Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 110 of 120
Found at i:16110289 original size:10 final size:10
Alignment explanation
Indices: 16110274--16110330 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
16110264 AAAATAATTT
16110274 TTTTAATAAA
1 TTTTAATAAA
*
16110284 TTTTAATTAA
1 TTTTAATAAA
16110294 TTTT-A-AAA
1 TTTTAATAAA
*
16110302 TTTTATTAAA
1 TTTTAATAAA
* *
16110312 --TAAATATA
1 TTTTAATAAA
16110320 TTTTAATAAA
1 TTTTAATAAA
16110330 T
1 T
16110331 GACTAATCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
8 11 0.31
9 1 0.03
10 23 0.66
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:16115106 original size:15 final size:15
Alignment explanation
Indices: 16115086--16115134 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
16115076 TCAACTAAGT
16115086 TTGTAAGAATAAAAC
1 TTGTAAGAATAAAAC
*
16115101 TTGTAA-AACT-AGAC
1 TTGTAAGAA-TAAAAC
*
16115115 -AGTAAGAATAAAAC
1 TTGTAAGAATAAAAC
16115129 TTGTAA
1 TTGTAA
16115135 AACTAGACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 5 0.19
14 10 0.38
15 11 0.42
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (15 bp):
TTGTAAGAATAAAAC
Found at i:16115120 original size:28 final size:28
Alignment explanation
Indices: 16115088--16115147 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
16115078 AACTAAGTTT
16115088 GTAAGAATAAAACTTGTAAAACTAGACA
1 GTAAGAATAAAACTTGTAAAACTAGACA
16115116 GTAAGAATAAAACTTGTAAAACTAGACA
1 GTAAGAATAAAACTTGTAAAACTAGACA
16115144 GTAA
1 GTAA
16115148 TAAGAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (28 bp):
GTAAGAATAAAACTTGTAAAACTAGACA
Found at i:16115385 original size:2 final size:2
Alignment explanation
Indices: 16115378--16115420 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
16115368 TTCGAGAAAT
16115378 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16115420 T
1 T
16115421 AAACTGCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16117557 original size:12 final size:13
Alignment explanation
Indices: 16117529--16117562 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
16117519 AGAAAAGGAG
16117529 TGGACAAAATGGAA
1 TGGAC-AAATGGAA
16117543 TGGACAAAT-GAA
1 TGGACAAATGGAA
16117555 TGGACAAA
1 TGGACAAA
16117563 GGTTAGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 4 0.20
14 5 0.25
ACGTcount: A:0.50, C:0.09, G:0.26, T:0.15
Consensus pattern (13 bp):
TGGACAAATGGAA
Found at i:16123417 original size:23 final size:22
Alignment explanation
Indices: 16123395--16123437 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16123385 AAAATATATT
16123395 TTTATAA-TTTTATTAAATTTA
1 TTTATAATTTTTATTAAATTTA
16123416 TTTATAATTTTTATTATAATTT
1 TTTATAATTTTTATTA-AATTT
16123438 TAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 8 0.40
23 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATAATTTTTATTAAATTTA
Found at i:16123434 original size:12 final size:12
Alignment explanation
Indices: 16123396--16123456 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
16123386 AAATATATTT
16123396 TTATAA-TTTTA
1 TTATAATTTTTA
*
16123407 TTA-AATTTAT-
1 TTATAATTTTTA
16123417 TTATAATTTTTA
1 TTATAATTTTTA
*
16123429 TTATAATTTTAAA
1 TTATAATTTT-TA
16123442 TTAT-ATTTTT-
1 TTATAATTTTTA
16123452 TTATA
1 TTATA
16123457 TTATATTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 9 0.22
11 12 0.29
12 15 0.37
13 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATAATTTTTA
Found at i:16123459 original size:15 final size:15
Alignment explanation
Indices: 16123435--16123464 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16123425 TTTATTATAA
16123435 TTTTAAATTATATTT
1 TTTTAAATTATATTT
*
16123450 TTTTATATTATATTT
1 TTTTAAATTATATTT
16123465 GAAACTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATTATATTT
Found at i:16125633 original size:12 final size:12
Alignment explanation
Indices: 16125616--16125666 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
16125606 ATTTATCGAT
16125616 TTAAAATTTTTA
1 TTAAAATTTTTA
*
16125628 TTAAAATTTTAA
1 TTAAAATTTTTA
16125640 TT-AAATCGTTTATA
1 TTAAAAT--TTT-TA
*
16125654 TTAAAATCTTTA
1 TTAAAATTTTTA
16125666 T
1 T
16125667 GAATTTCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 4 0.12
12 16 0.50
13 5 0.16
14 3 0.09
15 4 0.12
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:16137453 original size:80 final size:80
Alignment explanation
Indices: 16137320--16137479 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
16137310 ACAACAATAC
* *
16137320 AAATGCAAGAAAATTGAACTCCACACATTTATCCAATAACTTATAAAATGATTCACCAACAAGTT
1 AAATGCAACAAAATTGAACTCCACACATTTATCCAATAACTTAGAAAATGATTCACCAACAAGTT
16137385 GTTGTTGGTCTTCTT
66 GTTGTTGGTCTTCTT
16137400 AAATGCAACAAAATTGAACTCCACACATTTATCCAATAACTTAGAAAATGATTCACCAACAAGTT
1 AAATGCAACAAAATTGAACTCCACACATTTATCCAATAACTTAGAAAATGATTCACCAACAAGTT
16137465 GTTGTTGGTCTTCTT
66 GTTGTTGGTCTTCTT
16137480 TTTGCTTCAC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (80 bp):
AAATGCAACAAAATTGAACTCCACACATTTATCCAATAACTTAGAAAATGATTCACCAACAAGTT
GTTGTTGGTCTTCTT
Found at i:16138194 original size:15 final size:16
Alignment explanation
Indices: 16138164--16138197 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16138154 GCATCTTAAA
*
16138164 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
16138180 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
16138195 ATT
1 ATT
16138198 TTCAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:16155819 original size:15 final size:15
Alignment explanation
Indices: 16155801--16155850 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
16155791 TGTGTAAATT
*
16155801 TATAGTAATTTAATA
1 TATATTAATTTAATA
16155816 TATAATTAAGTCTT-ATA
1 TAT-ATTAA-T-TTAATA
16155833 TA-ATTAATTTAATA
1 TATATTAATTTAATA
16155847 TATA
1 TATA
16155851 ATTTAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 9 0.31
16 4 0.14
17 6 0.21
18 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (15 bp):
TATATTAATTTAATA
Found at i:16156133 original size:35 final size:36
Alignment explanation
Indices: 16156094--16156161 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
16156084 GTTATTTTTA
* *
16156094 TAATTATGATA-GAAAAATATTATAATAAATTTGAT
1 TAATTATGAAATGAAAAACATTATAATAAATTTGAT
*
16156129 TAATTATGAAATGAGAAACATTATAATAAATTT
1 TAATTATGAAATGAAAAACATTATAATAAATTT
16156162 AAACAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
TAATTATGAAATGAAAAACATTATAATAAATTTGAT
Found at i:16158102 original size:13 final size:14
Alignment explanation
Indices: 16158071--16158099 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16158061 TTTTATAGAA
16158071 AATTTTTGAAAAAT
1 AATTTTTGAAAAAT
16158085 AATTTTTGAAAAAT
1 AATTTTTGAAAAAT
16158099 A
1 A
16158100 TTTATATTTT
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTTTTGAAAAAT
Found at i:16158236 original size:27 final size:26
Alignment explanation
Indices: 16158213--16158274 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
16158203 AATATTAGTA
16158213 TAACTATT-AAAATATTAAAAATTAT
1 TAACTATTAAAAATATTAAAAATTAT
* *
16158238 TTATTATTAAAAAATATTAAAAA-TAT
1 TAACTATT-AAAAATATTAAAAATTAT
* *
16158264 TTATTATTAAA
1 TAACTATTAAA
16158275 TTTATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 9 0.27
26 11 0.33
27 13 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TAACTATTAAAAATATTAAAAATTAT
Found at i:16158295 original size:33 final size:27
Alignment explanation
Indices: 16158221--16158274 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
16158211 TATAACTATT
*
16158221 AAAATATTAAAAATTATTTATTATTAA
1 AAAATATTAAAAAATATTTATTATTAA
16158248 AAAATATT-AAAAATATTTATTATTAA
1 AAAATATTAAAAAATATTTATTATTAA
16158274 A
1 A
16158275 TTTATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATATTAAAAAATATTTATTATTAA
Found at i:16158411 original size:13 final size:13
Alignment explanation
Indices: 16158393--16158564 Score: 73
Period size: 13 Copynumber: 13.3 Consensus size: 13
16158383 TTTATTAATA
16158393 TATATTAATATAT
1 TATATTAATATAT
*
16158406 TATATTATTGGTATAT
1 TATATTA---ATATAT
16158422 TATTTATTAATA-A-
1 TA--TATTAATATAT
** *
16158435 TATATTGTTATAA
1 TATATTAATATAT
*
16158448 TAT-TTATTA-AT
1 TATATTAATATAT
16158459 TA-ATTAATAATAT
1 TATATTAAT-ATAT
*
16158472 T-TATTATTATAT
1 TATATTAATATAT
*
16158484 TTTATTAATATA-
1 TATATTAATATAT
16158496 T-TA-T-A-ATAT
1 TATATTAATATAT
*
16158505 T-TCTTAATATTAT
1 TATATTAATA-TAT
16158518 T-TATTAATATAT
1 TATATTAATATAT
16158530 TATATTAATAGTATAT
1 TATATT-A-A-TATAT
16158546 TATTTATTAATATAT
1 TA--TATTAATATAT
16158561 TATA
1 TATA
16158565 ATATAATATT
Statistics
Matches: 125, Mismatches: 11, Indels: 46
0.69 0.06 0.25
Matches are distributed among these distances:
8 3 0.02
9 3 0.02
10 2 0.02
11 16 0.13
12 18 0.14
13 46 0.37
14 2 0.02
15 10 0.08
16 15 0.12
17 1 0.01
18 9 0.07
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (13 bp):
TATATTAATATAT
Found at i:16158452 original size:67 final size:64
Alignment explanation
Indices: 16158381--16158580 Score: 184
Period size: 57 Copynumber: 3.1 Consensus size: 64
