Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 106 of 126
Found at i:20977476 original size:17 final size:17
Alignment explanation
Indices: 20977451--20977490 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20977441 TTGTTTTATA
*
20977451 TTTTCATTTTGA-TTTCC
1 TTTTTATTTTGACTTT-C
20977468 TTTTTATTTTGACTTTC
1 TTTTTATTTTGACTTTC
20977485 TTTTTA
1 TTTTTA
20977491 ACTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTATTTTGACTTTC
Found at i:20981774 original size:16 final size:18
Alignment explanation
Indices: 20981745--20981783 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
20981735 AATCTCATTA
20981745 TATATATTTATTAATTTT
1 TATATATTTATTAATTTT
20981763 TATATA-TT-TTAATTTT
1 TATATATTTATTAATTTT
20981779 T-TATA
1 TATATA
20981784 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 2 0.10
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATATTTATTAATTTT
Found at i:20985454 original size:16 final size:16
Alignment explanation
Indices: 20985434--20985486 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
20985424 GGTCATGTTC
20985434 AATTTAAAATATTTTA
1 AATTTAAAATATTTTA
* * *
20985450 TATTTGAATTATTTTA
1 AATTTAAAATATTTTA
** *
20985466 AATACAAAATATTTTG
1 AATTTAAAATATTTTA
20985482 AATTT
1 AATTT
20985487 GAGTATGTAA
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
AATTTAAAATATTTTA
Found at i:20985918 original size:48 final size:48
Alignment explanation
Indices: 20985862--20985959 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
20985852 GAAAGTTGAT
20985862 CCTAATCTATGCAAACAGTTAAAACTATCCCCTACTTATATTATATAG
1 CCTAATCTATGCAAACAGTTAAAACTATCCCCTACTTATATTATATAG
20985910 CCTAATCTATGCAAACAGTTAAAACTATCCCCTACTTATATTATATAG
1 CCTAATCTATGCAAACAGTTAAAACTATCCCCTACTTATATTATATAG
20985958 CC
1 CC
20985960 ACATAAATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (48 bp):
CCTAATCTATGCAAACAGTTAAAACTATCCCCTACTTATATTATATAG
Found at i:20986122 original size:20 final size:20
Alignment explanation
Indices: 20986099--20986158 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 20
20986089 TTCATTTTCT
**
20986099 TTTATTTTTTTATTTTGTTA
1 TTTATTTTTTTATTTAATTA
*
20986119 TTTATTGATTTTCTTATTTAATTG
1 TTTA-T--TTTT-TTATTTAATTA
20986143 TTTATTTTTTTATTTA
1 TTTATTTTTTTATTTA
20986159 GATAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 11 0.33
21 5 0.15
23 5 0.15
24 12 0.36
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTATTTTTTTATTTAATTA
Found at i:20986138 original size:16 final size:17
Alignment explanation
Indices: 20986077--20986138 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
20986067 GGCTTTGTTT
20986077 TTTTCTTTATTT-TTCA
1 TTTTCTTTATTTATTCA
* *
20986093 TTTTCTTTTATTTTTTTA
1 TTTTC-TTTATTTATTCA
* *
20986111 TTTT-GTTATTTATTGA
1 TTTTCTTTATTTATTCA
20986127 TTTTC-TTATTTA
1 TTTTCTTTATTTA
20986139 ATTGTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 25 0.64
17 7 0.18
18 7 0.18
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTATTTATTCA
Found at i:20993225 original size:24 final size:24
Alignment explanation
Indices: 20993198--20993256 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
20993188 TATTTGAAAA
* *
20993198 TTTATATTATTAA-ACATAAATATT
1 TTTATATTATTAATA-ATAAAGAAT
20993222 TTTAATATT-TTAATAATAAAGAAT
1 TTT-ATATTATTAATAATAAAGAAT
*
20993246 ATTATATTATT
1 TTTATATTATT
20993257 TTTAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 5 0.17
24 18 0.62
25 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATATTATTAATAATAAAGAAT
Found at i:20993392 original size:26 final size:26
Alignment explanation
Indices: 20993363--20993426 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
20993353 TATTTTTTAG
20993363 TTTAAAATATATTATTTTATATTCTA-
1 TTTAAAATATA-TATTTTATATTCTAT
* **
20993389 TTTATTAAGGTATATTTTATATTCTAT
1 TTTA-AAATATATATTTTATATTCTAT
20993416 TTTAATAATAT
1 TTTAA-AATAT
20993427 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTAAAATATATATTTTATATTCTAT
Found at i:20993443 original size:63 final size:63
Alignment explanation
Indices: 20993375--20993502 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
20993365 TAAAATATAT
*
20993375 TATTTTATATTCTATTTATTAAGGTATATTTTATATTCTATTTTAATAATATTTAAATAAAAA
1 TATTTTATATTCTATTTATTAAGGTATATTTTATATTCTATTATAATAATATTTAAATAAAAA
* *
20993438 TATTTTATATTTTATTTATTAAGGTATATTTTATATTCTATTATAATAATATTTTAATAAAAA
1 TATTTTATATTCTATTTATTAAGGTATATTTTATATTCTATTATAATAATATTTAAATAAAAA
20993501 TA
1 TA
20993503 ATATTTTAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (63 bp):
TATTTTATATTCTATTTATTAAGGTATATTTTATATTCTATTATAATAATATTTAAATAAAAA
Found at i:20993953 original size:12 final size:12
Alignment explanation
Indices: 20993936--20993960 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20993926 AATGGATCCC
20993936 TTCTTATATACA
1 TTCTTATATACA
20993948 TTCTTATATACA
1 TTCTTATATACA
20993960 T
1 T
20993961 ACATACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTTATATACA
Found at i:20993957 original size:2 final size:2
Alignment explanation
Indices: 20993952--20994004 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
20993942 TATACATTCT
* * * * *
20993952 TA TA TA CA TA CA TA CA TA TA TA TA TA TA TT TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20993994 T- TA TA TA TA TA
1 TA TA TA TA TA TA
20994005 AAGGTTTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:20993964 original size:16 final size:16
Alignment explanation
Indices: 20993943--20993993 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
20993933 CCCTTCTTAT
20993943 ATACATTCTTATATAC
1 ATACATTCTTATATAC
* * *
20993959 ATACATACATATATAT
1 ATACATTCTTATATAC
*
20993975 ATATATT-TATATATAC
1 ATACATTCT-TATATAC
20993991 ATA
1 ATA
20993994 TTATATATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (16 bp):
ATACATTCTTATATAC
Found at i:20995377 original size:17 final size:19
Alignment explanation
Indices: 20995339--20995378 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20995329 AAATTTTAAA
20995339 AAAAGAAAGAAAAGAGAGG
1 AAAAGAAAGAAAAGAGAGG
*
20995358 AAAA-AAAGAAAATA-AGG
1 AAAAGAAAGAAAAGAGAGG
20995375 AAAA
1 AAAA
20995379 TAGAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (19 bp):
AAAAGAAAGAAAAGAGAGG
Found at i:20995393 original size:17 final size:16
Alignment explanation
Indices: 20995344--20995394 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
20995334 TTAAAAAAAG
20995344 AAAGAAAAGAGAGGAAAA
1 AAAGAAAAGA-AGG-AAA
*
20995362 AAAGAAAATAAGGAAA
1 AAAGAAAAGAAGGAAA
*
20995378 ATAGAAAAGAATGGAAA
1 AAAGAAAAGAA-GGAAA
20995395 TGAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.41
17 8 0.28
18 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGAAGGAAA
Found at i:20996849 original size:2 final size:2
Alignment explanation
Indices: 20996844--20996868 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20996834 TTTTCAAAAA
20996844 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 A
20996869 AGAAACTAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20997620 original size:15 final size:14
Alignment explanation
Indices: 20997600--20997631 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
20997590 AAAATGTAAT
20997600 AGAGAGAGAAAGGAG
1 AGAGAGAGAAA-GAG
20997615 AGAGAGAGAAAGAG
1 AGAGAGAGAAAGAG
20997629 AGA
1 AGA
20997632 AGGCTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAAAGAG
Found at i:21004064 original size:1 final size:1
Alignment explanation
Indices: 21004058--21004083 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21004048 AAGACCAAGG
21004058 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
21004084 AAGAAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21005174 original size:15 final size:14
Alignment explanation
Indices: 21005139--21005176 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
21005129 TTTGTTTATT
21005139 TTATTATTTTTGTA
1 TTATTATTTTTGTA
21005153 TTATTATTTTT-TA
1 TTATTATTTTTGTA
21005166 GTTAGTTATTT
1 -TTA-TTATTT
21005177 ATTTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (14 bp):
TTATTATTTTTGTA
Found at i:21009850 original size:25 final size:24
Alignment explanation
Indices: 21009821--21009869 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
21009811 TAATAATAAT
*
21009821 AATTATTGTAATTATAATTTAAAAA
1 AATTATTATAATT-TAATTTAAAAA
*
21009846 AATTATTATAATTTTATTTAAAAA
1 AATTATTATAATTTAATTTAAAAA
21009870 GATTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTATTATAATTTAATTTAAAAA
Found at i:21009876 original size:25 final size:24
Alignment explanation
Indices: 21009837--21009911 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 24
21009827 TGTAATTATA
* *
21009837 ATTTAAAAAAATTATTATAATTTT
1 ATTTAAAAAATTTATTAAAATTTT
*
21009861 ATTTAAAAAGATTTATAAAAAATTTT
1 ATTTAAAAA-ATTTAT-TAAAATTTT
21009887 ATATTAAATAAATTTTATTAAAATT
1 AT-TTAAA-AAA-TTTATTAAAATT
21009912 AAAATTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 9 0.21
25 5 0.12
26 9 0.21
27 12 0.29
