Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 19 of 138
Found at i:5299461 original size:15 final size:15
Alignment explanation
Indices: 5299443--5299472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5299433 AAAATTAAAA
5299443 TAATAATTTTAATTT
1 TAATAATTTTAATTT
*
5299458 TAATAATTTTGATTT
1 TAATAATTTTAATTT
5299473 AATGATTCAA
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TAATAATTTTAATTT
Found at i:5299530 original size:2 final size:2
Alignment explanation
Indices: 5299523--5299548 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5299513 ATCCCTCCCT
5299523 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
5299549 AACCTACCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5299816 original size:6 final size:6
Alignment explanation
Indices: 5299805--5299830 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5299795 AGAAAAGGAC
5299805 AGAAAG AGAAAG AGAAAG AGAAAG AG
1 AGAAAG AGAAAG AGAAAG AGAAAG AG
5299831 GAATAGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:5299959 original size:16 final size:16
Alignment explanation
Indices: 5299938--5299976 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5299928 ACTTTCTCTC
5299938 TTTCTTTCCCTTTCCT
1 TTTCTTTCCCTTTCCT
** *
5299954 TTTCTTTCTTTTTCTT
1 TTTCTTTCCCTTTCCT
5299970 TTTCTTT
1 TTTCTTT
5299977 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCCCTTTCCT
Found at i:5299967 original size:6 final size:6
Alignment explanation
Indices: 5299958--5299994 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
5299948 TTTCCTTTTC
*
5299958 TTTCTT TTTCTT TTTC-T TTT-TT TTTCTT TTCCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
5299995 ATTTGCTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 8 0.30
6 19 0.70
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:5299973 original size:22 final size:22
Alignment explanation
Indices: 5299936--5299994 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
5299926 TCACTTTCTC
*
5299936 TCTTTC-TTTCC-CTTTCCTTT
1 TCTTTCTTTTCCTTTTTCCTTT
* *
5299956 TCTTTCTTTTTCTTTTTCTTTT
1 TCTTTCTTTTCCTTTTTCCTTT
*
5299978 TTTTTCTTTTCCTTTTT
1 TCTTTCTTTTCCTTTTT
5299995 ATTTGCTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 6 0.19
21 4 0.12
22 22 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
TCTTTCTTTTCCTTTTTCCTTT
Found at i:5299981 original size:16 final size:16
Alignment explanation
Indices: 5299948--5299994 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
5299938 TTTCTTTCCC
* *
5299948 TTTCCTTTTCTTTCTT
1 TTTCTTTTTCTTTTTT
5299964 TTTCTTTTTCTTTTTT
1 TTTCTTTTTCTTTTTT
*
5299980 TTTCTTTTCCTTTTT
1 TTTCTTTTTCTTTTT
5299995 ATTTGCTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTT
Found at i:5303976 original size:30 final size:29
Alignment explanation
Indices: 5303931--5303999 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
5303921 ATTTCAAATT
*
5303931 AATTAAAACCTTTAAATATCTATTTTCACCC
1 AATT-AAA-CTTTAAATATATATTTTCACCC
* *
5303962 AATTGAAACTTTAAATATATATTTTTACTC
1 AATT-AAACTTTAAATATATATTTTCACCC
5303992 AATTAAAC
1 AATTAAAC
5304000 CCTTAATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.12
30 23 0.68
31 7 0.21
ACGTcount: A:0.42, C:0.16, G:0.01, T:0.41
Consensus pattern (29 bp):
AATTAAACTTTAAATATATATTTTCACCC
Found at i:5312056 original size:19 final size:20
Alignment explanation
Indices: 5312024--5312063 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
5312014 GCAAACAAAT
5312024 TGAAGAAAATATTTTT-TAA
1 TGAAGAAAATATTTTTATAA
5312043 TGAA-AAAATGATTTTTATAA
1 TGAAGAAAAT-ATTTTTATAA
5312063 T
1 T
5312064 TCTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
TGAAGAAAATATTTTTATAA
Found at i:5312673 original size:26 final size:26
Alignment explanation
Indices: 5312642--5312691 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
5312632 TTATAAGTTA
5312642 TAAAAATTTAAAATA-TATTTTTTATT
1 TAAAAATTTAAAA-ACTATTTTTTATT
5312668 TAAAAATTTAAAAACTATTTTTTA
1 TAAAAATTTAAAAACTATTTTTTA
5312692 AATATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAAAATTTAAAAACTATTTTTTATT
Found at i:5312700 original size:28 final size:26
Alignment explanation
Indices: 5312640--5312701 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
5312630 TGTTATAAGT
5312640 TATAAAAATTTAAAATATATTTTTTA
1 TATAAAAATTTAAAATATATTTTTTA
*
5312666 TTTAAAAATTTAAAA-ACTATTTTTTAAA
1 TATAAAAATTTAAAATA-TATTTTTT--A
5312694 TATAAAAA
1 TATAAAAA
5312702 AAGTAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 22 0.71
28 8 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TATAAAAATTTAAAATATATTTTTTA
Found at i:5312902 original size:30 final size:30
Alignment explanation
Indices: 5312836--5312962 Score: 125
Period size: 30 Copynumber: 4.3 Consensus size: 30
5312826 TCCAATTGAG
* *
5312836 AATTTAATCAAGTAAAAATAGATATATAAA
1 AATTTAATTAAGTAAAAATAAATATATAAA
* *
5312866 AATTTAATTAAGTAAAAATAAATATTTAAG
1 AATTTAATTAAGTAAAAATAAATATATAAA
* * * *
5312896 AGTTTAATTAATTCAAAATAAA-ATATACAG
1 AATTTAATTAAGTAAAAATAAATATATA-AA
* * *
5312926 AATTTCATTAA-TTATAATAAATATA-AAA
1 AATTTAATTAAGTAAAAATAAATATATAAA
5312954 AATTTAATT
1 AATTTAATT
5312963 GATTATTAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.11
29 13 0.16
30 59 0.73
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
AATTTAATTAAGTAAAAATAAATATATAAA
Found at i:5314208 original size:25 final size:25
Alignment explanation
Indices: 5314160--5314208 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5314150 AATAAATTTA
* **
5314160 AAATTATCTGATTTATAATTAAAAT
1 AAATTATCTGATTTAAAAAAAAAAT
*
5314185 AAATTATCTTATTTAAAAAAAAAA
1 AAATTATCTGATTTAAAAAAAAAA
5314209 CTATCATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATTATCTGATTTAAAAAAAAAAT
Found at i:5314285 original size:2 final size:2
Alignment explanation
Indices: 5314268--5314312 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
5314258 TAAATTCATT
*
5314268 TA TA TA TG T- TA T- TA TA TA -A TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5314306 TA TA TA T
1 TA TA TA T
5314313 TAGATTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5315768 original size:22 final size:24
Alignment explanation
Indices: 5315727--5315779 Score: 92
Period size: 22 Copynumber: 2.3 Consensus size: 24
5315717 TTTTAAATTT
5315727 TAAATTTTTTATATATTATTTTAA
1 TAAATTTTTTATATATTATTTTAA
5315751 TAAATTTTTTA-ATA-TATTTTAA
1 TAAATTTTTTATATATTATTTTAA
5315773 TAAATTT
1 TAAATTT
5315780 ATATGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 15 0.52
23 3 0.10
24 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TAAATTTTTTATATATTATTTTAA
Found at i:5315843 original size:20 final size:19
Alignment explanation
Indices: 5315805--5315846 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5315795 ATTTTTATTT
*
5315805 TATAAAAATTTTAAAAATA
1 TATAAAAATTATAAAAATA
*
5315824 TATAAAAATTAATAATAATA
1 TATAAAAATT-ATAAAAATA
5315844 TAT
1 TAT
5315847 CATTTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:5318202 original size:22 final size:22
Alignment explanation
Indices: 5318177--5318220 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5318167 TGAAGGAGCC
5318177 ATGTCGTTACAATTTACAAGCT
1 ATGTCGTTACAATTTACAAGCT
*
5318199 ATGTCGTTATAATTTACAAGCT
1 ATGTCGTTACAATTTACAAGCT
5318221 TACAGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (22 bp):
ATGTCGTTACAATTTACAAGCT
Found at i:5323176 original size:16 final size:16
Alignment explanation
Indices: 5323152--5323184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5323142 TATTATTTTT
5323152 TTAAAAAATATA-AAA
1 TTAAAAAATATATAAA
5323167 TTAAATAAATATATAAA
1 TTAAA-AAATATATAAA
5323184 T
1 T
5323185 ATTTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAAATATATAAA
Found at i:5324169 original size:6 final size:6
Alignment explanation
Indices: 5324152--5324181 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5324142 AATAAAATAT
*
5324152 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
5324182 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:5327403 original size:16 final size:15
Alignment explanation
Indices: 5327375--5327417 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
5327365 ATTCACTTAT
5327375 ATTATTATAATTTGTA
1 ATTA-TATAATTTGTA
* *
5327391 TTTATATATATTTTTA
1 ATTATATA-ATTTGTA
5327407 ATTATATAATT
1 ATTATATAATT
5327418 ATATTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTATATAATTTGTA
Found at i:5327425 original size:25 final size:23
Alignment explanation