16158371 TTCTTTAAAT
* *
16158381 TATTTATTAATATATATTAATATATTATATTATTGGTATATTATTTATTAATAATATATTGTTAT
1 TATTTATTAATATATATTAATATATTATATTA-T-GTATATTATTTATTAATAATATATTATAAT
16158446 AA
64 -A
16158448 TATTTATTAAT-TA-ATTAATAATATT-TATTAT-TATA-T-TTTA-T--TAATATATTATAATA
1 TATTTATTAATATATATTAAT-ATATTATATTATGTATATTATTTATTAATAATATATTATAATA
* * * * *
16158504 TTTCTTAATATTATTTATTAATATATTATATTAATAGTATATTATTTATTAATATATTATAATAT
1 TAT-TTATTAATATATATTAATATATTATATT-AT-GTATATTATTTATTAATA-A-TATATTAT
16158569 AATA
61 AATA
16158573 TTATTTAT
1 -TATTTAT
16158581 AAGTAAAATT
Statistics
Matches: 108, Mismatches: 9, Indels: 30
0.73 0.06 0.20
Matches are distributed among these distances:
56 3 0.03
57 18 0.17
58 6 0.06
59 11 0.10
60 6 0.06
61 1 0.01
62 8 0.07
63 1 0.01
64 5 0.05
65 12 0.11
66 7 0.06
67 13 0.12
68 1 0.01
69 14 0.13
70 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (64 bp):
TATTTATTAATATATATTAATATATTATATTATGTATATTATTTATTAATAATATATTATAATA
Found at i:16158519 original size:46 final size:46
Alignment explanation
Indices: 16158375--16158576 Score: 151
Period size: 46 Copynumber: 4.5 Consensus size: 46
16158365 TTATTATTCT
* *
16158375 TTAA-ATTATTTATTA--ATA-TATATTAATATATTATATTA-TTG
1 TTAATATTATTTATTATTATATTATATTAATATATTATAATATTTA
* * * *
16158416 GT-ATATTATTTATTAATAATATATTGT-TATAATAT-TTATTA-ATTAA
1 TTAATATTATTTATT-AT--TATATTATAT-TAATATATTATAATATTTA
* * *
16158462 TTAATAATATTTATTATTATATTTTATTAATATATTATAATATTTC
1 TTAATATTATTTATTATTATATTATATTAATATATTATAATATTTA
*
16158508 TTAATATTATTTATTAATATATTATATTAATAGTA-TAT--TATTTA
1 TTAATATTATTTATTATTATATTATATTAATA-TATTATAATATTTA
* *
16158552 TTAATA-TATTATAATATAATATTAT
1 TTAATATTATT-TATTATTATATTAT
16158577 TTATAAGTAA
Statistics
Matches: 127, Mismatches: 19, Indels: 27
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 11 0.09
42 1 0.01
43 4 0.03
44 35 0.28
45 7 0.06
46 47 0.37
47 21 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (46 bp):
TTAATATTATTTATTATTATATTATATTAATATATTATAATATTTA
Found at i:16158567 original size:28 final size:31
Alignment explanation
Indices: 16158395--16158580 Score: 140
Period size: 31 Copynumber: 6.1 Consensus size: 31
16158385 TATTAATATA
* *
16158395 TATTAATATATTATATTATTGGT-ATATTATT
1 TATTAATATATTATATTAAT-ATAATATTATT
**
16158426 TATTAATA-A-TATATTGTTATAATATTTATT
1 TATTAATATATTATATTAATATAATA-TTATT
* * * *
16158456 AATTAAT-TAATAATATTTAT-TATTA-TATTT
1 TATTAATAT-ATTATATTAATATAATATTA-TT
* * *
16158486 TATTAATATATTATAATATTTCTTAATATTATT
1 TATTAATATATTATATTA-AT-ATAATATTATT
16158519 TATTAATATATTATATTAATAGT-ATATTATT
1 TATTAATATATTATATTAATA-TAATATTATT
16158550 TATTAATATA-T-TA-TAATATAATATTATT
1 TATTAATATATTATATTAATATAATATTATT
16158578 TAT
1 TAT
16158581 AAGTAAAATT
Statistics
Matches: 126, Mismatches: 16, Indels: 29
0.74 0.09 0.17
Matches are distributed among these distances:
27 1 0.01
28 17 0.13
29 15 0.12
30 27 0.21
31 33 0.26
32 8 0.06
33 23 0.18
34 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (31 bp):
TATTAATATATTATATTAATATAATATTATT
Found at i:16158592 original size:44 final size:44
Alignment explanation
Indices: 16158461--16158592 Score: 101
Period size: 46 Copynumber: 3.0 Consensus size: 44
16158451 TTATTAATTA
* * * * *
16158461 ATTAATAATATTTATTATTATATTTTATTAATA-TATTATAATATTT
1 ATTAATATTATTTATTAATATAATATATTAATAGTA--A-ATTATTT
* * *
16158507 CTTAATATTATTTATTAATATATTATATTAATAGTATATTATTT
1 ATTAATATTATTTATTAATATAATATATTAATAGTAAATTATTT
*
16158551 ATTAATA-TA-TTA-TAATATAATATTATTTATAAGTAAAATTAT
1 ATTAATATTATTTATTAATATAATA-TATTAAT-AGT-AAATTAT
16158593 GGTCAAAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
41 9 0.12
42 9 0.12
43 5 0.07
44 18 0.25
46 29 0.40
47 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (44 bp):
ATTAATATTATTTATTAATATAATATATTAATAGTAAATTATTT
Found at i:16160123 original size:2 final size:2
Alignment explanation
Indices: 16160116--16160145 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16160106 GAGAAGACAC
16160116 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16160146 TACAAGAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16170576 original size:13 final size:13
Alignment explanation
Indices: 16170560--16170584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16170550 AATAAACAAA
16170560 TAAAAATTTAATT
1 TAAAAATTTAATT
16170573 TAAAAATTTAAT
1 TAAAAATTTAAT
16170585 CGGTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAATTTAATT
Found at i:16171917 original size:20 final size:20
Alignment explanation
Indices: 16171875--16171918 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16171865 ATCTTATAAA
* *
16171875 TATTTAATAAATAAATTTTT
1 TATTAAATAAATAAATTTAT
16171895 TATTAAATAATATAAA-TTAT
1 TATTAAATAA-ATAAATTTAT
16171915 TATT
1 TATT
16171919 TTAGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTAAATAAATAAATTTAT
Found at i:16171919 original size:27 final size:27
Alignment explanation
Indices: 16171881--16171958 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 27
16171871 TAAATATTTA
16171881 ATAAA-TAA-ATTTTTTATTAAATAAT
1 ATAAATTAATATTTTTTATTAAATAAT
* **
16171906 ATAAATTATTATTTTAGA-TAAAT--T
1 ATAAATTAATATTTTTTATTAAATAAT
*
16171930 A-AAATTAATATATTTTTATTAAAAAAT
1 ATAAATTAATAT-TTTTTATTAAATAAT
16171957 AT
1 AT
16171959 TAAACAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
23 9 0.23
24 6 0.15
25 9 0.23
26 7 0.18
27 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
ATAAATTAATATTTTTTATTAAATAAT
Found at i:16171920 original size:26 final size:28
Alignment explanation
Indices: 16171891--16171958 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 28
16171881 ATAAATAAAT
16171891 TTTTTATTAAATAATATAAATT-AT-TA
1 TTTTTATTAAATAATATAAATTAATATA
*
16171917 -TTTTAGATAAAT--TA-AAATTAATATA
1 TTTTTA-TTAAATAATATAAATTAATATA
*
16171942 TTTTTATTAAAAAATAT
1 TTTTTATTAAATAATAT
16171959 TAAACAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
23 5 0.16
24 4 0.12
25 11 0.34
26 10 0.31
27 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TTTTTATTAAATAATATAAATTAATATA
Found at i:16172092 original size:17 final size:18
Alignment explanation
Indices: 16172066--16172118 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
16172056 ATATTTATTG
16172066 AATATAAATATAAAAATA
1 AATATAAATATAAAAATA
16172084 AATAT-AATATAAAAATTCA
1 AATATAAATATAAAAA-T-A
* *
16172103 AAAATAAAAATAAAAA
1 AATATAAATATAAAAA
16172119 GTACTCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.33
18 6 0.20
19 5 0.17
20 9 0.30
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AATATAAATATAAAAATA
Found at i:16172761 original size:15 final size:15
Alignment explanation
Indices: 16172731--16172772 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
16172721 GGTATCAGAG
*
16172731 TAAGGTTCG-AGGTT
1 TAAGGTTCGTGGGTT
16172745 TAAGGTTCGTGGGTT
1 TAAGGTTCGTGGGTT
16172760 TAAGGTTCGTGGG
1 TAAGGTTCGTGGG
16172773 CCCAGGAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.17, C:0.07, G:0.40, T:0.36
Consensus pattern (15 bp):
TAAGGTTCGTGGGTT
Found at i:16172929 original size:90 final size:90
Alignment explanation
Indices: 16172765--16172935 Score: 252
Period size: 90 Copynumber: 1.9 Consensus size: 90
16172755 GGGTTTAAGG
* * * *
16172765 TTCGTGGGCCCAGGAGATCGTGAAACAGTGTTTCAAAATGTTTGAAGAAGGTGTGTCTGGTATGC
1 TTCGTGAGCCCAAGAGATCGTGAAACAGTGTTTCAAAATGTCTGAAGAAGGTATGTCTGGTATGC
* *
16172830 TTATACCTAAGTTTGAGATTTCGTT
66 CTATACCTAAATTTGAGATTTCGTT
* * *
16172855 TTCGTGAGCCCAAGAGATCGTGAAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGC
1 TTCGTGAGCCCAAGAGATCGTGAAACAGTGTTTCAAAATGTCTGAAGAAGGTATGTCTGGTATGC
*
16172920 CTATGCCTAAATTTGA
66 CTATACCTAAATTTGA
16172936 TTCAAGATGT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (90 bp):
TTCGTGAGCCCAAGAGATCGTGAAACAGTGTTTCAAAATGTCTGAAGAAGGTATGTCTGGTATGC
CTATACCTAAATTTGAGATTTCGTT
Found at i:16172961 original size:50 final size:50
Alignment explanation
Indices: 16172886--16172985 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
16172876 GAAGCAGTGT
16172886 TTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGCCTATGCCTAAATTTGA
1 TTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGCCTATGCCTAAATTTGA
16172936 TTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGCCTATGCCTAAATTTGA
1 TTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGCCTATGCCTAAATTTGA
16172986 GATTTCGTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (50 bp):
TTCAAGATGTCTGAAGAAGGTATGTCTGGTTTGCCTATGCCTAAATTTGA
Found at i:16173258 original size:90 final size:93
Alignment explanation
Indices: 16173039--16173301 Score: 343
Period size: 90 Copynumber: 2.8 Consensus size: 93
16173029 AGTACGATTC
* **
16173039 AAGCAGTGTTTCAAGATGTTTGAAGAAGGTATGTCTGGTATGCCTATGTTTAAGTTTGAGATTTC
1 AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGGTATGCCTATGCCTAAGTTTGAGATTTC
* * * ***
16173104 ATTATTTGATGAAAAGAGTAATTTATCGTG
66 GTTATTCGATG--AAGAGCAAGAGATCGTG
* * *
16173134 AAGCAATGTTTCAAGATGTCTGAAGAAGGAATGTCTGGTATGCCTATACCTAAGTTTGAGATTTC
1 AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGGTATGCCTATGCCTAAGTTTGAGATTTC