28 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
ATTTAAAAAATTTATTAAAATTTT
Found at i:21009907 original size:14 final size:13
Alignment explanation
Indices: 21009855--21009909 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 13
21009845 AAATTATTAT
21009855 AATTTTATTTAAAA
1 AATTTTA-TTAAAA
21009869 AGA-TTTA-TAAAA
1 A-ATTTTATTAAAA
21009881 AATTTTATATTAAATA
1 AA-TTT-TATTAAA-A
21009897 AATTTTATTAAAA
1 AATTTTATTAAAA
21009910 TTAAAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
11 1 0.03
12 6 0.17
13 3 0.09
14 14 0.40
15 8 0.23
16 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
AATTTTATTAAAA
Found at i:21010133 original size:18 final size:18
Alignment explanation
Indices: 21010110--21010168 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
21010100 CAACTCATAA
21010110 ATTTTTTAGTTTTATTTT
1 ATTTTTTAGTTTTATTTT
* *
21010128 ATTTTTTAGATTTCTTTT
1 ATTTTTTAGTTTTATTTT
* *
21010146 GTTTTGTTATTTATTA-TTT
1 ATTTT-TTAGTT-TTATTTT
21010165 ATTT
1 ATTT
21010169 ATGTACACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 20 0.62
19 10 0.31
20 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (18 bp):
ATTTTTTAGTTTTATTTT
Found at i:21010676 original size:17 final size:17
Alignment explanation
Indices: 21010650--21010685 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21010640 TATAAATATT
* *
21010650 TTAAATATAAAATTTAA
1 TTAAAAATAAAATATAA
21010667 TTAAAAATAAAATATAA
1 TTAAAAATAAAATATAA
21010684 TT
1 TT
21010686 TAGCTGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATAAAATATAA
Found at i:21011038 original size:25 final size:26
Alignment explanation
Indices: 21011006--21011054 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
21010996 CATTTATTAT
21011006 TTATAATAAAATA-AAA-ATAAAAATA
1 TTATAAT-AAATACAAATATAAAAATA
21011031 TTATAATAAATACAAATATAAAAA
1 TTATAATAAATACAAATATAAAAA
21011055 ACAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
26 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
TTATAATAAATACAAATATAAAAATA
Found at i:21011047 original size:18 final size:17
Alignment explanation
Indices: 21011016--21011061 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
21011006 TTATAATAAA
21011016 ATAAAAATAAAAATATT
1 ATAAAAATAAAAATATT
*
21011033 ATAATAAATACAAATA-T
1 ATAA-AAATAAAAATATT
*
21011050 A-AAAAACAAAAA
1 ATAAAAATAAAAA
21011062 ATAAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.28
16 2 0.08
17 6 0.24
18 10 0.40
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAATAAAAATATT
Found at i:21011180 original size:16 final size:16
Alignment explanation
Indices: 21011156--21011186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21011146 AATCATAAAG
*
21011156 ATGTGATTACAATATA
1 ATGTAATTACAATATA
21011172 ATGTAATTACAATAT
1 ATGTAATTACAATAT
21011187 GTGAAATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (16 bp):
ATGTAATTACAATATA
Found at i:21012631 original size:28 final size:27
Alignment explanation
Indices: 21012585--21012644 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
21012575 CTTTAATTAA
* *
21012585 TTTATAAAAAATTTATTTAAGGTATTTTT
1 TTTATAAAAAATTGATTTAA-AT-TTTTT
*
21012614 TTTATAAAAAA-TGCTTTAAATTTTTT
1 TTTATAAAAAATTGATTTAAATTTTTT
21012640 TTTAT
1 TTTAT
21012645 TTTTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.36
27 1 0.04
28 6 0.21
29 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTATAAAAAATTGATTTAAATTTTTT
Found at i:21012838 original size:63 final size:63
Alignment explanation
Indices: 21012771--21012937 Score: 246
Period size: 63 Copynumber: 2.6 Consensus size: 63
21012761 CCTAAATCTT
* * *
21012771 AAAATATAAAAAGATTATTTAAGGTATTTTTTATACATAAATG-CATTAAATAATACTTTTATA
1 AAAATATAAAAAAATTATTTAAGGTATTTTTTATACAAAAATGTC-TTAAATAATACATTTATA
* *
21012834 AAAATATAAAAAAATTATTTAAGATATTTTTTATACAAAAATGTCTTAAATAATTCATTTATA
1 AAAATATAAAAAAATTATTTAAGGTATTTTTTATACAAAAATGTCTTAAATAATACATTTATA
* *
21012897 AAAATATAAAAAAATTATTTAAGGTGTTTCTTCATACAAAA
1 AAAATATAAAAAAATTATTTAAGGTATTT-TTTATACAAAA
21012938 CACTTTAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
63 83 0.88
64 11 0.12
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (63 bp):
AAAATATAAAAAAATTATTTAAGGTATTTTTTATACAAAAATGTCTTAAATAATACATTTATA
Found at i:21022591 original size:12 final size:12
Alignment explanation
Indices: 21022574--21022610 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
21022564 GAAATCACGG
21022574 ATCAAAAGAAAA
1 ATCAAAAGAAAA
**
21022586 ATCAAAATCAAA
1 ATCAAAAGAAAA
21022598 ATCAAAAGAAAA
1 ATCAAAAGAAAA
21022610 A
1 A
21022611 GGAGATAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.73, C:0.11, G:0.05, T:0.11
Consensus pattern (12 bp):
ATCAAAAGAAAA
Found at i:21023309 original size:23 final size:21
Alignment explanation
Indices: 21023283--21023326 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21023273 TATCACGTGA
*
21023283 TATTTAATAAATATATTTTATTT
1 TATTTAAT--ATATATTTAATTT
21023306 TATTTAATATATATTTAATTT
1 TATTTAATATATATTTAATTT
21023327 AAAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTAATATATATTTAATTT
Found at i:21023639 original size:267 final size:257
Alignment explanation
Indices: 21023328--21023856 Score: 668
Period size: 267 Copynumber: 2.0 Consensus size: 257
21023318 ATTTAATTTA
* * * *
21023328 AAAATAATTAAAAAATTAAATTAATTATATTTTTATTTTTATTATTAATCTTAAATCATTTTCAA
1 AAAATAATTAAAAAACTAAATTAATTATATTTATATTTTTATTATTAATCTTAAATAACTTTCAA
21023393 TTCAATTCATATTAAAAATA-TTAAAATTTTAAAAATTTCTTAAAGTAACAAATTAAATCAATCA
66 TTCAATTCATATTAAAAATATTTAAAA-TTTAAAAATTTCTTAAAGTAACAAATTAAATCAATCA
* * *
21023457 ATATATAATTAATAAATACATAAATACTATAATAACAATTATAATAAAATAGTTGATTTTTTAGT
130 ATATATAATTAATAAATAC-----TAC---AATAACAA-T-T-ATAAAATAGTTGATTATCTAAT
* * *
21023522 CAATCATTTGATACATTTATATTTGATAAAATCTAGTATCCA-A-TAATTGATGTATTTCATGTG
184 CAATCATTTGATACATTTATATTTGATAAAATATAATATCCATAGTAATTGATGTATTTCATATG
21023585 TAAATATAT
249 TAAATATAT
* * * *
21023594 AAAATAATTCAAAAAACTAAATTGATTATATTTATGTTTTTATTATTGATTTTAAATAACTTTCA
1 AAAATAATT-AAAAAACTAAATTAATTATATTTATATTTTTATTATTAATCTTAAATAACTTTCA
* * ** * *
21023659 ATTCAATTCATATTATAAATATTTAAAATTTAAAATTTTCTTAATTTGATAAATTAAATCAATCA
65 ATTCAATTCATATTAAAAATATTTAAAATTTAAAAATTTCTTAAAGTAACAAATTAAATCAATCA
* * *
21023724 ATATATAATTAATAAATACTACAATTACAATTATAAAATAGTTGATTATCTAATTAATTATTTGA
130 ATATATAATTAATAAATACTACAATAACAATTATAAAATAGTTGATTATCTAATCAATCATTTGA
* *
21023789 TACATTTATATTTTATTAAATATAATATCCATTTGAGTAATTGATGTATTTCATATGTAAATATA
195 TACATTTATATTTGATAAAATATAATATCCA--T-AGTAATTGATGTATTTCATATGTAAATATA
21023854 T
257 T
21023855 AA
1 AA
21023857 CACAAATATA
Statistics
Matches: 231, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
256 55 0.24
257 1 0.00
258 1 0.00
259 7 0.03
260 1 0.00
261 30 0.13
262 3 0.01
266 9 0.04
267 118 0.51
268 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (257 bp):
AAAATAATTAAAAAACTAAATTAATTATATTTATATTTTTATTATTAATCTTAAATAACTTTCAA
TTCAATTCATATTAAAAATATTTAAAATTTAAAAATTTCTTAAAGTAACAAATTAAATCAATCAA
TATATAATTAATAAATACTACAATAACAATTATAAAATAGTTGATTATCTAATCAATCATTTGAT
ACATTTATATTTGATAAAATATAATATCCATAGTAATTGATGTATTTCATATGTAAATATAT
Found at i:21024479 original size:651 final size:656
Alignment explanation
Indices: 21023613--21024939 Score: 1785
Period size: 680 Copynumber: 2.0 Consensus size: 656
21023603 CAAAAAACTA
* * *
21023613 AATTGATTATATTTATGTTTTTATTATTGATTTTAAATAACTTTCAATTCAATTCATATTATAAA
1 AATTGACTATATTTATGTTTTTATTATTGACTTTAAATAACTCTCAATTCAATTCATATTATAAA
* *
21023678 TATTTAAAATTTAAAATTTTCTTAATTTGATAAATTAAATCAATCAATATATAATTAATAAATAC
66 TATTTAAAATTTAAAAATTTCTTAATTTAATAAATTAAATCAATCAATATATAATTAATAAATAC
* * *
21023743 TACAATTACAATTATAAAATAGTTGATTATCTAATTAATTATTTGATACATTTATATTTTATTAA
131 TACAATTACAATTATAAAATAATTGATTATCTAATAAATTATTTGATACATTTATATTTGATTAA
* *
21023808 ATATAATATCCATTTGAGTAATTGATGTATTTCATATGTAAATATATAACA-CAAATATATCAAA
196 ATATAATATCCATATGAGTAATTGATGTATTTCATATGCAAATATATAA-AGCAAATATATCAAA
*
21023872 TTAATTCTT-CATAATTAAATTAATGGAATAAAATATTTTATTAATTTATA-TTGA-T-AT-ATT
260 TTAATT-TTCCACAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATAATT
** * *
21023932 TATATTTAATTAAATATGATTGCATTTGATTTTGTTTGATAAAATATTAATACACG-G-TG-GT-
324 TATATTTAATTAAATATGATTGCATTTGATTTCATATGATAAAATATTAATACACGTGTTGAATA
* * ** *
21023993 TT-T-A-TT-GTTTTCATCTGTAACGTTTTATAATTTTATTAT-TTGATATTAATACACGTTGAT
389 TTATCATTTGGATTTCATCTATAACGTTTTATAATTTTAAAATCTAGATATTAATACACGTTGAT
21024053 TTAATTAAAATTTAATTTGTTAT-ATTCTCATTATTAAATACAATAAATTT-ATTTTATTTTATT
454 TTAATTAAAATTTAATTTGTT-TCATTCTCATTATTAAATACAATAAATTTAATTTT-TTTTATT
*
21024116 GTTCTAAATT-AAGAGATCTCTAAATATTAATAGTAGAATAAAATATTTCAATATCAATCAACTT
517 GTTCTAAATTAAAG-GATCTCTAAATATTAATAGCAGAATAAAATATTTCAATATCAATCAACTT
* *
21024180 GCTATTATTAAACCATTATTTAATCACAATTTTTATTATTTTAATATTAACTTTTATAATTTAAA
581 GCTATTATTAAACCATTATTCAATCACAATTTTTATTATTTCAATATTAACTTTTATAATTTAAA
21024245 AATATCTTATT
646 AATATCTTATT
* *
21024256 AATTGACTATATTTATGTTTTTATTATTGACTTTAAATCACTCTCAATTCAATTTATATTA-AAA