Indices: 5327392--5327439 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
5327382 TAATTTGTAT
* *
5327392 TTATATATATTTTTAATTATATAA
1 TTATATATATATGTAATTA-ATAA
5327416 TTATATTATATATGTAATTAATAA
1 TTATA-TATATATGTAATTAATAA
5327440 AATAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATATATATATGTAATTAATAA
Found at i:5327945 original size:21 final size:20
Alignment explanation
Indices: 5327914--5327964 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
5327904 TGATATTTTT
5327914 TAATA-TTTATATTTAAAAAA
1 TAATATTTTATA-TTAAAAAA
5327934 TAATATTTTATATTAAAAAA
1 TAATATTTTATATTAAAAAA
5327954 TAATATTTTAT
1 TAATATTTTAT
5327965 TAATTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATATTTTATATTAAAAAA
Found at i:5328038 original size:19 final size:20
Alignment explanation
Indices: 5328014--5328066 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
5328004 TATCGAATCG
*
5328014 AAATTAAATTTAAATATA-A
1 AAATTAAATTTAAATAAATA
*
5328033 AAATTAAA-ATAAATAAATA
1 AAATTAAATTTAAATAAATA
5328052 AAATTAAATTTAAAT
1 AAATTAAATTTAAAT
5328067 TTAATAACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.24
19 17 0.59
20 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTAAATTTAAATAAATA
Found at i:5328639 original size:12 final size:12
Alignment explanation
Indices: 5328622--5328664 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
5328612 TTTATTTAAT
5328622 TTAAATTTTTTA
1 TTAAATTTTTTA
* *
5328634 TTAAATATTTAA
1 TTAAATTTTTTA
5328646 TTAAATTATTTATA
1 TTAAATT-TTT-TA
5328660 TTAAA
1 TTAAA
5328665 AAAATTCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 16 0.64
13 3 0.12
14 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:5328642 original size:25 final size:26
Alignment explanation
Indices: 5328614--5328664 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
5328604 AATATATATT
5328614 TATTTAATTTAAATT-TTT-TATTAAA
1 TATTTAA-TTAAATTATTTATATTAAA
5328639 TATTTAATTAAATTATTTATATTAAA
1 TATTTAATTAAATTATTTATATTAAA
5328665 AAAATTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTTAATTAAATTATTTATATTAAA
Found at i:5337386 original size:16 final size:16
Alignment explanation
Indices: 5337356--5337415 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
5337346 TAAATCAATA
* *
5337356 AAATTTAAATAAAATC
1 AAATTTAATTTAAATC
*
5337372 AAATTT-ATTTCAAATA
1 AAATTTAATTT-AAATC
5337388 AAATTTAATTTAAATTC
1 AAATTTAATTTAAA-TC
*
5337405 AAATTAAATTT
1 AAATTTAATTT
5337416 TAAAATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.06
16 19 0.53
17 15 0.42
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAATTTAAATC
Found at i:5338918 original size:28 final size:30
Alignment explanation
Indices: 5338886--5338946 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
5338876 AAGTCACAAT
5338886 TTAAGAATAAAAAAATAAATT-A-TAAATA
1 TTAAGAATAAAAAAATAAATTAATTAAATA
* * **
5338914 TTAAGATTTAAAATTTAAATTAATTAAATA
1 TTAAGAATAAAAAAATAAATTAATTAAATA
5338944 TTA
1 TTA
5338947 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 17 0.63
29 1 0.04
30 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAGAATAAAAAAATAAATTAATTAAATA
Found at i:5349235 original size:86 final size:88
Alignment explanation
Indices: 5349133--5349298 Score: 237
Period size: 86 Copynumber: 1.9 Consensus size: 88
5349123 CTGTTACATA
*
5349133 TTAAAATGAGTGATCTCACGTCTAATAAATTTTTAATTTCTTGTAGCCTTATAT-T-TTCTTACT
1 TTAAAATGAGTGATCTCACATCTAATAAATTTTTAATTTCTTGTAGCCTTATATATATTCTTACT
5349196 GTTGCCCTTTCCTAAGTTGCATG
66 GTTGCCCTTTCCTAAGTTGCATG
* * * * * * *
5349219 TTAAAGTGAGTTATCTCATATCTAATAAATTTTTAATTTTTTGTAGCTTTATATATATTTTTTCT
1 TTAAAATGAGTGATCTCACATCTAATAAATTTTTAATTTCTTGTAGCCTTATATATATTCTTACT
*
5349284 GTTGCTCTTTCCTAA
66 GTTGCCCTTTCCTAA
5349299 TTATCACGTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 48 0.70
87 1 0.01
88 20 0.29
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.49
Consensus pattern (88 bp):
TTAAAATGAGTGATCTCACATCTAATAAATTTTTAATTTCTTGTAGCCTTATATATATTCTTACT
GTTGCCCTTTCCTAAGTTGCATG
Found at i:5349425 original size:26 final size:26
Alignment explanation
Indices: 5349367--5349418 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5349357 ACATGTTAAA
5349367 ACGAGTTATCTCATATCTAATAAATT
1 ACGAGTTATCTCATATCTAATAAATT
*
5349393 ACGAGTTATTTCATATCTAATAAATT
1 ACGAGTTATCTCATATCTAATAAATT
5349419 TTTAGTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (26 bp):
ACGAGTTATCTCATATCTAATAAATT
Found at i:5355223 original size:29 final size:30
Alignment explanation
Indices: 5355166--5355237 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
5355156 AATAGTTTAA
* * *
5355166 ATTATATTAATTAATATATTTATAATTTAAGT
1 ATTATATTAA--AAAATATTTAAAATTTAAAT
5355198 ATTATATTAAAAAAT-TTTAAAATTTAAAT
1 ATTATATTAAAAAATATTTAAAATTTAAAT
5355227 ATTATATTAAA
1 ATTATATTAAA
5355238 TATTTTATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.62
30 4 0.11
32 10 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
ATTATATTAAAAAATATTTAAAATTTAAAT
Found at i:5371932 original size:40 final size:40
Alignment explanation
Indices: 5371886--5372038 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
5371876 CATGTAAAAG
5371886 GACATTCACATTTGCATCATTGCATATGCATCACAATAAA
1 GACATTCACATTTGCATCATTGCATATGCATCACAATAAA
* * * * * *
5371926 GACATTCGCATCTGCATCATTACATTTGTATCATTAA-AAA
1 GACATTCACATTTGCATCATTGCATATGCATCA-CAATAAA
* *
5371966 GACATTCACATTTGCATCATTGTATATGCATCGCAATAAA
1 GACATTCACATTTGCATCATTGCATATGCATCACAATAAA
** ** *
5372006 -AGCATTTGCATTTATATCATTGCATTTGCATCA
1 GA-CATTCACATTTGCATCATTGCATATGCATCA
5372039 TGAAACAAAA
Statistics
Matches: 89, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 3 0.03
40 84 0.94
41 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (40 bp):
GACATTCACATTTGCATCATTGCATATGCATCACAATAAA
Found at i:5372025 original size:80 final size:81
Alignment explanation
Indices: 5371873--5372040 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 81
5371863 ATTGCATCTA
*
5371873 TATCATGTAAAAGGACATTCACATTTGCATCATTGCATATGCATCACAATAAAGACATTCGCATC
1 TATCATGTAAAAAGACATTCACATTTGCATCATTGCATATGCATCACAATAAAGACATTCGCATC
*
5371938 TGCATCATTACATTTG
66 TACATCATTACATTTG
* * *
5371954 TATCAT-TAAAAAGACATTCACATTTGCATCATTGTATATGCATCGCAATAAA-AGCATTTGCAT
1 TATCATGTAAAAAGACATTCACATTTGCATCATTGCATATGCATCACAATAAAGA-CATTCGCAT
* * *
5372017 TTATATCATTGCATTTG
65 CTACATCATTACATTTG
*
5372034 CATCATG
1 TATCATG
5372041 AAACAAAAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 69 0.91
81 6 0.08
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (81 bp):
TATCATGTAAAAAGACATTCACATTTGCATCATTGCATATGCATCACAATAAAGACATTCGCATC
TACATCATTACATTTG
Found at i:5372555 original size:96 final size:96
Alignment explanation
Indices: 5372379--5372557 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 96
5372369 CTTTTTTCAA
* * * ** * *
5372379 TGTGGATCCCGATCTTGATATGAATCTTGATGCATATCTCAAAAATCTTTCGATGTGAATCTCGA
1 TGTGAATCCCGAACTTGATAGGAATCTCAATGCAAATCTCAAAAATCTTTCAATGTGAATCTCGA
5372444 ACCTTCAATGCGAATCTGGAGAATCCTTAGG
66 ACCTTCAATGCGAATCTGGAGAATCCTTAGG
* * *
5372475 TGTGAATCCCGAACTTGATAGGAATCTCAATGCAAATCTCGATAA-CGTTTCAATGTGAATCTCT
1 TGTGAATCCCGAACTTGATAGGAATCTCAATGCAAATCTCAAAAATC-TTTCAATGTGAATCTCG
* *
5372539 AACCTTCGATGTGAATCTG
65 AACCTTCAATGCGAATCTG
5372558 AAAGGCCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 69 0.99
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (96 bp):
TGTGAATCCCGAACTTGATAGGAATCTCAATGCAAATCTCAAAAATCTTTCAATGTGAATCTCGA
ACCTTCAATGCGAATCTGGAGAATCCTTAGG
Found at i:5372634 original size:78 final size:78
Alignment explanation
Indices: 5372489--5372634 Score: 166
Period size: 78 Copynumber: 1.9 Consensus size: 78
5372479 AATCCCGAAC
* * * * ****
5372489 TTGATAGGAATCTCAATGCAAATCTCGATAACGTTTCAATGTGAATCTCTAACCTTCGATGTGAA
1 TTGATAGGAATCTCAATGCAAATCTCGAGAACCTTTCAATGTGAATCCCAAACCTTCGACACAAA
5372554 TCTGAAAGGCCTT
66 TCTGAAAGGCCTT
* * ** * *
5372567 TTGATAGGAATCTCAATGCGAATCTTGAGAACCTTTCGGTGTGAATCCCAAACTTTTGACACAAA
1 TTGATAGGAATCTCAATGCAAATCTCGAGAACCTTTCAATGTGAATCCCAAACCTTCGACACAAA
5372632 TCT
66 TCT
5372635 CGAGAACTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
78 54 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (78 bp):
TTGATAGGAATCTCAATGCAAATCTCGAGAACCTTTCAATGTGAATCCCAAACCTTCGACACAAA
TCTGAAAGGCCTT
Found at i:5372715 original size:20 final size:20
Alignment explanation
Indices: 5372690--5372727 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5372680 AAGATCATTT
5372690 GGTGTGAATCCCAAACCTGC
1 GGTGTGAATCCCAAACCTGC
