AAGTATGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (28 bp):
GGCCATATGAATGAGATTGGGCCTGAGG
Found at i:89455373 original size:53 final size:54
Alignment explanation
Indices: 89455245--89455496 Score: 259
Period size: 55 Copynumber: 4.7 Consensus size: 54
89455235 ACACGAGTAC
* * * * **
89455245 CTTACCATTGCCATGACTTGTCGTGGTCTTATGTGGTATCCTT---TT-T-AAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
89455294 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
89455347 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
89455402 CTTACCGATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
89455455 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
89455497 TTTAAACCCT
Statistics
Matches: 169, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
52 4 0.02
53 47 0.28
54 8 0.05
55 71 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:89455436 original size:108 final size:110
Alignment explanation
Indices: 89455292--89455492 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 110
89455282 ATCCTTTTTA
*
89455292 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
89455355 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
89455400 AACTTACCGA-TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAA
1 AACTTACC-ATTGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAA
89455464 TTGCCATGCCTTGGCATGGTCTTACATGG
65 TTGCCATGCCTTGGCATGGTCTTACATGG
89455493 TATCTTTAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
107 1 0.01
108 49 0.57
109 8 0.09
110 28 0.33
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCATTGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:89462023 original size:40 final size:40
Alignment explanation
Indices: 89461964--89462151 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
89461954 GAGCATTGGA
* *
89461964 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
89462004 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
89462044 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
89462084 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
89462124 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
89462152 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:89468924 original size:43 final size:41
Alignment explanation
Indices: 89468869--89469024 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 41
89468859 ATATCATATA
* *
89468869 ATGCCAACGTCCCAGACATGGTCTTACTTGTAATCATATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCG-AATCAAAT-TCG
* *
89468912 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAATCACAATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAATCA-AATT-CG
* * *
89468955 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCG-AATCAAAT-TCG
* *
89468998 ACGCCAACGTCCTAGACATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
89469025 ACGAGAACGC
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
42 8 0.08
43 81 0.84
44 7 0.07
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAATCAAATTCG
Found at i:89469015 original size:86 final size:86
Alignment explanation
Indices: 89468869--89469028 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 86
89468859 ATATCATATA
* * * * *
89468869 ATGCCAACGTCCCAGACATGGTCTTACTTGTAATCATATGTCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCCACTGTCCCAGACAGGGT
89468934 CTTACACGAATCACAATTACG
66 CTTACACGAATCACAATTACG
* * * *
89468955 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCGACGCCAAC-GTCCTAGACATGG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCC-ACTGTCCCAGACAGGG
89469019 TCTTACACGA
65 TCTTACACGA
89469029 GAACGCATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 62 0.97
87 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCCACTGTCCCAGACAGGGT
CTTACACGAATCACAATTACG
Found at i:89470342 original size:28 final size:28
Alignment explanation
Indices: 89470302--89470357 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
89470292 CGTCCGCGAA
89470302 AACCTTACCAGAAAGTAGATTAAGGATT
1 AACCTTACCAGAAAGTAGATTAAGGATT
89470330 AACCTTACCAGAAAGTAGATTAAGGATT
1 AACCTTACCAGAAAGTAGATTAAGGATT
89470358 TTCTTCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (28 bp):
AACCTTACCAGAAAGTAGATTAAGGATT
Found at i:89476081 original size:43 final size:42
Alignment explanation
Indices: 89475914--89476083 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
89475904 ATATCATACA
* * * *
89475914 ATGCCAACGTTCC-AGACATGGTCTTACATGTAATCATATGTCG
1 ATGCCAACG-TCCTAGACATGGTCTTACACG-AAACACATATCG
* * * *
89475957 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAATCACA-ATTACG
1 ATGCCAAC-GTCCTAGACATGGTCTTACACGAAACACATA-T-CG
* *
89476000 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCTAGACATGGTCTTACACGAAA-CACATATCG
*
89476043 ATGCCAACGTCCTAGACGTGGTCTTACACGAGAACACATAT
1 ATGCCAACGTCCTAGACATGGTCTTACACGA-AACACATAT
89476084 TGAAAATCCT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 12 0.11
43 86 0.80
44 8 0.07
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACATGGTCTTACACGAAACACATATCG
Found at i:89477230 original size:14 final size:15
Alignment explanation
Indices: 89477213--89477241 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89477203 GCATGAAAAT
89477213 TTCACACAT-ATAAA
1 TTCACACATAATAAA
89477227 TTCACACATAATAAA
1 TTCACACATAATAAA
89477242 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:89480523 original size:27 final size:26
Alignment explanation
Indices: 89480479--89480530 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
89480469 CTCGCTGCAA
89480479 TCTGGTGGCCTCTCCACATATATCTGT
1 TCTGGTGGCCTCTCCACA-ATATCTGT
*
89480506 TCTGGTGGCTTCGT-CACAATATCTG
1 TCTGGTGGCCTC-TCCACAATATCTG
89480531 GCAACCTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCCTCTCCACAATATCTGT
Found at i:89488703 original size:27 final size:27
Alignment explanation
Indices: 89488655--89488814 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
89488645 GCGAGGCTGC
* *
89488655 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
89488682 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
89488708 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
89488735 CAGATAATTGTAGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
89488762 CGGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
89488789 TAGATAAATTGTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
89488815 GACACTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.09
27 81 0.72
28 19 0.17
29 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:89488745 original size:54 final size:54
Alignment explanation
Indices: 89488673--89488814 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
89488663 GTGACGAAGT
*
89488673 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
89488727 CACCAGATCAGATAATTGTAGCATAGCCACCAGGACGGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
89488781 CACCAGATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
89488815 GACACTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 5 0.06
54 56 0.70
55 19 0.24
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:89491002 original size:27 final size:26
Alignment explanation
Indices: 89490958--89491009 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89490948 CTCACTGTAA
*
89490958 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89490985 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89491010 GCGGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89491088 original size:27 final size:26
Alignment explanation
Indices: 89491050--89491109 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
89491040 ACATATATAT
* *
89491050 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
89491076 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
89491103 ATATCTG
1 ATATCTG
89491110 GCAGCCTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:89502241 original size:44 final size:46
Alignment explanation
Indices: 89502184--89502302 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 46
89502174 ATACATGTAT
*
89502184 GCTGATACATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTCAG
* * * * *
89502228 GCTGATGCGTGTCCTAGACACGTCTTACACTAGCTATCTCTGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AG
*
89502275 GCCGATGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
89502303 TCTGGCACTC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 5 0.08
44 31 0.51
46 1 0.02
47 24 0.39
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTCAG
Done.