1 AATTGACTATATTTATGTTTTTATTATTGACTTTAAATAACTCTCAATTCAATTCATATTATAAA
21024320 T-TATTAAAATATTAAAAATTTCTTAATTTAATAAATTAAATCAATCAATATATAATTAATAATT
66 TAT-TTAAAAT-TTAAAAATTTCTTAATTTAATAAATTAAATCAATC---A-AT-A-T-ATAA-T
* * * *
21024384 TAATAAATATTACAATTACAATTATAAAATAATTGATTCTTTAATAAATTATTTGATATATTTAT
121 TAATAAATACTACAATTACAATTATAAAATAATTGATTATCTAATAAATTATTTGATACATTTAT
*
21024449 ATTTGATTAAATATAGTATCCATATGAGTAATTGATGTATTTCATATGCAAATATATAAAGCAAA
186 ATTTGATTAAATATAATATCCATATGAGTAATTGATGTATTTCATATGCAAATATATAAAGCAAA
21024514 TATATCAAATTAATTTTCCACAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGAT
251 TATATCAAATTAATTTTCCACAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGAT
* **
21024579 TGATAGATTTATATTTCATTAAATATGATTTTATTTGATTTCATATGATAAAATATTAATACACG
316 TGATA-ATTTATATTTAATTAAATATGATTGCATTTGATTTCATATGATAAAATATTAATACACG
* *
21024644 TTTGATTTCATTTGATAAAATATTAATGCATTTGGATTTCATTTATAATGTTTTATAATTTTAAA
380 --TG-------TTG----AATATT-AT-CATTTGGATTTCATCTATAACGTTTTATAATTTTAAA
* * *
21024709 ATCTAGATATTAATGCATGTTGATTTAATTAAAATTTAATTTGTTTCATTGTCATTATTAAATAC
430 ATCTAGATATTAATACACGTTGATTTAATTAAAATTTAATTTGTTTCATTCTCATTATTAAATAC
* * * *
21024774 AATAAATTTAATTTTTTTTATTGTTCTAAATTAAAGGATTTCTAAATGTTAATGGCGGAATAAAA
495 AATAAATTTAATTTTTTTTATTGTTCTAAATTAAAGGATCTCTAAATATTAATAGCAGAATAAAA
* * * * *
21024839 TATTTCATTATCAATCAACTTGTTATTGTTAGACCATTATTCACTCACAATTTTTATTATTTCAA
560 TATTTCAATATCAATCAACTTGCTATTATTAAACCATTATTCAATCACAATTTTTATTATTTCAA
* * *
21024904 TATTGATTTTTATAATTTAAAATTATCTTATT
625 TATTAACTTTTATAATTTAAAAATATCTTATT
21024936 AATT
1 AATT
21024940 AACCTACAAT
Statistics
Matches: 590, Mismatches: 50, Indels: 51
0.85 0.07 0.07
Matches are distributed among these distances:
641 1 0.00
642 11 0.02
643 89 0.15
646 1 0.00
647 2 0.00
648 1 0.00
649 1 0.00
650 7 0.01
651 174 0.29
652 4 0.01
653 1 0.00
654 2 0.00
656 53 0.09
659 1 0.00
667 2 0.00
672 1 0.00
673 2 0.00
675 1 0.00
677 1 0.00
678 2 0.00
679 28 0.05
680 197 0.33
681 8 0.01
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (656 bp):
AATTGACTATATTTATGTTTTTATTATTGACTTTAAATAACTCTCAATTCAATTCATATTATAAA
TATTTAAAATTTAAAAATTTCTTAATTTAATAAATTAAATCAATCAATATATAATTAATAAATAC
TACAATTACAATTATAAAATAATTGATTATCTAATAAATTATTTGATACATTTATATTTGATTAA
ATATAATATCCATATGAGTAATTGATGTATTTCATATGCAAATATATAAAGCAAATATATCAAAT
TAATTTTCCACAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATAATTTA
TATTTAATTAAATATGATTGCATTTGATTTCATATGATAAAATATTAATACACGTGTTGAATATT
ATCATTTGGATTTCATCTATAACGTTTTATAATTTTAAAATCTAGATATTAATACACGTTGATTT
AATTAAAATTTAATTTGTTTCATTCTCATTATTAAATACAATAAATTTAATTTTTTTTATTGTTC
TAAATTAAAGGATCTCTAAATATTAATAGCAGAATAAAATATTTCAATATCAATCAACTTGCTAT
TATTAAACCATTATTCAATCACAATTTTTATTATTTCAATATTAACTTTTATAATTTAAAAATAT
CTTATT
Found at i:21024624 original size:20 final size:21
Alignment explanation
Indices: 21024566--21024627 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
21024556 TATTTTATTA
*
21024566 ATTTATATTTGA-TTGATA-G
1 ATTTATATTTGATTTAATATG
* *
21024585 ATTTATATTTCATTAAATATG
1 ATTTATATTTGATTTAATATG
*
21024606 ATTT-TATTTGATTTCATATG
1 ATTTATATTTGATTTAATATG
21024626 AT
1 AT
21024628 AAAATATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 11 0.31
20 19 0.54
21 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
ATTTATATTTGATTTAATATG
Found at i:21031973 original size:30 final size:29
Alignment explanation
Indices: 21031918--21031998 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 29
21031908 AGTTTGACCA
*
21031918 AAAAT-TAAATAAAAACTAAAATAAAATC
1 AAAATCTAAATAAAAATTAAAATAAAATC
* *
21031946 TAAATCTAAATTAAAATTAAAACTAAAATC
1 AAAATCTAAATAAAAATTAAAA-TAAAATC
* *
21031976 AAAATCAAAATCAAAATTAAAAT
1 AAAATCTAAATAAAAATTAAAAT
21031999 TAAGATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.09
29 15 0.33
30 26 0.58
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.25
Consensus pattern (29 bp):
AAAATCTAAATAAAAATTAAAATAAAATC
Found at i:21031997 original size:6 final size:6
Alignment explanation
Indices: 21031918--21032001 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
21031908 AGTTTGACCA
* *
21031918 AAAATT -AAATA AAAACT AAAA-T AAAATCT -AAATCT -AAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAAT-T AAAAT-T AAAATT AAAATT
* * * *
21031964 AAAACT AAAATC AAAATC AAAATC AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
21032002 GATATTTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
5 10 0.15
6 56 0.84
7 1 0.01
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:21036786 original size:47 final size:48
Alignment explanation
Indices: 21036711--21036801 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
21036701 AACAAAAAAG
* *
21036711 TTAAGAAAATCAAGATTTAAGTCGAATTAAAAATAAAA-TAAAATAAA
1 TTAAGAAAACCAAGATTTAAGTCAAATTAAAAATAAAATTAAAATAAA
* *
21036758 TTAAGAAAACCACA-ATTTTAGTCAAATTAAAAGTAAAATTAAAA
1 TTAAGAAAACCA-AGATTTAAGTCAAATTAAAAATAAAATTAAAA
21036802 AAAAAAAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 32 0.84
48 6 0.16
ACGTcount: A:0.59, C:0.07, G:0.08, T:0.26
Consensus pattern (48 bp):
TTAAGAAAACCAAGATTTAAGTCAAATTAAAAATAAAATTAAAATAAA
Found at i:21038258 original size:2 final size:2
Alignment explanation
Indices: 21038214--21038243 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21038204 AGTGTTATGG
21038214 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
21038244 GCATGTACGT
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:21042962 original size:28 final size:27
Alignment explanation
Indices: 21042931--21043004 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 27
21042921 TATTAATATG
21042931 TTATTTATTACATAATAATAAAATTTAT
1 TTATTTATTA-ATAATAATAAAATTTAT
* *
21042959 TTATTCATT-AT-ATAATCAAATTTAT
1 TTATTTATTAATAATAATAAAATTTAT
*
21042984 TTATTATATTAA-ATTAATAAA
1 TTATT-TATTAATAATAATAAA
21043005 GTTATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 18 0.47
26 5 0.13
27 7 0.18
28 8 0.21
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (27 bp):
TTATTTATTAATAATAATAAAATTTAT
Found at i:21042979 original size:25 final size:24
Alignment explanation
Indices: 21042931--21042989 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
21042921 TATTAATATG
21042931 TTATTTATTACATAATAATAAAAT
1 TTATTTATTACATAATAATAAAAT
*
21042955 TTATTTATT-CATTATATAATCAAAT
1 TTATTTATTACA-TA-ATAATAAAAT
21042980 TTATTTATTA
1 TTATTTATTA
21042990 TATTAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.06
24 11 0.35
25 18 0.58
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATTTATTACATAATAATAAAAT
Found at i:21044164 original size:25 final size:27
Alignment explanation
Indices: 21044118--21044193 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
21044108 ATAAATTTGC
21044118 CAATACAATATTGTT-TTCTAAATT-GTTT
1 CAATAC-A-ATTGTTCTT-TAAATTCGTTT
*
21044146 -AATACAATTGTTCTTTAAATTCTTTT
1 CAATACAATTGTTCTTTAAATTCGTTT
*
21044172 CAATACAATCT-TTCTTTTAATT
1 CAATACAAT-TGTTCTTTAAATT
21044194 TTAAGATCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 12 0.29
26 6 0.14
27 23 0.55
28 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (27 bp):
CAATACAATTGTTCTTTAAATTCGTTT
Found at i:21050915 original size:17 final size:18
Alignment explanation
Indices: 21050876--21050915 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
21050866 TTCAACATTT
21050876 TATACTGTTTATCTAGAG
1 TATACTGTTTATCTAGAG
*
21050894 TATACTGTTTGTCTAG-G
1 TATACTGTTTATCTAGAG
21050911 TATAC
1 TATAC
21050916 ATTGTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (18 bp):
TATACTGTTTATCTAGAG
Found at i:21051804 original size:19 final size:21
Alignment explanation
Indices: 21051782--21051821 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
21051772 TTAATGATCT
21051782 CAAAA-TTTTT-TGATGAAAC
1 CAAAAGTTTTTATGATGAAAC
21051801 CAAAAGTTTTTAGTGATGAAA
1 CAAAAGTTTTTA-TGATGAAA
21051822 ATCAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
22 8 0.44
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (21 bp):
CAAAAGTTTTTATGATGAAAC
Found at i:21054886 original size:21 final size:20
Alignment explanation
Indices: 21054862--21054900 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21054852 ATAAATAAAA
21054862 CTTTTTAATTTTTATTTATAT
1 CTTTTTAATTTTT-TTTATAT
*
21054883 CTTTTTACTTTTTTTTAT
1 CTTTTTAATTTTTTTTAT
21054901 TGTGATAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTTTAATTTTTTTTATAT
Found at i:21055402 original size:16 final size:16
Alignment explanation
Indices: 21055372--21055402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21055362 AATCAATTAC
*
21055372 AATTTTGATAAATTTG
1 AATTCTGATAAATTTG
21055388 AATTCTGATAAATTT
1 AATTCTGATAAATTT
21055403 ATACTTAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
AATTCTGATAAATTTG
Found at i:21055427 original size:17 final size:17
Alignment explanation
Indices: 21055407--21055457 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
21055397 AAATTTATAC
*
21055407 TTAAGTTATTTTTAGAT
1 TTAAATTATTTTTAGAT
* *
21055424 TTAAATTAATTTGA-AT