*
5372710 GGTGTGAATCTCAAACCT
1 GGTGTGAATCCCAAACCT
5372728 CCAATGAGAA
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:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (20 bp):
GGTGTGAATCCCAAACCTGC
Found at i:5373107 original size:32 final size:33
Alignment explanation
Indices: 5373056--5373133 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 33
5373046 AAGAGTAACC
*
5373056 ACCTCTGTTTAGAGGAATCTTTCAAATTTCAT-
1 ACCTTTGTTTAGAGGAATCTTTCAAATTTCATG
* * *
5373088 TCTTTTGTTTAGAGTAATCTTTCAAATTTCATG
1 ACCTTTGTTTAGAGGAATCTTTCAAATTTCATG
5373121 ACCTTTGTTTAGA
1 ACCTTTGTTTAGA
5373134 AAAACTTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 28 0.72
33 11 0.28
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (33 bp):
ACCTTTGTTTAGAGGAATCTTTCAAATTTCATG
Found at i:5373272 original size:36 final size:36
Alignment explanation
Indices: 5373226--5373325 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
5373216 GCCTTTATTC
* *
5373226 AAGTTTCATAACCTCTAGTT-AGAGAAGCATCCTTTA
1 AAGTGTCATAACCTCTAGTTAAAAG-AGCATCCTTTA
* *
5373262 AAGTGTCATAACCTCTAGTTAAAAGAGCTTTCTTTA
1 AAGTGTCATAACCTCTAGTTAAAAGAGCATCCTTTA
*
5373298 AAGTGTCATAGCCTCT-GATTAAAAGAGC
1 AAGTGTCATAACCTCTAG-TTAAAAGAGC
5373326 TATTTAAAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.93
37 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (36 bp):
AAGTGTCATAACCTCTAGTTAAAAGAGCATCCTTTA
Found at i:5373347 original size:70 final size:70
Alignment explanation
Indices: 5373258--5373482 Score: 181
Period size: 70 Copynumber: 3.2 Consensus size: 70
5373248 AGAAGCATCC
* * * *
5373258 TTTAAAGTGTCATAACCTCTAGTTAAAAGAGCTTTCTTTAAAGTGTCATAGCCTCTGATTAAAAG
1 TTTAAAGTTTCATAGCCTCTGGTTAAAAGAGCTTTCTTTAAAGTGTTATAGCCTCTGATTAAAAG
5373323 AGCTA
66 AGCTA
* * * * * *
5373328 TTTAAAGTTTCATTGCCTCTGGTT-AGAGAAG-TCTTCTTTTAAGTTTTATAGCCTTTGGTT-AA
1 TTTAAAGTTTCATAGCCTCTGGTTAAAAG-AGCT-TTCTTTAAAGTGTTATAGCCTCTGATTAAA
5373390 AGAAGCTTTA
64 AG-AGC--TA
* * * * * *
5373400 TTTAAAGTGTT-AAAGCTTATGGTTAGAGGAGCTTTCTTTAAAGTGTTATAGCCTCT-AGTTAGA
1 TTTAAAGT-TTCATAGCCTCTGGTTAAAAGAGCTTTCTTTAAAGTGTTATAGCCTCTGA-TTAAA
* **
5373463 GGAATTA
64 AGAGCTA
5373470 TTTAAAGTTTCAT
1 TTTAAAGTTTCAT
5373483 TACCTTTAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
69 10 0.08
70 58 0.49
72 44 0.37
73 6 0.05
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (70 bp):
TTTAAAGTTTCATAGCCTCTGGTTAAAAGAGCTTTCTTTAAAGTGTTATAGCCTCTGATTAAAAG
AGCTA
Found at i:5373461 original size:36 final size:36
Alignment explanation
Indices: 5373237--5373465 Score: 171
Period size: 36 Copynumber: 6.4 Consensus size: 36
5373227 AGTTTCATAA
* * * * *
5373237 CCTCTAGTTAGAGAAGCATCCTTTAAAGTGTCATAA
1 CCTCTAGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
* * *
5373273 CCTCTAGTTAAAAGAGCTTTCTTTAAAGTGTCATAG
1 CCTCTAGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
* * * *
5373309 CCTCT-GATTAAAAGAGC--TATTTAAAGT-TTCATTG
1 CCTCTAG-TTAGAGGAGCTTTCTTTAAAGTGTT-ATAG
* * * *
5373343 CCTCTGGTTAGAGAAG-TCTTCTTTTAAGTTTTATAG
1 CCTCTAGTTAGAGGAGCT-TTCTTTAAAGTGTTATAG
* * * * * *
5373379 CCTTTGGTTAAAGAAGCTTTATTTAAAGTGTTAAAG
1 CCTCTAGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
* * *
5373415 CTTATGGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
1 CCTCTAGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
5373451 CCTCTAGTTAGAGGA
1 CCTCTAGTTAGAGGA
5373466 ATTATTTAAA
Statistics
Matches: 155, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
33 1 0.01
34 23 0.15
35 2 0.01
36 126 0.81
37 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (36 bp):
CCTCTAGTTAGAGGAGCTTTCTTTAAAGTGTTATAG
Found at i:5373530 original size:142 final size:141
Alignment explanation
Indices: 5373218--5373540 Score: 300
Period size: 142 Copynumber: 2.3 Consensus size: 141
5373208 GTAAATGAGC
* * * **
5373218 CTTTATTCAAGTTTCATAACCTCTA-GTTAGAGAAGCATCCTTTAAAGTGTCATAACCTCTAGTT
1 CTTTCTTCAAGTTTCATAACCTC-AGGTTAAAGAAGCTTTATTTAAAGTGTCATAACCTCTAGTT
* *
5373282 AAAAGAGCTTTCTTTAAAGTGTCATAGCCTCTGATTAAAAGAGCTATTTAAAGTTTCATTGCCTC
65 AAAAGAGCTTTCTTTAAAGTGTCATAGCCTCTGATTAAAAGAACTATTTAAAGTTTCATTACCTC
**
5373347 TGGTTAGAGAAG
130 TAATTAGAGAAG
* * * ** * *
5373359 -TCTTCTTTTAAGTTTTATAGCCTTTGGTTAAAGAAGCTTTATTTAAAGTGTTA-AAGCT-TATG
1 CT-TTC-TTCAAGTTTCATAACCTCAGGTTAAAGAAGCTTTATTTAAAGTGTCATAACCTCTA--
* * * * * *
5373421 GTTAGAGGAGCTTTCTTTAAAGTGTTATAGCCTCT-AGTTAGAGGAATTATTTAAAGTTTCATTA
62 GTTAAAAGAGCTTTCTTTAAAGTGTCATAGCCTCTGA-TTAAAAGAACTATTTAAAGTTTCATTA
* *
5373485 CCTTTAATTAGATG-TG
126 CCTCTAATTAGA-GAAG
5373501 CTTTCTTCGAAGTTTCATAACCTCAGGTTAGAAG-AGCTTT
1 CTTTCTTC-AAGTTTCATAACCTCAGGTTA-AAGAAGCTTT
5373541 TTAATTTTAA
Statistics
Matches: 143, Mismatches: 29, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
140 3 0.02
141 9 0.06
142 126 0.88
143 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (141 bp):
CTTTCTTCAAGTTTCATAACCTCAGGTTAAAGAAGCTTTATTTAAAGTGTCATAACCTCTAGTTA
AAAGAGCTTTCTTTAAAGTGTCATAGCCTCTGATTAAAAGAACTATTTAAAGTTTCATTACCTCT
AATTAGAGAAG
Found at i:5373699 original size:36 final size:36
Alignment explanation
Indices: 5373669--5373748 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
5373659 TTAAATGAGC
*
5373669 CTTT-TTTCAAGTGTCATAACCTTTGATTAAAGGAA
1 CTTTCTTTAAAGTGTCATAACCTTTGATTAAAGGAA
* * * *
5373704 CTTTCTTTAAAGTTTCATAACCTCTGGTTAGAGGAA
1 CTTTCTTTAAAGTGTCATAACCTTTGATTAAAGGAA
5373740 -TTT-TTTAAA
1 CTTTCTTTAAA
5373749 ATGTAACACC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 6 0.15
35 7 0.18
36 26 0.67
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
CTTTCTTTAAAGTGTCATAACCTTTGATTAAAGGAA
Found at i:5375557 original size:17 final size:16
Alignment explanation
Indices: 5375538--5375573 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
5375528 CTTATTCCCT
*
5375538 TTTTTTATAT-TTTTA
1 TTTTTTATATACTTTA
5375553 TTTTTTATATACTTTA
1 TTTTTTATATACTTTA
5375569 TTTTT
1 TTTTT
5375574 GCATGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATATACTTTA
Found at i:5375937 original size:8 final size:8
Alignment explanation
Indices: 5375924--5375984 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
5375914 TTATTTAAAT
5375924 AATAAAAA
1 AATAAAAA
*
5375932 AATAAATA
1 AATAAAAA
5375940 AATGATAAAA
1 AAT-A-AAAA
*
5375950 AATAATAA
1 AATAAAAA
*
5375958 AATAAAAT
1 AATAAAAA
*
5375966 AGTAAAAA
1 AATAAAAA
*
5375974 TAACAAAAA
1 -AATAAAAA
5375983 AA
1 AA
5375985 ATAATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
8 27 0.66
9 8 0.20
10 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:5375947 original size:22 final size:22
Alignment explanation
Indices: 5375922--5375963 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5375912 GTTTATTTAA
5375922 ATAATAAAAAAAT-AAATAAATG
1 ATAA-AAAAAAATAAAATAAATG
*
5375944 ATAAAAAATAATAAAATAAA
1 ATAAAAAAAAATAAAATAAA
5375964 ATAGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
ATAAAAAAAAATAAAATAAATG
Found at i:5375972 original size:22 final size:21
Alignment explanation
Indices: 5375947--5375987 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
5375937 ATAAATGATA
*
5375947 AAAAATAATAAAATAAAATAGT
1 AAAAATAACAAAA-AAAATAGT
5375969 AAAAATAACAAAAAAAATA
1 AAAAATAACAAAAAAAATA
5375988 ATTAAGTTTT
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:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAATAACAAAAAAAATAGT
Found at i:5376323 original size:3 final size:3
Alignment explanation
Indices: 5376315--5376347 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5376305 TATAGAATGC
5376315 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5376348 TTCACAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5383895 original size:37 final size:36
Alignment explanation
Indices: 5383838--5384063 Score: 131
Period size: 36 Copynumber: 6.4 Consensus size: 36
5383828 AGAAAGTGAT
*
5383838 TAATATTT-TTAAGT-TCTATTTGTTATTAATA-ATATA
1 TAATATTTATTAA-TAT-TATTTATTATTAATATA-ATA
5383874 TGAATATTTATTAATATTATTTATTATTAATATAATA
1 T-AATATTTATTAATATTATTTATTATTAATATAATA
* * * *
5383911 TACTATTTATTAATATAATGTATTCTTAATATAATA
1 TAATATTTATTAATATTATTTATTATTAATATAATA
* *
5383947 -AAT-TATATGAATA--A--TA-TATTAAT-T-AT-
1 TAATATTTATTAATATTATTTATTATTAATATAATA
* * * *
5383973 TAACATATTATTCATATAATTTTTATATTAATATAATA
1 TAATAT-TTATTAATATTATTTAT-TATTAATATAATA
* *
5384011 T-TTATTCATATAATA-TATTATATTATTAATATAATA
1 TAATATTTAT-TAATATTATT-TATTATTAATATAATA
* *
5384047 TATTATATTAATAATAT
1 TAATAT-TTATTAATAT
5384064 AATACATTAT
Statistics