*
16173199 GTT-TTCG-TG-AGCGCAAGAGATCGTG
66 GTTATTCGATGAAGAGCAAGAGATCGTG
* *
16173224 AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGATTTGCCTATGCCTAAGTTTGAGATTTC
1 AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGGTATGCCTATGCCTAAGTTTGAGATTTC
*
16173289 GTTATTTGATGAA
66 GTTATTCGATGAA
16173302 AAGAGTAATT
Statistics
Matches: 146, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
90 74 0.51
91 3 0.02
92 2 0.01
93 3 0.02
94 3 0.02
95 61 0.42
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (93 bp):
AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGGTATGCCTATGCCTAAGTTTGAGATTTC
GTTATTCGATGAAGAGCAAGAGATCGTG
Found at i:16173421 original size:112 final size:112
Alignment explanation
Indices: 16173224--16173450 Score: 364
Period size: 112 Copynumber: 2.0 Consensus size: 112
16173214 AGAGATCGTG
* *
16173224 AAGCAGTGTTTCAAGATGTCTGAAGAAGGTATGTCTGATTTGCCTATGCCTAAGTTTGAGATTTC
1 AAGCAATGTTTCAAGATGTCTGAAGAAGGTATGTCTGATATGCCTATGCCTAAGTTTGAGATTTC
* **
16173289 GTTATTTGATGAAAAGAGTAATTTTATGTTATGGTAAAGTACGATTC
66 ATTATTTGATGAAAAGAGTAATTTTATGTTATGACAAAGTACGATTC
* * **
16173336 AAGCAATGTTTCAAGATGTTTGAAGAAGGTATGTCTGGTATGCCTATGTTTAAGTTTGAGATTTC
1 AAGCAATGTTTCAAGATGTCTGAAGAAGGTATGTCTGATATGCCTATGCCTAAGTTTGAGATTTC
*
16173401 ATTATTTGATGAAAAGAGTAATTTTATGTTATGACAAAGTATGATTC
66 ATTATTTGATGAAAAGAGTAATTTTATGTTATGACAAAGTACGATTC
16173448 AAG
1 AAG
16173451 ATCTGTTAGT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 105 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (112 bp):
AAGCAATGTTTCAAGATGTCTGAAGAAGGTATGTCTGATATGCCTATGCCTAAGTTTGAGATTTC
ATTATTTGATGAAAAGAGTAATTTTATGTTATGACAAAGTACGATTC
Found at i:16174313 original size:14 final size:14
Alignment explanation
Indices: 16174294--16174321 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16174284 TAGTTCATGT
16174294 TTGCAATGATAGGA
1 TTGCAATGATAGGA
16174308 TTGCAATGATAGGA
1 TTGCAATGATAGGA
16174322 GTTGTTTTGT
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:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
TTGCAATGATAGGA
Found at i:16175883 original size:29 final size:31
Alignment explanation
Indices: 16175825--16175895 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
16175815 CAAATAGTCT
16175825 TTAAATTATAATAAAATATTTTATATAATAA
1 TTAAATTATAATAAAATATTTTATATAATAA
* *
16175856 TTAAATT-TAA-AAAA-ATTTTAATTTAATAC
1 TTAAATTATAATAAAATATTTT-ATATAATAA
*
16175885 TTAAAATATAA
1 TTAAATTATAA
16175896 ATATATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.14
29 17 0.49
30 6 0.17
31 7 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAATTATAATAAAATATTTTATATAATAA
Found at i:16177329 original size:43 final size:42
Alignment explanation
Indices: 16177280--16177415 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 42
16177270 GTATAATAAA
* *
16177280 TATGTTATATTTATATTTAAATTATTTGTGTCATTTAAATATT
1 TATGTTATATTTATA-TTAAATTATTCGTATCATTTAAATATT
** * * * **
16177323 TATGTTATATTCGTATCAAGATTATTCGTATTATAT-AATAAA
1 TATGTTATATTTATATTAA-ATTATTCGTATCATTTAAATATT
* *
16177365 TATGTTGTATGTATAATTAAATTATTCGTATCATTTAAATATT
1 TATGTTATATTTAT-ATTAAATTATTCGTATCATTTAAATATT
*
16177408 TATATTAT
1 TATGTTAT
16177416 GTTTGTGTCA
Statistics
Matches: 70, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
42 31 0.44
43 39 0.56
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (42 bp):
TATGTTATATTTATATTAAATTATTCGTATCATTTAAATATT
Found at i:16177395 original size:21 final size:21
Alignment explanation
Indices: 16177343--16177395 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
16177333 TCGTATCAAG
16177343 ATTATTCGTATTATATAATAA
1 ATTATTCGTATTATATAATAA
* *
16177364 A-TATGTTGTATGTATA-ATTAA
1 ATTAT-TCGTAT-TATATAATAA
16177385 ATTATTCGTAT
1 ATTATTCGTAT
16177396 CATTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTATTCGTATTATATAATAA
Found at i:16177407 original size:85 final size:85
Alignment explanation
Indices: 16177271--16177434 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 85
16177261 ATGTAACACG
* * * * *
16177271 TATAATAAATATGTTATATTTATATTTAAATTATTTGTGTCATTTAAATATTTATGTTATATTCG
1 TATAATAAATATGTTATATGTATAATTAAATTATTCGTATCATTTAAATATTTATATTATATTCG
16177336 TATCAAGATTATTCGTATTA
66 TATCAAGATTATTCGTATTA
* * *
16177356 TATAATAAATATGTTGTATGTATAATTAAATTATTCGTATCATTTAAATATTTATATTATGTTTG
1 TATAATAAATATGTTATATGTATAATTAAATTATTCGTATCATTTAAATATTTATATTATATTCG
*
16177421 TGTCAAGATTATTC
66 TATCAAGATTATTC
16177435 ATGTCATGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (85 bp):
TATAATAAATATGTTATATGTATAATTAAATTATTCGTATCATTTAAATATTTATATTATATTCG
TATCAAGATTATTCGTATTA
Found at i:16178861 original size:14 final size:14
Alignment explanation
Indices: 16178842--16178884 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
16178832 TTGAGGCTTG
16178842 GGGTTTTGATTTAA
1 GGGTTTTGATTTAA
*
16178856 GGGTTTTGATTTTA
1 GGGTTTTGATTTAA
*
16178870 GGAGTTTGGATTTAA
1 GG-GTTTTGATTTAA
16178885 AGAGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
GGGTTTTGATTTAA
Found at i:16178864 original size:59 final size:59
Alignment explanation
Indices: 16178726--16178864 Score: 135
Period size: 58 Copynumber: 2.4 Consensus size: 59
16178716 CGGATTTTAA
* * * * *
16178726 GGGTTTGGATTTAA-GTTTTGAGGGTTTTAGGGTTTGGTTTTAAAGTATAGAAGGTTAG
1 GGGTTTTGATTTAAGGTTTTGAAGATTTTAGGGTTTGATTTTAAAATATAGAAGGTTAG
* * *
16178784 GGGTTTTTATTTTAGAG-TTTGAAGATTTTAGGGTTTCGATTTTAAAAT-TTG-AGGCTT-G
1 GGGTTTTGATTTAAG-GTTTTGAAGATTTTAGGGTTT-GATTTTAAAATATAGAAGG-TTAG
16178842 GGGTTTTGATTTAAGGGTTTTGA
1 GGGTTTTGATTTAA-GGTTTTGA
16178865 TTTTAGGAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
58 28 0.43
59 27 0.42
60 10 0.15
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (59 bp):
GGGTTTTGATTTAAGGTTTTGAAGATTTTAGGGTTTGATTTTAAAATATAGAAGGTTAG
Found at i:16178889 original size:15 final size:14
Alignment explanation
Indices: 16178844--16178891 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
16178834 GAGGCTTGGG
*
16178844 GTTTTGATTTAAGG
1 GTTTTGATTTAAGA
*
16178858 GTTTTGATTTTAGGA
1 GTTTTGA-TTTAAGA
*
16178873 GTTTGGATTTAAAGA
1 GTTTTGATTT-AAGA
16178888 GTTT
1 GTTT
16178892 AAAGGTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
GTTTTGATTTAAGA
Found at i:16178973 original size:16 final size:16
Alignment explanation
Indices: 16178921--16179003 Score: 64
Period size: 16 Copynumber: 5.2 Consensus size: 16
16178911 TTTTATGACA
16178921 TTTTGAATTTTTAGGGG
1 TTTTGAA-TTTTAGGGG
* * * *
16178938 GTTTGGATTTATA-AGA
1 TTTTGAATTT-TAGGGG
16178954 TTTTGAATTTTAGGGG
1 TTTTGAATTTTAGGGG
*
16178970 TTTT-AGATTTTA-GGA
1 TTTTGA-ATTTTAGGGG
*
16178985 TTTTGGATTTTAGGGG
1 TTTTGAATTTTAGGGG
16179001 TTT
1 TTT
16179004 GGATTTAAGA
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
15 15 0.30
16 28 0.56
17 7 0.14
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (16 bp):
TTTTGAATTTTAGGGG
Found at i:16178987 original size:31 final size:32
Alignment explanation
Indices: 16178920--16179003 Score: 116
Period size: 31 Copynumber: 2.6 Consensus size: 32
16178910 ATTTTATGAC
* *
16178920 ATTTTGAATTTTTAGGGGGTTTGGATTTATAAG
1 ATTTTGAA-TTTTAGGGGTTTTAGATTTATAAG
*
16178953 ATTTTGAATTTTAGGGGTTTTAGATTT-TAGG
1 ATTTTGAATTTTAGGGGTTTTAGATTTATAAG
*
16178984 ATTTTGGATTTTAGGGGTTT
1 ATTTTGAATTTTAGGGGTTT
16179004 GGATTTAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
31 22 0.47
32 17 0.36
33 8 0.17
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (32 bp):
ATTTTGAATTTTAGGGGTTTTAGATTTATAAG
Found at i:16178993 original size:15 final size:15
Alignment explanation
Indices: 16178939--16179009 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 15
16178929 TTTTAGGGGG
*
16178939 TTTGGATTTATAAGAT
1 TTTGGATTT-TAGGAT
* *
16178955 TTTGAATTTTAGGGGT
1 TTTGGATTTTA-GGAT
*
16178971 TTTAGATTTTAGGAT
1 TTTGGATTTTAGGAT
**
16178986 TTTGGATTTTAGGGG
1 TTTGGATTTTAGGAT
16179001 TTTGGATTT
1 TTTGGATTT
16179010 AAGAAGTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
15 26 0.58
16 19 0.42
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (15 bp):
TTTGGATTTTAGGAT
Found at i:16182284 original size:23 final size:23
Alignment explanation
Indices: 16182258--16182307 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
16182248 TTTATGTACT
16182258 TATTATTAAAAATT-AATATTTAA
1 TATTATTAAAAATTAAAT-TTTAA
* **
16182281 TATTTTTAAATTTTAAATTTTAA
1 TATTATTAAAAATTAAATTTTAA
16182304 TATT
1 TATT
16182308 TATAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTATTAAAAATTAAATTTTAA
Found at i:16182297 original size:30 final size:30
Alignment explanation
Indices: 16182263--16182322 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16182253 GTACTTATTA
16182263 TTAAAAATTAATATTTA-ATATTTTTAAATT
1 TTAAAAATTAATATTTATA-ATTTTTAAATT
** *
16182293 TTAAATTTTAATATTTATAATTTTTTAATT
1 TTAAAAATTAATATTTATAATTTTTAAATT
16182323 ACAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TTAAAAATTAATATTTATAATTTTTAAATT
Found at i:16182308 original size:23 final size:23
Alignment explanation