1 TTAAATTATTTTTAGAT
21055440 TTAAATTATTTTTGAGAT
1 TTAAATTATTTTT-AGAT
21055458 CGGATTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 12 0.44
18 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (17 bp):
TTAAATTATTTTTAGAT
Found at i:21062098 original size:2 final size:2
Alignment explanation
Indices: 21062091--21062130 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
21062081 CTTAGCAGGT
21062091 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
21062131 GTGTGCATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21064266 original size:28 final size:28
Alignment explanation
Indices: 21064209--21064266 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
21064199 ATGAAAACTT
21064209 AAAAATCTTAAAATTTTAATAAAAACAA
1 AAAAATCTTAAAATTTTAATAAAAACAA
* *
21064237 AAAAAT-TCTAAAATTTTCA-AAAAATAA
1 AAAAATCT-TAAAATTTTAATAAAAACAA
21064264 AAA
1 AAA
21064267 TTTTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATCTTAAAATTTTAATAAAAACAA
Found at i:21064267 original size:45 final size:43
Alignment explanation
Indices: 21064218--21064330 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 43
21064208 TAAAAATCTT
21064218 AAAATTTTAATAAAAACAAAAAAAT-TC-TAAAATTTTCAAAAAATA
1 AAAATTTTAATAAAAA-AAAAAAATATCTTAAAA--TT-AAAAAATA
* *
21064263 AAAATTTT-ATAAAAAATAGAAATATCTTAAAATTAAAAAATA
1 AAAATTTTAATAAAAAAAAAAAATATCTTAAAATTAAAAAATA
**
21064305 ACAAATTTTAA-AAAAAATGAAAATAT
1 A-AAATTTTAATAAAAAAAAAAAATAT
21064331 AAAATTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
42 9 0.15
43 28 0.47
44 10 0.17
45 13 0.22
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (43 bp):
AAAATTTTAATAAAAAAAAAAAATATCTTAAAATTAAAAAATA
Found at i:21064275 original size:27 final size:28
Alignment explanation
Indices: 21064209--21064276 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
21064199 ATGAAAACTT
21064209 AAAAATCT-TAAAATTTTAATAAAAACAA
1 AAAAAT-TATAAAATTTTAATAAAAACAA
* * *
21064237 AAAAATTCTAAAATTTTCA-AAAAATAA
1 AAAAATTATAAAATTTTAATAAAAACAA
**
21064264 AAATTTTATAAAA
1 AAAAATTATAAAA
21064277 AATAGAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATTATAAAATTTTAATAAAAACAA
Found at i:21064276 original size:18 final size:18
Alignment explanation
Indices: 21064246--21064328 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
21064236 AAAAAATTCT
*
21064246 AAAATTTT-CAAAAAATA
1 AAAATTTTATAAAAAATA
21064263 AAAATTTTATAAAAAATA
1 AAAATTTTATAAAAAATA
*
21064281 GAAATATCTTAAAATTAAAAAATA
1 -AAA-AT-TT--TA-TAAAAAATA
* *
21064305 ACAAATTTTAAAAAAAATG
1 A-AAATTTTATAAAAAATA
21064324 AAAAT
1 AAAAT
21064329 ATAAAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
17 8 0.15
18 12 0.23
19 11 0.21
20 3 0.06
21 2 0.04
22 2 0.04
23 4 0.08
24 11 0.21
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATTTTATAAAAAATA
Found at i:21064379 original size:20 final size:20
Alignment explanation
Indices: 21064342--21064379 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21064332 AAATTTTTTT
*
21064342 TTTTGAAAAAATCTAAAAAG
1 TTTTGAAAAAATATAAAAAG
21064362 TTTT-AAAAAATATAAAAA
1 TTTTGAAAAAATATAAAAA
21064380 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
TTTTGAAAAAATATAAAAAG
Found at i:21064385 original size:20 final size:20
Alignment explanation
Indices: 21064342--21064385 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
21064332 AAATTTTTTT
* *
21064342 TTTTGAAAAAATCTAAAAAG
1 TTTTGAAAAAATATAAAAAA
21064362 TTTT-AAAAAATATAAAAATA
1 TTTTGAAAAAATATAAAAA-A
21064382 TTTT
1 TTTT
21064386 TTAAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTTGAAAAAATATAAAAAA
Found at i:21064489 original size:9 final size:9
Alignment explanation
Indices: 21064477--21064598 Score: 72
Period size: 9 Copynumber: 13.3 Consensus size: 9
21064467 TTTTTTATTG
21064477 TTAAAATTT
1 TTAAAATTT
*
21064486 TT-AATTTT
1 TTAAAATTT
*
21064494 TTAAAAATT
1 TTAAAATTT
*
21064503 TTAAAATAT
1 TTAAAATTT
* *
21064512 TTCATA-TT
1 TTAAAATTT
*
21064520 TTAAAGTTT
1 TTAAAATTT
21064529 TT--AATTT
1 TTAAAATTT
21064536 TTAAAATTT
1 TTAAAATTT
21064545 TTAAGGATATTT
1 TTAA--A-ATTT
*
21064557 TTATCAATTT
1 TTA-AAATTT
**
21064567 TTAGATTTTT
1 TTA-AAATTT
*
21064577 TATAAAAATT
1 T-TAAAATTT
21064587 TTAAAATTT
1 TTAAAATTT
21064596 TTA
1 TTA
21064599 TTTTCTATTT
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
7 6 0.07
8 11 0.13
9 40 0.48
10 15 0.18
11 4 0.05
12 7 0.08
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (9 bp):
TTAAAATTT
Found at i:21064539 original size:16 final size:16
Alignment explanation
Indices: 21064466--21064548 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 16
21064456 ATTTTTTTTT
* *
21064466 ATTTTTTATTGTTAAA
1 ATTTTTAATTTTTAAA
*
21064482 ATTTTTAATTTTTTAA
1 ATTTTTAATTTTTAAA
21064498 A-----AA-TTTTAAA
1 ATTTTTAATTTTTAAA
* *
21064508 ATATTTCATATTTTAAA
1 ATTTTTAAT-TTTTAAA
*
21064525 GTTTTTAATTTTTAAA
1 ATTTTTAATTTTTAAA
21064541 ATTTTTAA
1 ATTTTTAA
21064549 GGATATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
10 7 0.14
11 2 0.04
15 1 0.02
16 28 0.55
17 13 0.25
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTTTAATTTTTAAA
Found at i:21064557 original size:21 final size:20
Alignment explanation
Indices: 21064532--21064598 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
21064522 AAAGTTTTTA
21064532 ATTTTTAAAATTTTTAAGGAT
1 ATTTTTAAAATTTTTAA-GAT
*
21064553 ATTTTTATCAATTTTT-AGAT
1 ATTTTTA-AAATTTTTAAGAT
* *
21064573 TTTTTATAAAAATTTTAA-A-
1 ATTTT-TAAAATTTTTAAGAT
21064592 ATTTTTA
1 ATTTTTA
21064599 TTTTCTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 14 0.37
21 11 0.29
22 7 0.18
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTTAAAATTTTTAAGAT
Found at i:21065783 original size:23 final size:23
Alignment explanation
Indices: 21065755--21065801 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21065745 TATAAATTAA
*
21065755 AGATTAAATA-TTTATTTGAATAT
1 AGATTAAA-AGTTTATTTAAATAT
21065778 AGATTAAAAGTTTATTTAAATAT
1 AGATTAAAAGTTTATTTAAATAT
21065801 A
1 A
21065802 ACAAAAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
AGATTAAAAGTTTATTTAAATAT
Found at i:21065809 original size:21 final size:23
Alignment explanation
Indices: 21065765--21065809 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21065755 AGATTAAATA
* *
21065765 TTTATTTGAATATAGATTAAAAG
1 TTTATTTAAATATAGATCAAAAG
21065788 TTTATTTAAATATA-A-CAAAAG
1 TTTATTTAAATATAGATCAAAAG
21065809 T
1 T
21065810 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTATTTAAATATAGATCAAAAG
Found at i:21066378 original size:25 final size:24
Alignment explanation
Indices: 21066346--21066392 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
21066336 TTTCTAACAT
* *
21066346 TTATATTTTTTCTTTTTTATTTTC
1 TTATATTTATGCTTTTTTATTTTC
*
21066370 TTATGATTTATGGTTTTTTATTT
1 TTAT-ATTTATGCTTTTTTATTT
21066393 CTTTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (24 bp):
TTATATTTATGCTTTTTTATTTTC
Found at i:21066506 original size:10 final size:10
Alignment explanation
Indices: 21066491--21066535 Score: 76
Period size: 9 Copynumber: 4.7 Consensus size: 10
21066481 TTGTTTGTAT
21066491 TTTTTAATAA
1 TTTTTAATAA
21066501 TTTTTAATAA
1 TTTTTAATAA
21066511 TTTTT-ATAA
1 TTTTTAATAA
21066520 TTTTT-ATAA
1 TTTTTAATAA
21066529 TTTTTAA
1 TTTTTAA
21066536 ATCATGATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 18 0.53
10 16 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:21066533 original size:19 final size:21
Alignment explanation
Indices: 21066489--21066533 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
21066479 TTTTGTTTGT
21066489 ATTTTTTAATAATTTTTAATA
1 ATTTTTTAATAATTTTTAATA
21066510 A-TTTTT-ATAATTTTT-ATA
1 ATTTTTTAATAATTTTTAATA
21066528 ATTTTT
1 ATTTTT
21066534 AAATCATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 5 0.22
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTAATAATTTTTAATA
Found at i:21067831 original size:12 final size:12
Alignment explanation
Indices: 21067814--21067838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21067804 TAATAATATG
21067814 TAAAAAAATTAT
1 TAAAAAAATTAT
21067826 TAAAAAAATTAT
1 TAAAAAAATTAT
21067838 T
1 T
21067839 TTTAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAAATTAT
Found at i:21073005 original size:26 final size:24
Alignment explanation
Indices: 21072949--21073007 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
21072939 AATAAAAAAT
21072949 AAAAATAAATAATGTTAAAATCTA
1 AAAAATAAATAATGTTAAAATCTA
* **
21072973 AATAAATAAAGTAATTTTTGAATCTA
1 AA-AAATAAA-TAATGTTAAAATCTA
21072999 ATAAAATAA
1 A-AAAATAA
21073008 GACGTCCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 2 0.07
25 7 0.24
26 19 0.66
27 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (24 bp):
AAAAATAAATAATGTTAAAATCTA
Found at i:21082392 original size:2 final size:2
Alignment explanation
Indices: 21082385--21082419 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21082375 TCTTCTTTTA
21082385 TC TC TC 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 TC TC TC T