Matches: 147, Mismatches: 22, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
27 4 0.03
28 2 0.01
29 12 0.08
30 2 0.01
31 1 0.01
32 1 0.01
33 1 0.01
34 8 0.05
35 9 0.06
36 53 0.36
37 45 0.31
38 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (36 bp):
TAATATTTATTAATATTATTTATTATTAATATAATA
Found at i:5383900 original size:16 final size:16
Alignment explanation
Indices: 5383881--5384052 Score: 61
Period size: 16 Copynumber: 10.2 Consensus size: 16
5383871 ATATGAATAT
5383881 TTATTAATATTATTTA
1 TTATTAATATTATTTA
*
5383897 TTATTAATATAATATACTA
1 TTATTAATAT--TAT-TTA
* *
5383916 TTTATTAATATAATGTA
1 -TTATTAATATTATTTA
* * **
5383933 TTCTTAATATAATAAA
1 TTATTAATATTATTTA
*
5383949 TTATATGAATAATATATTAA
1 TTAT-T-AAT-AT-TATTTA
*
5383969 TTATTAACA-TA-TTA
1 TTATTAATATTATTTA
5383983 TTCA-T-ATAATT-TTTA
1 TT-ATTAAT-ATTATTTA
5383998 -TATTAATATAATATTTA
1 TTATTAATAT--TATTTA
5384015 TTCATATAATA-TATTATA
1 TT-AT-TAATATTATT-TA
* *
5384033 TTATTAATATAATATA
1 TTATTAATATTATTTA
5384049 TTAT
1 TTAT
5384053 ATTAATAATA
Statistics
Matches: 120, Mismatches: 14, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
13 2 0.02
14 10 0.08
15 9 0.08
16 38 0.32
17 16 0.13
18 15 0.12
19 7 0.06
20 23 0.19
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (16 bp):
TTATTAATATTATTTA
Found at i:5383990 original size:63 final size:64
Alignment explanation
Indices: 5383917--5384039 Score: 153
Period size: 63 Copynumber: 1.9 Consensus size: 64
5383907 AATATACTAT
* *
5383917 TTATTAATATAATGTAT-TCTTAATATAATAAATTATATGA-ATAATATATTA-ATTATTAACAT
1 TTATTAATATAATGTATATATTAATATAAT-AATTAT-TCATATAATATATTATATTATTAACAT
5383979 A
64 A
* * * *
5383980 TTATTCATATAATTTTTATATTAATATAATATTTATTCATATAATATATTATATTATTAA
1 TTATTAATATAATGTATATATTAATATAATAATTATTCATATAATATATTATATTATTAA
5384040 TATAATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
62 2 0.04
63 30 0.59
64 19 0.37
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (64 bp):
TTATTAATATAATGTATATATTAATATAATAATTATTCATATAATATATTATATTATTAACATA
Found at i:5383998 original size:15 final size:15
Alignment explanation
Indices: 5383980--5384031 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
5383970 TATTAACATA
*
5383980 TTATTCATATAATTTT
1 TTATTCATATAA-TAT
*
5383996 TATATTAATATAATAT
1 T-TATTCATATAATAT
5384012 TTATTCATATAATAT
1 TTATTCATATAATAT
5384027 ATTAT
1 -TTAT
5384032 ATTATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
16 8 0.26
17 10 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTCATATAATAT
Found at i:5384004 original size:100 final size:102
Alignment explanation
Indices: 5383893--5384074 Score: 262
Period size: 100 Copynumber: 1.8 Consensus size: 102
5383883 ATTAATATTA
* * *
5383893 TTTATTATTAATATAATATACTATTTAT-TAATATAATGTATTCTTAATATAATAAATTATATGA
1 TTTATTATTAATATAATAT-CTATTCATATAATATAATATATTATTAATATAATAAATTATATGA
*
5383957 ATAATATATTA-ATTATTAACATATTATTCATATAATT
65 ATAATATAATACATTATTAACATATTATTCATATAATT
* * * *
5383994 TTTA-TATTAATATAATATTTATTCATATAATATATTATATTATTAATATAATATATTATATTAA
1 TTTATTATTAATATAATATCTATTCATATAATATAATATATTATTAATATAATAAATTATATGAA
5384058 TAATATAATACATTATT
66 TAATATAATACATTATT
5384075 CATCGATATA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
99 6 0.08
100 55 0.77
101 10 0.14
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (102 bp):
TTTATTATTAATATAATATCTATTCATATAATATAATATATTATTAATATAATAAATTATATGAA
TAATATAATACATTATTAACATATTATTCATATAATT
Found at i:5384036 original size:21 final size:21
Alignment explanation
Indices: 5383887--5384179 Score: 122
Period size: 21 Copynumber: 14.4 Consensus size: 21
5383877 ATATTTATTA
5383887 ATATTAT-TTATT-AT-TAAT
1 ATATTATATTATTAATATAAT
* * *
5383905 ATAATATACTATTTAT-TAAT
1 ATATTATATTATTAATATAAT
* * *
5383925 ATAATGTATTCTTAATATAAT
1 ATATTATATTATTAATATAAT
* * * *
5383946 AAATTATATGAATAATATATT
1 ATATTATATTATTAATATAAT
*
5383967 AATTATTAACATATTATTCATATAAT
1 -A-TATT---ATATTATTAATATAAT
5383993 -T-TT-TA-TATTAATAT-A-
1 ATATTATATTATTAATATAAT
*
5384008 ATA---T-TTATTCATATAAT
1 ATATTATATTATTAATATAAT
5384025 ATATTATATTATTAATATAAT
1 ATATTATATTATTAATATAAT
*
5384046 ATATTATATTAATAATATAAT
1 ATATTATATTATTAATATAAT
* * **
5384067 ACATTAT-TCATCGATATAAT
1 ATATTATATTATTAATATAAT
* ** * *
5384087 ATTATTTTACAATAAATTTAAT
1 A-TATTATATTATTAATATAAT
*
5384109 A-A-TAT-TTAATAA-ATAAT
1 ATATTATATTATTAATATAAT
*
5384126 ATTTATTAATATAATTAATAAATAAT
1 A--TATT-ATATTATTAAT--ATAAT
*
5384152 ATATTATTTTATTAATATAAT
1 ATATTATATTATTAATATAAT
5384173 A-ATTATA
1 ATATTATA
5384180 ACGATACTGT
Statistics
Matches: 202, Mismatches: 45, Indels: 54
0.67 0.15 0.18
Matches are distributed among these distances:
15 9 0.04
16 3 0.01
17 16 0.08
18 11 0.05
19 6 0.03
20 36 0.18
21 67 0.33
22 14 0.07
23 18 0.09
24 4 0.02
26 18 0.09
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (21 bp):
ATATTATATTATTAATATAAT
Found at i:5384143 original size:26 final size:24
Alignment explanation
Indices: 5384097--5384175 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 24
5384087 ATTATTTTAC
*
5384097 AATAA-ATTTAATAATATTTAATA
1 AATAATATTTATTAATATTTAATA
5384120 AATAATATTTATTAATATAATTAATA
1 AATAATATTTATTAATAT--TTAATA
*
5384146 AATAATATATTATT-TTA-TTAATA
1 AATAATAT-TTATTAATATTTAATA
5384169 TAATAAT
1 -AATAAT
5384176 TATAACGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.22
24 17 0.35
26 16 0.33
27 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATAATATTTATTAATATTTAATA
Found at i:5384149 original size:13 final size:13
Alignment explanation
Indices: 5384106--5384153 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
5384096 CAATAAATTT
5384106 AATAATATTTAATA
1 AATAATA-TTAATA
* *
5384120 AATAATATTTATT
1 AATAATATTAATA
5384133 AAT-ATAATTAATA
1 AATAAT-ATTAATA
5384146 AATAATAT
1 AATAATAT
5384154 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 2 0.07
13 17 0.61
14 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATATTAATA
Found at i:5385021 original size:12 final size:13
Alignment explanation
Indices: 5384996--5385025 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
5384986 ATATTTCTTG
5384996 TTAATAATTTAAA
1 TTAATAATTTAAA
5385009 TTAATAA-TTAAA
1 TTAATAATTTAAA
5385021 TTAAT
1 TTAAT
5385026 CTTTTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATAATTTAAA
Found at i:5388047 original size:19 final size:19
Alignment explanation
Indices: 5388023--5388073 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
5388013 TGGCTTTACC
*
5388023 TTTTGTTCTTTGGACAACT
1 TTTTGTTCTTTGGACAAAT
*
5388042 TTTTGTT-TTTTGA-AAAT
1 TTTTGTTCTTTGGACAAAT
*
5388059 ATTTGTTCTTTGGAC
1 TTTTGTTCTTTGGAC
5388074 TATATTAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.35
18 10 0.38
19 7 0.27
ACGTcount: A:0.18, C:0.10, G:0.16, T:0.57
Consensus pattern (19 bp):
TTTTGTTCTTTGGACAAAT
Found at i:5396404 original size:4 final size:4
Alignment explanation
Indices: 5396395--5396419 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5396385 TGCTTTATAA
5396395 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
5396420 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:5396424 original size:2 final size:2
Alignment explanation
Indices: 5396417--5396441 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5396407 AAATAAATAA
5396417 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
5396442 GAGAGAGAGA
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:5400910 original size:17 final size:16
Alignment explanation
Indices: 5400873--5400913 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
5400863 TTTTATTTTT
5400873 TAAATAAATTTTTATC
1 TAAATAAATTTTTATC
*
5400889 TAAATAAATTTTTATT
1 TAAATAAATTTTTATC
5400905 TCAAATAAA
1 T-AAATAAA
5400914 AAATTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATAAATTTTTATC
Found at i:5400985 original size:29 final size:30
Alignment explanation
Indices: 5400929--5400997 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
5400919 AATTTATATT
* *
5400929 AAAATTTTATTTAAGTATAAATTAAAATAC
1 AAAAATTTATTTAAATATAAATTAAAATAC
* *
5400959 AAAAATTTATTTAAATGT-AATTAAAATAT
1 AAAAATTTATTTAAATATAAATTAAAATAC
5400988 AAAAATTTAT
1 AAAAATTTAT
5400998 ATGATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAAATTTATTTAAATATAAATTAAAATAC
Found at i:5404141 original size:2 final size:2
Alignment explanation
Indices: 5404134--5404159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5404124 ATCAAGTATG
5404134 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