Indices: 16182276--16182322 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16182266 AAAATTAATA
*
16182276 TTTAATATTTTTAAATTTTAAAT
1 TTTAATATTTATAAATTTTAAAT
* *
16182299 TTTAATATTTATAATTTTTTAAT
1 TTTAATATTTATAAATTTTAAAT
16182322 T
1 T
16182323 ACAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAATATTTATAAATTTTAAAT
Found at i:16182328 original size:23 final size:23
Alignment explanation
Indices: 16182279--16182328 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
16182269 ATTAATATTT
* **
16182279 AATATTTTTAAATTTTAAATTTT
1 AATATTTATAAATTTTAAATTAC
* *
16182302 AATATTTATAATTTTTTAATTAC
1 AATATTTATAAATTTTAAATTAC
16182325 AATA
1 AATA
16182329 ATTTTTATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTTATAAATTTTAAATTAC
Found at i:16191800 original size:19 final size:18
Alignment explanation
Indices: 16191759--16191828 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 18
16191749 TGAGGTAAAA
*
16191759 ATTTTTTTTA-ATTTTTT
1 ATTTTTTTTATATTTATT
*
16191776 AATTTTTTTATATATTATT
1 ATTTTTTTTATAT-TTATT
* *
16191795 ATTTTTGTTAT-TTTAAGT
1 ATTTTTTTTATATTT-ATT
*
16191813 A-TTTTTATATATTTAT
1 ATTTTTTTTATATTTAT
16191829 GCATTATAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 19 0.46
18 9 0.22
19 13 0.32
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTTTTTATATTTATT
Found at i:16192244 original size:31 final size:30
Alignment explanation
Indices: 16192202--16192346 Score: 91
Period size: 31 Copynumber: 4.6 Consensus size: 30
16192192 CATTAATTCT
*
16192202 TAAATTTCAAAACCCTAAAATACGAAACCTC
1 TAAAATTCAAAACCCTAAAAT-CGAAACCTC
16192233 TAAAATTCAAAATCCCTTAAAATTCGAAATCCT-
1 TAAAATTCAAAA-CCC-TAAAA-TCGAAA-CCTC
* * * * *
16192266 TTAAATCCAAACCCCATAAAATCTCAAACCCC
1 TAAAATTCAAAACCC-TAAAATC-GAAACCTC
**
16192298 TAAAACCCAAAACTCC-AAAATCCGAAA-CTCC
1 TAAAATTCAAAAC-CCTAAAAT-CGAAACCT-C
*
16192329 TTAAA-TCAAAACCCTAAA
1 TAAAATTCAAAACCCTAAA
16192347 CCTCATTTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
29 2 0.02
30 10 0.11
31 28 0.31
32 25 0.28
33 21 0.23
34 4 0.04
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (30 bp):
TAAAATTCAAAACCCTAAAATCGAAACCTC
Found at i:16192255 original size:17 final size:16
Alignment explanation
Indices: 16192200--16192302 Score: 68
Period size: 16 Copynumber: 6.4 Consensus size: 16
16192190 AACATTAATT
*
16192200 CTTAAATTTCAAAACC
1 CTTAAAATTCAAAACC
* *
16192216 C-TAAAATACGAAA-C
1 CTTAAAATTCAAAACC
16192230 CTCTAAAATTCAAAATCC
1 CT-TAAAATTCAAAA-CC
* *
16192248 CTTAAAATTCGAAATC
1 CTTAAAATTCAAAACC
* * *
16192264 CTTTAAATCCAAACCC
1 CTTAAAATTCAAAACC
*
16192280 CATAAAATCTC-AAACC
1 CTTAAAAT-TCAAAACC
*
16192296 CCTAAAA
1 CTTAAAA
16192303 CCCAAAACTC
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
14 2 0.03
15 9 0.14
16 39 0.60
17 12 0.18
18 3 0.05
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (16 bp):
CTTAAAATTCAAAACC
Found at i:16192261 original size:33 final size:32
Alignment explanation
Indices: 16192202--16192346 Score: 90
Period size: 32 Copynumber: 4.6 Consensus size: 32
16192192 CATTAATTCT
*
16192202 TAAATTTCAAAACCCTAAAATACGAAA-CCTC
1 TAAAATTCAAAACCCTAAAATACGAAATCCTC
*
16192233 TAAAATTCAAAATCCCTTAAAATTCGAAATCCT-
1 TAAAATTCAAAA-CCC-TAAAATACGAAATCCTC
* * * * *
16192266 TTAAATCCAAACCCCATAAAAT-CTCAAA-CCCC
1 TAAAATTCAAAACCC-TAAAATAC-GAAATCCTC
** *
16192298 TAAAACCCAAAACTCC-AAAATCCGAAACTCCT-
1 TAAAATTCAAAAC-CCTAAAATACGAAA-TCCTC
16192330 T-AAA-TCAAAACCCTAAA
1 TAAAATTCAAAACCCTAAA
16192347 CCTCATTTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
29 2 0.02
30 9 0.10
31 25 0.28
32 27 0.30
33 24 0.27
34 3 0.03
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (32 bp):
TAAAATTCAAAACCCTAAAATACGAAATCCTC
Found at i:16192271 original size:16 final size:17
Alignment explanation
Indices: 16192200--16192270 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
16192190 AACATTAATT
*
16192200 CTTAAATTTCAAAA-CC
1 CTTAAAATTCAAAATCC
* *
16192216 C-TAAAATACGAAA--C
1 CTTAAAATTCAAAATCC
16192230 CTCTAAAATTCAAAATCC
1 CT-TAAAATTCAAAATCC
*
16192248 CTTAAAATTCGAAATCC
1 CTTAAAATTCAAAATCC
*
16192265 TTTAAA
1 CTTAAA
16192271 TCCAAACCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.05
15 9 0.20
16 11 0.25
17 19 0.43
18 3 0.07
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (17 bp):
CTTAAAATTCAAAATCC
Found at i:16192287 original size:16 final size:15
Alignment explanation
Indices: 16192209--16192346 Score: 64
Period size: 16 Copynumber: 8.8 Consensus size: 15
16192199 TCTTAAATTT
*
16192209 CAAAACCCTAAAATAC
1 CAAACCCCTAAAAT-C
* *
16192225 GAAACCTCTAAAATTC
1 CAAACCCCTAAAA-TC
* *
16192241 AAAATCCCTTAAAATTC
1 CAAA-CCCCTAAAA-TC
* * * *
16192258 GAAATCCTTTAAATC
1 CAAACCCCTAAAATC
16192273 CAAACCCCATAAAATC
1 CAAACCCC-TAAAATC
*
16192289 TCAAACCCCTAAAACC
1 -CAAACCCCTAAAATC
*
16192305 CAAAACTCC-AAAATC
1 C-AAACCCCTAAAATC
* *
16192320 CGAAACTCCTTAAAT-
1 C-AAACCCCTAAAATC
*
16192335 CAAAACCCTAAA
1 CAAACCCCTAAA
16192347 CCTCATTTAA
Statistics
Matches: 95, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
14 8 0.08
15 22 0.23
16 43 0.45
17 22 0.23
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (15 bp):
CAAACCCCTAAAATC
Found at i:16192472 original size:30 final size:31
Alignment explanation
Indices: 16192361--16192472 Score: 83
Period size: 30 Copynumber: 3.7 Consensus size: 31
16192351 ATTTAAAAAA
* * **
16192361 AAAATCAAAACCCTAAAA-TCTCTAAATTTT
1 AAAATCAAAATCCTAAAACCCTCTAAACCTT
* * *
16192391 AAAATCAAAATCCT-AAACCTTC-ATACCCT
1 AAAATCAAAATCCTAAAACCCTCTAAACCTT
* *
16192420 AAAATTC--AAGCCTTAAGACCCTCTAAACCTT
1 AAAA-TCAAAATCC-TAAAACCCTCTAAACCTT
16192451 AAAATC-AAATCCTAAAACCCTC
1 AAAATCAAAATCCTAAAACCCTC
16192473 AAGACTCAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
28 4 0.06
29 11 0.18
30 34 0.55
31 13 0.21
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.25
Consensus pattern (31 bp):
AAAATCAAAATCCTAAAACCCTCTAAACCTT
Found at i:16192534 original size:23 final size:23
Alignment explanation
Indices: 16192483--16192538 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
16192473 AAGACTCAAA
*
16192483 TCAAAACCTTAAAATCCGAATCT
1 TCAAAACCTTAAAATCCGAATAT
*
16192506 TCAAAACCTTGAAAAT-CTAATAT
1 TCAAAACCTT-AAAATCCGAATAT
*
16192529 TTAAAACCTT
1 TCAAAACCTT
16192539 TATTCAAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (23 bp):
TCAAAACCTTAAAATCCGAATAT
Found at i:16194137 original size:20 final size:19
Alignment explanation
Indices: 16194104--16194143 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
16194094 AAAGAAAAGT
* *
16194104 TGAAAAAAATTTATTTTTA
1 TGAAAAAAAATTATATTTA
16194123 TGAAAAAACAATTATATTTA
1 TGAAAAAA-AATTATATTTA
16194143 T
1 T
16194144 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TGAAAAAAAATTATATTTA
Found at i:16194307 original size:21 final size:21
Alignment explanation
Indices: 16194267--16194307 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16194257 CTCTTAACAA
**
16194267 CAAAATAAATCAAATTATTAT
1 CAAAATAAATCAAAAAATTAT
*
16194288 CAAAATAAATTAAAAAATTA
1 CAAAATAAATCAAAAAATTA
16194308 AATTAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
CAAAATAAATCAAAAAATTAT
Found at i:16194458 original size:19 final size:18
Alignment explanation
Indices: 16194423--16194461 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16194413 ATGTTACTTT
*
16194423 ATTAAAAAAAAGGTTATA
1 ATTAAAAAAAAGATTATA
*
16194441 ATTAAAAACAAATATTATA
1 ATTAAAAA-AAAGATTATA
16194460 AT
1 AT
16194462 GAATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
ATTAAAAAAAAGATTATA
Found at i:16194615 original size:5 final size:5
Alignment explanation
Indices: 16194597--16194634 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
16194587 TCTAAAAAAC
* *
16194597 TTTCA TTTTA TTTCC TTTCA TTTCA TTTCA TTTCA TTT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT
16194635 TTTATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (5 bp):
TTTCA
Found at i:16194749 original size:13 final size:13
Alignment explanation
Indices: 16194717--16194750 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16194707 AGTAAACAAA
*
16194717 TAAAAATTTAATT
1 TAAAAATTTAATC
16194730 TAAAAATTTAATC
1 TAAAAATTTAATC
*
16194743 TATAAATT
1 TAAAAATT
16194751 AGAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAATTTAATC
Found at i:16196120 original size:20 final size:21
Alignment explanation
Indices: 16196064--16196120 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
16196054 TTATATAATT
*
16196064 AATAA-ATAAAATTTTTATTA
1 AATAATATAAAATTATTATTA
16196084 AATAATAT-AAATTATTATTTTA
1 AATAATATAAAATTATTA--TTA
16196106 AATTAAT-TAAAATTA
1 AA-TAATATAAAATTA
16196121 ATATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 6 0.19
23 10 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAATATAAAATTATTATTA
Found at i:16196167 original size:14 final size:13
Alignment explanation
Indices: 16196148--16196186 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
16196138 ATATATATTA
16196148 ATAAAAAACTAAAT
1 ATAAAAAA-TAAAT
16196162 ATAAAAAATAAAT