21082420 TTTAGTGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:21082438 original size:18 final size:18
Alignment explanation
Indices: 21082417--21082451 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21082407 TCTCTCTCTC
21082417 TCTTTT-AGTGGAGTTTAT
1 TCTTTTCAG-GGAGTTTAT
21082435 TCTTTTCAGGGAGTTTA
1 TCTTTTCAGGGAGTTTA
21082452 ACACTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.17, C:0.09, G:0.23, T:0.51
Consensus pattern (18 bp):
TCTTTTCAGGGAGTTTAT
Found at i:21085053 original size:41 final size:41
Alignment explanation
Indices: 21085000--21085083 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
21084990 CCAAATGCAT
*
21085000 GAGCTGCATTTGGTGGGGCCTAAAGTCACTGACTGCAATGA
1 GAGCTGCATTTGGTGGGGCCCAAAGTCACTGACTGCAATGA
*
21085041 GAGCTGCATTTGGTGGGGCCCAAAGTCACTGAGTGCAATGA
1 GAGCTGCATTTGGTGGGGCCCAAAGTCACTGACTGCAATGA
21085082 GA
1 GA
21085084 AACATAGTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (41 bp):
GAGCTGCATTTGGTGGGGCCCAAAGTCACTGACTGCAATGA
Found at i:21102332 original size:13 final size:13
Alignment explanation
Indices: 21102314--21102340 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21102304 GGAAAAAGAT
21102314 TTATTTATTATTA
1 TTATTTATTATTA
21102327 TTATTTATTATTA
1 TTATTTATTATTA
21102340 T
1 T
21102341 CAATTTTCGT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:21103083 original size:13 final size:13
Alignment explanation
Indices: 21103051--21103089 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
21103041 CAAAAAAAGC
21103051 AAATAAATAAAAT
1 AAATAAATAAAAT
**
21103064 ACTTAAATAAAAT
1 AAATAAATAAAAT
21103077 AAATAAA-AAAAT
1 AAATAAATAAAAT
21103089 A
1 A
21103090 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:21103818 original size:3 final size:3
Alignment explanation
Indices: 21103810--21103936 Score: 62
Period size: 3 Copynumber: 39.7 Consensus size: 3
21103800 TAAAAAAGAA
* *
21103810 AAT AAT AAT AAT AAT AGAT AAAT AAT AAA AAT ATAT ATT AAT AGAT AAAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT A-AT AAT AAT A-AT -AAT
* * * *
21103860 AA- AA- AAT ATT AAC AGAT AAAT GAT AA- AAT AAA AAT AAAT AAT ATAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT -AAT AAT A-AT
* *
21103906 ATT AAT AAAT AAAT AAT AAT AAT ATT AAT AA
1 AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA
21103937 ATAAACAAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
2 6 0.06
3 60 0.62
4 27 0.28
5 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21103858 original size:27 final size:25
Alignment explanation
Indices: 21103808--21103956 Score: 99
Period size: 27 Copynumber: 5.6 Consensus size: 25
21103798 GATAAAAAAG
*
21103808 AAAATAATAATAATAATAGATAAAT
1 AAAAAAATAATAATAATAGATAAAT
*
21103833 AATAAAAATATATATTAATAGATAAAT
1 AA-AAAAATA-ATAATAATAGATAAAT
*
21103860 AAAAAATATTAACAGATAA-ATGATAAAAT
1 AAAAAA-A-TAATA-ATAATA-GAT-AAAT
*
21103889 AAAAATAAATAATATATATTA-ATAAAT
1 -AAAA-AAATAATA-ATAATAGATAAAT
* *
21103916 -AAATAATAATAATATTA-ATAAAT
1 AAAAAAATAATAATAATAGATAAAT
*
21103939 AAACAAAAATAAAAATAA
1 -AA-AAAAATAATAATAA
21103957 AATGTAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
23 12 0.12
24 7 0.07
25 6 0.06
26 21 0.21
27 25 0.25
28 10 0.10
29 11 0.11
30 6 0.06
31 2 0.02
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (25 bp):
AAAAAAATAATAATAATAGATAAAT
Found at i:21103903 original size:60 final size:59
Alignment explanation
Indices: 21103827--21103958 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 59
21103817 ATAATAATAG
* * *
21103827 ATAAATAATAAAAATATATATTAATAGATAAATAA-AA-AATATTAACAGATAAATGATAAA
1 ATAAA-AATAAAAATATATATTAATAAATAAATAATAATAATATTAACAAATAAA-CA-AAA
*
21103887 ATAAAAATAAATAATATATATTAATAAATAAATAATAATAATATTAATAAATAAACAAAA
1 ATAAAAATAAA-AATATATATTAATAAATAAATAATAATAATATTAACAAATAAACAAAA
21103947 ATAAAAATAAAA
1 ATAAAAATAAAA
21103959 TGTAAATGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
59 7 0.11
60 41 0.63
61 3 0.05
62 14 0.22
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (59 bp):
ATAAAAATAAAAATATATATTAATAAATAAATAATAATAATATTAACAAATAAACAAAA
Found at i:21103908 original size:39 final size:40
Alignment explanation
Indices: 21103854--21103957 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 40
21103844 ATATTAATAG
* *
21103854 ATAAATAAAAAATATTAACAGATAAATGATAA-AATAAAA
1 ATAAATAAAAAATATTAACAAATAAATAATAATAATAAAA
* * * **
21103893 ATAAATAATATATATTAATAAATAAATAATAATAATATTA
1 ATAAATAAAAAATATTAACAAATAAATAATAATAATAAAA
*
21103933 ATAAATAAACAAA-AATAA-AAATAAA
1 ATAAATAAA-AAATATTAACAAATAAA
21103958 ATGTAAATGT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 34 0.64
40 17 0.32
41 2 0.04
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (40 bp):
ATAAATAAAAAATATTAACAAATAAATAATAATAATAAAA
Found at i:21103938 original size:23 final size:23
Alignment explanation
Indices: 21103809--21103950 Score: 124
Period size: 23 Copynumber: 6.5 Consensus size: 23
21103799 ATAAAAAAGA
*
21103809 AAATAATAATAATAATAGATAAAT
1 AAATAATAATAATATTA-ATAAAT
* *
21103833 -AATAAAAATATATATTAATAGAT
1 AAATAATAATA-ATATTAATAAAT
* *
21103856 AAATAA-AA-AATATTAACAGAT
1 AAATAATAATAATATTAATAAAT
*
21103877 AAATGAT-A-AA-A-TAA-AAAT
1 AAATAATAATAATATTAATAAAT
21103895 AAATAAT-AT-ATATTAATAAAT
1 AAATAATAATAATATTAATAAAT
21103916 AAATAATAATAATATTAATAAAT
1 AAATAATAATAATATTAATAAAT
* *
21103939 AAACAAAAATAA
1 AAATAATAATAA
21103951 AAATAAAATG
Statistics
Matches: 100, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.11
19 4 0.04
20 4 0.04
21 30 0.30
22 3 0.03
23 38 0.38
24 10 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (23 bp):
AAATAATAATAATATTAATAAAT
Found at i:21104239 original size:136 final size:136
Alignment explanation
Indices: 21104070--21104324 Score: 465
Period size: 136 Copynumber: 1.9 Consensus size: 136
21104060 GGTGTCTATA
21104070 ATTATCATCTTATATTATATTTAATGCATACTTTACACATAAAAATTATTGGACTTTGAGAGAAT
1 ATTATCATCTTATATTATATTTAATGCATACTTTACACATAAAAATTATTGGACTTTGAGAGAAT
* *
21104135 TAAATCTTCATATATTAATGGAATAACTTATGAAATTAGATAACGCATACTTGTTAGGATAAGAG
66 TAAATCTTCATATATTAATGGAATAACTTACGAAATTAGATAACACATACTTGTTAGGATAAGAG
21104200 ATGATG
131 ATGATG
* *
21104206 ATTATCGTCTTATATTATATTTAATGCATACTTTACATATAAAAATTATTGGACTTTGAGAGAAT
1 ATTATCATCTTATATTATATTTAATGCATACTTTACACATAAAAATTATTGGACTTTGAGAGAAT
*
21104271 TAAATCTTCATATATTAATGGAATAACTTACGAAATTAGATAACACGTACTTGT
66 TAAATCTTCATATATTAATGGAATAACTTACGAAATTAGATAACACATACTTGT
21104325 AAATTACTTA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 114 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (136 bp):
ATTATCATCTTATATTATATTTAATGCATACTTTACACATAAAAATTATTGGACTTTGAGAGAAT
TAAATCTTCATATATTAATGGAATAACTTACGAAATTAGATAACACATACTTGTTAGGATAAGAG
ATGATG
Found at i:21109126 original size:20 final size:20
Alignment explanation
Indices: 21109101--21109138 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21109091 ATTATACTTT
21109101 GTTGTTTTCACCCATTCTTG
1 GTTGTTTTCACCCATTCTTG
*
21109121 GTTGTTTTCATCCATTCT
1 GTTGTTTTCACCCATTCT
21109139 AAGCAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.24, G:0.13, T:0.53
Consensus pattern (20 bp):
GTTGTTTTCACCCATTCTTG
Found at i:21114638 original size:20 final size:20
Alignment explanation
Indices: 21114601--21114638 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21114591 ACTTAAGTTA
*
21114601 AAAATTCAAATTCTTTTTTT
1 AAAATTCAAATTCATTTTTT
21114621 AAAATTC-AATATCATTTT
1 AAAATTCAAAT-TCATTTT
21114639 AAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATTCAAATTCATTTTTT
Found at i:21114643 original size:19 final size:20
Alignment explanation
Indices: 21114598--21114643 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
21114588 TAAACTTAAG
*
21114598 TTAAAAATTCAAATTCTTTT
1 TTAAAAATTCAAATTCTATT
*
21114618 TTTAAAATTC-AATATC-ATT
1 TTAAAAATTCAAAT-TCTATT
21114637 TTAAAAA
1 TTAAAAA
21114644 CAAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAATTCAAATTCTATT
Found at i:21115017 original size:33 final size:32
Alignment explanation
Indices: 21114976--21115087 Score: 118
Period size: 33 Copynumber: 3.5 Consensus size: 32
21114966 TTAAAATCAC
*
21114976 ATCATTTTAAAAAATTAAGTAAAAATTTTTTAT
1 ATCATTTTAAAAAATTAAGTAAAAA-TTTTTAA
* * *
21115009 ATCATTTTAAGAAATTAAATAAAAA-CTTTAA
1 ATCATTTTAAAAAATTAAGTAAAAATTTTTAA
* * * * *
21115040 ATCATATTAAAATATTATGTAAGAATTTTCAA
1 ATCATTTTAAAAAATTAAGTAAAAATTTTTAA
21115072 ATCATTTTCAAAAAAT
1 ATCATTTT-AAAAAAT
21115088 ATATTTATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
31 23 0.37
32 11 0.17
33 29 0.46
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (32 bp):
ATCATTTTAAAAAATTAAGTAAAAATTTTTAA
Found at i:21115143 original size:33 final size:32
Alignment explanation
Indices: 21115106--21115169 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
21115096 TAATATATTC
21115106 AAAAATATAA-AAACTTTTTATTCATATAAAATA
1 AAAAATATAATAAA-TTTTT-TTCATATAAAATA
*
21115139 AAAAATATAATTAAATTTTTTTCTTATAAAA