5404160 GTATGCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5409291 original size:18 final size:18
Alignment explanation
Indices: 5409264--5409307 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5409254 TTTTTCTCCA
*
5409264 TTTATTTTCAAAAACAAT
1 TTTATATTCAAAAACAAT
* *
5409282 TTTATATTCAACAATAAT
1 TTTATATTCAAAAACAAT
*
5409300 TTTTTATT
1 TTTATATT
5409308 ACTTTTTCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATATTCAAAAACAAT
Found at i:5409638 original size:92 final size:93
Alignment explanation
Indices: 5409481--5409666 Score: 356
Period size: 92 Copynumber: 2.0 Consensus size: 93
5409471 TGATCAACGG
*
5409481 AAATACTATAATTAAATTAAAAATATCAATTATAGAATTGCATTAGATTTTTAATGTG-AGAAAA
1 AAATACTATAATTAAATTAAAAATATCAATTATAGAATTGCATTAGATTTTTAATGTGAAAAAAA
5409545 AAAAAAAGCAATTTGAAATTTTTTACAT
66 AAAAAAAGCAATTTGAAATTTTTTACAT
5409573 AAATACTATAATTAAATTAAAAATATCAATTATAGAATTGCATTAGATTTTTAATGTGAAAAAAA
1 AAATACTATAATTAAATTAAAAATATCAATTATAGAATTGCATTAGATTTTTAATGTGAAAAAAA
5409638 AAAAAAAGCAATTTGAAATTTTTTACAT
66 AAAAAAAGCAATTTGAAATTTTTTACAT
5409666 A
1 A
5409667 TATGGTATTT
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 58 0.63
93 34 0.37
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (93 bp):
AAATACTATAATTAAATTAAAAATATCAATTATAGAATTGCATTAGATTTTTAATGTGAAAAAAA
AAAAAAAGCAATTTGAAATTTTTTACAT
Found at i:5410722 original size:29 final size:28
Alignment explanation
Indices: 5410687--5410745 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
5410677 ATTTTATCAT
*
5410687 TTGTATTGAAATAAAATTTTGTATTTTTA
1 TTGTATTGAAATAAAA-TTTATATTTTTA
*
5410716 TTGTATTTAAATAAAATTTATATTTTTA
1 TTGTATTGAAATAAAATTTATATTTTTA
5410744 TT
1 TT
5410746 TAAATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (28 bp):
TTGTATTGAAATAAAATTTATATTTTTA
Found at i:5410766 original size:23 final size:23
Alignment explanation
Indices: 5410714--5410766 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
5410704 TTTGTATTTT
5410714 TATTGTATTTAAATAAAATTTATA
1 TATT-TATTTAAATAAAATTTATA
* *
5410738 TTTTTATTTAAAT-AAATTTTTAA
1 TATTTATTTAAATAAAATTTAT-A
5410761 TATTTA
1 TATTTA
5410767 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 7 0.28
23 15 0.60
24 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTATTTAAATAAAATTTATA
Found at i:5410787 original size:27 final size:25
Alignment explanation
Indices: 5410719--5410787 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 25
5410709 ATTTTTATTG
*
5410719 TATTTAAATAA--AATTTATATTTT
1 TATTTAAATAATTAATTAATATTTT
*
5410742 TATTTAAATAAATT-TTTAATATTTAAT
1 TATTTAAAT-AATTAATTAATATTT--T
*
5410769 TTTTTAAATAATTAATTAA
1 TATTTAAATAATTAATTAA
5410788 AATAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
23 9 0.25
24 2 0.06
25 8 0.22
26 4 0.11
27 13 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTAAATAATTAATTAATATTTT
Found at i:5410860 original size:21 final size:22
Alignment explanation
Indices: 5410809--5410864 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
5410799 ATTTTATTGA
5410809 AAATAAAAAT-TTATTTAAATGT
1 AAATAAAAATATTATTTAAA-GT
5410831 AAATAAAAAATATT-TTTAAA-T
1 AAAT-AAAAATATTATTTAAAGT
5410852 ACAATAAAAATAT
1 A-AATAAAAATAT
5410865 CAAAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 10 0.32
22 7 0.23
23 12 0.39
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATAAAAATATTATTTAAAGT
Found at i:5413106 original size:18 final size:17
Alignment explanation
Indices: 5413063--5413419 Score: 183
Period size: 18 Copynumber: 20.2 Consensus size: 17
5413053 TATTATTTTT
5413063 TATATTATTTATT-A-A
1 TATATTATTTATTAATA
5413078 TATATTA--TATTAATA
1 TATATTATTTATTAATA
5413093 GTATATTATTTATTAATAA
1 -TATATTATTTATTAAT-A
5413112 TATATTATTTATTCATGTATTA
1 TATATTATTTATT-A---A-TA
* *
5413134 TTATAATGTTTATTAAT-
1 -TATATTATTTATTAATA
* * *
5413151 TAAATTAATAATATTTAT-
1 TATATT-AT-TTATTAATA
*
5413169 TATATTATGTATTAATA
1 TATATTATTTATTAATA
5413186 TAATATTATTT-TTAATA
1 T-ATATTATTTATTAATA
*
5413203 TATTATAATATTTAATT-TTA
1 TA-TAT--TATTT-ATTAATA
5413223 -ATATTAATTTTATTAATA
1 TATATT-A-TTTATTAATA
*
5413241 TA-A-CA--TATTAATA
1 TATATTATTTATTAATA
5413254 GTATATTATTTATTAATATATTA
1 -TATATTATTTA-T--TA-A-TA
5413277 TAATATTATTTATTAATA
1 T-ATATTATTTATTAATA
*
5413295 TA-ATATATTTATTGATA
1 TATAT-TATTTATTAATA
5413312 -ATATTATTTATTAATA
1 TATATTATTTATTAATA
*
5413328 TAATATTATTTATGAATA
1 T-ATATTATTTATTAATA
*
5413346 TATTATAATATTT-TTATTA
1 TA-TAT--TATTTATTAATA
*
5413365 -ATA-GATTATATTAATAA
1 TATATTATT-TATTAAT-A
5413382 TATATTATTTATTAATA
1 TATATTATTTATTAATA
*
5413399 TAATATTATTGATTAATA
1 T-ATATTATTTATTAATA
5413417 TAT
1 TAT
5413420 TGTAATATAA
Statistics
Matches: 269, Mismatches: 24, Indels: 96
0.69 0.06 0.25
Matches are distributed among these distances:
13 12 0.04
14 6 0.02
15 10 0.04
16 39 0.14
17 40 0.15
18 100 0.37
19 19 0.07
20 9 0.03
21 4 0.01
22 6 0.02
23 24 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:5413169 original size:4 final size:5
Alignment explanation
Indices: 5413144--5413407 Score: 64
Period size: 5 Copynumber: 54.2 Consensus size: 5
5413134 TTATAATGTT
* * *
5413144 TATTA -ATTA AATTA -ATAA TATT- TATTA TATTA TGTATTAA TATAA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA --TATT-A TATTA
* * * * *
5413189 TATTA T-TTT TAATA TATTA TAATA T-TTAA TTTTAA TATTA -ATTT TATTA
1 TATTA TATTA TATTA TATTA TATTA TATT-A TATT-A TATTA TATTA TATTA
** * *
5413238 -A-TA TAACA TATTAA TAGTA TATTA T-TTA TTAATA TATTA TA--A TATTA
1 TATTA TATTA TATT-A TATTA TATTA TATTA -TATTA TATTA TATTA TATTA
* * * *
5413285 T-TTA TTAATA TAATA TATT- TATTGA TAATA TTATT- TATTAA TATAA
1 TATTA -TATTA TATTA TATTA TATT-A TATTA -TATTA TATT-A TATTA
* * * *
5413331 TATTA T-TTA TGAATA TATTA TAATA T-TTT TATTA -A-TA GATTA TATTAA
1 TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT-A
* * *
5413379 TAATA TATTA T-TTA T-TAA TATAA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
5413408 TGATTAATAT
Statistics
Matches: 191, Mismatches: 37, Indels: 62
0.66 0.13 0.21
Matches are distributed among these distances:
3 7 0.04
4 49 0.26
5 96 0.50
6 34 0.18
7 4 0.02
8 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:5413229 original size:71 final size:70
Alignment explanation
Indices: 5413071--5413427 Score: 338
Period size: 71 Copynumber: 5.0 Consensus size: 70
5413061 TTTATATTAT
* * *
5413071 TTATTAATATATTATATTAATAGTATATTATTTATTAATA-ATATATTATTTATTCATGTATTAT
1 TTATTAATATATAATATT--TATTATATTATTTATTAATATA-ATATTATTTATT-A-ATA-TAT
*
5413135 TATAATGTTTA
60 TATAATATTTA
*
5413146 TTAATTAA-ATTAATAATATTTATTATATTATGTATTAATATAATATTATTT-TTAATATATTAT
1 TT-ATTAATA-T-ATAATATTTATTATATTATTTATTAATATAATATTATTTATTAATATATTAT
5413209 AATATTTAA
63 AATATTT-A
* **
5413218 TT-TTAATAT-TAAT-TTTATTAATATAACATATTAATAGT-ATATTATTTATTAATATATTATA
1 TTATTAATATATAATATTTATT-ATATTATTTATTAATA-TAATATTATTTATTAATATATTATA
5413279 ATA-TTA
64 ATATTTA
*
5413285 TTTATTAATATA-ATATATTTATTGATAATATTATTTATTAATATAATATTATTTATGAATATAT
1 -TTATTAATATATA-ATATTTA-T--T-ATATTATTTATTAATATAATATTATTTATTAATATAT
5413349 TATAATATTT-
60 TATAATATTTA
* * * * *
5413359 TTATTAATAGATTATATTAATAATATATTATTTATTAATATAATATTATTGATTAATATATTGTA
1 TTATTAATATATAATATT--TATTATATTATTTATTAATATAATATTATTTATTAATATATTATA
5413424 ATAT
64 ATAT
5413428 AATATTTTTT
Statistics
Matches: 242, Mismatches: 18, Indels: 48
0.79 0.06 0.16
Matches are distributed among these distances:
67 7 0.03
68 30 0.12
69 25 0.10
70 7 0.03
71 59 0.24
72 7 0.03
73 17 0.07
74 42 0.17
75 34 0.14
76 7 0.03
77 7 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (70 bp):
TTATTAATATATAATATTTATTATATTATTTATTAATATAATATTATTTATTAATATATTATAAT
ATTTA
Found at i:5413251 original size:28 final size:27
Alignment explanation
Indices: 5413178--5413303 Score: 84
Period size: 28 Copynumber: 4.6 Consensus size: 27
5413168 TTATATTATG
* *
5413178 TATTAATAT-AATATTATTTTTAATATAT
1 TATTAATATAAATATTAATATTAAT-T-T
* *
5413206 TA-TAATATTTAATTTTAATATTAATTT
1 TATTAATA-TAAATATTAATATTAATTT
*
5413233 TATTAATATAACATATTAATAGTATATTATT
1 TATTAATATAA-ATATTAATA-T-TAAT-TT
*
5413264 TATTAATAT-ATTA-TAATATT-A-TT
1 TATTAATATAAATATTAATATTAATTT
5413287 TATTAATATAATATATT
1 TATTAATATAA-ATATT
5413304 TATTGATAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
23 11 0.14
24 1 0.01
25 2 0.03
26 2 0.03
27 11 0.14
28 22 0.28
29 15 0.19
30 4 0.05
31 11 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
TATTAATATAAATATTAATATTAATTT
Found at i:5413314 original size:33 final size:34
Alignment explanation
Indices: 5413272--5413419 Score: 144