1 ATAAAAAATAAAT
*
16196175 -TTAAAAATAAAT
1 ATAAAAAATAAAT
16196187 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 5 0.21
14 8 0.33
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAAAAATAAAT
Found at i:16198601 original size:7 final size:7
Alignment explanation
Indices: 16198589--16198613 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16198579 TCAATCTATC
16198589 AATTTTA
1 AATTTTA
16198596 AATTTTA
1 AATTTTA
16198603 AATTTTA
1 AATTTTA
16198610 AATT
1 AATT
16198614 CAGTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:16199423 original size:21 final size:20
Alignment explanation
Indices: 16199399--16199447 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
16199389 TAATTTAATT
16199399 AATTTATATAATTATTTTTAA
1 AATTTATATAA-TATTTTTAA
*
16199420 AATTAATATTTAATATTTTTAA
1 AATT--TATATAATATTTTTAA
*
16199442 ATTTTA
1 AATTTA
16199448 AATTTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 4 0.17
22 12 0.50
23 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTATATAATATTTTTAA
Found at i:16199448 original size:23 final size:23
Alignment explanation
Indices: 16199411--16199469 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
16199401 TTTATATAAT
*
16199411 TATTTTTAAA-ATT-AATATTTAA
1 TATTTTTAAATTTTAAAT-TTTAA
16199433 TATTTTTAAATTTTAAATTTTAA
1 TATTTTTAAATTTTAAATTTTAA
**
16199456 TATTAATAAATTTT
1 TATTTTTAAATTTT
16199470 TTAATTACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.31
23 19 0.59
24 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTAAATTTTAAATTTTAA
Found at i:16204124 original size:51 final size:50
Alignment explanation
Indices: 16204065--16204179 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 50
16204055 TCAATAATTT
*
16204065 ATATATATATATATATATTTATATATAATTAATAATTAA-AAATTTTTATTAAATA
1 ATATATAT-TAT-TAT-TTTAAAT-TAATTAA-AATTAATAAATTTTTATTAAA-A
* *
16204120 ATATAAATTATTATTTTAAATTAATTAAAATTAATATATTTTTATTAAAA
1 ATATATATTATTATTTTAAATTAATTAAAATTAATAAATTTTTATTAAAA
16204170 ATATATATTA
1 ATATATATTA
16204180 ATAAAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 16 0.29
51 20 0.36
52 6 0.11
53 3 0.05
54 3 0.05
55 7 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (50 bp):
ATATATATTATTATTTTAAATTAATTAAAATTAATAAATTTTTATTAAAA
Found at i:16204253 original size:10 final size:9
Alignment explanation
Indices: 16204225--16204252 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16204215 AATAAAAAAA
16204225 TAATTTTTT
1 TAATTTTTT
16204234 TAATTTTTT
1 TAATTTTTT
16204243 TAATTTTTT
1 TAATTTTTT
16204252 T
1 T
16204253 TTAAATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TAATTTTTT
Found at i:16205473 original size:29 final size:28
Alignment explanation
Indices: 16205402--16205474 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
16205392 CTAAATTATA
*
16205402 ATAAA-ATATTTAATATAATACTTAAAT
1 ATAAATATATTTAATATAATACTAAAAT
* * *
16205429 TTAAAATTTTTTTAATATAATATCTAAAAT
1 AT-AAATATATTTAATATAATA-CTAAAAT
*
16205459 ATAAATATATATAATA
1 ATAAATATATTTAATA
16205475 CTTACATCTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.03
28 3 0.09
29 24 0.69
30 7 0.20
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
ATAAATATATTTAATATAATACTAAAAT
Found at i:16207592 original size:23 final size:22
Alignment explanation
Indices: 16207566--16207612 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16207556 TTTTTAAAAA
16207566 TTAATATTTAATATATTTA-AATT
1 TTAA-ATTTAA-ATATTTATAATT
*
16207589 TTAAATTTTAATATTTATAATT
1 TTAAATTTAAATATTTATAATT
16207611 TT
1 TT
16207613 TTTAATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAAATTTAAATATTTATAATT
Found at i:16209177 original size:74 final size:74
Alignment explanation
Indices: 16209085--16209232 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
16209075 CCCCTTCCCT
16209085 TAGCCACCCTCTACCCCATATACAACACCAGCAGAAAACCATACCTGGACTCCTTTGAACCATCA
1 TAGCCACCCTCTACCCCATATACAACACCAGCAGAAAACCATACCTGGACTCCTTTGAACCATCA
16209150 AAAAACTCC
66 AAAAACTCC
16209159 TAGCCACCCTCTACCCCATATACAACACCAGCAGAAAACCATACCTGGACTCCTTTGAACCATCA
1 TAGCCACCCTCTACCCCATATACAACACCAGCAGAAAACCATACCTGGACTCCTTTGAACCATCA
16209224 AAAAACTCC
66 AAAAACTCC
16209233 ACCACCATAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.36, C:0.38, G:0.08, T:0.18
Consensus pattern (74 bp):
TAGCCACCCTCTACCCCATATACAACACCAGCAGAAAACCATACCTGGACTCCTTTGAACCATCA
AAAAACTCC
Found at i:16211087 original size:17 final size:19
Alignment explanation
Indices: 16211064--16211110 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
16211054 AAATGAAATA
16211064 ATAATAATTTTTAAAA-AG
1 ATAATAATTTTTAAAAGAG
*
16211082 -TAATAATAATTTAAAAGAG
1 ATAATAAT-TTTTAAAAGAG
16211101 ATAA-AATTTT
1 ATAATAATTTT
16211111 GTGAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 5 0.21
20 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (19 bp):
ATAATAATTTTTAAAAGAG
Found at i:16219239 original size:3 final size:3
Alignment explanation
Indices: 16219231--16219265 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16219221 TTCACTTCAT
16219231 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16219266 TCATTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16219958 original size:23 final size:22
Alignment explanation
Indices: 16219915--16219975 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
16219905 TTAAATATAT
*
16219915 TTATAAAATTTTTAAAATTTTAAA
1 TTATATAATTTTT-AAATTTT-AA
* *
16219939 TTATATAATTTTTAATTTTTTA
1 TTATATAATTTTTAAATTTTAA
*
16219961 TTAATATTATTTTTA
1 TT-ATATAATTTTTA
16219976 TATTATATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.09
23 17 0.53
24 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATAATTTTTAAATTTTAA
Found at i:16245875 original size:31 final size:31
Alignment explanation
Indices: 16245840--16245901 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
16245830 TACGTCGAAG
* * *
16245840 ATTATA-AAAAAATGTGTTAAAATTTATCAAA
1 ATTATATAAAAAAT-TATAAAAATATATCAAA
16245871 ATTATATAAAAAATTATAAAAATATATCAAA
1 ATTATATAAAAAATTATAAAAATATATCAAA
16245902 GGTTATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (31 bp):
ATTATATAAAAAATTATAAAAATATATCAAA
Found at i:16246148 original size:41 final size:44
Alignment explanation
Indices: 16246087--16246176 Score: 141
Period size: 42 Copynumber: 2.1 Consensus size: 44
16246077 TACCGAAGAT
* *
16246087 TATAAAAAATATATTTCAAAATTATA-TAAATGTTATAAAAA-A
1 TATAAAAAATATATATCAAAATTATATTAAAAGTTATAAAAATA
16246129 TATAAAAAATAT-TATCAAAATTATATTAAAAGTTATAAAAATA
1 TATAAAAAATATATATCAAAATTATATTAAAAGTTATAAAAATA
16246172 TATAA
1 TATAA
16246177 GAGATTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 12 0.27
42 26 0.59
43 6 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (44 bp):
TATAAAAAATATATATCAAAATTATATTAAAAGTTATAAAAATA
Found at i:16246184 original size:41 final size:41
Alignment explanation
Indices: 16246087--16246184 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
16246077 TACCGAAGAT
* * *
16246087 TATAAAAAATATATTTCAAAATTATATAAATGTTATAAAAAA
1 TATAAAAAAGAT-TATCAAAATTATATAAAAGTTATAAAAAA
*
16246129 TATAAAAAATATTATCAAAATTATATTAAAAGTTAT-AAAAA
1 TATAAAAAAGATTATCAAAATTATA-TAAAAGTTATAAAAAA
* *
16246170 TATATAAGAGATTAT
1 TATAAAAAAGATTAT
16246185 TAGAAATATA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 29 0.58
42 21 0.42
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (41 bp):
TATAAAAAAGATTATCAAAATTATATAAAAGTTATAAAAAA
Found at i:16246192 original size:62 final size:61
Alignment explanation
Indices: 16246125--16246252 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 61
16246115 AATGTTATAA
16246125 AAAATATAAAAAATATTATCA-AAATTATATTAAAA-GTTATAAAAATATA-TAAGAGATTATT
1 AAAATATAAAAAATATTATCATAAA-TATA-TAAAAGGTTATAAAAATATATTAA-AGATTATT
** * * * *
16246186 AGAAATATAGCAAATGTTATCATAAATATATAAAAGGTTTTACAATTATATTAAAGATTATT
1 A-AAATATAAAAAATATTATCATAAATATATAAAAGGTTATAAAAATATATTAAAGATTATT
16246248 AAAAT
1 AAAAT
16246253 TATATTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
61 10 0.18
62 41 0.72
63 6 0.11
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (61 bp):
AAAATATAAAAAATATTATCATAAATATATAAAAGGTTATAAAAATATATTAAAGATTATT
Found at i:16246253 original size:21 final size:21
Alignment explanation
Indices: 16246104--16246288 Score: 91
Period size: 21 Copynumber: 9.0 Consensus size: 21
16246094 AATATATTTC
*
16246104 AAAATTATA-TAAATG-TTATA
1 AAAATTATATTAAA-GATTATT
* ** * *
16246124 AAAAATATAAAAAATATTATC
1 AAAATTATATTAAAGATTATT
16246145 AAAATTATATTAAA-AGTTA-T
1 AAAATTATATTAAAGA-TTATT
*
16246165 AAAAATATA-TAAGAGATTATT
1 AAAATTATATTAA-AGATTATT
** *
16246186 AGAAA-TATAGCAAATG-TTATC
1 A-AAATTATATTAAA-GATTATT
* *
16246207 ATAAA-TATATAAAAGGTT-TT
1 A-AAATTATATTAAAGATTATT
*
16246227 ACAATTATATTAAAGATTATT
1 AAAATTATATTAAAGATTATT
* *
16246248 AAAATTATATTAAAAATTGTT
1 AAAATTATATTAAAGATTATT
* * *
16246269 AAATTTGTATCAAAGATTAT
1 AAAATTATATTAAAGATTAT
16246289 AAATTTAATT
Statistics
Matches: 127, Mismatches: 26, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
19 5 0.04