1 AAAAATATAA-TAAATTTTTTTCATATAAAA
21115170 CGTATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 20 0.71
34 5 0.18
35 3 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAATATAATAAATTTTTTTCATATAAAATA
Found at i:21116480 original size:12 final size:12
Alignment explanation
Indices: 21116463--21116489 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21116453 TTAACCTTGC
21116463 TTAGGGATTAGA
1 TTAGGGATTAGA
21116475 TTAGGGATTAGA
1 TTAGGGATTAGA
21116487 TTA
1 TTA
21116490 ACTCTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (12 bp):
TTAGGGATTAGA
Found at i:21116913 original size:15 final size:16
Alignment explanation
Indices: 21116895--21116928 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21116885 GATGAAGAAG
*
21116895 AAGGCTGAGAAGGA-A
1 AAGGCAGAGAAGGAGA
21116910 AAGGCAGAGAAGGAGA
1 AAGGCAGAGAAGGAGA
21116926 AAG
1 AAG
21116929 AGGGTGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.41, T:0.03
Consensus pattern (16 bp):
AAGGCAGAGAAGGAGA
Found at i:21119830 original size:21 final size:21
Alignment explanation
Indices: 21119804--21119849 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21119794 AATGGCATGA
21119804 AAATT-AAGAAGCAT-AAAAATT
1 AAATTAAAG-AGCATGAAAAA-T
21119825 AAATTAAAGAGCATGAAAAAT
1 AAATTAAAGAGCATGAAAAAT
21119846 AAAT
1 AAAT
21119850 AGCAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (21 bp):
AAATTAAAGAGCATGAAAAAT
Found at i:21122848 original size:352 final size:347
Alignment explanation
Indices: 21122286--21123408 Score: 1327
Period size: 352 Copynumber: 3.2 Consensus size: 347
21122276 TTCTTTTTGG
* * * * *
21122286 TTTTTGTTAAAAATAATTGCTAACTTTTTTTTTAATTTG-ATTTAATTTTATATATTTTATCAAA
1 TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAA-TAGAATTTAATTTTATAT-TTTTATTAAA
* ** * * *
21122350 ATTTGTTAAA-ATTAGTGAGATAAAATTTAATAAAATAA--AATAA-AAAAGAAACAAGAT-GGA
64 ATTT-ATAAATATTAGAAAAAT-AAATTTAATAAAATAAGTAA-AAGAAAAGAAACAAAATCGAA
* * * *
21122410 GTAATAGATCTAAAATTATTACTCTTTTT--TATCATAAC-AAAATATTTTTATTAAAAAATAAA
126 ATAAT-GAACCAAAATTATT--TCTTTTTACTATCAT-ACTAAAATATATTTATTAAAAAA-AAA
* *
21122472 ATTTTTATAATTATTATGAGAGAAAATATGGTATCATTTTTGCTTCTGATTTTAAATTAAAATTT
186 ATTTTTATAATTATTATGAGAGAAAATA-GGTATCATTTTTGCTTCTGATTTTAAATTGAATTTT
* * * *
21122537 TAAAATCAAGGAAAAATAATACTTTCGTCTCTTTTAAAAATTTTATTTTTTACTAATGAATATAT
250 TAAAATAAAGGAAAAATGATACTTTCGTTTCTTTTAAAAATTTTATTTTTTACTAATAAATATAT
* * * *
21122602 CTGAATTGTTTTGGTATGCTTTATTTCTTTCCTTT
315 TTAAATTATTTTGGTATGTTTTATTTCTTTCC--T
* * *
21122637 TTTTTCTTAAAACTAATTTCTAGCTTTATTTTTAATAGAATTTAATTTTATATTTTGATTAAAAT
1 TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATTTAATTTTATATTTTTATTAAAAT
*
21122702 TTATAAATATTAGAAAAATAAATTTTAATAAAATAAGTAAAAGAAAAGAAAGAAAATCGAAATAA
66 TTATAAATATTAGAAAAATAAA-TTTAATAAAATAAGTAAAAGAAAAGAAACAAAATCGAAATAA
*
21122767 TGAACCCAAAATT-TTTCTTTTTACTATCATACTAAAATATATTTATTAGAAAAAAAAAATTTTA
130 TGAA-CCAAAATTATTTCTTTTTACTATCATACTAAAATATATTTATTA-AAAAAAAAATTTTTA
* * * ** *
21122831 TAATTATTATTAGAGAAAATGAGGTACCTTTTTTGCTTCCAATTTTAAATTGAATTTTTAAAATG
193 TAATTATTATGAGAGAAAAT-AGGTATCATTTTTGCTTCTGATTTTAAATTGAATTTTTAAAATA
* * *
21122896 AAGGGAAAATGATACTTTTGTTTCTTTTAAAATTTTTATTTTTTACTAATAAATATATTTAAATT
257 AAGGAAAAATGATACTTTCGTTTCTTTTAAAAATTTTATTTTTTACTAATAAATATATTTAAATT
*
21122961 TTTTTGGTATGTTTTATTTCTTTCCT
322 ATTTTGGTATGTTTTATTTCTTTCCT
* * *
21122987 TTTTTCTTAAAAGTAATATCTAGCTTT-TTTTTAATAGAATTTAATTTTATATTTTTATTAAAAT
1 TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATTTAATTTTATATTTTTATTAAAAT
* * * *
21123051 TTATAAATATTATAAAAATAAATTTAATAAAATAAGTTAAAG-AAAGATAATAAAATC-AGGATA
66 TTATAAATATTAGAAAAATAAATTTAATAAAATAAGTAAAAGAAAAGA-AACAAAATCGA-AATA
* * * * * * * *
21123114 ATGGATCAAAATTATTACCTTTTACTATTATATTAAAATATATTTATT-AAAGAAAATTTTTTAT
129 ATGAACCAAAATTATTTCTTTTTACTATCATACTAAAATATATTTATTAAAAAAAAAATTTTTAT
* * *
21123178 AATTATTACGAGAGAAAATAAGGTATGATTTTTGCTGCTGATTTTAAATTGAATTTTTAAAATTA
194 AATTATTATGAGAGAAAAT-AGGTATCATTTTTGCTTCTGATTTTAAATTGAATTTTTAAAA-TA
* *
21123243 AAGGAAAAA-GACACTTTCATTTCTTTTAAAAATTTTATTTTTTACTAATAAATATATTTAAATT
257 AAGGAAAAATGATACTTTCGTTTCTTTTAAAAATTTTATTTTTTACTAATAAATATATTTAAATT
21123307 ATTTTGGTATGTTTTATTTCTTT-C-
322 ATTTTGGTATGTTTTATTTCTTTCCT
* * *
21123331 -TTTT-TTAAAAATAATTTCTAACTTTATTTTTTATAGGATTTAA-TTTGT-TTTTTATTAAAAT
1 TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATTTAATTTTATATTTTTATTAAAAT
*
21123392 TTGTAAATATT-GAAAAA
66 TTATAAATATTAGAAAAA
21123409 ATATATAAAA
Statistics
Matches: 676, Mismatches: 78, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
340 5 0.01
341 23 0.03
342 22 0.03
343 19 0.03
345 1 0.00
346 139 0.21
347 22 0.03
348 64 0.09
349 64 0.09
350 68 0.10
351 48 0.07
352 182 0.27
353 19 0.03
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (347 bp):
TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATTTAATTTTATATTTTTATTAAAAT
TTATAAATATTAGAAAAATAAATTTAATAAAATAAGTAAAAGAAAAGAAACAAAATCGAAATAAT
GAACCAAAATTATTTCTTTTTACTATCATACTAAAATATATTTATTAAAAAAAAAATTTTTATAA
TTATTATGAGAGAAAATAGGTATCATTTTTGCTTCTGATTTTAAATTGAATTTTTAAAATAAAGG
AAAAATGATACTTTCGTTTCTTTTAAAAATTTTATTTTTTACTAATAAATATATTTAAATTATTT
TGGTATGTTTTATTTCTTTCCT
Found at i:21123563 original size:239 final size:243
Alignment explanation
Indices: 21123205--21123656 Score: 619
Period size: 239 Copynumber: 1.9 Consensus size: 243
21123195 ATAAGGTATG
*
21123205 ATTTTTGCTGCTGATTTTAAATTGAATTTTTAAAATTAAAGGAAAAAGACACTTTCATTTCTTTT
1 ATTTTTGCTGCTGATTTTAAATTGAATTTTTAAAATCAAAGGAAAAAGACACTTTCATTTCTTTT
* * *
21123270 AAAAATTTTATTTTTTACTAATAAATATATTTAAATTATTTTGGTATGTTTTATTTCTTTC-TTT
66 AAAAATTTTATGTTTTACTAATAAACATATTTAAATTATTTTGGTATATTTTATTTCTTTCTTTT
* * * **
21123334 T-TTAAAAATAATTTCTAACTTTATTTTTTATAGGATTTAAT-TTGT-TTTTTATTAAAATTTGT
131 TCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATATAATATAATATTTTTATTAAAATTTGT
21123396 AAATATTGAAAAAATATATAAAATTATTATAATTATTACGAAGGTACC
196 AAATATTGAAAAAATATATAAAATTATTATAATTATTACGAAGGTACC
* * * * * ** *
21123444 ATTTTTGCTTCTGATTTTAAATTGAATTTTTTAAATCAAGGGAAAATGATACTTTTGTTTTTTTT
1 ATTTTTGCTGCTGATTTTAAATTGAATTTTTAAAATCAAAGGAAAAAGACAC-TTT-CATTTCTT
** *
21123509 TTTTAACTTTTA-GTTTT-CTAATAAACATATTTAAATTATTTTGGTATATTTTATTTCTTTCTT
64 TTAAAAATTTTATGTTTTACTAATAAACATATTTAAATTATTTTGGTATATTTTATTTCTTTC--
* *
21123572 TTTTTCTTAAAAATAATTTCTAGCTTTATTTTTAATATAATATAATATAATATTTTTATTAAAAT
127 TTTTTCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATATAATATAATATTTTTATTAAAAT
*
21123637 TTGTAAATATTGGAAAAATA
192 TTGTAAATATTGAAAAAATA
21123657 AAAATTTAAA
Statistics
Matches: 182, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
239 88 0.48
240 7 0.04
241 14 0.08
242 4 0.02
243 35 0.19
244 2 0.01
245 32 0.18
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (243 bp):
ATTTTTGCTGCTGATTTTAAATTGAATTTTTAAAATCAAAGGAAAAAGACACTTTCATTTCTTTT
AAAAATTTTATGTTTTACTAATAAACATATTTAAATTATTTTGGTATATTTTATTTCTTTCTTTT
TCTTAAAAATAATTTCTAACTTTATTTTTAATAGAATATAATATAATATTTTTATTAAAATTTGT
AAATATTGAAAAAATATATAAAATTATTATAATTATTACGAAGGTACC
Found at i:21125362 original size:11 final size:11
Alignment explanation
Indices: 21125346--21125370 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21125336 CTTTTTAAAT
21125346 ATAATTAAAAA
1 ATAATTAAAAA
21125357 ATAATTAAAAA
1 ATAATTAAAAA
21125368 ATA
1 ATA
21125371 TAATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATTAAAAA
Found at i:21127135 original size:16 final size:17
Alignment explanation
Indices: 21127106--21127137 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21127096 AAAGTTCTTA
21127106 GAGGGAATAAAGAAAGT
1 GAGGGAATAAAGAAAGT
21127123 GAGGGAA-AAAGAAAG
1 GAGGGAATAAAGAAAG
21127138 CTAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (17 bp):
GAGGGAATAAAGAAAGT
Found at i:21134406 original size:57 final size:57
Alignment explanation
Indices: 21134343--21134450 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 57
21134333 AAAGTCATAC
* * *
21134343 AGAATATTGAATTCTAATTAATTAATTTTATTACAAAAATAGTAAGTGATATGATAT
1 AGAATATTAAATTCTAATTAATTAATTATATCACAAAAATAGTAAGTGATATGATAT
* * *
21134400 AGAATATTAAATTCTAATTGATTAATTATATCATAATAATAGTAAGTGATA
1 AGAATATTAAATTCTAATTAATTAATTATATCACAAAAATAGTAAGTGATA
21134451 CGAGGGCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (57 bp):
AGAATATTAAATTCTAATTAATTAATTATATCACAAAAATAGTAAGTGATATGATAT
Found at i:21136232 original size:1 final size:1
Alignment explanation
Indices: 21136226--21136255 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
21136216 CCAGGCTTCC
*
21136226 TTTTTTTTTTTTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21136256 AACACTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:21136681 original size:20 final size:20
Alignment explanation
Indices: 21136658--21136697 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21136648 TAATCTCATC
*
21136658 ATTATAATACTTAATTTTAT
1 ATTATAATAATTAATTTTAT
21136678 ATTATAATAATTAATTTTAT
1 ATTATAATAATTAATTTTAT