Period size: 33 Copynumber: 4.3 Consensus size: 34
5413262 TTTATTAATA
5413272 TATT-ATA-ATATTATTTATTAATATAATATATT
1 TATTGATATATATTATTTATTAATATAATATATT
5413304 TATTGATA-ATATTATTTATTAATATAATATTATT
1 TATTGATATATATTATTTATTAATATAATA-TATT
* ** *
5413338 TA-TGA-ATATATTATAATATTTTTATTAATAGATT
1 TATTGATATATATTAT-TTATTAATA-TAATATATT
*
5413372 ATATTAATAATATATTATTTATTAATATAATATTATT
1 -TATTGAT-ATATATTATTTATTAATATAATA-TATT
* *
5413409 GATTAATATAT
1 TATTGATATAT
5413420 TGTAATATAA
Statistics
Matches: 96, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
32 5 0.05
33 34 0.35
34 15 0.16
35 11 0.11
36 13 0.14
37 9 0.09
38 9 0.09
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TATTGATATATATTATTTATTAATATAATATATT
Found at i:5413314 original size:89 final size:89
Alignment explanation
Indices: 5413068--5413335 Score: 245
Period size: 93 Copynumber: 3.0 Consensus size: 89
5413058 TTTTTTATAT
5413068 TATTTATTA-ATATATTATATTAATAGT-ATATTATTTATTAATA-ATATATTATTTATTCATGT
1 TATTTATTATAT-TA-TATATTAATA-TAATATTATTTATTAATATATATA-TATTTATT-A--T
*
5413130 ATTATTATAATGTTTATTAAT-T-AAATTAATAA
59 AATA-T-TAAT-TTTATTAATATAAAATTAATAA
* *
5413162 TATTTATTATATTATGTATTAATATAATATTATTT-TTAATATATTATAATATTTAATTTTAATA
1 TATTTATTATATTATATATTAATATAATATTATTTATTAATATA-TAT-ATATTT-ATTATAATA
*
5413226 TTAATTTTATTAATATAACATATTAATAG
63 TTAATTTTATTAATATAA-A-ATTAATAA
*
5413255 TATATTATT-TATTA-ATA-TATTATAATATTATTTATTAATATA-ATATATTTATTGATAATAT
1 TAT-TTATTATATTATATATTAATATAATATTATTTATTAATATATATATATTTATT-ATAATAT
*
5413316 T-A-TTTATTAATATAATATTA
64 TAATTTTATTAATATAAAATTA
5413336 TTTATGAATA
Statistics
Matches: 153, Mismatches: 8, Indels: 35
0.78 0.04 0.18
Matches are distributed among these distances:
85 4 0.03
87 13 0.08
88 4 0.03
89 22 0.14
90 7 0.05
91 17 0.11
92 22 0.14
93 34 0.22
94 24 0.16
95 6 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (89 bp):
TATTTATTATATTATATATTAATATAATATTATTTATTAATATATATATATTTATTATAATATTA
ATTTTATTAATATAAAATTAATAA
Found at i:5413428 original size:127 final size:123
Alignment explanation
Indices: 5413185--5413415 Score: 288
Period size: 127 Copynumber: 1.8 Consensus size: 123
5413175 ATGTATTAAT
* * *
5413185 ATAATATTATTTTTAATATATTATAATATTTAATTTTAATATTAATTTTATTAATATAACATATT
1 ATAATATTATTTTTAATATAATATAATATTTAATTTTAATAATAATTTTATTAATAGAACATATT
* *
5413250 AATAGTATATTATTTATTAATATATTATAATATTATTTATTAATATAATATATTTATTG
66 AATAATATATTATTTATTAATATA-TATAATATTATTAATTAATATAATATATTTATTG
* * **
5413309 ATAATATTATTTATTAATATAATATTAT-TTATGAATATATT-ATAATATTTTTATTAATAGATT
1 ATAATATTATTT-TTAATATAATATAATATT-T-AAT-T-TTAATAATAATTTTATTAATAGAAC
*
5413372 ATATTAATAATATATTATTTATTAATATA-ATATTATTGATTAAT
61 ATATTAATAATATATTATTTATTAATATATATAATATT-ATTAAT
5413416 ATATTGTAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
124 14 0.15
125 21 0.23
126 8 0.09
127 46 0.51
128 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (123 bp):
ATAATATTATTTTTAATATAATATAATATTTAATTTTAATAATAATTTTATTAATAGAACATATT
AATAATATATTATTTATTAATATATATAATATTATTAATTAATATAATATATTTATTG
Found at i:5413481 original size:16 final size:16
Alignment explanation
Indices: 5413460--5413491 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5413450 ATACTAAAAA
5413460 ATATTAATAAATAGTT
1 ATATTAATAAATAGTT
*
5413476 ATATTAATAGATAGTT
1 ATATTAATAAATAGTT
5413492 CTTTGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
ATATTAATAAATAGTT
Found at i:5413578 original size:22 final size:22
Alignment explanation
Indices: 5413550--5413612 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
5413540 AAAAATGATC
*
5413550 TCATTTTTCATTGATCAATAAG
1 TCATTTTTCATTGATCAATAAA
* *
5413572 TCATTTTTTATTGATCAGTAAA
1 TCATTTTTCATTGATCAATAAA
5413594 TCATTTTTCATTGATCAAT
1 TCATTTTTCATTGATCAAT
5413613 TAATTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (22 bp):
TCATTTTTCATTGATCAATAAA
Found at i:5415673 original size:20 final size:20
Alignment explanation
Indices: 5415648--5415692 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
5415638 ACTCGATAAT
* *
5415648 AGTTCAATTATTTGTGTTCG
1 AGTTCAATTATTTGTATTCA
5415668 AGTTCAATTATTTGTATTCA
1 AGTTCAATTATTTGTATTCA
5415688 AGTTC
1 AGTTC
5415693 GAGCTCGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (20 bp):
AGTTCAATTATTTGTATTCA
Found at i:5416088 original size:23 final size:23
Alignment explanation
Indices: 5416058--5416107 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
5416048 AGTGGATAGT
5416058 CAGCCTCCAAGAATAGAGCAAGC
1 CAGCCTCCAAGAATAGAGCAAGC
5416081 CAGCCTCCAAGAATAGAGCAAGC
1 CAGCCTCCAAGAATAGAGCAAGC
5416104 CAGC
1 CAGC
5416108 ACAATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.32, G:0.22, T:0.08
Consensus pattern (23 bp):
CAGCCTCCAAGAATAGAGCAAGC
Found at i:5419655 original size:15 final size:15
Alignment explanation
Indices: 5419614--5419674 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
5419604 AGTTTTCAAT
*
5419614 GTTTATGATTTTAAG
1 GTTTAGGATTTTAAG
* *
5419629 GTTTCGGGTTTTAAG
1 GTTTAGGATTTTAAG
*
5419644 GTTTAAGATTTTGAAG
1 GTTTAGGATTTT-AAG
* *
5419660 ATTTAGGGTTTTAAG
1 GTTTAGGATTTTAAG
5419675 TATTTAGGGT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.48
Consensus pattern (15 bp):
GTTTAGGATTTTAAG
Found at i:5419669 original size:31 final size:30
Alignment explanation
Indices: 5419605--5419674 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
5419595 GATATTTTGA
* * * *
5419605 GTTTTCAATGTTTATGATTTTAAGGTTTCGG
1 GTTTT-AAGGTTTAAGATTTTAAGATTTAGG
5419636 GTTTTAAGGTTTAAGATTTTGAAGATTTAGG
1 GTTTTAAGGTTTAAGATTTT-AAGATTTAGG
5419667 GTTTTAAG
1 GTTTTAAG
5419675 TATTTAGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (30 bp):
GTTTTAAGGTTTAAGATTTTAAGATTTAGG
Found at i:5419671 original size:16 final size:15
Alignment explanation
Indices: 5419622--5419686 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 15
5419612 ATGTTTATGA
* *
5419622 TTTTAAGGTTTCGGG
1 TTTTAAGATTTAGGG
* * *
5419637 TTTTAAGGTTTAAGA
1 TTTTAAGATTTAGGG
5419652 TTTTGAAGATTTAGGG
1 TTTT-AAGATTTAGGG
5419668 TTTTAAGTATTTAGGG
1 TTTTAAG-ATTTAGGG
5419684 TTT
1 TTT
5419687 AGAGTTTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
15 19 0.45
16 23 0.55
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (15 bp):
TTTTAAGATTTAGGG
Found at i:5419784 original size:16 final size:17
Alignment explanation
Indices: 5419753--5419798 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 17
5419743 AAAGGTGTAA
5419753 GGTTTTGAAGATTTTAG
1 GGTTTTGAAGATTTTAG
5419770 GGTTTTGAA-ATTTTAG
1 GGTTTTGAAGATTTTAG
5419786 GG-TTT-AAGATTTT
1 GGTTTTGAAGATTTT
5419799 GATTTTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.07
15 8 0.29
16 9 0.32
17 9 0.32
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
GGTTTTGAAGATTTTAG
Found at i:5419987 original size:3 final size:3
Alignment explanation
Indices: 5419979--5420031 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5419969 TTTTATTCTT
5419979 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5420027 TTA TT
1 TTA TT
5420032 TTGTTTTCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5420102 original size:18 final size:20
Alignment explanation
Indices: 5420081--5420120 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
5420071 AAAATTTTAC
5420081 TATTATCT-TTACT-TTTTT
1 TATTATCTATTACTATTTTT
*
5420099 TATTATCTATTATTATTTTT
1 TATTATCTATTACTATTTTT
5420119 TA
1 TA
5420121 ACTTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTATCTATTACTATTTTT
Found at i:5420228 original size:3 final size:3
Alignment explanation
Indices: 5420220--5420253 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
5420210 TTAAAAAATG
*
5420220 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5420254 ATCCAAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:5420855 original size:20 final size:22
Alignment explanation
Indices: 5420817--5420856 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5420807 CGGTTAAACT
*
5420817 TTTTTTTTCTTTTTGTTATTGG
1 TTTTTTTTCTGTTTGTTATTGG
5420839 TTTTTTTT-TGTTT-TTATT
1 TTTTTTTTCTGTTTGTTATT
5420857 TTTTGGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.82
Consensus pattern (22 bp):
TTTTTTTTCTGTTTGTTATTGG
Found at i:5424936 original size:23 final size:22
Alignment explanation
Indices: 5424903--5424959 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
5424893 AGCCCTTCTC
*
5424903 TTTTTCTTTTTAATTTTTATTGT
1 TTTTTGTTTTTAATTTTTATT-T
**
5424926 TTTGTTGTTTTTGTTTTTTTATTT
1 TTT-TTGTTTTT-AATTTTTATTT