20 35 0.28
21 81 0.64
22 6 0.05
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATTATATTAAAGATTATT
Found at i:16246328 original size:21 final size:20
Alignment explanation
Indices: 16246289--16246328 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16246279 CAAAGATTAT
* *
16246289 AAATTTAATTTTTTATTTAC
1 AAATTTAAATTTATATTTAC
16246309 AAATTTAAATTTATACTTTA
1 AAATTTAAATTTATA-TTTA
16246329 TATGTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTTAAATTTATATTTAC
Found at i:16252583 original size:158 final size:158
Alignment explanation
Indices: 16252316--16252610 Score: 536
Period size: 158 Copynumber: 1.9 Consensus size: 158
16252306 AGACCATGGT
* *
16252316 GGCTTATTGTTGGGCATACAAGCATAAAGCCTGATTTGAATGGGAAACCATTAATGTGATTCCTG
1 GGCTTATTGTTGGGCATACAAACATAAAGCCTGATTTGAATGGGAAACCATTAAGGTGATTCCTG
16252381 AAATGAGATTAGTGATTAGCAATACTAGTAGAGAAACTGGAATTGTTGTTAAAGAGTAGCCAAAT
66 AAATGAGATTAGTGATTAGCAATACTAGTAGAGAAACTGGAATTGTTGTTAAAGAGTAGCCAAAT
16252446 TAGTTCAACATATTATACAAACTGTGGC
131 TAGTTCAACATATTATACAAACTGTGGC
* * *
16252474 GGCTTATTGTTGGGCATACAAACATAAATCCTGATTTGAATTGGAAACCGTTAAGGTGATTCCTG
1 GGCTTATTGTTGGGCATACAAACATAAAGCCTGATTTGAATGGGAAACCATTAAGGTGATTCCTG
*
16252539 AAATGAGATTAGTGATTGGCAATACTAGTAGAGAAACTGGAATTGTTGTTAAAGAGTAGCCAAAT
66 AAATGAGATTAGTGATTAGCAATACTAGTAGAGAAACTGGAATTGTTGTTAAAGAGTAGCCAAAT
16252604 TAGTTCA
131 TAGTTCA
16252611 GATAGGCGAT
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 131 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (158 bp):
GGCTTATTGTTGGGCATACAAACATAAAGCCTGATTTGAATGGGAAACCATTAAGGTGATTCCTG
AAATGAGATTAGTGATTAGCAATACTAGTAGAGAAACTGGAATTGTTGTTAAAGAGTAGCCAAAT
TAGTTCAACATATTATACAAACTGTGGC
Found at i:16253657 original size:2 final size:2
Alignment explanation
Indices: 16253650--16253676 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16253640 TGGCAAATTG
16253650 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16253677 ATGTTCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16259758 original size:2 final size:2
Alignment explanation
Indices: 16259751--16259789 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
16259741 TTTCTGCCAC
16259751 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
16259790 GGGTGGTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:16276325 original size:45 final size:46
Alignment explanation
Indices: 16276274--16276365 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
16276264 CAATAATAGT
*
16276274 ACTAT-GGAAACAAATATGAAAATCCT-ATGTAACTAGCCACAATAA
1 ACTATGGGAAACAAATAAGAAAAT-CTGATGTAACTAGCCACAATAA
*
16276319 ACTATGGGAAACAAATAAGAAAATCTGATGTACCTAGCCACAATAA
1 ACTATGGGAAACAAATAAGAAAATCTGATGTAACTAGCCACAATAA
16276365 A
1 A
16276366 TAAAGTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 7 0.16
46 36 0.84
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (46 bp):
ACTATGGGAAACAAATAAGAAAATCTGATGTAACTAGCCACAATAA
Found at i:16276779 original size:24 final size:24
Alignment explanation
Indices: 16276747--16276799 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
16276737 ACATTAAATC
*
16276747 TTCT-AGCAGGCCAAGTAGAGAGG
1 TTCTAAGCAGGCCAACTAGAGAGG
16276770 TTCTAAGCAGGCCAACTAGAGAGG
1 TTCTAAGCAGGCCAACTAGAGAGG
16276794 TTCTAA
1 TTCTAA
16276800 ATACATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (24 bp):
TTCTAAGCAGGCCAACTAGAGAGG
Found at i:16281617 original size:3 final size:3
Alignment explanation
Indices: 16281609--16281654 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
16281599 TTATCATTCT
16281609 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16281655 AGGGATAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16283246 original size:29 final size:29
Alignment explanation
Indices: 16283208--16283282 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
16283198 CTATTTTATC
* *
16283208 AGTTTATATTTATATGTATTATTTTAATAA
1 AGTTTATATTTAT-TATATTAATTTAATAA
*
16283238 AGTTT-TATTTATTATCTTAATTTAATAA
1 AGTTTATATTTATTATATTAATTTAATAA
16283266 A-TTTATATGGTTATTAT
1 AGTTTATAT--TTATTAT
16283283 TTAGTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.08
28 17 0.44
29 7 0.18
30 12 0.31
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (29 bp):
AGTTTATATTTATTATATTAATTTAATAA
Found at i:16283755 original size:29 final size:30
Alignment explanation
Indices: 16283690--16283761 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
16283680 ATTTAATTTA
16283690 ATTTATATATT-ATATTAATAAAATTATTAT
1 ATTTATATATTAAT-TTAATAAAATTATTAT
* *
16283720 -CTAATATATTAATTTAATAAAA-TATTAT
1 ATTTATATATTAATTTAATAAAATTATTAT
16283748 ATTTATATA-TAATT
1 ATTTATATATTAATT
16283762 AAAATGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.31
29 23 0.64
30 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTATATATTAATTTAATAAAATTATTAT
Found at i:16284533 original size:16 final size:16
Alignment explanation
Indices: 16284493--16284534 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16284483 TACACTAATA
*
16284493 AAAAAATGATAAGAAT
1 AAAAAATTATAAGAAT
*
16284509 ATAAAATTATAA-AAT
1 AAAAAATTATAAGAAT
16284524 AAAAATATTAT
1 AAAAA-ATTAT
16284535 TATTATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAAAATTATAAGAAT
Found at i:16286595 original size:15 final size:15
Alignment explanation
Indices: 16286575--16286605 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16286565 AAGTTTTAAT
*
16286575 TATATTAAAATATAA
1 TATATTAAAAGATAA
16286590 TATATTAAAAGATAA
1 TATATTAAAAGATAA
16286605 T
1 T
16286606 TTTTTTATCA
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
TATATTAAAAGATAA
Found at i:16286849 original size:34 final size:34
Alignment explanation
Indices: 16286811--16286901 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 34
16286801 AAATTGAGTT
* * **
16286811 TTTTTTTTATTAAAAGTTATTTTTTTATACTTTA
1 TTTTTTTAAATAAAAGTTATAATTTTATACTTTA
*
16286845 -TTTTTTAAATCAAAGTTTATAATTTTATACTTTA
1 TTTTTTTAAATAAAAG-TTATAATTTTATACTTTA
*
16286879 TTTGTTTAAATAAAAGTTTATAA
1 TTTTTTTAAATAAAAG-TTATAA
16286902 ATATTTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 12 0.25
34 16 0.33
35 20 0.42
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (34 bp):
TTTTTTTAAATAAAAGTTATAATTTTATACTTTA
Found at i:16286895 original size:35 final size:34
Alignment explanation
Indices: 16286833--16286901 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
16286823 AAAGTTATTT
*
16286833 TTTTATACTTTATTTTTTAAATCAAAGTTTATAA
1 TTTTATACTTTATTTTTTAAATAAAAGTTTATAA
16286867 TTTTATACTTTATTTGTTTAAATAAAAGTTTATAA
1 TTTTATACTTTATTT-TTTAAATAAAAGTTTATAA
16286902 ATATTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
TTTTATACTTTATTTTTTAAATAAAAGTTTATAA
Found at i:16289702 original size:27 final size:27
Alignment explanation
Indices: 16289664--16289720 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
16289654 TGTACCTGTA
16289664 CCTCATCAATTTATTAATGATAAGTTT
1 CCTCATCAATTTATTAATGATAAGTTT
16289691 CCTCATCAATTTATTAATGATAAGTTT
1 CCTCATCAATTTATTAATGATAAGTTT
16289718 CCT
1 CCT
16289721 TGCACTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.44
Consensus pattern (27 bp):
CCTCATCAATTTATTAATGATAAGTTT
Found at i:16295471 original size:3 final size:3
Alignment explanation
Indices: 16295465--16295499 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16295455 CCTATGTCTT
16295465 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16295500 TTTTTGATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16298113 original size:2 final size:2
Alignment explanation
Indices: 16298106--16298134 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16298096 TCCGTTCCTT
16298106 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16298135 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16321964 original size:696 final size:692
Alignment explanation
Indices: 16320622--16322940 Score: 2771
Period size: 696 Copynumber: 3.3 Consensus size: 692
16320612 GTTTTTATTA
* * * * *
16320622 CAACTTTATCTTACTTCATTGCTTTCGTAACTTGACGATAAAGAATGCATACTAAAATTTTTTGT
1 CAACTTTATC-GACTTCATTGCTTTCGTAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGA
* *
16320687 AAAAGCAGCCAAAAAAATTAGACTTTTTTTCCTTGACAATGTTAGAGTATTCAACTATGCTATTC
65 AAAAACAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTTAGAGTATTCAACTATGCTATTC
* *
16320752 ACAAAAAGTAAACTGTAAGGGAGGGTATTTTTAAGTTTAAAAGATATAATGATTATTTTTTTATT
130 GCAAAAAGTAAACTGT--GGGAGGGTATTTTTAAGTTTAAAAGATATAATAATTATTTTTTTATT
* * * * * * * * *
16320817 CGAGATTATTAATAGATAATAAAAAATACTTTTAATTTTTTATTGAATCAATGTGTTAGATCAAT
193 AGAGACTATTAATAGATAATCAAAAATATTTTTGATTTTTGATTGAATCGATGTGTCAGGTCAAT
* * * ** * *
16320882 CTAAATTCACAAGATTACATTAATTCGATCATTTCAGTGGAT-TACTCATTAGATCCCTTAGATG
258 CTAAATTCACAAGACTACATTAATTCGACCATCTCAACGG-TCTACTCATTAGACCCCCTAGATG
* * * * * * * *
16320946 TTGACTTAACTTTTCATGACTAGGTGATTAACGTCCAATTCAGCTTGGCTTATCATGTTATTCTG
322 CTGACCTATCCTTCCATGACTTGGTGATTAACGTCCAATTCAGCTTGGCTTACCAAGTTATTCTG
* ** * * * *
16321011 ATCCTAAGTTGATTTTGGCCAACTTAAGCAGCTTAAAACCCTTCACCTTACATGTATAAATAGCA