21136698 TTTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTATAATAATTAATTTTAT
Found at i:21146633 original size:9 final size:10
Alignment explanation
Indices: 21146618--21146642 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21146608 TTTTAAAATC
21146618 TTTTTTTTTA
1 TTTTTTTTTA
21146628 TTTTTTTTTA
1 TTTTTTTTTA
21146638 TTTTT
1 TTTTT
21146643 AAATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:21148364 original size:2 final size:2
Alignment explanation
Indices: 21148357--21148391 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21148347 TCTATCTATC
21148357 TA TA TA 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 TA TA TA T
21148392 CTTCCCATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21148518 original size:26 final size:27
Alignment explanation
Indices: 21148489--21148549 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
21148479 TAGAGTTTGG
21148489 CCAA-TCACTTACCATATATAAATCAA
1 CCAAGTCACTTACCATATATAAATCAA
**
21148515 CCAAGAGTTTGCTTACCATATATAAATCAA
1 CC-A-AG-TCACTTACCATATATAAATCAA
21148545 CCAAG
1 CCAAG
21148550 GGTTTGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
27 1 0.03
28 3 0.10
29 1 0.03
30 22 0.76
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.26
Consensus pattern (27 bp):
CCAAGTCACTTACCATATATAAATCAA
Found at i:21148530 original size:30 final size:30
Alignment explanation
Indices: 21148496--21148556 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
21148486 TGGCCAATCA
21148496 CTTACCATATATAAATCAACCAAGAGTTTG
1 CTTACCATATATAAATCAACCAAGAGTTTG
*
21148526 CTTACCATATATAAATCAACCAAGGGTTTG
1 CTTACCATATATAAATCAACCAAGAGTTTG
21148556 C
1 C
21148557 CATTCCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (30 bp):
CTTACCATATATAAATCAACCAAGAGTTTG
Found at i:21148955 original size:23 final size:23
Alignment explanation
Indices: 21148929--21148973 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21148919 TAGGCAATAT
21148929 TAAGAAAAGAGAATCAATTACAC
1 TAAGAAAAGAGAATCAATTACAC
*
21148952 TAAGAAAAGAGAGTCAATTACA
1 TAAGAAAAGAGAATCAATTACA
21148974 AATTACACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.18
Consensus pattern (23 bp):
TAAGAAAAGAGAATCAATTACAC
Found at i:21149351 original size:124 final size:124
Alignment explanation
Indices: 21149126--21149373 Score: 415
Period size: 124 Copynumber: 2.0 Consensus size: 124
21149116 TATATAGTCA
* *
21149126 ACTCGAACTCTAGGAAGTGATTTCGCAAGAATATCAACTAATTGTTTCTCTGTGCGCACATGTTT
1 ACTCAAACTCTAGGAAGTGATTTCGCAAGAATATCAACTAATTGTTCCTCTGTGCGCACATGTTT
*
21149191 CAATAATATTGTTCCACTCTGTAACTTGTTCCTAATGAAATGACAATTAACTATTATAT
66 CAATAATATTGTTCCACTCTATAACTTGTTCCTAATGAAATGACAATTAACTATTATAT
* * * * *
21149250 ACTCAAACTCTTGGAAGTGATTTTGTAAGAATATCGACTAATTGTTCCTCTGTGCGCATATGTTT
1 ACTCAAACTCTAGGAAGTGATTTCGCAAGAATATCAACTAATTGTTCCTCTGTGCGCACATGTTT
*
21149315 CAATAATATTGTTCCACTCTATAACTTTTTCCTAATGAAATGACAATTAACTATTATAT
66 CAATAATATTGTTCCACTCTATAACTTGTTCCTAATGAAATGACAATTAACTATTATAT
21149374 GCTTGGTTCT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 115 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (124 bp):
ACTCAAACTCTAGGAAGTGATTTCGCAAGAATATCAACTAATTGTTCCTCTGTGCGCACATGTTT
CAATAATATTGTTCCACTCTATAACTTGTTCCTAATGAAATGACAATTAACTATTATAT
Found at i:21156073 original size:6 final size:6
Alignment explanation
Indices: 21156062--21156177 Score: 214
Period size: 6 Copynumber: 19.3 Consensus size: 6
21156052 TAACATAGCC
*
21156062 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGTCT ATGGCT ATGGCT
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT
21156110 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT
*
21156158 ATGTCT ATGGCT ATGGCT AT
1 ATGGCT ATGGCT ATGGCT AT
21156178 TCCCTGTCAC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 106 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.35
Consensus pattern (6 bp):
ATGGCT
Found at i:21156420 original size:28 final size:30
Alignment explanation
Indices: 21156388--21156444 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
21156378 ATAGTATTAA
* *
21156388 AATTTGTTATTATATTTT-AATTT-TATTT
1 AATTTGTTACTAAATTTTCAATTTATATTT
*
21156416 AATTTTTTACTAAATTTTCAATTTATATT
1 AATTTGTTACTAAATTTTCAATTTATATT
21156445 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.62
29 5 0.21
30 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (30 bp):
AATTTGTTACTAAATTTTCAATTTATATTT
Found at i:21157171 original size:16 final size:17
Alignment explanation
Indices: 21157145--21157184 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
21157135 ACTAAAATTA
*
21157145 AAATCATATTAT-TTTT
1 AAATTATATTATATTTT
*
21157161 ATATTATATTATATTTT
1 AAATTATATTATATTTT
21157178 AAATTAT
1 AAATTAT
21157185 CAAATCTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATTATATTATATTTT
Found at i:21157390 original size:31 final size:32
Alignment explanation
Indices: 21157355--21157441 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 32
21157345 TAAAAGATCT
21157355 TTATACTCATAAAAAATTTAAAATTTAA-TTC
1 TTATACTCATAAAAAATTTAAAATTTAATTTC
* * ** **
21157386 TTATACTTACATGAAATTTGTAATTTAATTTC
1 TTATACTCATAAAAAATTTAAAATTTAATTTC
*
21157418 TGTAT--TCATACAAAATTTAAAATT
1 T-TATACTCATAAAAAATTTAAAATT
21157442 CAATCATTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
31 35 0.83
32 4 0.10
33 3 0.07
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (32 bp):
TTATACTCATAAAAAATTTAAAATTTAATTTC
Found at i:21157805 original size:21 final size:20
Alignment explanation
Indices: 21157775--21157826 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
21157765 ACATAAAATT
*
21157775 AATATAGTAAAAAATATATTAA
1 AATA-AGTAAAAAATAT-TAAA
21157797 AATAAGTAAAAAATATTAAA
1 AATAAGTAAAAAATATTAAA
21157817 AATAA-TAAAA
1 AATAAGTAAAA
21157827 CTATAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 12 0.41
22 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AATAAGTAAAAAATATTAAA
Found at i:21157812 original size:19 final size:20
Alignment explanation
Indices: 21157784--21157831 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
21157774 TAATATAGTA
21157784 AAAAATATATT-AAAATAAGT
1 AAAAATATATTAAAAATAA-T
21157804 AAAAA-ATATTAAAAATAAT
1 AAAAATATATTAAAAATAAT
*
21157823 AAAACTATA
1 AAAAATATA
21157832 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATATATTAAAAATAAT
Found at i:21159682 original size:14 final size:14
Alignment explanation
Indices: 21159663--21159689 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21159653 AGATCTAATA
21159663 ATTTATTTATTTTT
1 ATTTATTTATTTTT
21159677 ATTTATTTATTTT
1 ATTTATTTATTTT
21159690 ATATCAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTATTTATTTTT
Found at i:21159814 original size:22 final size:22
Alignment explanation
Indices: 21159765--21159820 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
21159755 ATTTTTTTTT
* *
21159765 TTATTTTTATCAAATTTATATA
1 TTATTTTTATAAAATTTATAAA
*
21159787 TAATTTTTATTAAAATTT-TAAA
1 TTATTTTTA-TAAAATTTATAAA
*
21159809 TTATTTTCATAA
1 TTATTTTTATAA
21159821 TTTTTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 7 0.25
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTTTTATAAAATTTATAAA
Found at i:21163787 original size:18 final size:19
Alignment explanation
Indices: 21163747--21163787 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
21163737 TTTTTTTTCG
* *
21163747 CTTTTGCTTTTTATTATTT
1 CTTTTGCTATCTATTATTT
21163766 -TTTTGCTATCTATT-TTT
1 CTTTTGCTATCTATTATTT
21163783 CTTTT
1 CTTTT
21163788 TTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.73
Consensus pattern (19 bp):
CTTTTGCTATCTATTATTT
Found at i:21168633 original size:23 final size:24
Alignment explanation
Indices: 21168607--21168655 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
21168597 TCTAAAAAAC
21168607 TTTAATAAATAT-TTTCTAAA-ATT
1 TTTAA-AAATATATTTCTAAAGATT
*
21168630 TTTAAAAATATATTTTTAAAGATT
1 TTTAAAAATATATTTCTAAAGATT
21168654 TT
1 TT
21168656 AATTTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAAAATATATTTCTAAAGATT
Found at i:21168642 original size:24 final size:23
Alignment explanation
Indices: 21168607--21168655 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
21168597 TCTAAAAAAC
*
21168607 TTTAATAAATATTTTCTAAA-ATT
1 TTTAAAAAATATTTT-TAAAGATT
21168630 TTTAAAAATATATTTTTAAAGATT
1 TTTAAAAA-ATATTTTTAAAGATT
21168654 TT
1 TT
21168656 AATTTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAAAAATATTTTTAAAGATT
Found at i:21168855 original size:136 final size:136
Alignment explanation
Indices: 21168517--21168863 Score: 317
Period size: 137 Copynumber: 2.5 Consensus size: 136
21168507 TTATAAAAAA
* * *
21168517 TATTTTTATGTGTGGAATCTATTTATACCAAAATTTCTTTATTGCTTTTGCTTTTTTA-TTTT--
1 TATTTTTATGTGTAGAATCTACTTATATC--AATTTCTTT-TTGCTTTT-CTTTTTTATTTTTAC
*
21168579 TTTTATTGTTTTCCTTTTTCTAAAAAACTTTAATAAATATTTTCTAAAATTTTTAAAAATATATT
62 TTTTATT-TTTTCCTTTTTCTAAAAAACTTTAATAAATATTTTCTAAAATTTATAAAAATATATT
21168644 TTTAAAGATTT
126 TTTAAAGATTT
* * * * * *