5424950 TTTTTGTTTT
1 TTTTTGTTTT
5424960 GATTTTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.34
24 11 0.38
25 8 0.28
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.82
Consensus pattern (22 bp):
TTTTTGTTTTTAATTTTTATTT
Found at i:5424945 original size:17 final size:17
Alignment explanation
Indices: 5424925--5424959 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5424915 ATTTTTATTG
*
5424925 TTTTGTTGTTTTTGTTT
1 TTTTATTGTTTTTGTTT
*
5424942 TTTTATTTTTTTTGTTT
1 TTTTATTGTTTTTGTTT
5424959 T
1 T
5424960 GATTTTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (17 bp):
TTTTATTGTTTTTGTTT
Found at i:5424950 original size:31 final size:31
Alignment explanation
Indices: 5424909--5424969 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
5424899 TCTCTTTTTC
5424909 TTTTTAATTTTTATTGTTTTG-TTGTTTTTGT
1 TTTTTAATTTTTATTGTTTTGATT-TTTTTGT
* *
5424940 TTTTTTATTTTTTTTGTTTTGATTTTTTTG
1 TTTTTAATTTTTATTGTTTTGATTTTTTTG
5424970 ACTATTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.80
Consensus pattern (31 bp):
TTTTTAATTTTTATTGTTTTGATTTTTTTGT
Found at i:5424951 original size:15 final size:15
Alignment explanation
Indices: 5424910--5424968 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
5424900 CTCTTTTTCT
* *
5424910 TTTTAATTTTTATTG
1 TTTTGATTTTTTTTG
*
5424925 TTTTG-TTGTTTTTGTT
1 TTTTGATT-TTTTT-TG
*
5424941 TTTTTATTTTTTTTG
1 TTTTGATTTTTTTTG
5424956 TTTTGATTTTTTT
1 TTTTGATTTTTTT
5424969 GACTATTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 21 0.60
16 10 0.29
17 2 0.06
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.81
Consensus pattern (15 bp):
TTTTGATTTTTTTTG
Found at i:5424965 original size:23 final size:25
Alignment explanation
Indices: 5424916--5424968 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
5424906 TTCTTTTTAA
5424916 TTTTTATTGTTTTGTTGTTTTTGTT
1 TTTTTATTGTTTTGTTGTTTTTGTT
5424941 TTTTTATT-TTTT-TTG-TTTTGATT
1 TTTTTATTGTTTTGTTGTTTTTG-TT
5424964 TTTTT
1 TTTTT
5424969 GACTATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 4 0.15
25 8 0.30
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (25 bp):
TTTTTATTGTTTTGTTGTTTTTGTT
Found at i:5424967 original size:14 final size:14
Alignment explanation
Indices: 5424910--5424969 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
5424900 CTCTTTTTCT
*
5424910 TTTTAATTTTTATTG
1 TTTTGATTTTT-TTG
5424925 TTTTG-TTGTTTTTG
1 TTTTGATT-TTTTTG
*
5424939 TTTTTTTATTTTTTTTG
1 --TTTTGA-TTTTTTTG
5424956 TTTTGATTTTTTTG
1 TTTTGATTTTTTTG
5424970 ACTATTTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 13 0.35
15 12 0.32
16 4 0.11
17 6 0.16
18 2 0.05
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (14 bp):
TTTTGATTTTTTTG
Found at i:5425253 original size:49 final size:48
Alignment explanation
Indices: 5425176--5425619 Score: 335
Period size: 49 Copynumber: 9.0 Consensus size: 48
5425166 TTTTGAAAAG
* * *
5425176 AATCTTGTTTAAAAATAGCTCTT-TCCCAATAGAGGCTTTGAAACTTTAA
1 AATCTTGTTTGAAAAT-GGT-TTCTCCCAACAGAGGCTTTGAAACTTTAA
* *
5425225 AATTTTGTTTGAAAATGGTTTCTCCCCAACAGA-GCTTTAAAACTTTAA
1 AATCTTGTTTGAAAATGGTTTCT-CCCAACAGAGGCTTTGAAACTTTAA
** * *
5425273 AATCTCATCTGAAAATAGTTTCTCCCAACAGAGGCTTTGAAACTTTAAA
1 AATCTTGTTTGAAAATGGTTTCTCCCAACAGAGGCTTTGAAACTTT-AA
* * * * * *
5425322 AATTTTCTCTGAAAATGG-CTCATCCCTAACAAAGGCTTTGGAACTTT-A
1 AATCTTGTTTGAAAATGGTTTC-TCCC-AACAGAGGCTTTGAAACTTTAA
* * *
5425370 AATTTTGGTTTGAAAATAGCTTTTTCCCAACAGAGGCTTTGAAACTTTAA
1 AATCTT-GTTTGAAAAT-GGTTTCTCCCAACAGAGGCTTTGAAACTTTAA
* * * * *
5425420 AATCTTGTTTGAAAACAGCTCTTCT-CTAATAGAGGCTTTAAAACTTTAAA
1 AATCTTGTTTGAAAA-TGGT-TTCTCCCAACAGAGGCTTTGAAACTTT-AA
** * * *
5425470 AATCTCATATGAAAATGGCTCTT-TCCCAATAGAGGCTTTCAAACTTTAA
1 AATCTTGTTTGAAAATGG-T-TTCTCCCAACAGAGGCTTTGAAACTTTAA
** * * * *
5425519 AATCTCATCTGAAAATGGTTCCTTCCCAATAGAGGCTTTGAAACATTAAA
1 AATCTTGTTTGAAAATGGTTTC-TCCCAACAGAGGCTTTGAAAC-TTTAA
* * ** *
5425569 AATCTTGTTTGAATA-CGACTCATCCCAAACATAGGCTTTGAAACTTTAA
1 AATCTTGTTTGAAAATGGTTTC-TCCC-AACAGAGGCTTTGAAACTTTAA
5425618 AA
1 AA
5425620 GAAATTTTGT
Statistics
Matches: 322, Mismatches: 54, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
47 12 0.04
48 57 0.18
49 152 0.47
50 100 0.31
51 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (48 bp):
AATCTTGTTTGAAAATGGTTTCTCCCAACAGAGGCTTTGAAACTTTAA
Found at i:5425416 original size:99 final size:97
Alignment explanation
Indices: 5425187--5425619 Score: 387
Period size: 99 Copynumber: 4.4 Consensus size: 97
5425177 ATCTTGTTTA
* * * * *
5425187 AAAATAGCTCTTTCCCAATAGAGGCTTTGAAACTTTAAAATTTTGTTTGAAAATGGTTTCTCCCC
1 AAAATAGCTCTTTCCCAACAGAGGCTTTGAAACTTTAAAATTTTCTCTGAAAATGG-CTCTCCCT
*
5425252 AACAGA-GCTTTAAAACTTTAAAATCTCATCTG
65 AACAGAGGCTTTAAAACTTTAAAATCTCATTTG
5425284 AAAATAG-T-TTCTCCCAACAGAGGCTTTGAAACTTTAAAAATTTTCTCTGAAAATGGCTCATCC
1 AAAATAGCTCTT-TCCCAACAGAGGCTTTGAAACTTT-AAAATTTTCTCTGAAAATGGCTC-TCC
* ** * * **
5425347 CTAACAAAGGCTTTGGAACTTTAAATTTTGGTTTG
63 CTAACAGAGGCTTTAAAACTTTAAAATCTCATTTG
* * * * ** *
5425382 AAAATAGCTTTTTCCCAACAGAGGCTTTGAAACTTTAAAATCTTGTTTGAAAACAGCTCTTCTCT
1 AAAATAGCTCTTTCCCAACAGAGGCTTTGAAACTTTAAAATTTTCTCTGAAAATGGCTC-TCCCT
* *
5425447 AATAGAGGCTTTAAAACTTTAAAAATCTCATATG
65 AACAGAGGCTTTAAAACTTT-AAAATCTCATTTG
* * * * *
5425481 AAAATGGCTCTTTCCCAATAGAGGCTTTCAAACTTTAAAA-TCTCATCTGAAAATGGTTCCTTCC
1 AAAATAGCTCTTTCCCAACAGAGGCTTTGAAACTTTAAAATTTTC-TCTGAAAATGGCT-C-TCC
* * * **
5425545 C-AATAGAGGCTTTGAAACATTAAAAATCTTGTTTG
63 CTAACAGAGGCTTTAAAAC-TTTAAAATCTCATTTG
* *
5425580 --AATACGACTC-ATCCCAAACATAGGCTTTGAAACTTTAAAA
1 AAAATA-G-CTCTTTCCC-AACAGAGGCTTTGAAACTTTAAAA
5425620 GAAATTTTGT
Statistics
Matches: 272, Mismatches: 51, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
95 2 0.01
96 26 0.10
97 37 0.14
98 70 0.26
99 128 0.47
100 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (97 bp):
AAAATAGCTCTTTCCCAACAGAGGCTTTGAAACTTTAAAATTTTCTCTGAAAATGGCTCTCCCTA
ACAGAGGCTTTAAAACTTTAAAATCTCATTTG
Found at i:5435312 original size:38 final size:37
Alignment explanation
Indices: 5435252--5435323 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
5435242 ATAATCAATA
* *
5435252 AAATCTTTCAATAGTTTAGTAAGATTTTACTTTGATGC
1 AAATCTCTCAATAATTTAGTAAGATTTTA-TTTGATGC
*
5435290 AAATCTCTCAATAATTTGGTAAGATTTTATTTGA
1 AAATCTCTCAATAATTTAGTAAGATTTTATTTGA
5435324 AACTCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (37 bp):
AAATCTCTCAATAATTTAGTAAGATTTTATTTGATGC
Found at i:5436242 original size:11 final size:11
Alignment explanation
Indices: 5436226--5436251 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5436216 ATGTGATTTA
5436226 ATTTGATTATG
1 ATTTGATTATG
5436237 ATTTGATTATG
1 ATTTGATTATG
5436248 ATTT
1 ATTT
5436252 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (11 bp):
ATTTGATTATG
Found at i:5436373 original size:5 final size:5
Alignment explanation
Indices: 5436363--5436387 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5436353 TTTTTTAAAA
5436363 CAAAT CAAAT CAAAT CAAAT CAAAT
1 CAAAT CAAAT CAAAT CAAAT CAAAT
5436388 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAAAT
Found at i:5440460 original size:3 final size:3
Alignment explanation
Indices: 5440452--5440502 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
5440442 CATTTTCCCT
* * * * *
5440452 TTA TTA TTA TTG TTG TTA TTA CTA TTA TTA ATA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5440500 TTA
1 TTA
5440503 GAAAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5444021 original size:10 final size:10
Alignment explanation
Indices: 5443997--5444035 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
5443987 CTCGAATCTC
*
5443997 TTTTTTTTCAA
1 TTTTTTTTC-T
5444008 TTTTTTTTCT
1 TTTTTTTTCT
*
5444018 TTTTTTTGCT
1 TTTTTTTTCT
5444028 TTTTTTTT
1 TTTTTTTT
5444036 ATCCTCTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:5444035 original size:11 final size:9
Alignment explanation
Indices: 5443995--5444034 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
5443985 TACTCGAATC
5443995 TCTTTTTTT
1 TCTTTTTTT
5444004 TCAATTTTTTT
1 TC--TTTTTTT
5444015 TCTTTTTTT
1 TCTTTTTTT
5444024 TGCTTTTTTT
1 T-CTTTTTTT
5444034 T
1 T
5444035 TATCCTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 10 0.36
10 9 0.32
11 9 0.32
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:5444609 original size:15 final size:15
Alignment explanation
Indices: 5444566--5444613 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
5444556 GTTGTGGTTC
**
5444566 TTTGT-ATTTTTCAT