387 ATCCTAGGTTGACATAGG-TAACTTAAGCAGCTCAAAACCCCTCACCTTACATGTATAAATAGCA
** * * *
16321076 CATTTT-AAGTACTATTTGAATCATCAAGCTTTCTTGCACTTTCCTAAATTCCCATTCCTATATA
451 CATTTTCAAGTACTATTTGAATCATCTTGCTTTCTTACACTTTCTTACATTCCCATTCCTATATA
* * * *
16321140 CTTTTTTGATCGACTTAAGTAGTAGAACACAAACATTGAGATCACTCTTAATTTTTATCTTTAAT
516 CTTTTTTGACCGACTTAAGTATTAGAACACAAACATTAAAATCACTCTTAATTTTTATCTTTAAT
* ** * * *
16321205 TGCTATTTTTCTTTTTCTTCTGATTTTAAAATTTTACATGTAAGAAACTGCTTTGTGCAAACATA
581 TGCTATTTTTCTCTTTCTTCTGATTTTAAAATTTTATGTGTAAGAAACAGC-TCGTACAAACATA
*
16321270 AACATTTATAAAATGTGGATGAATCAATATTTAAATAATAAAAAATAG
645 AACATTCATAAAATGTGGATGAATCAATATTTAAATAATAAAAAATAG
* * *
16321318 CAACTTTATACGACTTCATTG-TTTTGTAACTTGACAATAAAGAATGCAGAGTGAAATTCTTTGA
1 CAACTTTAT-CGACTTCATTGCTTTCGTAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGA
* * *
16321382 AAAAACAGCCAAAAAAATTAGATTTTTTTTCCTTGAGAATGTTAAGAGTATTTAACTATGCTATT
65 AAAAACAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTT-AGAGTATTCAACTATGCTATT
* * * * *
16321447 TGCAAATAGTAAATTGTGGGGAGGGTATTTTTAGGTTTAAAAGATAAAATAATTA-TTTTTTATT
129 CGCAAAAAGTAAACTGT-GGGAGGGTATTTTTAAGTTTAAAAGATATAATAATTATTTTTTTATT
* * * * * *
16321511 AGAGACTGTTAATAGATAATTAAAAGTATTTTTGATTTTTGATTGAACCGACGTGTCAGGCCAAT
193 AGAGACTATTAATAGATAATCAAAAATATTTTTGATTTTTGATTGAATCGATGTGTCAGGTCAAT
* *
16321576 CTGAATTCACAAGACTACATTAGTTCGACCATCTCAACGGTCTACTCATTAGACCCCCTAGATGC
258 CTAAATTCACAAGACTACATTAATTCGACCATCTCAACGGTCTACTCATTAGACCCCCTAGATGC
* * * * * *
16321641 TGACCTATCCTTCCAT-AATTGGATGTTTAACATCCAATTCAGCTTGGCATACCAAGTAATTTTG
323 TGACCTATCCTTCCATGACTTGG-TGATTAACGTCCAATTCAGCTTGGCTTACCAAGTTATTCTG
* *
16321705 ATCCTACGGTTGACCTCAGGTAACTTAAGCAGCTCAAAACCCCTCACCTTACATGTATATATAGC
387 ATCCTA-GGTTGACAT-AGGTAACTTAAGCAGCTCAAAACCCCTCACCTTACATGTATAAATAGC
*
16321770 ACATTTTCAAGTACTAATTGAATCATCTTGCTTTCTTACACTTTCTTACATTCCCATTCCTATAT
450 ACATTTTCAAGTACTATTTGAATCATCTTGCTTTCTTACACTTTCTTACATTCCCATTCCTATAT
* * * *
16321835 ACTTTTTTGACCAATTTAAGTATTAGAACATAAACATTTAAATCACT-TTCAATTTTTATCTTTA
515 ACTTTTTTGACCGACTTAAGTATTAGAACACAAACATTAAAATCACTCTT-AATTTTTATCTTTA
* * * * *
16321899 ATTGCTATTTTTCTCTTTCTTCTGATTTCAAAATCTTATGCGTAAAAAACAACTCGATACAAACA
579 ATTGCTATTTTTCTCTTTCTTCTGATTTTAAAATTTTATGTGTAAGAAACAGCTCG-TACAAACA
* * *
16321964 TTAACATTCATAAAATGTGGATGAATCAATATTTACATAATCAAAAATAG
643 TAAACATTCATAAAATGTGGATGAATCAATATTTAAATAATAAAAAATAG
* * * * * *
16322014 CAACTCTATCTAACTTCATTGCTTTCGTAACTTGACAATAAAAAATGCATAATGAGATTCTTTGA
1 CAACTTTATC-GACTTCATTGCTTTCGTAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGA
* * *
16322079 AAAAATAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTTAGAGTATTCAACTATGTTATTT
65 AAAAACAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTTAGAGTATTCAACTATGCTATTC
* * * * *
16322144 GCTAAAAGTAAACTATGGGAAGGAATTTTT-AGATTTAAAAG--AT-ATAATGATTTTTTTATTA
130 GCAAAAAGTAAACTGTGGGAGGGTATTTTTAAG-TTTAAAAGATATAATAATTATTTTTTTATTA
* * * * * *
16322205 AAAACTATTAATAAATAATCAAAAATATTTTAGATTTTTGATTGAATCGATGTGTCAAGTCGA-C
194 GAGACTATTAATAGATAATCAAAAATATTTTTGATTTTTGATTGAATCGATGTGTCAGGTCAATC
* ** * * *
16322269 TTAAATTCACGAGACTATGTTAACTCGACCAACTCACCGGTCTACTCATTAGACCCCCTAGATGC
259 -TAAATTCACAAGACTACATTAATTCGACCATCTCAACGGTCTACTCATTAGACCCCCTAGATGC
** * * * *
16322334 CAACCTATCC-TCTCATGACTTGGTGGTTAATGTCTAATTCAGCTTGGGTTACCAAGTTATTCTG
323 TGACCTATCCTTC-CATGACTTGGTGATTAACGTCCAATTCAGCTTGGCTTACCAAGTTATTCTG
* * *
16322398 ATCCTAAGGTTGACATAGGGTAACTTAAGC-GACTCAAAATCCCTCATCTTACATGTGTAAATAG
387 ATCCT-AGGTTGACATA-GGTAACTTAAGCAG-CTCAAAACCCCTCACCTTACATGTATAAATAG
* * * * *
16322462 CACA-TTTCAAGCACCATTTAAATCATCTTACTTTCTTACACTTTCTTACATTCTCATTCCTATA
449 CACATTTTCAAGTACTATTTGAATCATCTTGCTTTCTTACACTTTCTTACATTCCCATTCCTATA
* * * * *
16322526 TATTTTTTTGACCGACTTAAATATTAAAACACAAATATTAAAATCACTCTTAACTTTTATCTTTA
514 TACTTTTTTGACCGACTTAAGTATTAGAACACAAACATTAAAATCACTCTTAATTTTTATCTTTA
* ** * * * * *
16322591 ACTATTATTTATCTCTTT-TTTTTATTTTATAATTTTATGTGTAAGAAACAGTTCCGTACAAACA
579 ATTGCTATTTTTCTCTTTCTTCTGATTTTAAAATTTTATGTGTAAGAAACAGCT-CGTACAAACA
* *
16322655 TAAACATTCATAAAATATGGGTGAATCAATATTTAAATAATAAAAAATAG
643 TAAACATTCATAAAATGTGGATGAATCAATATTTAAATAATAAAAAATAG
* * *
16322705 CAATTTTATTTGACTTCATTGCTTTCATAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGA
1 CAACTTTA-TCGACTTCATTGCTTTCGTAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGA
* * * * *
16322770 AAAAGCAGCCAAAAAAATTGGACTTTTTTTCCTTGAAAATGTTGGAGCATTCTACTATGCTATTC
65 AAAAACAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTTAGAGTATTCAACTATGCTATTC
* * * * * *
16322835 GCAAAAAGTAAACAGTTGGG-GGATGTTTTTAAGTTTAAAATATATAATAGTTATTTTTTTATTT
130 GCAAAAAGTAAACTG-TGGGAGGGTATTTTTAAGTTTAAAAGATATAATAATTATTTTTTTATTA
* * * * * *
16322899 GTGATTGTTAATAGATAGTCAAAAACATTTTTTATTTTTGAT
194 GAGACTATTAATAGATAATCAAAAATATTTTTGATTTTTGAT
16322941 CAAATCGACG
Statistics
Matches: 1375, Mismatches: 221, Indels: 56
0.83 0.13 0.03
Matches are distributed among these distances:
691 215 0.16
692 141 0.10
693 228 0.17
694 219 0.16
695 189 0.14
696 304 0.22
697 79 0.06
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (692 bp):
CAACTTTATCGACTTCATTGCTTTCGTAACTTGACAATAAAGAATGCATAGTAAAATTCTTTGAA
AAAACAGCCAAAAAAATTAGACTTTTTTTCCTTGAAAATGTTAGAGTATTCAACTATGCTATTCG
CAAAAAGTAAACTGTGGGAGGGTATTTTTAAGTTTAAAAGATATAATAATTATTTTTTTATTAGA
GACTATTAATAGATAATCAAAAATATTTTTGATTTTTGATTGAATCGATGTGTCAGGTCAATCTA
AATTCACAAGACTACATTAATTCGACCATCTCAACGGTCTACTCATTAGACCCCCTAGATGCTGA
CCTATCCTTCCATGACTTGGTGATTAACGTCCAATTCAGCTTGGCTTACCAAGTTATTCTGATCC
TAGGTTGACATAGGTAACTTAAGCAGCTCAAAACCCCTCACCTTACATGTATAAATAGCACATTT
TCAAGTACTATTTGAATCATCTTGCTTTCTTACACTTTCTTACATTCCCATTCCTATATACTTTT
TTGACCGACTTAAGTATTAGAACACAAACATTAAAATCACTCTTAATTTTTATCTTTAATTGCTA
TTTTTCTCTTTCTTCTGATTTTAAAATTTTATGTGTAAGAAACAGCTCGTACAAACATAAACATT
CATAAAATGTGGATGAATCAATATTTAAATAATAAAAAATAG
Found at i:16327639 original size:2 final size:2
Alignment explanation
Indices: 16327634--16327658 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16327624 ATATTTTAAC
16327634 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16327659 GTTCTACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16330219 original size:26 final size:25
Alignment explanation
Indices: 16330188--16330241 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
16330178 AAAATTTTAC
* *
16330188 TAAAATAATATAATTTAAAATTATATA
1 TAAATTAATAAAATTT-AAA-TATATA
16330215 TAAATTTAATAAAATTTAAATATATA
1 TAAA-TTAATAAAATTTAAATATATA
16330241 T
1 T
16330242 TTCATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 7 0.29
28 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATTAATAAAATTTAAATATATA
Found at i:16330237 original size:22 final size:21
Alignment explanation
Indices: 16330203--16330243 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16330193 TAATATAATT
*
16330203 TAAAATTATATATAAATTTAA
1 TAAAATTAAATATAAATTTAA
*
16330224 TAAAATTTAAATATATATTT
1 TAAAA-TTAAATATAAATTT
16330244 CATATTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATTAAATATAAATTTAA
Found at i:16330945 original size:2 final size:2
Alignment explanation
Indices: 16330938--16330967 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16330928 GGGCTTATTT
16330938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16330968 ATGTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16341628 original size:15 final size:15
Alignment explanation
Indices: 16341607--16341641 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16341597 TTTGATTTTT
16341607 ATATTAAAATTTTAA
1 ATATTAAAATTTTAA
* *
16341622 TTATTAATATTTTAA
1 ATATTAAAATTTTAA
16341637 ATATT
1 ATATT
16341642 TTATTTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTAAAATTTTAA
Found at i:16341643 original size:24 final size:23
Alignment explanation
Indices: 16341610--16341662 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
16341600 GATTTTTATA
16341610 TTAAA-ATTTTAATTATTAATATT
1 TTAAATATTTTAATTATTAAT-TT
*
16341633 TTAAATATTTTATTTATTAATTT
1 TTAAATATTTTAATTATTAATTT
16341656 TATAAAT
1 T-TAAAT
16341663 TTATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAAATATTTTAATTATTAATTT
Found at i:16342149 original size:16 final size:16
Alignment explanation
Indices: 16342128--16342161 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16342118 TTTTAAATAA
* *
16342128 AATTATATATTTTATT
1 AATTATAAAATTTATT
16342144 AATTATAAAATTTATT
1 AATTATAAAATTTATT
16342160 AA
1 AA
16342162 AAACGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATAAAATTTATT
Found at i:16347990 original size:16 final size:17
Alignment explanation
Indices: 16347966--16348000 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16347956 ACTTATAATT
*
16347966 TATTTTGATATT-TTTA
1 TATTATGATATTCTTTA
16347982 TATTATGATATTCTTTA
1 TATTATGATATTCTTTA
16347999 TA
1 TA
16348001 CTATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (17 bp):
TATTATGATATTCTTTA
Found at i:16351286 original size:35 final size:34
Alignment explanation
Indices: 16351247--16351323 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