21168655 TAATTTTATGTG-CGGAGCCACTTATATCAACTTTCTTTTT--TTTT-TTTTCTTTTTTTTACCC
1 TATTTTTATGTGTAGAATCTACTTATATCAA-TTTCTTTTTGCTTTTCTTTT-TTATTTTTA--C
* *
21168716 TTTTCATCTTTTT-CTTTTTTTAGAAAATAC-TTAAT-AATATTTT-TTAAA-TTATAAAAA-AT
62 TTTT-AT-TTTTTCCTTTTTCTA-AAAA-ACTTTAATAAATATTTTCTAAAATTTATAAAAATAT
*
21168775 ATTTTTACAGATTT
123 ATTTTTAAAGATTT
*
21168789 TATTTTTCATGTGTAGAATCTACTTATATCAATTT-TTTTTGCTTTTCCTTTTTAATTTTTAACT
1 TATTTTT-ATGTGTAGAATCTACTTATATCAATTTCTTTTTGCTTTT-CTTTTTTATTTTT-AC-
21168853 TTTTATTTTTT
62 TTTTATTTTTT
21168864 TGAAAAAATA
Statistics
Matches: 171, Mismatches: 19, Indels: 41
0.74 0.08 0.18
Matches are distributed among these distances:
131 4 0.02
132 2 0.01
133 8 0.05
134 26 0.15
135 25 0.15
136 32 0.19
137 40 0.23
138 31 0.18
139 3 0.02
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (136 bp):
TATTTTTATGTGTAGAATCTACTTATATCAATTTCTTTTTGCTTTTCTTTTTTATTTTTACTTTT
ATTTTTTCCTTTTTCTAAAAAACTTTAATAAATATTTTCTAAAATTTATAAAAATATATTTTTAA
AGATTT
Found at i:21169980 original size:11 final size:11
Alignment explanation
Indices: 21169964--21169990 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21169954 TCTATTTGCA
21169964 TTTTTTTTCTT
1 TTTTTTTTCTT
21169975 TTTTTTTTCTT
1 TTTTTTTTCTT
21169986 TTTTT
1 TTTTT
21169991 AACTCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:21172561 original size:107 final size:103
Alignment explanation
Indices: 21172411--21172679 Score: 276
Period size: 107 Copynumber: 2.6 Consensus size: 103
21172401 TCAATTTTAT
* * * *
21172411 CAAATTATTGGAGGATTTAAATCTCAAATT-GAATCTTATCAAACTATTGAAAGATTTAATAATA
1 CAAACTATTGAAGGATTTAAATCTCAAATTAAAAT-TTACCAAACTATTGAAAGATTTAATAATA
* * *
21172475 TTTTAAACAAATTCATAAATAACTTTTGAA-TTAAAAATCCTAC
65 TTTT-AA-AAA-TAAT-AATAAATTAT-AATTTAAAAATCCTAC
* * *
21172518 CAAACTATTGTAGCATTTAAATCTCAAATTAAAATTTACCAAACTA-TGAAA-ATGTTTAATTAT
1 CAAACTATTGAAGGATTTAAATCTCAAATTAAAATTTACCAAACTATTGAAAGA--TTTAATAAT
* ***
21172581 ATTTTAAAAATAATATTAAATTATAATTTTTTAATCCTAC
64 ATTTTAAAAATAATAATAAATTATAATTTAAAAATCCTAC
* *
21172621 TAAACTATTGAAGGATTTAAATCTCAAAATAAAAATTTTACCAAACTATTGAAAGATTT
1 CAAACTATTGAAGGATTTAAATCTC-AAATTAAAA-TTTACCAAACTATTGAAAGATTT
21172680 TGTTGATTTT
Statistics
Matches: 137, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
102 2 0.01
103 39 0.28
104 11 0.08
105 19 0.14
106 12 0.09
107 51 0.37
108 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (103 bp):
CAAACTATTGAAGGATTTAAATCTCAAATTAAAATTTACCAAACTATTGAAAGATTTAATAATAT
TTTAAAAATAATAATAAATTATAATTTAAAAATCCTAC
Found at i:21174788 original size:15 final size:15
Alignment explanation
Indices: 21174758--21174789 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21174748 TTTTTAAAAA
21174758 TTTGAATTTTAAGGT
1 TTTGAATTTTAAGGT
*
21174773 TTTGAATTTTAGGGT
1 TTTGAATTTTAAGGT
21174788 TT
1 TT
21174790 GGGGTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (15 bp):
TTTGAATTTTAAGGT
Found at i:21174796 original size:22 final size:21
Alignment explanation
Indices: 21174770--21174810 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
21174760 TGAATTTTAA
21174770 GGTTTTGAATTTTAGGGTTTGG
1 GGTTTTGAATTTT-GGGTTTGG
*
21174792 GGTTTTGGATTTTGGGTTT
1 GGTTTTGAATTTTGGGTTT
21174811 CGATTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.00, G:0.37, T:0.54
Consensus pattern (21 bp):
GGTTTTGAATTTTGGGTTTGG
Found at i:21174875 original size:22 final size:22
Alignment explanation
Indices: 21174848--21174892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
21174838 TCAATTTTGG
* *
21174848 AGTTTAAAGGTTT-TAGGATTT
1 AGTTTTAAGGTTTGAAGGATTT
*
21174869 AGTTTTAGGGTTTGAAGGATTT
1 AGTTTTAAGGTTTGAAGGATTT
21174891 AG
1 AG
21174893 GGTTTCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
AGTTTTAAGGTTTGAAGGATTT
Found at i:21175655 original size:21 final size:21
Alignment explanation
Indices: 21175626--21175669 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21175616 AAAATTACAA
21175626 AAAAGAAAA-AATAAAAGAAAT
1 AAAAGAAAATAATAAAA-AAAT
*
21175647 AAAATAAAATAATAAAAAAAT
1 AAAAGAAAATAATAAAAAAAT
21175668 AA
1 AA
21175670 TGATTCACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAGAAAATAATAAAAAAAT
Found at i:21175866 original size:58 final size:59
Alignment explanation
Indices: 21175804--21175916 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
21175794 TATTTTTAAG
* * * *
21175804 AAAAATTGATACCTTTAGCTTTTT-TCTAAAAATATTTTTTAAAACTTTTTATTTCCTA
1 AAAAATTGATACCTTTAACTTTTTCCCCAAAAATATTTTTGAAAACTTTTTATTTCCTA
* * *
21175862 AAAAATTGATACTTTTAACTTTTTCCCCCAAAATATTTTTGAAAATTTTTTATTT
1 AAAAATTGATACCTTTAACTTTTTCCCCAAAAATATTTTTGAAAACTTTTTATTT
21175917 TAAAAACTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 22 0.47
59 25 0.53
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.50
Consensus pattern (59 bp):
AAAAATTGATACCTTTAACTTTTTCCCCAAAAATATTTTTGAAAACTTTTTATTTCCTA
Found at i:21175929 original size:132 final size:136
Alignment explanation
Indices: 21175776--21176020 Score: 338
Period size: 132 Copynumber: 1.8 Consensus size: 136
21175766 CAATTGGAAA
* * * * **
21175776 TTTTTATTTTAAAAATTTTATTTTTAAGAAAAATTGATACCTTT-AGCTTTT-TTCTAAA-A-AT
1 TTTTTATTTTAAAAACTTTATTTTAAAGAAAAATTAATA-CTTTCAACTTTTCTTAAAAATATAT
** *
21175837 ATTTTTTAAAAC-TTTTTATTTCCTAAAAAATTGATACTTTTAACTTTTTCCCCCAAAATATTTT
65 ATTTTTTAAAACTTTTTTATTTCAAAAAAAATTGATACTTTCAACTTTTTCCCCCAAAATATTTT
21175901 TGAAAAT
130 TGAAAAT
21175908 TTTTTATTTTAAAAACTTTATTTTAAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATAT
1 TTTTTATTTTAAAAACTTTATTTTAAAGAAAAATTAATACTTTCAACTTTT-CTTAAAAATATAT
* *
21175973 ATTTTTTAAACCTTTTTTATTTTAAAAAAAATTGATACTTTCAACTTT
65 ATTTTTTAAAACTTTTTTATTTCAAAAAAAATTGATACTTTCAACTTT
21176021 CCCTTAAAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
131 4 0.04
132 42 0.44
134 5 0.05
135 1 0.01
136 13 0.14
137 31 0.32
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (136 bp):
TTTTTATTTTAAAAACTTTATTTTAAAGAAAAATTAATACTTTCAACTTTTCTTAAAAATATATA
TTTTTTAAAACTTTTTTATTTCAAAAAAAATTGATACTTTCAACTTTTTCCCCCAAAATATTTTT
GAAAAT
Found at i:21176052 original size:44 final size:43
Alignment explanation
Indices: 21175990--21176082 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
21175980 AAACCTTTTT
*
21175990 TATTTTAAAAAAAATTGATACTTTCAACTTTCCCTTAAAAATA
1 TATTTTAAAAAAAATTGATACTTTCAACTTTCCCTCAAAAATA
* * * **
21176033 TATTTTCAAGAAAAATTGATATTTTTAACTTTTTCTCAAAAATA
1 TATTTT-AAAAAAAATTGATACTTTCAACTTTCCCTCAAAAATA
*
21176077 TTTTTT
1 TATTTT
21176083 TGAAAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 6 0.14
44 36 0.86
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (43 bp):
TATTTTAAAAAAAATTGATACTTTCAACTTTCCCTCAAAAATA
Found at i:21176059 original size:63 final size:64
Alignment explanation
Indices: 21175926--21176060 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 64
21175916 TTAAAAACTT
* *** ** * *
21175926 TATTTTAAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATATATTTTTTAAACCTTTTT
1 TATTTTAAAGAAAAATTAATACTTTCAACTTTCCCTTAAAAATATATATTTAAGAAAAATTATA
*
21175990 TATTTTAAA-AAAAATTGATACTTTCAACTTTCCCTTAAAAATATAT-TTTCAAGAAAAATTGAT
1 TATTTTAAAGAAAAATTAATACTTTCAACTTTCCCTTAAAAATATATATTT-AAGAAAAATT-AT
21176053 A
64 A
21176054 T-TTTTAA
1 TATTTTAA
21176061 CTTTTTCTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 3 0.05
63 46 0.77
64 11 0.18
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (64 bp):
TATTTTAAAGAAAAATTAATACTTTCAACTTTCCCTTAAAAATATATATTTAAGAAAAATTATA
Found at i:21176176 original size:4 final size:4
Alignment explanation
Indices: 21176167--21176192 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21176157 ATTTTAATTT
21176167 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
21176193 CCTTAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:21176494 original size:12 final size:12
Alignment explanation
Indices: 21176473--21176506 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21176463 GTTTTATTCT
21176473 TATT-TTATTAA
1 TATTATTATTAA
21176484 TATTATTATTAA
1 TATTATTATTAA
*
21176496 TATTACTATTA
1 TATTATTATTA
21176507 TGATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:21176522 original size:16 final size:16
Alignment explanation
Indices: 21176498--21176532 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21176488 ATTATTAATA
* *
21176498 TTACTATTATGATTAT
1 TTACCATTATAATTAT
21176514 TTACCATTATAATTAT
1 TTACCATTATAATTAT
21176530 TTA
1 TTA
21176533 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (16 bp):
TTACCATTATAATTAT
Found at i:21177563 original size:21 final size:22
Alignment explanation
Indices: 21177539--21177594 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
21177529 CATAATCATG
*
21177539 TTATTTAAAA-AAGTTAAT-GAT
1 TTATTTAAAATAA-TTAATAAAT
21177560 TTATTATAAAATAATTAATAAAT
1 TTATT-TAAAATAATTAATAAAT
21177583 TTA-TTAAAATAA
1 TTATTTAAAATAA
21177595 ATATTCACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 13 0.42
22 11 0.35
23 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TTATTTAAAATAATTAATAAAT
Done.