1 TTTGTGATTTTTTTT
5444580 TTTGTGATTTTTTTT
1 TTTGTGATTTTTTTT
*
5444595 TTTG-GATTTTGTTT
1 TTTGTGATTTTTTTT
5444609 TTTGT
1 TTTGT
5444614 TTTTATGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.08, C:0.02, G:0.15, T:0.75
Consensus pattern (15 bp):
TTTGTGATTTTTTTT
Found at i:5445995 original size:15 final size:14
Alignment explanation
Indices: 5445964--5445996 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5445954 AGTATACTCC
5445964 TTTTGTCCTATTAT
1 TTTTGTCCTATTAT
5445978 TTTTGTCCATATT-T
1 TTTTGTCC-TATTAT
5445992 TTTTG
1 TTTTG
5445997 AGATATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.67
Consensus pattern (14 bp):
TTTTGTCCTATTAT
Found at i:5446060 original size:20 final size:21
Alignment explanation
Indices: 5446017--5446072 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
5446007 AAATTATGTC
*
5446017 TTTTTTTTAATATCTAAAATTTA
1 TTTTTTATAAT-T-TAAAATTTA
5446040 TTTTTTATAATTTAAAA-TTA
1 TTTTTTATAATTTAAAATTTA
* *
5446060 TGTTTTATGATTT
1 TTTTTTATAATTT
5446073 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.47
21 5 0.17
22 1 0.03
23 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTTATAATTTAAAATTTA
Found at i:5446122 original size:19 final size:19
Alignment explanation
Indices: 5446098--5446136 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5446088 ATTAAAAATA
5446098 AAAAATTCTTTAA-TTTAAT
1 AAAAATT-TTTAATTTTAAT
5446117 AAAAATTTTTAATTTTAAT
1 AAAAATTTTTAATTTTAAT
5446136 A
1 A
5446137 TTAAATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAAATTTTTAATTTTAAT
Found at i:5447483 original size:18 final size:18
Alignment explanation
Indices: 5447451--5447488 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
5447441 AACAAAATAA
5447451 AATAGATGTTTTTATATT
1 AATAGATGTTTTTATATT
5447469 AATA-ATGTTTCTTATATT
1 AATAGATGTTT-TTATATT
5447487 AA
1 AA
5447489 AACATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (18 bp):
AATAGATGTTTTTATATT
Found at i:5447877 original size:44 final size:44
Alignment explanation
Indices: 5447809--5447893 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
5447799 TGGGAAGACC
* * *
5447809 TATCTTTTCATGTCTCCGAGGAAGAACCTTACTCCAAGAAACCG
1 TATCATTTCATATCTCCAAGGAAGAACCTTACTCCAAGAAACCG
* *
5447853 TATCATTTCATATCTCCAAGGAAGAACCTTATTCGAAGAAA
1 TATCATTTCATATCTCCAAGGAAGAACCTTACTCCAAGAAA
5447894 AATTACAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (44 bp):
TATCATTTCATATCTCCAAGGAAGAACCTTACTCCAAGAAACCG
Found at i:5449654 original size:2 final size:2
Alignment explanation
Indices: 5449647--5449672 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5449637 CTCCAGAGGG
5449647 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
5449673 CATGACAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5453041 original size:23 final size:22
Alignment explanation
Indices: 5453014--5453068 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
5453004 TATAGTTTAT
5453014 TAATTGATTATTCA-GTAATATAA
1 TAATTGATTATT-ATG-AATATAA
5453037 TAATTGATTA-TATGAATATAA
1 TAATTGATTATTATGAATATAA
*
5453058 TACTTGATTAT
1 TAATTGATTAT
5453069 AAGTATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.59
22 2 0.07
23 10 0.34
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (22 bp):
TAATTGATTATTATGAATATAA
Found at i:5453056 original size:21 final size:21
Alignment explanation
Indices: 5453030--5453069 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5453020 ATTATTCAGT
5453030 AATATAATAATTGATTATATG
1 AATATAATAATTGATTATATG
*
5453051 AATATAATACTTGATTATA
1 AATATAATAATTGATTATA
5453070 AGTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (21 bp):
AATATAATAATTGATTATATG
Found at i:5455329 original size:21 final size:21
Alignment explanation
Indices: 5455286--5455329 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5455276 TTTATATATG
**
5455286 ATATAAATTTTAAAAATTTAA
1 ATATAAATTTTAAAAATACAA
5455307 ATAT-AATTTTAAAAAATACAA
1 ATATAAATTTT-AAAAATACAA
5455328 AT
1 AT
5455330 TTATATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATAAATTTTAAAAATACAA
Found at i:5455547 original size:2 final size:2
Alignment explanation
Indices: 5455540--5455571 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5455530 CTTTGCTACA
5455540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5455572 TAAAGAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5463059 original size:2 final size:2
Alignment explanation
Indices: 5463052--5463080 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5463042 TTAATAACCT
5463052 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
5463081 TTTTTTTTTC
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:5465056 original size:26 final size:26
Alignment explanation
Indices: 5465027--5465079 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
5465017 ATGCTCTTAG
5465027 TGAACTTAGCC-TTTGATATTTGGTGA
1 TGAACTTA-CCTTTTGATATTTGGTGA
5465053 TGAACTTACCTTTTGATATTTGGTGA
1 TGAACTTACCTTTTGATATTTGGTGA
5465079 T
1 T
5465080 ATTCAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (26 bp):
TGAACTTACCTTTTGATATTTGGTGA
Found at i:5470691 original size:7 final size:7
Alignment explanation
Indices: 5470679--5470703 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5470669 ATAAATATTG
5470679 AATTTAA
1 AATTTAA
5470686 AATTTAA
1 AATTTAA
5470693 AATTTAA
1 AATTTAA
5470700 AATT
1 AATT
5470704 AATTAGATGT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:5488544 original size:32 final size:31
Alignment explanation
Indices: 5488488--5488547 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
5488478 CAAAATTGAT
* * *
5488488 TTGCAAATTGCAGTTTCTATGGTTTCTCAGG
1 TTGCAAAATGCAATTTCTAAGGTTTCTCAGG
5488519 TTGCAAAATGACAATTTCTAAGGTTTCTC
1 TTGCAAAATG-CAATTTCTAAGGTTTCTC
5488548 TTAAATCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (31 bp):
TTGCAAAATGCAATTTCTAAGGTTTCTCAGG
Found at i:5490473 original size:59 final size:59
Alignment explanation
Indices: 5490400--5490524 Score: 214
Period size: 59 Copynumber: 2.1 Consensus size: 59
5490390 AAACATATAG
* *
5490400 TTCATCAGTGAAATTTGAGTGTGAATGATCATGATAAATGACAGATACATTGAAGATTA
1 TTCATCAGTGAAATTTGAGGGTGAATGATCATGATAAACGACAGATACATTGAAGATTA
*
5490459 TTCATGAGTGAAATTTGAGGGTGAATGATCATGATAAACGACAGATACATTGAAGATTA
1 TTCATCAGTGAAATTTGAGGGTGAATGATCATGATAAACGACAGATACATTGAAGATTA
*
5490518 TTGATCA
1 TTCATCA
5490525 ACAAAGTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (59 bp):
TTCATCAGTGAAATTTGAGGGTGAATGATCATGATAAACGACAGATACATTGAAGATTA
Found at i:5496251 original size:2 final size:2
Alignment explanation
Indices: 5496244--5496273 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5496234 ACATTGCGAA
5496244 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5496274 ACATTGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5504472 original size:38 final size:38
Alignment explanation
Indices: 5504430--5504508 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
5504420 TTTAAATAAA
* **
5504430 TAAAAATTATACTTCAAGCATTTATGTTAGCTAAAAGC
1 TAAAAATTATACTTCAAGCATTCATGTTAGAAAAAAGC
* * * *
5504468 TAAAAGTTTTATTTCTAGCATTCATGTTAGAAAAAAGC
1 TAAAAATTATACTTCAAGCATTCATGTTAGAAAAAAGC
5504506 TAA
1 TAA
5504509 TGTCTTACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (38 bp):
TAAAAATTATACTTCAAGCATTCATGTTAGAAAAAAGC
Found at i:5504575 original size:30 final size:29
Alignment explanation
Indices: 5504534--5504637 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 29
5504524 ATGTATCATG
* *
5504534 TTAAAGATTTATTTAAATACAAATTAAAAG
1 TTAAA-ATTTATTTGAATACAAATTAAAAA
5504564 TTAAAATTTTATTTGAATACAAATTAAAAA
1 TTAAAA-TTTATTTGAATACAAATTAAAAA
* *
5504594 TTAAAAACTTATTTGAGTACAAATTAAAAA
1 TT-AAAATTTATTTGAATACAAATTAAAAA
*
5504624 TAAAAAGTTTATTT
1 TTAAAA-TTTATTT
5504638 CCGTGTAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.08
30 56 0.86
31 4 0.06
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (29 bp):
TTAAAATTTATTTGAATACAAATTAAAAA
Found at i:5512056 original size:32 final size:33
Alignment explanation
Indices: 5512019--5512082 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 33
5512009 CCTTTTTAAA
*
5512019 TTAAAAATAA-ATATCTTA-AATATTTTTTATTG
1 TTAAAAATAATAAAT-TTACAATATTTTTTATTG
*
5512051 TTAAAATTAATAAATTTACTAATATTTTTTAT
1 TTAAAAATAATAAATTTAC-AATATTTTTTAT
5512083 ATATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 12 0.44
33 3 0.11
34 12 0.44
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (33 bp):
TTAAAAATAATAAATTTACAATATTTTTTATTG
Done.