16351237 TTAAACATAT
* * *
16351247 TTTAAAATTAAAATTAAAT-AAAATTAATTTATTAA
1 TTTAAAA-T-AAATCAAATCAAAATTAAATTAATAA
16351282 TTTAATAATAAATCAAATCAAAATTAAATTAATAA
1 TTTAA-AATAAATCAAATCAAAATTAAATTAATAA
*
16351317 TTAAAAA
1 TTTAAAA
16351324 ATTTATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 10 0.28
35 24 0.67
36 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (34 bp):
TTTAAAATAAATCAAATCAAAATTAAATTAATAA
Found at i:16363504 original size:2 final size:2
Alignment explanation
Indices: 16363497--16363525 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16363487 GAAGATTCTT
16363497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16363526 TAAGATTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16367584 original size:2 final size:2
Alignment explanation
Indices: 16367577--16367642 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
16367567 AAGACACAGC
16367577 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16367619 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
16367643 CTAACAGAGG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16380324 original size:2 final size:2
Alignment explanation
Indices: 16380317--16380346 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16380307 TGGAATAAAC
16380317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16380347 TGACCTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16382841 original size:3 final size:3
Alignment explanation
Indices: 16382833--16382881 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
16382823 TTAATATTTT
* *
16382833 TAA TAA TAA TAA TAA TAA TAA TAAA TAT TAA AAA TATA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TA-A TAA TAA
16382881 T
1 T
16382882 TTAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 30 0.75
4 10 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:16383886 original size:19 final size:20
Alignment explanation
Indices: 16383848--16383898 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
16383838 GATTCAAGTA
* *
16383848 AATTTTTTTTATAATTTTAT
1 AATTTTTATTATAATATTAT
16383868 AATTTTTATTAT-ATATTAT
1 AATTTTTATTATAATATTAT
* *
16383887 TATTTTTGTTAT
1 AATTTTTATTAT
16383899 TTTAAGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
AATTTTTATTATAATATTAT
Found at i:16383926 original size:19 final size:19
Alignment explanation
Indices: 16383869--16383926 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
16383859 TAATTTTATA
*
16383869 ATTTTTATTATATATTAT-T
1 ATTTTTGTTATAT-TTATGT
*
16383888 ATTTTTGTTAT-TTTAAGT
1 ATTTTTGTTATATTTATGT
16383906 ATTTTCT-TTATATTTATGT
1 ATTTT-TGTTATATTTATGT
16383925 AT
1 AT
16383927 GATAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.09
18 11 0.33
19 19 0.58
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTTGTTATATTTATGT
Found at i:16383958 original size:22 final size:23
Alignment explanation
Indices: 16383912--16383964 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
16383902 AAGTATTTTC
* *
16383912 TTTATATTTATGTATGATAAATT
1 TTTAAATTTATGTAGGATAAATT
*
16383935 TTTAAATTTAT-TAGGATAATTT
1 TTTAAATTTATGTAGGATAAATT
*
16383957 TTTTAATT
1 TTTAAATT
16383965 GTTTTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTAAATTTATGTAGGATAAATT
Found at i:16384341 original size:15 final size:15
Alignment explanation
Indices: 16384323--16384459 Score: 121
Period size: 15 Copynumber: 8.7 Consensus size: 15
16384313 AACTCTTTAT
16384323 ATCCAAACCCCTAAA
1 ATCCAAACCCCTAAA
*
16384338 ATCCAAAATCTCCTAAA
1 ATCC-AAA-CCCCTAAA
** *
16384355 ATCCAAAATCTTAAA
1 ATCCAAACCCCTAAA
**
16384370 ATCCAAAATCCTAAA
1 ATCCAAACCCCTAAA
*
16384385 ATCTGAAACCCCTAAAA
1 ATC-CAAACCCCT-AAA
* * * *
16384402 ATCTAAAATCTCTTAA
1 ATC-CAAACCCCTAAA
16384418 ATCCAAACCCCTAAA
1 ATCCAAACCCCTAAA
16384433 ATCCGAAACCCCTAAA
1 ATCC-AAACCCCTAAA
16384449 ATCCAAACCCC
1 ATCCAAACCCC
16384460 AAACCCCAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
15 46 0.45
16 32 0.31
17 24 0.24
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (15 bp):
ATCCAAACCCCTAAA
Found at i:16384347 original size:7 final size:7
Alignment explanation
Indices: 16384335--16384387 Score: 52
Period size: 7 Copynumber: 6.9 Consensus size: 7
16384325 CCAAACCCCT
16384335 AAAATCC
1 AAAATCC
16384342 AAAATCTCC
1 AAAA--TCC
16384351 TAAAATCC
1 -AAAATCC
*
16384359 AAAATCTT
1 AAAATC-C
16384367 AAAATCC
1 AAAATCC
16384374 AAAATCC
1 AAAATCC
16384381 TAAAATC
1 -AAAATC
16384388 TGAAACCCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 17 0.44
8 15 0.38
9 3 0.08
10 4 0.10
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATCC
Found at i:16384370 original size:32 final size:31
Alignment explanation
Indices: 16384323--16384458 Score: 132
Period size: 32 Copynumber: 4.3 Consensus size: 31
16384313 AACTCTTTAT
*
16384323 ATCCAAACCCCTAAAATCCAAAATCTCCTAAA
1 ATCCAAACCCTTAAAATCCAAAA-CTCCTAAA
**
16384355 ATCCAAAATCTTAAAATCCAAAA-TCCTAAA
1 ATCCAAACCCTTAAAATCCAAAACTCCTAAA
* * * *
16384385 ATCTGAAACCCCTAAAAATCTAAAA-TCTCTTAA
1 ATC-CAAA-CCCTTAAAATCCAAAACTC-CTAAA
* * *
16384418 ATCCAAACCCCTAAAATCCGAAACCCCTAAA
1 ATCCAAACCCTTAAAATCCAAAACTCCTAAA
16384449 ATCCAAACCC
1 ATCCAAACCC
16384459 CAAACCCCAA
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
30 10 0.12
31 29 0.35
32 38 0.45
33 7 0.08
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (31 bp):
ATCCAAACCCTTAAAATCCAAAACTCCTAAA
Found at i:16384374 original size:47 final size:47
Alignment explanation
Indices: 16384323--16384455 Score: 178
Period size: 47 Copynumber: 2.8 Consensus size: 47
16384313 AACTCTTTAT
* *
16384323 ATCCAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAATCT-TAAA
1 ATCCAAACCCCTAAAATCCGAAA-CCCCTAAAATCCAAAATCTCTAAA
** * * *
16384370 ATCCAAAATCCTAAAATCTGAAACCCCTAAAAATCTAAAATCTCTTAA
1 ATCCAAACCCCTAAAATCCGAAACCCCT-AAAATCCAAAATCTCTAAA
16384418 ATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAA
1 ATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAA
16384456 CCCCAAACCC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 4 0.05
47 41 0.56
48 28 0.38
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (47 bp):
ATCCAAACCCCTAAAATCCGAAACCCCTAAAATCCAAAATCTCTAAA
Found at i:16384400 original size:16 final size:16
Alignment explanation
Indices: 16384379--16384451 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
16384369 AATCCAAAAT
16384379 CCTAAAATCTGAAACC
1 CCTAAAATCTGAAACC
* *
16384395 CCTAAAAATCTAAAATC
1 CCT-AAAATCTGAAACC
* * *
16384412 TCTTAAATC-CAAACC
1 CCTAAAATCTGAAACC
*
16384427 CCTAAAATCCGAAACC
1 CCTAAAATCTGAAACC
16384443 CCTAAAATC
1 CCTAAAATC
16384452 CAAACCCCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 11 0.24
16 22 0.48
17 13 0.28
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.21
Consensus pattern (16 bp):
CCTAAAATCTGAAACC
Found at i:16384424 original size:63 final size:63
Alignment explanation
Indices: 16384323--16384459 Score: 170
Period size: 63 Copynumber: 2.2 Consensus size: 63
16384313 AACTCTTTAT
* * *
16384323 ATCCAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAATCTTAAAATCC-AAAATCCTAAA
1 ATCCAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAACCCTAAAATCCGAAAACCCTAAA
* * * * *
16384385 ATCTGAAACCCCTAAAAATCTAAAATCT-CTTAAATCCAAACCCCTAAAATCCGAAACCCCTAAA
1 ATC-CAAACCCCT-AAAATCCAAAATCTCCTAAAATCCAAAACCCTAAAATCCGAAAACCCTAAA
16384449 ATCCAAACCCC
1 ATCCAAACCCC
16384460 AAACCCCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 3 0.05
63 35 0.56
64 25 0.40
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (63 bp):
ATCCAAACCCCTAAAATCCAAAATCTCCTAAAATCCAAAACCCTAAAATCCGAAAACCCTAAA
Found at i:16384476 original size:21 final size:22
Alignment explanation
Indices: 16384438--16384479 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
16384428 CTAAAATCCG
16384438 AAACCCCTAAAATCCAAACCCC
1 AAACCCCTAAAATCCAAACCCC
16384460 AAACCCC-AAAA-CTCAAACCC
1 AAACCCCTAAAATC-CAAACCC
16384480 TAAAATCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 11 0.58
22 7 0.37
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (22 bp):
AAACCCCTAAAATCCAAACCCC
Found at i:16384512 original size:14 final size:14
Alignment explanation
Indices: 16384459--16384513 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
16384449 ATCCAAACCC
*
16384459 CAAACCCCAAAACT
1 CAAACCCTAAAACT
16384473 CAAACCCTAAAATCT
1 CAAACCCTAAAA-CT
*
16384488 CCAAACTCTAAAA-T
1 -CAAACCCTAAAACT
16384502 CAAAACCCTAAA
1 C-AAACCCTAAA
16384514 CCTTTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 2 0.06
16 11 0.31
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CAAACCCTAAAACT
Found at i:16386225 original size:7 final size:7
Alignment explanation
Indices: 16386188--16386221 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
16386178 TATTTCTTTC
16386188 TTGCATG
1 TTGCATG
16386195 TTGCATG
1 TTGCATG
16386202 TTGCATG
1 TTGCATG
* *
16386209 TTACATA
1 TTGCATG
16386216 TTGCAT
1 TTGCAT
16386222 ATTGTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (7 bp):
TTGCATG
Done.